Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold99
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: 1377724
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 13826 characters in sequence are not A, C, G, or T
File 2 of 10
Found at i:140962 original size:85 final size:85
Alignment explanation
Indices: 140862--141032 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
140852 AGAGCTATTA
140862 CAAAATTTCCATTTTTTAGTTCAAACAAATCTTCTTTTGTGCAAAATTGTTTAAAGATCCTCTTA
1 CAAAATTTCCATTTTTTAGTTCAAACAAATCTTCTTTTGTGCAAAATTGTTTAAAGATCCTCTTA
140927 TGACATCATTGGTTAGCTGT
66 TGACATCATTGGTTAGCTGT
140947 CAAAATTTCCATTTTTTAGTTCAAACAAATCTTCTTTTGTGCAAAATTGTTTAAAGATCCTCTTA
1 CAAAATTTCCATTTTTTAGTTCAAACAAATCTTCTTTTGTGCAAAATTGTTTAAAGATCCTCTTA
141012 TGACATCATTGGTTAGCTGT
66 TGACATCATTGGTTAGCTGT
141032 C
1 C
141033 CAATTAAAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (85 bp):
CAAAATTTCCATTTTTTAGTTCAAACAAATCTTCTTTTGTGCAAAATTGTTTAAAGATCCTCTTA
TGACATCATTGGTTAGCTGT
Found at i:141472 original size:20 final size:21
Alignment explanation
Indices: 141432--141472 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
141422 TTTAATCATA
* *
141432 AATATAATTTTTTATTAATAT
1 AATATAATTTATTACTAATAT
141453 AATATAA-TTATTACTAATAT
1 AATATAATTTATTACTAATAT
141473 TACCAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATAATTTATTACTAATAT
Found at i:142194 original size:448 final size:443
Alignment explanation
Indices: 141238--142197 Score: 930
Period size: 448 Copynumber: 2.1 Consensus size: 443
141228 TACGTAATCG
* * *
141238 AATA-ATATTTATATGTAATTTGTTG-TAAACATTACCTTCAAAGATCTTTTACACAAGTATCTT
1 AATATATATATATATGTAATTTGTTGATAAACATTACCTTC-AA-ATCTTTTACACAAATATATT
* * *
141301 ACATATAACATATATTACATATAAACATCCCCTACACTCTGATAATTTATATAAATTATAATATT
64 ACATATAACATATATTACATATAAACATCACCTACACTATAATAATTTATATAAATTATAATATT
* * * * *
141366 TATGTGTAATTGTTGTAATTTTTAGTTGTAGTTTATATCAACTAATAAAGTCTAAATTTAATCAT
129 TATGTGTAATTATTGTAATATTTAGTAGTAATTTATATCAACTAATAAAATCTAAATTTAATCAT
141431 AAATATAATTTTTTATTAATATAATATAATTATTACTAATATTACCAAATATATTATTAAAATAA
194 AAATATAATTTTTTATTAATATAATATAATTATTACTAATATTACCAAATATATTATTAAAATAA
**** * * * *
141496 AAATGTGAAATTTTTTCACTTTAAAATTTGCAAAAAAAATAATTTTCCACATATCTAATATTTTT
259 AAATGTGAAAAAAATTCACTTCAAAAATTACAAAAAAAATAATTTTCCACATATATAATATTTTT
* * *
141561 AATAAAATATAAAAATTAATTTCAAAAAATTATAGTTAATTTTCTCGAAAGAATGTTTTATATAA
324 AATAAAATATAAAAATTAATTTCAAAAAA-TATAGTTAA---T-TCAAAAGAATCTTTTACATAA
* * * * * * * ** * *
141626 ATATATTATAGATTTAGTAATGTTTTTATGTAAAAGTATAATGTTTGAATGTAATTCGAT
384 ATACATTACAGATTCAATAATGTTTTTATATAAAAGTACAATGTCTGAACATAATCCAAT
* * * *
141686 AATAT-T-TATATA--TAATTTGTTACATACAAACAATACTTTCATGAT-TCTTTACACAAATAT
1 AATATATATATATATGTAATTTGTT-GAT--AAACATTACCTTCA-AATCT-TTTACACAAATAT
* * * * *
141746 ATTAC-TCATAATATATATTACATATTACCATTACCTACACTATAATAATTTATGTAAATTATAA
61 ATTACAT-ATAACATATATTACATATAAACATCACCTACACTATAATAATTTATATAAATTATAA
141810 TATTTATGTGTAATTATTGTAATATTTAGTAGTAATTCT-TA-CTAACTAATAAAAAATC-AAAT
125 TATTTATGTGTAATTATTGTAATATTTAGTAGTAATT-TATATC-AACTAAT--AAAATCTAAAT
*
141872 TTCAA-CATAAA-ATTAATTTTTTATTAATGTAACATAATATAATTATTGCTAATATTACCAAAT
186 TT-AATCATAAATA-TAATTTTTTATTAA--T---ATAATATAATTATTACTAATATTACCAAAT
*
141935 ATATTATTAAAATAAAAAATTTGAAAAAAAAAATTCACTTCAAAAATTACTAAAAAAAATTAA-T
244 ATATTATTAAAAT-AAAAATGTG---AAAAAAATTCACTTCAAAAATTAC-AAAAAAAA-TAATT
* * * *
141999 TTCCTCCATGTATAAT-TTTTT-TTAAAA-ATAAAAA-TAATTT-TAAAAA-A-A-TT-A-T-AA
303 TTCC-ACATATATAATATTTTTAATAAAATATAAAAATTAATTTCAAAAAATATAGTTAATTCAA
* * *
142053 AATAATCTTTTACATAAATACATTACAGATTCAATAATG-TTTTATATAAAAGTGCCATGTCT-A
367 AAGAATCTTTTACATAAATACATTACAGATTCAATAATGTTTTTATATAAAAGTACAATGTCTGA
142116 TACATAATCCAAT
432 -ACATAATCCAAT
*
142129 AATATATATATATATATGTAATTTGTTGTATATAAGCATTACCTTCAAATCTTTTACATAAATAT
1 -A-ATATATATATATATGTAATTTGTTG-ATA-AA-CATTACCTTCAAATCTTTTACACAAATAT
142194 ATTA
61 ATTA
142198 TAGATTCAGT
Statistics
Matches: 419, Mismatches: 56, Indels: 74
0.76 0.10 0.13
Matches are distributed among these distances:
442 1 0.00
443 26 0.06
444 34 0.08
445 14 0.03
446 1 0.00
447 16 0.04
448 136 0.32
449 59 0.14
450 8 0.02
451 3 0.01
452 1 0.00
453 1 0.00
454 42 0.10
455 13 0.03
456 6 0.01
457 7 0.02
458 22 0.05
459 18 0.04
460 11 0.03
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.41
Consensus pattern (443 bp):
AATATATATATATATGTAATTTGTTGATAAACATTACCTTCAAATCTTTTACACAAATATATTAC
ATATAACATATATTACATATAAACATCACCTACACTATAATAATTTATATAAATTATAATATTTA
TGTGTAATTATTGTAATATTTAGTAGTAATTTATATCAACTAATAAAATCTAAATTTAATCATAA
ATATAATTTTTTATTAATATAATATAATTATTACTAATATTACCAAATATATTATTAAAATAAAA
ATGTGAAAAAAATTCACTTCAAAAATTACAAAAAAAATAATTTTCCACATATATAATATTTTTAA
TAAAATATAAAAATTAATTTCAAAAAATATAGTTAATTCAAAAGAATCTTTTACATAAATACATT
ACAGATTCAATAATGTTTTTATATAAAAGTACAATGTCTGAACATAATCCAAT
Found at i:142802 original size:21 final size:21
Alignment explanation
Indices: 142764--142803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
142754 ATGTAAAAGT
*
142764 ATAATATTTGTATATAATTCG
1 ATAATATTTATATATAATTCG
* *
142785 ATAATGTTTATATGTAATT
1 ATAATATTTATATATAATT
142804 TGTTTTCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (21 bp):
ATAATATTTATATATAATTCG
Found at i:143596 original size:13 final size:13
Alignment explanation
Indices: 143578--143608 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
143568 ACATTTCTTC
143578 ATGTATCGATACA
1 ATGTATCGATACA
143591 ATGTATCGATACA
1 ATGTATCGATACA
*
143604 TTGTA
1 ATGTA
143609 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:143596 original size:33 final size:33
Alignment explanation
Indices: 143558--143624 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
143548 GTTACAAGCT
143558 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
143591 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
143624 A
1 A
143625 ATAGTGCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:143670 original size:20 final size:20
Alignment explanation
Indices: 143645--143697 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
143635 TGCCAGTTTA
143645 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
143665 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
143685 ATGTATCGATACA
1 ATGTATCGATACA
143698 TCTGGGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAGC
Found at i:146166 original size:13 final size:13
Alignment explanation
Indices: 146148--146176 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
146138 AAATAGTACC
146148 CAATGTATCGATA
1 CAATGTATCGATA
146161 CAATGTATCGATA
1 CAATGTATCGATA
146174 CAA
1 CAA
146177 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:152433 original size:19 final size:19
Alignment explanation
Indices: 152388--152444 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
152378 CTGCCAGTTT
**
152388 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
152409 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
152428 CATGTATCGATACAATG
1 CATGTATCGATACAATG
152445 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:152447 original size:13 final size:13
Alignment explanation
Indices: 152429--152455 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
152419 TACAATGAAC
152429 ATGTATCGATACA
1 ATGTATCGATACA
152442 ATGTATCGATACA
1 ATGTATCGATACA
152455 A
1 A
152456 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:152467 original size:20 final size:20
Alignment explanation
Indices: 152442--152507 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
152432 TATCGATACA
152442 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
*
152462 ATGTATC---A-ATA-CA--
1 ATGTATCGATACAAAGCAGC
152475 ATGTATCGATACAAAGCAGC
1 ATGTATCGATACAAAGCAGC
152495 ATGTATCGATACA
1 ATGTATCGATACA
152508 TCTGGGTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.19
15 2 0.05
16 3 0.08
17 3 0.08
18 2 0.05
20 20 0.54
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (20 bp):
ATGTATCGATACAAAGCAGC
Found at i:152474 original size:33 final size:33
Alignment explanation
Indices: 152410--152507 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
152400 CAATTTGTCC
* *
152410 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAAAGCAGCATGTATCGATACA
*
152442 ATGTATCGATACAAAGCAGCATGTATCAATACA
1 ATGTATCGATACAAAGCAGCATGTATCGATACA
152475 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAGCATGTATCGATACA
152508 TCTGGGTGTG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 15 0.25
33 46 0.75
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAGCATGTATCGATACA
Found at i:153074 original size:21 final size:21
Alignment explanation
Indices: 153048--153089 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
153038 GCCACATTTT
153048 TGCCTTTAATGTATCGATACA
1 TGCCTTTAATGTATCGATACA
153069 TGCCTTTAATGTATCGATACA
1 TGCCTTTAATGTATCGATACA
153090 AAGTCCCAAC
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:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
TGCCTTTAATGTATCGATACA
Found at i:153242 original size:20 final size:20
Alignment explanation
Indices: 153214--153274 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
153204 ACATACTACC
* *
153214 AAGGAAATGTATCGATACGT
1 AAGGTAATGTATCGATACAT
153234 AAGGTAATGTATCGATACAT
1 AAGGTAATGTATCGATACAT
153254 AA-GTAAATGTATCGATACAT
1 AAGGT-AATGTATCGATACAT
153274 A
1 A
153275 CTTATAATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.05
20 36 0.95
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.28
Consensus pattern (20 bp):
AAGGTAATGTATCGATACAT
Found at i:153304 original size:20 final size:21
Alignment explanation
Indices: 153241--153315 Score: 84
Period size: 20 Copynumber: 3.6 Consensus size: 21
153231 CGTAAGGTAA
*
153241 TGTATCGATACATA--AGTAAA
1 TGTATCGATACATATTA-TAAT
153261 TGTATCGATACATACTTATAAT
1 TGTATCGATACATA-TTATAAT
* *
153283 TGTATTGATACAT-TTATCAT
1 TGTATCGATACATATTATAAT
153303 TGTATCGATACAT
1 TGTATCGATACAT
153316 CTGGGTTTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 32 0.67
22 15 0.31
23 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATATTATAAT
Found at i:155866 original size:79 final size:78
Alignment explanation
Indices: 155724--156322 Score: 622
Period size: 79 Copynumber: 7.6 Consensus size: 78
155714 TCATTGATGT
* * *
155724 TTTTATTTCTAAAATATCGATTTTCCACCATCG-GGATACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGA
*
155788 TACTACAACCTCGA
66 TACT-CAACCCCGA
* *
155802 TTTTATTTCTAAAATA-CTAATTTTTCACCATCGAGGATGCTCCAACCCTGTTATTTCTGAGGGG
1 TTTTATTTCTAAAATATC-AATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGG
***
155866 ATACTCTAACCTTAA
65 ATACTC-AACCCCGA
* * * * *
155881 TTTTATTTTTAAAATATCAATTTTTCACCATTGGGGATACTCCAACCCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGA
*
155946 TACTCCAACCTCGA
66 TACT-CAACCCCGA
* * * * *
155960 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAAACCCATTGTTT-TCGAGGGG
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCT-GAGGGG
**
156024 GCACTCTAACCCCGA
65 ATACTC-AACCCCGA
* * * * * *
156039 TTTTATTTCTAAAACATTAATTTTTCACCATCGAGGATACTCAAATCCTGTTGTTTCTGA-GGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGA
156103 GTACTCTAACCCCGA
66 -TACTC-AACCCCGA
* * * * * * *
156118 TTTTATTTCTAAAACATCGATTTTTCACCATCG-GAGATACTCTAACCCCATTGTTT-TCAAGGG
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAG-GATACTCCAACCCCGTTATTTCTGAGGGG
156181 ATACTTCAACCCCGA
65 ATAC-TCAACCCCGA
* * * * *
156196 TTTCATTTCTAAAACACCAATTTTTCACTATCGAGGATACTTCAACCCCGTTTATTTC-GAGGGG
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCG-TTATTTCTGAGGGG
156260 ATACTCCAACCCC-A
65 ATACT-CAACCCCGA
* * *
156274 TTTTTATTT-TCAAAATATCGACTTTTCACCATCGGGGATACTCCAACCC
1 -TTTTATTTCT-AAAATATCAATTTTTCACCATCGAGGATACTCCAACCC
156323 TATTTTTATT
Statistics
Matches: 444, Mismatches: 59, Indels: 35
0.83 0.11 0.07
Matches are distributed among these distances:
77 1 0.00
78 93 0.21
79 347 0.78
80 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGA
TACTCAACCCCGA
Found at i:156143 original size:237 final size:234
Alignment explanation
Indices: 155724--156323 Score: 731
Period size: 236 Copynumber: 2.5 Consensus size: 234
155714 TCATTGATGT
* *
155724 TTTTATTTCTAAAATATCGATTTTCCACCATC-GGGATACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT-TTTTCGAGGGGA
* * * *
155788 TACTACAACCTCGATTTTATTTCTAAAATACTAATTTTTCACCATCGAGGATGCTCCAACCCTGT
65 TACT-CAACCCCGATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCAAACCCTGT
** * * * *
155853 TATTTCTGAGGGGATACTCTAACCTTAATTTTATTTTTAAAATATCAATTTTTCACCATTGGGGA
129 TATTTCTGAGGGGATACTCTAACCCCAATTTTATTTCTAAAACATCAATTTTTCACCATCGGAGA
* * * *
155918 TACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCTCGA
194 TACTCCAACCCCATT-GTTTTCAAGGGATACTCCAACCCCGA
* * *
155960 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAAACCCATTGTTTTCGAGGGGG
1 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT-TTTTCGAGGGGA
* * *
156025 CACTCTAACCCCGATTTTATTTCTAAAACATTAATTTTTCACCATCGAGGATACTCAAATCCTGT
65 TACTC-AACCCCGATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCAAACCCTGT
* * *
156090 TGTTTCTGA-GGGAGTACTCTAACCCCGATTTTATTTCTAAAACATCGATTTTTCACCATCGGAG
129 TATTTCTGAGGGGA-TACTCTAACCCCAATTTTATTTCTAAAACATCAATTTTTCACCATCGGAG
* *
156154 ATACTCTAACCCCATTGTTTTCAAGGGATACTTCAACCCCGA
193 ATACTCCAACCCCATTGTTTTCAAGGGATACTCCAACCCCGA
* * * * * * *
156196 TTTCATTTCTAAAACACCAATTTTTCACTATCGAGGATACTTCAACCCCGTTTATTTCGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTT-TTTCGAGGGGA
** * * *
156261 TACTCCAACCCC-ATTTTTATTT-TCAAAATATCGACTTTTCACCATCGGGGATACTCCAACCCT
65 TACT-CAACCCCGA-TTTTATTTCT-AAAATATTAATTTTTCACCATCGAGGATACTCAAACCCT
156324 ATTTTTATTT
Statistics
Matches: 311, Mismatches: 46, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
235 3 0.01
236 159 0.51
237 149 0.48
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (234 bp):
TTTTATTTCTAAAATATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTTTTTCGAGGGGAT
ACTCAACCCCGATTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCAAACCCTGTTA
TTTCTGAGGGGATACTCTAACCCCAATTTTATTTCTAAAACATCAATTTTTCACCATCGGAGATA
CTCCAACCCCATTGTTTTCAAGGGATACTCCAACCCCGA
Found at i:156316 original size:51 final size:51
Alignment explanation
Indices: 156256--156369 Score: 176
Period size: 51 Copynumber: 2.2 Consensus size: 51
156246 TTTATTTCGA
*
156256 GGGGATACTCCAACCCCATTTTTATTTTCAAAATATCGACTTT-TCACCATC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGA-TTTCTCACCATC
* * *
156307 GGGGATACTCCAACCCTATTTTTATTTCCAAAATATTGATTTCTCATCATC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTCTCACCATC
156358 GGGGATACTCCA
1 GGGGATACTCCA
156370 CCCTCGTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 3 0.05
51 55 0.95
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTTCTCACCATC
Found at i:157184 original size:14 final size:14
Alignment explanation
Indices: 157165--157194 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
157155 CCGATCATGC
*
157165 TTAGCCCGAAATGA
1 TTAGCCCAAAATGA
157179 TTAGCCCAAAATGA
1 TTAGCCCAAAATGA
157193 TT
1 TT
157195 GGTGGTGACC
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:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (14 bp):
TTAGCCCAAAATGA
Found at i:158467 original size:4 final size:4
Alignment explanation
Indices: 158458--158491 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
158448 ATTGAGGTGC
158458 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
158492 TGTTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:169970 original size:10 final size:10
Alignment explanation
Indices: 169957--169981 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
169947 ATATTTTTAG
169957 ATCGACCCTA
1 ATCGACCCTA
169967 ATCGACCCTA
1 ATCGACCCTA
169977 ATCGA
1 ATCGA
169982 GTCACCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.36, G:0.12, T:0.20
Consensus pattern (10 bp):
ATCGACCCTA
Found at i:169998 original size:15 final size:15
Alignment explanation
Indices: 169974--170003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
169964 CTAATCGACC
169974 CTAATCGAGTCACCT
1 CTAATCGAGTCACCT
*
169989 CTAATTGAGTCACCT
1 CTAATCGAGTCACCT
170004 TTCCAACGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (15 bp):
CTAATCGAGTCACCT
Found at i:170400 original size:54 final size:54
Alignment explanation
Indices: 170313--170418 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
170303 TCCACCATCG
* * * *
170313 GGGATACTCCAATCCCGTTATTTTCGAAAGGATACTCCAACTTTGGTTTTATGT
1 GGGATACTCCAACCCCATTATTTTCGAAAGGATACTCCAACCTTGATTTTATGT
*
170367 GGGATACTCTAACCCCATTATTTTC-AAATGGATACTCCAACCTTGATTTTAT
1 GGGATACTCCAACCCCATTATTTTCGAAA-GGATACTCCAACCTTGATTTTAT
170419 TTCTGAAACA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.07
54 43 0.93
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (54 bp):
GGGATACTCCAACCCCATTATTTTCGAAAGGATACTCCAACCTTGATTTTATGT
Found at i:170500 original size:78 final size:78
Alignment explanation
Indices: 170368--170626 Score: 272
Period size: 79 Copynumber: 3.3 Consensus size: 78
170358 GTTTTATGTG
* * * * *** *
170368 GGATACTCTAACCCCATTATTTTC-AAATGGATACTCCAACCTTGATTTTATTTCTGAAACACCG
1 GGATACTCCAACCCCGTTATTTTCGATA-GGATACTTCAACCCCAATTTTATTTCTAAAACACCG
*
170432 ATTCTCAACCATCAA
65 ATTTTC-ACCATCAA
* *
170447 GGATACTCCATCCCCGTTATTTTC-A-AGGGATACTTTAACCCCAATTTTATTTCTAAAACACCG
1 GGATACTCCAACCCCGTTATTTTCGATA-GGATACTTCAACCCCAATTTTATTTCTAAAACACCG
* * *
170510 ATTTTCCACTATTAG
65 ATTTT-CACCATCAA
* * **
170525 GGATACTCCAACCTCGTTATTTTCGATAGGATACTTCAACCCCAGTTTTATTTCTAAAACACTAA
1 GGATACTCCAACCCCGTTATTTTCGATAGGATACTTCAACCCCAATTTTATTTCTAAAACACCGA
*
170590 TTTTTCACCATCGA
66 -TTTTCACCATCAA
*
170604 GGATACTCCAACCCTGTTATTTT
1 GGATACTCCAACCCCGTTATTTT
170627 TTAAGGGTAC
Statistics
Matches: 150, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
78 62 0.41
79 83 0.55
80 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTTCGATAGGATACTTCAACCCCAATTTTATTTCTAAAACACCGA
TTTTCACCATCAA
Found at i:174039 original size:61 final size:61
Alignment explanation
Indices: 173940--174513 Score: 552
Period size: 61 Copynumber: 9.4 Consensus size: 61
173930 CCTTTTAGCA
* * * *
173940 CTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTCAGTC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
174001 CTCAAAAAGCAAGACGCCTTCTCCTTTCAAAGCTCACACAAGTTGGTGGCACCTTTTAGTC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * *
174062 CTCAAAAAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATC-TTCTAGTC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTC
* * * * * *
174123 CTCAACGAGCAAGATGCCTTTTCCTTTCAAAGCCCACATAGGTTAGTGGCACCTTTCAGTC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * ** * * ** *
174184 CTTAAAAAGCAAGACGTTTTCTCTTTTCAATGCTAACACAAGTTGGTGGCACCTTTTAGTC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * *
174245 CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * * *
174306 CTTAAAGAGCGAGAC-ACTT-TTCTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAATC
1 CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * * * *
174365 CTCAAAGAGTC-GGATGCCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCCTTCTATTC
1 CTCAAAGAG-CAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTC
* * * * *
174427 TTCAAAGAGCATA-AC-ACTT-TTCTTTTAAAGCCCATACAAGTTGGTGGCACC-TTCTAGTC
1 CTCAAAGAGCA-AGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTC
* * * *
174486 CTCCAAGAGTAGGATGCCTCTCTCCTTT
1 CTCAAAGAGCAAGACGCCT-TCTCCTTT
174514 TCTATCTTAA
Statistics
Matches: 415, Mismatches: 86, Indels: 23
0.79 0.16 0.04
Matches are distributed among these distances:
59 60 0.14
60 40 0.10
61 295 0.71
62 20 0.05
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
CTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:174261 original size:183 final size:182
Alignment explanation
Indices: 173940--174513 Score: 669
Period size: 183 Copynumber: 3.1 Consensus size: 182
173930 CCTTTTAGCA
* * * *
173940 CTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCA
1 CTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
** * *
174005 AAAAGCAAGACGCCTTCTCCTTTCAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAA
66 AAAAGCAAGACGTTTTCTCTTTTCAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
* *
174070 GTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCTAGTC
131 GCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
* * * * *
174123 CTCAACGAGCAAGATGCCTTTTCCTTTCAAAGCCCACATAGGTTAGTGGCACCTTTCAGTCCTTA
1 CTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
* *
174188 AAAAGCAAGACGTTTTCTCTTTTCAATGCTAACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
66 AAAAGCAAGACGTTTTCTCTTTTCAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
* *
174253 GCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTC
131 GCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
* * * *
174306 CTTAAAGAGCGAGA--CACTTTT-CTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAATCCTC
1 CTCAAAGAGCAAGATGC-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * * * *
174368 AAAGAGTC-GGATGCCTTTTC-CTTTT-AAAG-TCCACACAAGTTGGTGGCACCCTTCTATTCTT
65 AAAAAG-CAAGA--CGTTTTCTCTTTTCAAAGCT-CACACAAGTTGGTGGCA-CCTTTTAGTCCT
** * * *
174429 CAAAGAGCATAAC-ACTTTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCTAGTC
125 CAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
* * * *
174486 CTCCAAGAGTAGGATGCCTCTCTCCTTT
1 CTCAAAGAGCAAGATGCCT-TTTCCTTT
174514 TCTATCTTAA
Statistics
Matches: 331, Mismatches: 49, Indels: 22
0.82 0.12 0.05
Matches are distributed among these distances:
180 48 0.15
181 65 0.20
182 34 0.10
183 182 0.55
184 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (182 bp):
CTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAAAGCAAGACGTTTTCTCTTTTCAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA
GCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
Found at i:175145 original size:20 final size:20
Alignment explanation
Indices: 175102--175168 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
175092 CATAAGTAAA
*
175102 TGTATCGATACATACTTATAAT
1 TGTATCGATACAT--TTATCAT
*
175124 TGTATTGATACATTTATCAT
1 TGTATCGATACATTTATCAT
* * *
175144 TGTATCAATACATTTTTCAA
1 TGTATCGATACATTTATCAT
175164 TGTAT
1 TGTAT
175169 ACCACTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 27 0.69
22 12 0.31
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTATCAT
Found at i:177648 original size:78 final size:79
Alignment explanation
Indices: 177496--177763 Score: 322
Period size: 79 Copynumber: 3.4 Consensus size: 79
177486 TCATTGATGT
* * * *
177496 TTTTATTTCTAAAATATCGATTTTCCACCATCGAGAGATAATCCAACCCCATTATTTTTGAAGAG
1 TTTTATTTCTAAAATATCGATTTTCCACCATCGA-AGATACTCCAACCCCGTTATTTTTGAGGGG
* *
177561 ATAATCCAACCTTGA
65 ATACTCCAACCATGA
* * * *
177576 TTTTATTT-TAAAACACCGATTTTCCACCATCGAAGATGCTCTAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAATATCGATTTTCCACCATCGAAGATACTCCAACCCCGTTATTTTTGAGGGGA
*
177640 TACTCCAACCCTGA
66 TACTCCAACCATGA
* ** ** * * *
177654 TTTTATTTCTAAAATATTGATTTTTTACCATCGGGGATACTCCAACCCTGTTATTTCTAAGGGGA
1 TTTTATTTCTAAAATATCGATTTTCCACCATCGAAGATACTCCAACCCCGTTATTTTTGAGGGGA
*
177719 TACTCCAACCACGA
66 TACTCCAACCATGA
* *
177733 TTTTATTTCTAAAATATCAATTTTGCACCAT
1 TTTTATTTCTAAAATATCGATTTTCCACCAT
177764 TGGGTCTTAA
Statistics
Matches: 159, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
78 45 0.28
79 106 0.67
80 8 0.05
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAATATCGATTTTCCACCATCGAAGATACTCCAACCCCGTTATTTTTGAGGGGA
TACTCCAACCATGA
Found at i:177859 original size:51 final size:50
Alignment explanation
Indices: 177797--177906 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 50
177787 CCAGAAGATG
* *
177797 CTCCAAACCCATTTTTATTTCTAAAATATCGACTTT-TCACCATCGGGGATA
1 CTCCAACCCCATTTTTATTTCCAAAATAT-GA-TTTCTCACCATCGGGGATA
*
177848 TTCCAACCCCATTTTTATTTCCAAAATATGATTTCTCACCATCGGGGATA
1 CTCCAACCCCATTTTTATTTCCAAAATATGATTTCTCACCATCGGGGATA
*
177898 CTCTAACCC
1 CTCCAACCC
177907 GTTATTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
49 3 0.06
50 24 0.45
51 26 0.49
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (50 bp):
CTCCAACCCCATTTTTATTTCCAAAATATGATTTCTCACCATCGGGGATA
Found at i:177932 original size:27 final size:25
Alignment explanation
Indices: 177891--177940 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
177881 TCTCACCATC
*
177891 GGGGATACTCTAACCCGTTATTTTTGA
1 GGGGATACTCCAACCC--TATTTTTGA
177918 GGGGATACTCCAACCCTATTTTT
1 GGGGATACTCCAACCCTATTTTT
177941 ATCTCCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (25 bp):
GGGGATACTCCAACCCTATTTTTGA
Found at i:181065 original size:26 final size:29
Alignment explanation
Indices: 181013--181079 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 29
181003 TTAAAAATTA
* *
181013 ATTATCAAAATAATATTGTTTTGAAACAT
1 ATTATCAAAATAATATTGATCTGAAACAT
181042 ATTATCAAAATAATA-T-ATCT-AAACAT
1 ATTATCAAAATAATATTGATCTGAAACAT
181068 ATTA-CTAAAATA
1 ATTATC-AAAATA
181080 CTACTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 1 0.03
26 16 0.46
27 2 0.06
28 1 0.03
29 15 0.43
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTATCAAAATAATATTGATCTGAAACAT
Found at i:182415 original size:13 final size:13
Alignment explanation
Indices: 182397--182421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
182387 TAATTCATCA
182397 TGTATCGATACAT
1 TGTATCGATACAT
182410 TGTATCGATACA
1 TGTATCGATACA
182422 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:182419 original size:33 final size:32
Alignment explanation
Indices: 182377--182441 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
182367 TTTGAAGCAA
*
182377 TGTATCGATATAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATATC--CATGTATCGATACAT
182410 TGTATCGATACAATATGCCATGTATCGATACA
1 TGTATCGATACAATAT-CCATGTATCGATACA
182442 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATATCCATGTATCGATACAT
Found at i:184979 original size:13 final size:13
Alignment explanation
Indices: 184961--185000 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
184951 ATAGTAACCC
*
184961 ATGTATCAATACA
1 ATGTATCGATACA
*
184974 ATGTATCGATATA
1 ATGTATCGATACA
184987 ATGTATCGATACA
1 ATGTATCGATACA
185000 A
1 A
185001 AGAACATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:188240 original size:52 final size:52
Alignment explanation
Indices: 188162--188290 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
188152 CGAAATATGG
* *
188162 AAATTTGCCTGCATGTACCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
188214 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGTTACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
188266 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
188291 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:188303 original size:52 final size:51
Alignment explanation
Indices: 188162--188310 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
188152 CGAAATATGG
*
188162 AAATTTGCCTGCATGTACCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
188214 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGTTACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
188266 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
188311 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:188404 original size:13 final size:13
Alignment explanation
Indices: 188386--188410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188376 CAAAAAAATA
188386 TGTATCGATACAT
1 TGTATCGATACAT
188399 TGTATCGATACA
1 TGTATCGATACA
188411 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:192468 original size:32 final size:32
Alignment explanation
Indices: 192431--192506 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
192421 CATTTCATAG
*
192431 TGTATCGATACATCTAGGCAAATTTG-TCTGTA
1 TGTATCGATACATCTAGGCAAATTTGCT-TGCA
*
192463 TGTATCGATACATCTGGGCAAATTTGCTTGCA
1 TGTATCGATACATCTAGGCAAATTTGCTTGCA
192495 TGTATCGATACA
1 TGTATCGATACA
192507 AAGATCAGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 40 0.98
33 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATCTAGGCAAATTTGCTTGCA
Found at i:192533 original size:13 final size:13
Alignment explanation
Indices: 192515--192539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192505 CAAAGATCAG
192515 TGTATCGATACAA
1 TGTATCGATACAA
192528 TGTATCGATACA
1 TGTATCGATACA
192540 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:192606 original size:19 final size:18
Alignment explanation
Indices: 192582--192679 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
192572 TAGCTTACAT
192582 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
192601 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
192614 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
192633 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
192646 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
192666 TGTATCGATACAAA
1 TGTATCGATACAAA
192680 TCGTTAAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:192618 original size:32 final size:32
Alignment explanation
Indices: 192577--192677 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
192567 GGAAGTAGCT
*
192577 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
192609 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
192641 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
192674 TACA
1 TACA
192678 AATCGTTAAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:192619 original size:13 final size:13
Alignment explanation
Indices: 192601--192657 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
192591 ACAAAACTTA
192601 TGTATCGATACAT
1 TGTATCGATACAT
192614 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
192632 ATGTATCGATACAT
1 -TGTATCGATACAT
192646 TGTATCGATACA
1 TGTATCGATACA
192658 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:197698 original size:97 final size:97
Alignment explanation
Indices: 197556--197802 Score: 350
Period size: 97 Copynumber: 2.5 Consensus size: 97
197546 TTTTTGATTG
* * * *
197556 AAAAACGGGGTTGGAGTATCCCTTGGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCGATGATGACAATTTA
197621 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
* * * * *
197653 AAAAGCGGGGTTGGAGTATCCCCTCAGATGAATAGGGTTGAAGTGTCCCTGATGGTGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCGATGATGACAATTTA
* *
197718 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
* * ** *
197750 AAAAGCGGGCTTAGAGTATCCCCTCGGAGGAATTTGGTTGGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCGAT
197803 AAATAAAATT
Statistics
Matches: 130, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 130 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCGATGATGACAATTTA
AGTGAGAATAAAATTTAAACTTTGATGCGTTT
Found at i:199959 original size:20 final size:20
Alignment explanation
Indices: 199934--200094 Score: 151
Period size: 20 Copynumber: 7.7 Consensus size: 20
199924 TTTTAACTAG
*
199934 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
199954 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
199974 ATGTATCGATACATTAAAAA
1 ATGTATCGATACATTGAAAA
*
199994 ATGTATTGATACATTTGGGTAAAAAAA
1 ATGTATCGATACA-TT--G----AAAA
*
200021 ATGTAACGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * * *
200041 ATGTATCAATACATTCATAC
1 ATGTATCGATACATTGAAAA
200061 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
200081 ATGTATGGATACAT
1 ATGTATCGATACAT
200095 CTGGGTAAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
20 93 0.82
21 2 0.02
24 1 0.01
26 2 0.02
27 15 0.13
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:199997 original size:40 final size:40
Alignment explanation
Indices: 199934--200094 Score: 178
Period size: 40 Copynumber: 3.9 Consensus size: 40
199924 TTTTAACTAG
*
199934 ATGTATCGATACATTGAAGAATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATTCATAC
* * * * *
199974 ATGTATCGATACATTAAAAAATGTATTGATACATTTGGGTAAAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACA--T---T--CATAC
* *
200021 ATGTAACGATACATTGAAAAATGTATCAATACATTCATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATTCATAC
*
200061 ATGTATCGATACATTGAAAAATGTATGGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACAT
200095 CTGGGTAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
40 63 0.64
42 2 0.02
45 2 0.02
47 31 0.32
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (40 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTCATAC
Found at i:200044 original size:87 final size:87
Alignment explanation
Indices: 199934--200105 Score: 290
Period size: 87 Copynumber: 2.0 Consensus size: 87
199924 TTTTAACTAG
* * *
199934 ATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATTAAAAAATGTA
1 ATGTAACGATACATTGAAAAATGTATCAATACATTCATACATGTATCGATACATTAAAAAATGTA
* *
199999 TTGATACATTTGGGTAAAAAAA
66 TGGATACATCTGGGTAAAAAAA
*
200021 ATGTAACGATACATTGAAAAATGTATCAATACATTCATACATGTATCGATACATTGAAAAATGTA
1 ATGTAACGATACATTGAAAAATGTATCAATACATTCATACATGTATCGATACATTAAAAAATGTA
200086 TGGATACATCTGGGTAAAAA
66 TGGATACATCTGGGTAAAAA
200106 GACAGAATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (87 bp):
ATGTAACGATACATTGAAAAATGTATCAATACATTCATACATGTATCGATACATTAAAAAATGTA
TGGATACATCTGGGTAAAAAAA
Found at i:201088 original size:28 final size:28
Alignment explanation
Indices: 201021--202140 Score: 920
Period size: 28 Copynumber: 38.3 Consensus size: 28
201011 ACCGACTCGA
* * *
201021 GTGGGCTTTGAAATGAGTGCCACTAAATT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
* * *
201050 GTGGGCTTTGAAAGGGTACTACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
201078 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* *
201106 GTGGGCTTTGAAAGGATACCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * * *
201134 ATGGGCTTTGAAAAGAGTTGCCACCGACTC
1 GTGGGCTTTG-AAAG-GATGCCACTGACTT
* * *
201164 GTGGGCATTGAAAGCATACCACTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* **
201192 GTGGGCTTTGAAAAGAGTTGCCACCAACTCGT
1 GTGGGCTTTG-AAAG-GATGCCACTGACT--T
* *
201224 GTGGGTTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
*
201253 ATGGGCTTTGAAAAGG-TGCCACTGACTT
1 GTGGGCTTTG-AAAGGATGCCACTGACTT
* *
201281 GGGGGCTTTGAAAGGATGCCATTGACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * * * *
201309 ATGGGCTTTGGAAAGAGTTACCACCGACTC
1 GTGGGCTTT-GAAAG-GATGCCACTGACTT
* *
201339 GTAGGCTTTGAAAGGATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
201367 GTGGGCTTTGAAAAGAGTTGCCACTGACTCGT
1 GTGGGCTTTG-AAAG-GATGCCACTGACT--T
* * *
201399 GTGGGCTTCGAAAAGAGTGCCACTAACTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
*
201428 GTGGGCTTTGAAAGTG-TGCCATTGACTT
1 GTGGGCTTTGAAAG-GATGCCACTGACTT
*
201456 GTGGGCTTTGAAAGGATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* *
201484 GTGGGCTTTGAAAAGAGTTACCA-TCGACTCTT
1 GTGGGCTTTG-AAAG-GATGCCACT-GA--CTT
*
201516 GTGGGCTTTGAAAGGAGTGCCACTAACTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
* *
201545 ATGGGCTTTGAAAGGATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * * *
201573 ATGGACTTTGAAAAGATGCCACTGATTTGT
1 GTGGGCTTTGAAAGGATGCCACTGA-CT-T
*
201603 GTGGGCTTTGAGAAGGATGCCATTGACTT
1 GTGGGCTTTGA-AAGGATGCCACTGACTT
*
201632 GTGGGCTTTGAGAAGGATGCCACTAACTT
1 GTGGGCTTTGA-AAGGATGCCACTGACTT
*
201661 GTGGGCTTTGAGAAGGATGCCACTAACTT
1 GTGGGCTTTGA-AAGGATGCCACTGACTT
* *
201690 GTGGGCTTTGAAAAGATGCCACTGATTTGT
1 GTGGGCTTTGAAAGGATGCCACTGA-CT-T
*
201720 GTGGGCTTTGATAAGGATGCCACTAACTT
1 GTGGGCTTTGA-AAGGATGCCACTGACTT
*
201749 GTGGGCTTTGAGAAGGATGCCACTAACTT
1 GTGGGCTTTGA-AAGGATGCCACTGACTT
* *
201778 GTGGGCTTTAAGAAGGATGCCGCTGACTT
1 GTGGGCTTTGA-AAGGATGCCACTGACTT
* *
201807 GTGAGCTTTGAAAGGATGCCACTAACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* *
201835 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 GTGGGCTTTGAAA--GGATGCCACTGAC-T-T
* *
201867 GTGGGCTTTGAAATGGGTTGCCACCGACTT
1 GTGGGCTTTGAAA--GGATGCCACTGACTT
* * *
201897 GTGTAGGCTTTCAAATGAGTTGCCACCGACTTGT
1 GTG--GGCTTTGAAA-G-GATGCCACTGAC-T-T
* *
201931 GTGGGCTTTGAAATGATGCCACTCACTTGT
1 GTGGGCTTTGAAAGGATGCCACTGAC-T-T
* * *
201961 GTGGGCTTTTAAATGAGTTGCCACCGACTTGT
1 GTGGGCTTTGAAA-G-GATGCCACTGAC-T-T
* *
201993 GTGGGCTTTGAAATGATGCCACTCACTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* *
202021 GTGGGC-TTAAAAGGGGTGCCACTGACTT
1 GTGGGCTTTGAAA-GGATGCCACTGACTT
*** * * *
202049 ACAGGCTTTGAAAGGATGCCTCGGAGTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
* * * *
202077 GTGGACTTT-AAAAGAGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGA-TGCCACTGACTT
* * * * *
202105 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGGCTTTGAAAGGATGCCACTGACTT
*
202132 GTGGACTTT
1 GTGGGCTTT
202141 AAAATGGTGA
Statistics
Matches: 903, Mismatches: 141, Indels: 95
0.79 0.12 0.08
Matches are distributed among these distances:
27 36 0.04
28 320 0.35
29 225 0.25
30 138 0.15
31 61 0.07
32 118 0.13
33 1 0.00
34 4 0.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
GTGGGCTTTGAAAGGATGCCACTGACTT
Found at i:201314 original size:117 final size:114
Alignment explanation
Indices: 201021--202068 Score: 955
Period size: 117 Copynumber: 8.9 Consensus size: 114
201011 ACCGACTCGA
* * * * * * *
201021 GTGGGCTTTGAAATGAG-TGCCACTAAATTGTGGGCTTTGAAAGGGTACTACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAG-GTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
* * *
201085 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATACCACTAACTT
65 TTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTT
* * * * * * *
201134 ATGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCATTGAAAGCATACCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAG-GTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
* ** * *
201199 TTGAAAAGAGTTGCCACCAACTCGTGTGGGTTTTGAAAAGAGTGCCACTGACTT
65 TTGAAAAG-GATGCCACTGACT--TGTGGGCTTTGAAAAGA-TGCCACTAACTT
* * * * *
201253 ATGGGCTTTGAAAAGG-TGCCACTGACTTGGGGGCTTTGAAAGGATGCCATTGACTTATGGGCTT
1 GTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* * * * * * *
201317 TGGAAAGAGTTACCACCGACTCGTAGGCTTTGAAAGGATGCCACTAACTT
66 TGAAAAG-GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTT
* *
201367 GTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGTGGGCTTCGAAAAGAGTGCCACTAACTTGTGG
1 GTGGGCTTTGAAAAG-GTTGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGG
* *
201432 GCTTTG-AAAGTG-TGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTT
62 GCTTTGAAAAG-GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTT
* *
201484 GTGGGCTTTGAAAAGAGTTACCA-TCGACTCTTGTGGGCTTTGAAAGGAGTGCCACTAACTTATG
1 GTGGGCTTTGAAAAG-GTTGCCACT-GA--CTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTG
* * * **
201548 GGCTTTG-AAAGGATGCCACTAACTTATGGACTTTGAAAAGATGCCACTGATTTGT
61 GGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT-AACT-T
* * *
201603 GTGGGCTTTGAGAAGGATGCCATTGACTTGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCT
1 GTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCT
* * **
201668 TTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGATTTGT
65 TTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACT-AACT-T
* * *
201720 GTGGGCTTTGATAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCT
1 GTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCT
* * *
201785 TT-AAGAAGGATGCCGCTGACTTGTGAGCTTTGAAAGGATGCCACTAACTT
65 TTGAA-AAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTT
* * * **
201835 GTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1 GTGGGCTTTGAAA-AGGTTGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTAACTTGTG
* * * * * *
201900 TAGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTCACTTGT
61 --GGCTTTGAAAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAAAGATGCCACTAAC-T-T
* * * * *
201961 GTGGGCTTTTAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTCACTTGTGGG
1 GTGGGCTTTGAAAAG-GTTGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGG
* *** *
202026 C-TT-AAAAGGGGTGCCACTGACTTACAGGCTTTGAAAGGATGCC
63 CTTTGAAAA-GGATGCCACTGACTTGTGGGCTTTGAAAAGATGCC
202069 TCGGAGTTGT
Statistics
Matches: 797, Mismatches: 102, Indels: 67
0.83 0.11 0.07
Matches are distributed among these distances:
113 15 0.02
114 67 0.08
115 31 0.04
116 71 0.09
117 341 0.43
118 73 0.09
119 78 0.10
120 13 0.02
121 11 0.01
122 14 0.02
123 1 0.00
124 38 0.05
125 2 0.00
126 42 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (114 bp):
GTGGGCTTTGAAAAGGTTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
TGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTT
Found at i:201369 original size:175 final size:173
Alignment explanation
Indices: 201021--202028 Score: 1043
Period size: 175 Copynumber: 5.7 Consensus size: 173
201011 ACCGACTCGA
* * * * *
201021 GTGGGCTTTGAAATGAG-TGCCACTAAATTGTGGGCTTTG-AAAGGGTACTACTGACTTGTGGGC
1 GTGGGCTTTGAAAAGAGTTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
201084 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATACCACTAACTTATGGGCTTTGAAAAG
66 TTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGGAAAG
* * * *
201149 AGTTGCCACCGACTCGTGGGCATTGAAAGCATACCACTGACTT
131 AGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTT
* * *
201192 GTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGTTTTGAAAAGAGTGCCACTGACTTATGG
1 GTGGGCTTTGAAAAGAGTTGCCACTAACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* * * *
201257 GCTTTGAAAAGGTGCCACTGACTTGGGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTTGGAA
64 GCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGGAA
* *
201322 AGAGTTACCACCGACTCGTAGGCTTTGAAAGGATGCCACTAACTT
129 AGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTT
* * *
201367 GTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGTGGGCTTCGAAAAGAGTGCCACTAACTTGTGG
1 GTGGGCTTTGAAAAGAGTTGCCACTAACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* *
201432 GCTTTG-AAAGTGTGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAA
64 GCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGGA
* *
201496 AAGAGTTACCATCGACTCTTGTGGGCTTTGAAAGGAGTGCCACTAACTT
128 AAGAGTTGCCACCGACTC--GTGGGCTTTGAAAGGA-TGCCACTAACTT
* * * * *
201545 ATGGGCTTTG-AAAG-GATGCCACTAACTTATGGACTTTGAAAAGA-TGCCACTGATTTGTGTGG
1 GTGGGCTTTGAAAAGAGTTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGA-CT-TGTGG
* *
201607 GCTTTGAGAAGGATGCCATTGACTTGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTT-G
64 GCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGG
* ** * * **
201671 AGAAG-GATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGATTTGT
127 A-AAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACT-AACT-T
* * * *
201720 GTGGGCTTTGATAAG-GATGCCACTAACTTGTGGGCTTTGAGAAG-GATGCCACTAACTTGTGGG
1 GTGGGCTTTGAAAAGAGTTGCCACTAACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGG
* *
201783 CTTT-AAGAAGGATGCCGCTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT-GA
65 CTTTGAA-AAGG-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGGA
* * * **
201846 AATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTT
128 AA-GAGTTGCCACCGAC-T-CGTGGGCTTTGAAA--GGATGCCACTAACTT
* * ** * *
201897 GTGTAGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGA-TGCCACTCACTTGT
1 GTG--GGCTTTGAAAAGAGTTGCCACTAAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGAC-T-T
* * * * *
201961 GTGGGCTTTTAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGATGCCACTCACTTGTGGG
60 GTGGGCTTTGAAA--AGGTGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGG
202026 CTT
121 CTT
202029 AAAAGGGGTG
Statistics
Matches: 710, Mismatches: 88, Indels: 63
0.82 0.10 0.07
Matches are distributed among these distances:
171 16 0.02
172 9 0.01
173 17 0.02
174 76 0.11
175 311 0.44
176 77 0.11
177 74 0.10
178 22 0.03
179 16 0.02
180 9 0.01
181 10 0.01
182 15 0.02
183 11 0.02
184 10 0.01
185 3 0.00
186 34 0.05
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (173 bp):
GTGGGCTTTGAAAAGAGTTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
TTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGGAAAG
AGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTT
Found at i:202122 original size:27 final size:27
Alignment explanation
Indices: 202059--202371 Score: 419
Period size: 27 Copynumber: 11.4 Consensus size: 27
202049 ACAGGCTTTG
* *
202059 AAAGGATGCCTCGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
202087 AAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
202114 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * *
202142 AAATGGTGACACAGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
202169 AAAGGGTGCCACAGAGTTGCGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
202196 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
202223 AAAGGTTACCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
202250 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
202277 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * * *
202304 AATGGTTACCACGGAGTTATGGGCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
202331 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
202358 AACAGGGTTGCCAC
1 AA-AGGG-TGCCAC
202372 TAAATCGTGG
Statistics
Matches: 256, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
27 202 0.79
28 48 0.19
29 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:203799 original size:22 final size:24
Alignment explanation
Indices: 203774--203835 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 24
203764 CCTTTCCTTA
203774 TTTTACTTTTGCACTTTTTT-TG-
1 TTTTACTTTTGCACTTTTTTGTGC
*
203796 TTTTTCTTTT-CA-TTTTTTGTGC
1 TTTTACTTTTGCACTTTTTTGTGC
*
203818 TTTTGCTTTTG-ACTTTTT
1 TTTTACTTTTGCACTTTTT
203836 CAAAATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 19 0.56
23 5 0.15
ACGTcount: A:0.06, C:0.13, G:0.10, T:0.71
Consensus pattern (24 bp):
TTTTACTTTTGCACTTTTTTGTGC
Found at i:206836 original size:78 final size:78
Alignment explanation
Indices: 206671--206837 Score: 180
Period size: 78 Copynumber: 2.1 Consensus size: 78
206661 ATTGGTGTTC
* *
206671 TAGAAATAAAAATCAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCTCGATTAT
1 TAGAAAT-AAAATCAGGGTTAGAGTATCCCCT-AGAAAAAACAGGGTTGGAGTATCCTCGATTAT
* *
206736 AGAAAATCGATGTTT
64 AGAAAATCAATATTT
** * *
206751 T-GAAAATAAAATC-GGGATTAGAGTATCCCC-ATGAAAAAATGGGGTTGGAGTATCCTTGATTG
1 TAG-AAATAAAATCAGGG-TTAGAGTATCCCCTA-GAAAAAACAGGGTTGGAGTATCCTCGATTA
206813 T-GAGAAATCAATATTT
63 TAGA-AAATCAATATTT
206829 TAGAAATAA
1 TAGAAATAA
206838 GGCTGGGGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
77 3 0.04
78 46 0.62
79 20 0.27
80 5 0.07
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (78 bp):
TAGAAATAAAATCAGGGTTAGAGTATCCCCTAGAAAAAACAGGGTTGGAGTATCCTCGATTATAG
AAAATCAATATTT
Found at i:206866 original size:51 final size:51
Alignment explanation
Indices: 206791--207066 Score: 227
Period size: 51 Copynumber: 5.3 Consensus size: 51
206781 ATGAAAAAAT
* * *
206791 GGGGTTGGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAATAAGGCT
1 GGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *
206842 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* ** *** * * ***
206893 AGGGTTGGAGTATCCCTTCGGAAATAATG-GGGTTGGAGTATCCCCGATGAAAT-AA--C
1 GGGGTTGGAGTATCCC-T--G--ATTGTGAGAAAT-CAATAT--TTTA-GAAATAAAGCC
* * * *
206949 GGGATTGGAGTATCCCCGATTGTGAGAAAACAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * * *
207000 GGGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
207051 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
207067 CTCGAAAATA
Statistics
Matches: 172, Mismatches: 40, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
48 5 0.03
49 2 0.01
51 129 0.75
52 2 0.01
53 1 0.01
54 1 0.01
55 2 0.01
56 23 0.13
58 2 0.01
59 5 0.03
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:206929 original size:28 final size:27
Alignment explanation
Indices: 206894--206967 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
206884 AATAAAGCCA
*
206894 GGGTTGGAGTATCCCTTCG-GAAATAATG
1 GGGTTGGAGTATCCC--CGAGAAATAACG
206922 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGA-GAAATAACG
*
206950 GGATTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
206968 TTGTGAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGAAATAACG
Found at i:206984 original size:158 final size:157
Alignment explanation
Indices: 206771--207135 Score: 572
Period size: 158 Copynumber: 2.3 Consensus size: 157
206761 ATCGGGATTA
* * ** *
206771 GAGTATCCCC-ATGAAAAAATGGGGTTGGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAA
1 GAGTATCCCCGATGAAATAA-CGGGTTGGAGTATCCCCGATTGTGAGAAAACAATATTTTAGAAA
* *
206835 TAAGGCTGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTG
65 TAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTG
* * *
206900 GAGTATCCCTTCGGAAATAATGGGGTTG
130 GAGTATCCCCTCGAAAATAACGGGGTTG
206928 GAGTATCCCCGATGAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAAACAATATTTTAGAAA
1 GAGTATCCCCGATGAAATAACGGG-TTGGAGTATCCCCGATTGTGAGAAAACAATATTTTAGAAA
* *
206993 TAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTTG
65 TAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTG
207058 GAGTATCCCCTCGAAAATAACGGGGTTG
130 GAGTATCCCCTCGAAAATAACGGGGTTG
*
207086 GAGTATCACCGATGAAATAACGGTGTTGGAGTATCCCCGATTGTGA-AAAA
1 GAGTATCCCCGATGAAATAACGG-GTTGGAGTATCCCCGATTGTGAGAAAA
207136 TTGGTGTTTT
Statistics
Matches: 192, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
157 17 0.09
158 174 0.91
159 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (157 bp):
GAGTATCCCCGATGAAATAACGGGTTGGAGTATCCCCGATTGTGAGAAAACAATATTTTAGAAAT
AAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTGG
AGTATCCCCTCGAAAATAACGGGGTTG
Found at i:207125 original size:28 final size:30
Alignment explanation
Indices: 207050--207126 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 30
207040 GAAATAAAGC
207050 CGGGGTTGGAGTATCCCC--TCGAAAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
*
207078 CGGGGTTGGAGTATCACCGAT-G-AAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
*
207106 CGGTGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
207127 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 42 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCGATCGAAAATAA
Found at i:207151 original size:158 final size:156
Alignment explanation
Indices: 206771--207232 Score: 568
Period size: 158 Copynumber: 2.9 Consensus size: 156
206761 ATCGGGATTA
* * * ** *
206771 GAGTATCCCCATGAAAAAATGGGGTTGGAGTATCCTTGATTGTGAGAAATCAATATTTTAGAAAT
1 GAGTATCCCGATGAAATAA-CGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAAT
* * * *
206836 AAGGCTGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTGG
65 AAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTTGG
* * *
206901 AGTATCCCTTCGGAAATAATGGGGTTG
130 AGTATCCCCTCGAAAATAACGGGGTTG
206928 GAGTATCCCCGATGAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAAA-CAATATTTTAGAA
1 GAGTAT-CCCGATGAAATAACGGG-TTGGAGTATCCCCGATTGTGA-AAAATCAATATTTTAGAA
206992 ATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTT
63 ATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTT
207057 GGAGTATCCCCTCGAAAATAACGGGGTTG
128 GGAGTATCCCCTCGAAAATAACGGGGTTG
*** * *
207086 GAGTATCACCGATGAAATAACGGTGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAA
1 GAGTATC-CCGATGAAATAACGG-GTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAA
*** * * * ***** * *
207151 TAAAATCGGAGTTGGAGTATCCCCGACTGTG-GAGAATTGGCGTTTTAGAAATAAAACCGGGGTT
64 TAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAG-ATCAATATTTTGGAAATAAAGCCGGGGTT
207215 GGAGTATCCCCTCGAAAA
128 GGAGTATCCCCTCGAAAA
207233 AATCTAGAGA
Statistics
Matches: 267, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
157 17 0.06
158 246 0.92
159 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (156 bp):
GAGTATCCCGATGAAATAACGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATA
AGGCCGGGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTTGGA
GTATCCCCTCGAAAATAACGGGGTTG
Found at i:207174 original size:51 final size:51
Alignment explanation
Indices: 207110--207225 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
207100 AAATAACGGT
* * * *
207110 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGACTGTGAAAAATTGGCGTTTTAGAAATAAAACCGGA
* * *
207161 GTTGGAGTATCCCCGACTGTGGAGAATTGGCGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGACTGTGAAAAATTGGCGTTTTAGAAATAAAACCGGA
207212 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
207226 TCGAAAAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGACTGTGAAAAATTGGCGTTTTAGAAATAAAACCGGA
Found at i:209548 original size:20 final size:20
Alignment explanation
Indices: 209523--209629 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
209513 AAAATGCCTG
*
209523 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
* *
209543 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGAGA
209563 AATGTATCGATACAAT----
1 AATGTATCGATACAATGAGA
* *
209579 -A--TATCGATATAATGAGC
1 AATGTATCGATACAATGAGA
209596 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
209616 AATGTATCGATACA
1 AATGTATCGATACA
209630 TCTGGGTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
18 1 0.01
19 1 0.01
20 56 0.79
21 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:210350 original size:41 final size:40
Alignment explanation
Indices: 210226--210353 Score: 116
Period size: 40 Copynumber: 3.1 Consensus size: 40
210216 TTAGGAGGGG
* * *
210226 AAAGAAATGGAAGAGGTGTCCCACTTTTTGAGGACAAAGG-A
1 AAAGAAAAGGAA-A-GTGTCCTACTTCTTGAGGACAAAGGAA
* * * * * *
210267 AAAGAGAATGAAA-TAGGTCTTGCTCCTTGAGGAAAAAGGAA
1 AAAGAAAAGGAAAGT--GTCCTACTTCTTGAGGACAAAGGAA
210308 AAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAAGTGAA
1 AAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAAG-GAA
210349 AAAGA
1 AAAGA
210354 GTACGTCCTG
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
38 1 0.01
40 36 0.54
41 29 0.43
42 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.19
Consensus pattern (40 bp):
AAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAAGGAA
Found at i:210429 original size:42 final size:42
Alignment explanation
Indices: 210358--210636 Score: 205
Period size: 42 Copynumber: 6.5 Consensus size: 42
210348 AAAAGAGTAC
*
210358 GTCCTGCT-TTTCGAGGA-TAAA-AAA-AGGAAAACGAAA-TGT
1 GTCCTGCTCTTT-GAGGACAAAAGAAAGAGGAAAA-GAAAGTGT
* *
210397 GTCTTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAAGAAAGTGT
* * *
210439 GTCCTGCTTTTTGAGGACAAAAGAGAAAAGAAGG-GAAGGAAGTGT
1 GTCCTGCTCTTTGAGGAC-AAA-AG-AAAG-AGGAAAAGAAAGTGT
* * * *
210484 GTCCAGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAAGAAAGTGT
* * * * *
210526 GTCCTACTCTTTGAAGACAAAAGGGAAAAGAAGGGAATG-AAGTAT
1 GTCCTGCTCTTTGAGGACAAAA--G-AAAG-AGGAAAAGAAAGTGT
* * * **
210571 GTCCTACTCTTTGAGGAC-AAAGAAAAGAGAAAAATAAAGTAC
1 GTCCTGCTCTTTGAGGACAAAAG-AAAGAGGAAAAGAAAGTGT
*
210613 GTCCTACTCTTTGAGGACTAAAAG
1 GTCCTGCTCTTTGAGGAC-AAAAG
210637 TGCCACCAAC
Statistics
Matches: 193, Mismatches: 30, Indels: 29
0.77 0.12 0.12
Matches are distributed among these distances:
39 12 0.06
40 6 0.03
41 13 0.07
42 84 0.44
43 4 0.02
44 13 0.07
45 53 0.27
46 8 0.04
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (42 bp):
GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAAGAAAGTGT
Found at i:210498 original size:87 final size:88
Alignment explanation
Indices: 210402--210636 Score: 341
Period size: 87 Copynumber: 2.7 Consensus size: 88
210392 AATGTGTCTT
* * *
210402 GCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGTGTCCTGCTTTTTGAGGACAAAAGAGAAA
1 GCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAGAAA
*
210467 AGAAGGGAAGGAAGTGTGTCC-A
66 AGAAGGGAAGGAAGTATGTCCTA
* * *
210489 GCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAAGACAAAAGGGAAA
1 GCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAGAAA
*
210554 AGAAGGGAATGAAGTATGTCCTA
66 AGAAGGGAAGGAAGTATGTCCTA
* *
210577 -CTCTTTGAGGAC-AAAGAAAAGAGAAAAATAAAGTACGTCCTACTCTTTGAGGACTAAAAG
1 GCTCTTTGAGGACAAAAG-AAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGAC-AAAAG
210637 TGCCACCAAC
Statistics
Matches: 133, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
86 3 0.02
87 124 0.93
88 6 0.05
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.20
Consensus pattern (88 bp):
GCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAGAAA
AGAAGGGAAGGAAGTATGTCCTA
Found at i:210707 original size:61 final size:59
Alignment explanation
Indices: 210614--210965 Score: 399
Period size: 61 Copynumber: 5.8 Consensus size: 59
210604 ATAAAGTACG
* *
210614 TCCTACTCTTTGAGGACT-AAAAGTGCCACCAACTCGTGTGAGCTTCGAAAAGGAAAGGCA
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT-G-AAAGGAAAGGCA
* * * *
210674 TCCTACTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAGAAA-GCA
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TT-GAAAG-GAAAGGCA
*
210735 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGC-TTGAAAGG-AAAGGCA
* * * *
210796 TCCTGCTCTTTAAAGACTAGAAAAGTGCCACCAACTTATGTGGGCCTTGCAAAGAGAAA-GCA
1 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGG-CTTG-AAAG-GAAAGGCA
* *
210858 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGC-TTGAAAGG-AAAGGCA
*
210919 TCCTACTCTTTGAGGTCTAGAAAAGTGCCACCAACTTGTGTGGGCTT
1 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTT
210966 TAAAAGGCGT
Statistics
Matches: 257, Mismatches: 21, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
59 2 0.01
60 32 0.12
61 139 0.54
62 75 0.29
63 8 0.03
64 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (59 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTGAAAGGAAAGGCA
Found at i:210857 original size:123 final size:123
Alignment explanation
Indices: 210614--210971 Score: 526
Period size: 123 Copynumber: 2.9 Consensus size: 123
210604 ATAAAGTACG
* * * * *
210614 TCCTACTCTTTGAGGACTA-AAAGTGCCACCAACTCGTGTGAGCTTCGAAAAGG-AAAGGCATCC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAGGCATCC
* * * *
210677 TACTCTTTGAGGA-TTGGAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAGAAAGCA
65 TACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTACAAAGAGAAAGCA
210735 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
* * * * *
210800 GCTCTTTAAAGACTAGAAAAGTGCCACCAACTTATGTGGGCCTTGCAAAGAGAAAGCA
66 ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTACAAAGAGAAAGCA
*
210858 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
* *
210923 ACTCTTTGAGGTCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAG
66 ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTACAAAG
210972 GCGTCATGCT
Statistics
Matches: 212, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
121 23 0.11
122 48 0.23
123 141 0.67
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (123 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTACAAAGAGAAAGCA
Found at i:210941 original size:184 final size:185
Alignment explanation
Indices: 210632--210972 Score: 485
Period size: 184 Copynumber: 1.8 Consensus size: 185
210622 TTTGAGGACT
* * * *
210632 AAAAGTGCCACCAACTCGTGTGAGCTTCGAAAAGGAAAGGCATCCTACTCTTTGAGGATTGGAAG
1 AAAAGTGCCACCAACTCATGTGAGCTTCGAAAAGGAAAGGCATCCTACTCTTTGAGGACTAGAAA
* *
210697 GTGCCACCAACTTGTGTGGGCTTTACAAAGAGAAAGCATCCTGCTCTTTGAGGACTAGAAAA-TG
66 ATGCCACCAACTTGTGTGGGCTTTACAAAGAGAAAGCATCCTACTCTTTGAGGACTAGAAAAGTG
*
210761 CCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCTCTTTAAAGACTAG
131 CCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTAAAGACTAG
* * * *
210816 AAAAGTGCCACCAACTTATGTGGGCCTT-GCAAAGAGAAA-GCATCCTGCTCTTTGAGGACTAGA
1 AAAAGTGCCACCAACTCATGTGAG-CTTCGAAAAG-GAAAGGCATCCTACTCTTTGAGGACTAGA
* * *
210879 AAATGCCACCAACTTGTGTGGGCTTT-GAAAG-GAAAAGGCGTCCTACTCTTTGAGGTCTAGAAA
64 AAATGCCACCAACTTGTGTGGGCTTTACAAAGAG-AAA-GCATCCTACTCTTTGAGGACTAGAAA
210942 AGTGCCACCAACTTGTGTGGGCTTTAAAAGG
127 AGTGCCACCAACTTGTGTGGGCTTTAAAAGG
210973 CGTCATGCTC
Statistics
Matches: 138, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
182 1 0.01
183 7 0.05
184 95 0.69
185 35 0.25
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (185 bp):
AAAAGTGCCACCAACTCATGTGAGCTTCGAAAAGGAAAGGCATCCTACTCTTTGAGGACTAGAAA
ATGCCACCAACTTGTGTGGGCTTTACAAAGAGAAAGCATCCTACTCTTTGAGGACTAGAAAAGTG
CCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTAAAGACTAG
Found at i:211080 original size:94 final size:94
Alignment explanation
Indices: 210918--211089 Score: 272
Period size: 94 Copynumber: 1.8 Consensus size: 94
210908 AGGAAAAGGC
* * ** *
210918 GTCCTACTCTTTGAGGTCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCATGCTC
1 GTCCTGCTCTTTGAGGACT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
210983 TTTGAGGACTAAAGGGCGAAATGAGAGAGT
65 TTTGAGGACTAAAGGGCGAAATGAGAGAGT
*
211013 GTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
211078 TTGAAGACTAAA
66 TTGAGGACTAAA
211090 AAAAATGCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 54 0.77
95 16 0.23
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (94 bp):
GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACTAAAGGGCGAAATGAGAGAGT
Found at i:211108 original size:57 final size:56
Alignment explanation
Indices: 211038--211201 Score: 199
Period size: 57 Copynumber: 2.9 Consensus size: 56
211028 GATTGGGAAG
211038 TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTAAAAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT-AAGACTAAAAAAAA
* ** * * **
211095 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTATTGCTCTTTTAGGACT--GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC-TTTAAGACTAAAAAAAA
*
211150 TGCCACCAACTTGTTTGGGCTTTGAAAA-GCGTCCTGCTCTTTAAGGACTAAA
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTTAA-GACTAAA
211202 GGGTGAAAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
54 4 0.04
55 38 0.43
56 3 0.03
57 41 0.46
58 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (56 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGACTAAAAAAAA
Found at i:211142 original size:151 final size:152
Alignment explanation
Indices: 210858--211149 Score: 401
Period size: 151 Copynumber: 1.9 Consensus size: 152
210848 AGAGAAAGCA
210858 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT---A--AAAAGGCGTCCT
* * * *
210923 ACTCTTTGAGGTCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCATGCTCTTTGA
61 ACTCTTTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCATGCTCTTTGA
210988 GGACT-AAAGGGCGAAATGAGAGAGTG
126 GGACTGAAAGGGCGAAATGAGAGAGTG
* * * * *
211014 TCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTACTCT
* *
211078 TTGAAGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGT-ATTGCTCTTTTAGGA
66 TTGAAGACT-AAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCA-TGCTCTTTGAGGA
211142 CTGAAAGG
129 CTGAAAGG
211150 TGCCACCAAC
Statistics
Matches: 122, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
150 24 0.20
151 50 0.41
152 5 0.04
156 43 0.35
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (152 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTACTCT
TTGAAGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCATGCTCTTTGAGGACT
GAAAGGGCGAAATGAGAGAGTG
Found at i:211174 original size:55 final size:54
Alignment explanation
Indices: 211037--211203 Score: 210
Period size: 55 Copynumber: 3.0 Consensus size: 54
211027 GGATTGGGAA
* *
211037 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAA-GACTAAAAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT-AAGGACT---AAAG
* ** *
211094 ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTATTGCTCTTTTAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACT-AAAG
* *
211149 GTGCCACCAACTTGTTTGGGCTTTGAAAAGCGTCCTGCTCTTTAAGGACTAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAG
211203 G
1 G
211204 GTGAAAAGAG
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
54 5 0.05
55 47 0.49
56 1 0.01
57 43 0.45
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (54 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAG
Found at i:211243 original size:206 final size:205
Alignment explanation
Indices: 210818--211383 Score: 708
Period size: 206 Copynumber: 2.7 Consensus size: 205
210808 AAGACTAGAA
* * *
210818 AAGTGCCACCAACTTATGTGGGCCTTGCAAAGAGAAAGCATCCTGCTCTTTGAGGACTAGAAAAT
1 AAGTGCCACCAACTTATGTGGG-CTT-TAAA-AG---GCGTCCTGCTCTTTGAGGACTAAAAAAT
* * * *
210883 GCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTCTTTGAGGTCTAGAAAAGTGCC
60 GCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCTTGCTCTTTTAGGACTAGAAAAGTGCC
* *
210948 ACCAACTTGTGTGGGCTTT-AAAAGGCGTCATGCTCTTTGAGGACTAAAGGGCGAAATGAGAGAG
119 ACCAACTTGTGTGGGCTTTGAAAA-GCGTCATGCTCTTTAAGGACTAAAGGGCGAAAAGAGAGAG
* * *
211012 TGTCCTGCTCTTTGAGGATTGGG
183 CGTCCTGCTCTTAGAGGACTGGG
* *
211035 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTAAAAAAAATGCCA
1 AAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT--AAAAAATGCCA
* *
211100 CCAACTTGTGTGGGCTTTGAAAGGCGTATTGCTCTTTTAGGACT-GAAAGGTGCCACCAACTTGT
64 CCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTTAGGACTAGAAAAGTGCCACCAACTTGT
* * *
211164 TTGGGCTTTGAAAAGCGTCCTGCTCTTTAAGGACTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCT
129 GTGGGCTTTGAAAAGCGTCATGCTCTTTAAGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCT
211229 TAGAGGACTGGG
194 TAGAGGACTGGG
* * *
211241 AAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGTCACC
1 AAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACC
* ** * *
211306 AACTCGTGTGGGCTTT-AAACAACGTCTTGCT-TTTTGAAGACTAAAAAAGTGCCACCAACTTGT
66 AACTTGTGTGGGCTTTGAAA-GGCGTCTTGCTCTTTT-AGGACTAGAAAAGTGCCACCAACTTGT
211369 GTGGGCTTTGAAAAG
129 GTGGGCTTTGAAAAG
211384 AAAAAGGTGC
Statistics
Matches: 311, Mismatches: 32, Indels: 24
0.85 0.09 0.07
Matches are distributed among these distances:
203 7 0.02
204 39 0.13
205 32 0.10
206 132 0.42
207 24 0.08
208 1 0.00
211 19 0.06
213 28 0.09
214 2 0.01
215 3 0.01
216 3 0.01
217 21 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (205 bp):
AAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACC
AACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTTAGGACTAGAAAAGTGCCACCAACTTGTGT
GGGCTTTGAAAAGCGTCATGCTCTTTAAGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTA
GAGGACTGGG
Found at i:211400 original size:21 final size:21
Alignment explanation
Indices: 211374--211414 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
211364 CTTGTGTGGG
*
211374 CTTTGAAAAGAAAAAGGTGCT
1 CTTTGAAAACAAAAAGGTGCT
**
211395 CTTTGAGGACAAAAAGGTGC
1 CTTTGAAAACAAAAAGGTGC
211415 CACCAACTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (21 bp):
CTTTGAAAACAAAAAGGTGCT
Found at i:211494 original size:60 final size:60
Alignment explanation
Indices: 211217--211892 Score: 710
Period size: 60 Copynumber: 11.3 Consensus size: 60
211207 AAAAGAGAGA
* ** *
211217 GCGTCCTGCTCTTAGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
211272 GCGTCCTACTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTT--AA--ACAA-
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
211328 -CGTCTTGCTTTTTGAAGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAA
1 GCGTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
*
211389 G-G---TGCTCTTTGAGGACAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
211446 GCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAG
* ** * *
211508 GCATCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAA-
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAG
*
211568 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
211629 GCGTCCTTCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAG
* * ** * * * *
211691 GCATCCTACTCTTTGAGGACTGAAGGGTGCCATCAACTTGTGTGTGCTTT-GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
211751 GCGTCCTGCTCTTTGAAGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGAC-TAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
211812 GCGTCCTGCTCTTTGAAGACT-AAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
*
211872 GTGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
211893 GGAAGGGCTA
Statistics
Matches: 534, Mismatches: 59, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
55 58 0.11
56 35 0.07
57 33 0.06
58 13 0.02
59 29 0.05
60 175 0.33
61 94 0.18
62 48 0.09
63 49 0.09
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:211556 original size:123 final size:121
Alignment explanation
Indices: 211217--211892 Score: 748
Period size: 123 Copynumber: 5.7 Consensus size: 121
211207 AAAAGAGAGA
* ** *
211217 GCGTCCTGCTCTTAGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTT------AAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
* * * * *
211276 CCTACTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTT--AA--ACAA-
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
211328 -CGTCTTGCTTTTTGAAGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-G-
1 GCGTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
*
211390 G---TGCTCTTTGAGGACAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
63 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
211446 GCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAGGCG
* * * *
211511 TCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAA-
64 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAG
* *
211568 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
* *
211633 CCTTCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAG
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAG
* * ** * * * * *
211691 GCATCCTACTCTTTGAGGACTGAAGGGTGCCATCAACTTGTGTGTGCTTT-GAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGT
* *
211755 CCTGCTCTTTGAAGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
211812 GCGTCCTGCTCTTTGAAGACT-AAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCGT
211876 CCTGCTCTTTGAGGACT
65 CCTGCTCTTTGAGGACT
211893 GGAAGGGCTA
Statistics
Matches: 476, Mismatches: 59, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
110 16 0.03
111 25 0.05
113 39 0.08
115 2 0.00
116 1 0.00
117 36 0.08
118 9 0.02
119 39 0.08
120 26 0.05
121 73 0.15
122 71 0.15
123 137 0.29
124 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (121 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTC
CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:211608 original size:183 final size:184
Alignment explanation
Indices: 211211--211899 Score: 852
Period size: 183 Copynumber: 3.9 Consensus size: 184
211201 AGGGTGAAAA
* * * *
211211 GAGAGAGCGTCCTGCTCTTAGAGGACT--GGGAAGTGCCACCAACTTATGTGGGCTTT------A
1 GAGAAAGCGTCCTGCTCTTTGAGGACTAAAGG--GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
211268 AAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTT------AAACA
64 AAAGGCGTCCTACTCTTTGAGGACT-AAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA
* * * * * ** *
211327 A--CGTCTTGCTTTTTGAAGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
128 AGGCATCCTGCTCTTTGAGGACTAGAAGGGTGCCACCAACTTGTGTGGGCTTTG-AAG
* * *
211383 GAAAAAG-G---TGCTCTTTGAGGACAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 GAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* *
211444 AGGCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAAGG
66 AGGCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGG
*
211509 CATCCTGCTCTTTGAGGACT-GAAGGGTGCCACCAACTCGTGTGGGCTTTGAAG
131 CATCCTGCTCTTTGAGGACTAGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAG
211562 GAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 GAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * *
211627 AGGCGTCCTTCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGG
66 AGGCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGG
* * *
211692 CATCCTACTCTTTGAGGACT-GAAGGGTGCCATCAACTTGTGTGTGCTTTGAAG
131 CATCCTGCTCTTTGAGGACTAGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAG
* *
211745 GAGAAGGCGTCCTGCTCTTTGAAGACTTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
1 GAGAAAGCGTCCTGCTCTTTGAGGAC-TAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
* * *
211809 AAGGCGTCCTGCTCTTTGAAGACT-AAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAAG
65 AAGGCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAG
** *
211872 GTGTCCTGCTCTTTGAGGACTGGAAGGG
130 GCATCCTGCTCTTTGAGGACTAGAAGGG
211900 CTAAAAGAGG
Statistics
Matches: 455, Mismatches: 40, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
168 36 0.08
170 1 0.00
171 1 0.00
172 5 0.01
173 25 0.05
174 26 0.06
179 13 0.03
180 27 0.06
181 40 0.09
182 36 0.08
183 241 0.53
184 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (184 bp):
GAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
AGGCGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGG
CATCCTGCTCTTTGAGGACTAGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAG
Found at i:218179 original size:79 final size:80
Alignment explanation
Indices: 218032--218230 Score: 226
Period size: 79 Copynumber: 2.5 Consensus size: 80
218022 CAACAGGCTA
* *
218032 GAGTATCCCCGATTATGAAAAATCGATGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCCGATTATGAAAAATCGATGTTCTAGAAATAAAAATCGAGATTGGAGTATCCCCTCG
218097 AAAATAACAGGGTTG
66 AAAATAACAGGGTTG
* * *
218112 GAGTATCCTCGATTAT-AGAAAATCGATGTT-TTGAAA-ATAAAATCGAGATTTGAGTATCCCCA
1 GAGTATCCCCGATTATGA-AAAATCGATGTTCTAGAAATA-AAAATCGAGATTGGAGTATCCCC-
**
218174 T-GAAAATAATGGGGTTG
63 TCGAAAATAACAGGGTTG
* * * * * *
218191 GAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAA
1 GAGTATCCCCGATTATGAAAAATCGATGTTCTAGAAATAA
218231 GGCCGGGGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
78 1 0.01
79 62 0.63
80 35 0.35
81 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (80 bp):
GAGTATCCCCGATTATGAAAAATCGATGTTCTAGAAATAAAAATCGAGATTGGAGTATCCCCTCG
AAAATAACAGGGTTG
Found at i:218250 original size:51 final size:51
Alignment explanation
Indices: 218184--218301 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
218174 TGAAAATAAT
* *
218184 GGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGCA
* * * *
218235 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATTTTTTGGAAATAAAGCA
1 GGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGCA
*
218286 GAGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
218302 TTCGAAAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGCA
Found at i:218380 original size:51 final size:51
Alignment explanation
Indices: 218315--218411 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
218305 GAAAATAATA
*
218315 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCG
1 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCG
* *
218366 GGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAA
1 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAA
218412 AGCCGAGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCG
Found at i:218428 original size:51 final size:50
Alignment explanation
Indices: 218316--218432 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 50
218306 AAAATAATAG
* * *
218316 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCGG
1 GGTT-GAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGA
* *
218367 GGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGA
1 GGTTG-AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGA
218418 GGTTAGAGTATCCCC
1 GGTT-GAGTATCCCC
218433 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 1 0.02
51 57 0.97
52 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (50 bp):
GGTTGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGA
Found at i:218454 original size:28 final size:28
Alignment explanation
Indices: 218418--218486 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
218408 ATAAAGCCGA
**
218418 GGTTAGAGTATCCCCTCGGAAATAACGG
1 GGTTAGAGTATCCCCGAGGAAATAACGG
* *
218446 GGTTGGAGTATCCCCGATGAAATAACGG
1 GGTTAGAGTATCCCCGAGGAAATAACGG
*
218474 GGTAAGAGTATCC
1 GGTTAGAGTATCC
218487 TCGATTGTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (28 bp):
GGTTAGAGTATCCCCGAGGAAATAACGG
Found at i:218461 original size:130 final size:130
Alignment explanation
Indices: 218106--218463 Score: 504
Period size: 130 Copynumber: 2.8 Consensus size: 130
218096 GAAAATAACA
* * * * * * ** * *
218106 GGGTTGGAGTATCCTCGATTAT-AGAAAATCGATGTTTTGAAAATAAAATCGAGATTTGAGTATC
1 GGGTTGAAGTATCCCCGATTGTGAG-AAATCAATATTTTGGAAATAAAGCCGAGGTTAGAGTATC
*
218170 CCCAT-GAAAATAATGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAGGC
65 CCC-TCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGC
218234 CG
129 CG
* * *
218236 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATTTTTTGGAAATAAAGCAGAGGTTGGAGTATCC
1 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGAGGTTAGAGTATCC
* * *
218301 CTTCGAAAATAATAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCG
66 CCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCG
*
218366 GGGTTGAAGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGAGGTTAGAGTATCC
1 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGAGGTTAGAGTATCC
* *
218431 CCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
66 CCTCGAAAATAATGGGGTTGGAGTATCCCCGAT
218464 GAAATAACGG
Statistics
Matches: 203, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
129 1 0.00
130 200 0.99
131 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (130 bp):
GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGAGGTTAGAGTATCC
CCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCG
Found at i:220969 original size:20 final size:19
Alignment explanation
Indices: 220887--221008 Score: 72
Period size: 20 Copynumber: 6.9 Consensus size: 19
220877 AAAAATGCCT
* *
220887 CAATGTATCGATACATTCTA
1 CAATGTATCGATACAAT-GA
* *
220907 -AATGTATCGAAACATTGA
1 CAATGTATCGATACAATGA
*
220925 GCAATGTATCAATAC-A--A
1 -CAATGTATCGATACAATGA
220942 C-A--TATCGATACAATGA
1 CAATGTATCGATACAATGA
220958 GCAATGTATCG-----AT-A
1 -CAATGTATCGATACAATGA
220972 CAATGTATCGATACAATGA
1 CAATGTATCGATACAATGA
220991 CCAATGTATCGATACAAT
1 -CAATGTATCGATACAAT
221009 TGTGAAAATT
Statistics
Matches: 80, Mismatches: 6, Indels: 32
0.68 0.05 0.27
Matches are distributed among these distances:
13 18 0.22
14 2 0.03
15 3 0.04
16 2 0.03
17 2 0.03
18 4 0.05
19 16 0.20
20 33 0.41
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (19 bp):
CAATGTATCGATACAATGA
Found at i:221008 original size:13 final size:13
Alignment explanation
Indices: 220959--220989 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
220949 ATACAATGAG
220959 CAATGTATCGATA
1 CAATGTATCGATA
220972 CAATGTATCGATA
1 CAATGTATCGATA
220985 CAATG
1 CAATG
220990 ACCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:221008 original size:33 final size:33
Alignment explanation
Indices: 220907--221008 Score: 150
Period size: 33 Copynumber: 3.1 Consensus size: 33
220897 ATACATTCTA
* * *
220907 AATGTATCGAAACATTGAGCAATGTATCAATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
**
220940 AACATATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
220973 AATGTATCGATACAATGACCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
221006 AAT
1 AAT
221009 TGTGAAAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:224326 original size:97 final size:97
Alignment explanation
Indices: 224154--224396 Score: 362
Period size: 97 Copynumber: 2.5 Consensus size: 97
224144 TTTTTAATTG
* * *
224154 AAAAACGGGGTTGGAGTATCCCCTCAGAGGAATGGAGTTAGAATATCCTCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAGAATATCCCCGATGATGACAATTTA
224219 AGTGAAAATAAAATTTAAACTTTGATGCGTTT
66 AGTGAAAATAAAATTTAAACTTTGATGCGTTT
* * *
224251 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTA-AAGTGTCCCCGATGGTGACAATTT
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAGAA-TATCCCCGATGATGACAATTT
* * *
224315 AAGTGAGAATAAGATTTAAACTTTGATGTGTTT
65 AAGTGAAAATAAAATTTAAACTTTGATGCGTTT
* * *
224348 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATAGGGTTGGAGTATCCC
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAGAATATCCC
224397 GATAAATAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
96 2 0.02
97 127 0.98
98 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAGAATATCCCCGATGATGACAATTTA
AGTGAAAATAAAATTTAAACTTTGATGCGTTT
Found at i:226627 original size:20 final size:20
Alignment explanation
Indices: 226601--226655 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
226591 AAAAAGACAG
*
226601 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
226621 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
226641 AATGTATCGATACAT
1 AATGTATCGATACAT
226656 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:226632 original size:71 final size:71
Alignment explanation
Indices: 226551--226683 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 71
226541 TTTTAACAAG
* *
226551 ATGTATCGATACATTGAAAAATATATTAACACATCTGGGAAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCAACACATCTGGGAAAAAAGACAAAATGTATCGATACAT
226616 TCATAC
66 TCATAC
* * * * *
226622 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAATACAAAATGTATCGATA
1 ATGTATCGATACATTGAAAAATATATCAACACATCTGGGAAAAAAGACAAAATGTATCGATA
226684 TATTAAAGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (71 bp):
ATGTATCGATACATTGAAAAATATATCAACACATCTGGGAAAAAAGACAAAATGTATCGATACAT
TCATAC
Found at i:226701 original size:71 final size:71
Alignment explanation
Indices: 226555--226726 Score: 202
Period size: 71 Copynumber: 2.4 Consensus size: 71
226545 AACAAGATGT
* ** * * *
226555 ATCGATACATTGAAAAATATATTAACACATCTGGGAAAAAAGACAGAATGTATCGATACATTCAT
1 ATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGACAAAATGTATCGATACATTCAA
* *
226620 ACATGT
66 AAATGG
* * *
226626 ATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAATACAAAATGTATCGATATATT-AA
1 ATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGACAAAATGTATCGATACATTCAA
226690 AGAATGG
66 A-AATGG
* * *
226697 ATCGATACATTCATACATGTATCGATACAT
1 ATCGATACATTGAAAAATGTATCGATACAT
226727 TTTTCAATGT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
70 2 0.02
71 84 0.98
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (71 bp):
ATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGACAAAATGTATCGATACATTCAA
AAATGG
Found at i:226706 original size:91 final size:91
Alignment explanation
Indices: 226599--226774 Score: 280
Period size: 91 Copynumber: 1.9 Consensus size: 91
226589 GAAAAAAGAC
*
226599 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
1 AGAATGGATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
*
226664 AAATACAAAATGTATCGATATATTAA
66 AAATACAAAATGAATCGATATATTAA
****
226690 AGAATGGATCGATACATTCATACATGTATCGATACATTTTTCAATGTATCGATACATCTGGGTAA
1 AGAATGGATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
* *
226755 AAATATAGAATGAATCGATA
66 AAATACAAAATGAATCGATA
226775 CATCTAGGTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (91 bp):
AGAATGGATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
AAATACAAAATGAATCGATATATTAA
Found at i:226720 original size:20 final size:20
Alignment explanation
Indices: 226672--226746 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
226662 AAAAATACAA
* * *
226672 AATGTATCGATATATTAAAG
1 AATGTATCGATACATTATAC
*
226692 AATGGATCGATACATTCATAC
1 AATGTATCGATACATT-ATAC
* *
226713 -ATGTATCGATACATTTTTC
1 AATGTATCGATACATTATAC
226732 AATGTATCGATACAT
1 AATGTATCGATACAT
226747 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.91
21 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTATAC
Found at i:229055 original size:13 final size:13
Alignment explanation
Indices: 229037--229061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
229027 CAATTCATTA
229037 TGTATCGATACAT
1 TGTATCGATACAT
229050 TGTATCGATACA
1 TGTATCGATACA
229062 AACAGTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:229858 original size:8 final size:8
Alignment explanation
Indices: 229825--229858 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
229815 TATATTTATC
229825 AAATAAAA
1 AAATAAAA
*
229833 ATATAAAA
1 AAATAAAA
229841 AAAT-AAA
1 AAATAAAA
229848 AAATAAAA
1 AAATAAAA
229856 AAA
1 AAA
229859 ACACCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:229859 original size:16 final size:16
Alignment explanation
Indices: 229825--229858 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
229815 TATATTTATC
229825 AAATAAAAATATAAAA
1 AAATAAAAATATAAAA
229841 AAATAAAAA-ATAAAA
1 AAATAAAAATATAAAA
229856 AAA
1 AAA
229859 ACACCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATAAAAATATAAAA
Found at i:230092 original size:27 final size:30
Alignment explanation
Indices: 230042--230099 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
230032 AATATGATTC
*
230042 AAAATAATATTATTTTGGTAATTAAT-TTTT
1 AAAATAATATTAATTTGG-AATTAATATTTT
230072 AAAATAATATTAATTT-G-ATTAATATTTT
1 AAAATAATATTAATTTGGAATTAATATTTT
230100 TTGATAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.23
28 4 0.15
29 1 0.04
30 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (30 bp):
AAAATAATATTAATTTGGAATTAATATTTT
Found at i:232145 original size:78 final size:77
Alignment explanation
Indices: 232054--232213 Score: 216
Period size: 77 Copynumber: 2.1 Consensus size: 77
232044 TTACGGCAGC
* *
232054 TTAAAAATTATTAAAAATATA-AAAAATTAATTTCATTT-TTAAATAAAAAAATAAAAATGAGTT
1 TTAAAAATAATTAAAAATATATAAAAATTAATTTCATTTATTAAAT---AAAACAAAAATGAGTT
* *
232117 TATAATAAAAGTATT
63 TATAATAAAAATACT
* * *
232132 TTAAAAATAATTAAAAATATATAAAAATTAATTTTATTTATTAACTAAAACAAAAATGAGTTTGT
1 TTAAAAATAATTAAAAATATATAAAAATTAATTTCATTTATTAAATAAAACAAAAATGAGTTTAT
232197 AATAAAAATACT
66 AATAAAAATACT
232209 TTAAA
1 TTAAA
232214 GATCATCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
77 32 0.44
78 20 0.27
79 16 0.22
80 5 0.07
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.37
Consensus pattern (77 bp):
TTAAAAATAATTAAAAATATATAAAAATTAATTTCATTTATTAAATAAAACAAAAATGAGTTTAT
AATAAAAATACT
Found at i:233256 original size:50 final size:50
Alignment explanation
Indices: 233176--233291 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 50
233166 TTTTCACAAT
* *
233176 TTGTATTGATACATTCTGGATTTTACCCAGATGTAT-AGATACATC-CTTCA
1 TTGTATCGATACATTCTGGACTTTACCCAGATGTATCA-ATACATCTC-TCA
* *
233226 TTGTATCGATACATTCTGGACTTTATCCAGATGTATCAATACATTTCTCA
1 TTGTATCGATACATTCTGGACTTTACCCAGATGTATCAATACATCTCTCA
*
233276 ATGTATCGATACATTC
1 TTGTATCGATACATTC
233292 AGGCATTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 57 0.97
51 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (50 bp):
TTGTATCGATACATTCTGGACTTTACCCAGATGTATCAATACATCTCTCA
Found at i:234747 original size:20 final size:20
Alignment explanation
Indices: 234714--234788 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
234704 TTTTCACAAT
234714 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* * *
234734 TTGCATCAATACATTGTTTA
1 TTGTATCGATACATTGTTCA
234754 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
234774 TTGTATCGATACATT
1 TTGTATCGATACATT
234789 ATGGGTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:237527 original size:157 final size:156
Alignment explanation
Indices: 237192--237671 Score: 556
Period size: 157 Copynumber: 3.0 Consensus size: 156
237182 AGTCATGTTT
* ** * * * *
237192 TTATTTCCGAGGGGATACTCTTACCCCGATTTTATTTCCAAAACACTAATTTTCCACAATTGGGG
1 TTATTTCCGAGAGGATACTCCAACCCAGATTTTATTTTCAAAACACTAATTTTCCACAATCGAGG
* * * *
237257 ATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTCTAAGATACCAATT
66 ATACTCCAA-CCCGTTATTTTTGAG-GGGTACTCCAACCCCGATTTTATTTCCAAAACACCAATT
237322 TTTCACAATCGAGGACACTCCAACCCCG
129 TTTCACAATCGAGGACACTCCAACCCCG
* * *
237350 TTATTTCCGAGGGGATACTCCAACCCTAG-TTTTATTTTCAAAACACCAATTTTCTACAATCGAG
1 TTATTTCCGAGAGGATACTCCAACCC-AGATTTTATTTTCAAAACACTAATTTTCCACAATCGAG
* * * *
237414 GATACTCCAACCTCATTATTTTCGAGGGGTACTCCAACCTCGGTTTTATTTCCAAAACACCAATT
65 GATACTCCAACC-CGTTATTTTTGAGGGGTACTCCAACCCCGATTTTATTTCCAAAACACCAATT
* * *
237479 TTTCACAATCG-GAGATACTTCAACCCTG
129 TTTCACAATCGAG-GACACTCCAACCCCG
* *
237507 TTACTTT-CGAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCCACAATC-AG
1 TTA-TTTCCGAGAGGATACTCCAACCCAGATTTTATTTTCAAAACACTAATTTTCCACAATCGA-
* ***
237570 GGATACTCCAATGCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACGTTAA
64 GGATACTCCAA-CCCGTTATTTTTGAGGGG-TACTCCAACCCCGATTTTATTTCCAAAACACCAA
* * * *
237635 TTTTCCACCA-CTAGGGATACTCCAACCCCG
127 TTTTTCACAATCGA-GGACACTCCAACCCCG
237665 TTATTTC
1 TTATTTC
237672 TGAGGGCGTA
Statistics
Matches: 274, Mismatches: 37, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
156 3 0.01
157 137 0.50
158 132 0.48
159 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (156 bp):
TTATTTCCGAGAGGATACTCCAACCCAGATTTTATTTTCAAAACACTAATTTTCCACAATCGAGG
ATACTCCAACCCGTTATTTTTGAGGGGTACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT
TCACAATCGAGGACACTCCAACCCCG
Found at i:237639 original size:236 final size:236
Alignment explanation
Indices: 237192--237707 Score: 592
Period size: 236 Copynumber: 2.2 Consensus size: 236
237182 AGTCATGTTT
* ** * * *
237192 TTATTTCCGAGGGGATACTCTTACCCCGATTTTATTTCCAAAACACTAATTTTCCACAATTGGGG
1 TTATTTTCGAGGGG-TACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGAG
* * * *
237257 ATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTCTAAGATACCAATT
65 ATACTCCAACCCCGTTACTTTCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATT
* *
237322 TTTCACAATCGAGGACACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTAGTTTTATTT
130 TTCCACAATCGAGGACACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCGAGTTTTATTT
* * *
237387 TCAAAACACCAATTTTCTACAATCGA-GGATACTCCAACCTCA
195 CCAAAACACCAATTTTCCACAA-CGAGGGATACTCCAACCCCA
* * *
237429 TTATTTTCGAGGGGTACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGAGA
1 TTATTTTCGAGGGGTACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGAGA
* * **
237494 TACTTCAACCCTGTTACTTTCGAGAGGATACTCCAACCCCGATTTTATTT-TCAAAACACTGATT
66 TACTCCAACCCCGTTACTTTCGAGAGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATT
* ** **
237558 TTCCACAATC-AGGGATACTCCAATGCCGTTATTTTTGAGGGGATACTCCAACCCCGA-TTTTAT
130 TTCCACAATCGA-GGACACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCGAGTTTTAT
*** * * *
237621 TTCCAAAACGTTAATTTTCCACCACTAGGGATACTCCAACCCCG
193 TTCCAAAACACCAATTTTCCACAACGAGGGATACTCCAACCCCA
* * * * *
237665 TTA-TTTCTGAGGGCGTACTACGACCCAGCTTTTATCTCCAAAA
1 TTATTTTC-GAGGG-GTACTCCAACCCCGATTTTATTTCCAAAA
237708 TATTAAATTT
Statistics
Matches: 234, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
235 8 0.03
236 186 0.79
237 40 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (236 bp):
TTATTTTCGAGGGGTACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGAGA
TACTCCAACCCCGTTACTTTCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTT
TCCACAATCGAGGACACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCGAGTTTTATTTC
CAAAACACCAATTTTCCACAACGAGGGATACTCCAACCCCA
Found at i:237676 original size:79 final size:78
Alignment explanation
Indices: 237192--237677 Score: 548
Period size: 79 Copynumber: 6.2 Consensus size: 78
237182 AGTCATGTTT
* ** * *
237192 TTATTTCCGAGGGGATACTCTTACCCCGATTTTATTTCCAAAACACTAATTTTCCACAATTGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAA-TCGGG
237257 ATACTCCAACCCCG
65 ATACTCCAACCCCG
* * * * * *
237271 TTATTTTTGAGAGGATACTCCAACCCCGATTTTATTTCTAAGATACCAATTTTTCACAATCGAGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCG-GG
*
237336 ACACTCCAACCCCG
65 ATACTCCAACCCCG
* * * *
237350 TTATTTCCGAGGGGATACTCCAA-CCCTAGTTTTATTTTCAAAACACCAATTTTCTACAATCGAG
1 TTATTTCTGAGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTCCACAATCG-G
* *
237414 GATACTCCAACCTCA
64 GATACTCCAACCCCG
* * *
237429 TTATTT-TCGAGGGG-TACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGA
1 TTATTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGG-
* *
237492 GATACTTCAACCCTG
64 GATACTCCAACCCCG
* * **
237507 TTACTTTC-GAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCCACAATCAGG
1 TTA-TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC-GG
**
237571 GATACTCCAATGCCG
64 GATACTCCAACCCCG
* *** * *
237586 TTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACGTTAATTTTCCACCACTAGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCA-CAATCGGG
237651 ATACTCCAACCCCG
65 ATACTCCAACCCCG
237665 TTATTTCTGAGGG
1 TTATTTCTGAGGG
237678 CGTACTACGA
Statistics
Matches: 338, Mismatches: 58, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
77 1 0.00
78 66 0.20
79 266 0.79
80 5 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
TTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGA
TACTCCAACCCCG
Found at i:244699 original size:52 final size:52
Alignment explanation
Indices: 244621--244751 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
244611 CCCGAAATAT
* *
244621 GAAAATTTGCTTGCATGTATCGATACATTTCATGGTGTATCGATACATTTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGG
* *
244673 GAAAATTTGCCTGCATGTATTGATACATTTCCTGGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGG
*
244725 GCAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
244752 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGG
Found at i:244763 original size:52 final size:50
Alignment explanation
Indices: 244621--244771 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 50
244611 CCCGAAATAT
* *
244621 GAAAATTTGCTTGCATGTATCGATACATTTCATGGTGTATCGATACATTTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCA--GTGTATCGATACATCTGG
* *
244673 GAAAATTTGCCTGCATGTATTGATACATTTCCTGGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTT-C-AGTGTATCGATACATCTGG
* **
244725 GCAAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATAC--ATTTCAGTGTATCGATACA
244772 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
52 82 0.95
53 2 0.02
54 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (50 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCAGTGTATCGATACATCTGG
Found at i:244778 original size:13 final size:13
Alignment explanation
Indices: 244760--244784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244750 CAAAGATCAG
244760 TGTATCGATACAA
1 TGTATCGATACAA
244773 TGTATCGATACA
1 TGTATCGATACA
244785 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:244847 original size:13 final size:13
Alignment explanation
Indices: 244829--244880 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
244819 AGCTTCGTAG
244829 CGATACATTGTAT
1 CGATACATTGTAT
244842 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
244861 CGATACATTGTAT
1 CGATACATTGTAT
244874 CGATACA
1 CGATACA
244881 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:244861 original size:19 final size:19
Alignment explanation
Indices: 244837--244899 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
244827 AGCGATACAT
244837 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
244856 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
244869 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
244888 TGTATCGATACA
1 TGTATCGATACA
244900 GATCGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:244870 original size:32 final size:32
Alignment explanation
Indices: 244829--244899 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
244819 AGCTTCGTAG
244829 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
244861 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
244893 CGATACA
1 CGATACA
244900 GATCGTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:245739 original size:98 final size:98
Alignment explanation
Indices: 245618--246002 Score: 527
Period size: 98 Copynumber: 4.0 Consensus size: 98
245608 GAAGAATGAT
* * * * *
245618 AATGTGCTGATTCATGACCAGCGACATTAATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
* **
245683 GCCAGCAATACCGGACTTAAAGATGAAGATGCC
66 GCCAGCGATATAGGACTTAAAGATGAAGATGCC
* *
245716 AATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
* *
245781 GCCAGTGATATAGGACTTAAAGGTGAAGATGCC
66 GCCAGCGATATAGGACTTAAAGATGAAGATGCC
*
245814 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
*
245879 GCCAGCGATATTGGACTT-AA-A-G--G-TGCC
66 GCCAGCGATATAGGACTTAAAGATGAAGATGCC
*
245906 AATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGATGGTGCCAATATGCTGATTCAA
1 AATGTGCTGATTCAAGGCCAGCGACATT-GATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
* * * *
245970 GGCCAGTGATATTGGA-TT-TAGAAGAAGATGCC
65 GGCCAGCGATATAGGACTTAAAGATGAAGATGCC
246002 A
1 A
246003 CCAACTTGTG
Statistics
Matches: 261, Mismatches: 20, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
91 3 0.01
92 80 0.31
93 3 0.01
95 2 0.01
96 5 0.02
97 2 0.01
98 166 0.64
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
GCCAGCGATATAGGACTTAAAGATGAAGATGCC
Found at i:245984 original size:49 final size:49
Alignment explanation
Indices: 245622--245994 Score: 436
Period size: 49 Copynumber: 7.7 Consensus size: 49
245612 AATGATAATG
* * * *
245622 TGCTGATTCATGACCAGCGACATT-AATCTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGA-CTTAAAGATGAAGGTGCCAATA
* * ** * *
245671 TGCTGATTCAAAGCCAGCAATACCGGACTTAAAGATGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
245720 TGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * * * *
245769 TGCTGATTCAAGGCCAGTGATATAGGACTTAAAGGTGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
245818 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
*
245867 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* *
245910 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* *
245959 TGCTGATTCAAGGCCAGTGATATTGGATTTAGAAGA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
245995 AGATGCCACC
Statistics
Matches: 269, Mismatches: 47, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
43 39 0.14
45 1 0.00
47 1 0.00
49 223 0.83
50 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:246050 original size:28 final size:28
Alignment explanation
Indices: 246011--246513 Score: 628
Period size: 28 Copynumber: 17.5 Consensus size: 28
246001 CACCAACTTG
*
246011 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* * * * * *
246039 TTTGGGCATTTGAAAAGATACCACTAACT
1 TGTGGGC-TTTGGAAGGTTGCCACTGACT
*
246068 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246096 TATGGGCTTTGGAGAAGGGTGCCACTGACT
1 TGTGGGCTTT-G-GAAGGTTGCCACTGACT
*
246126 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
246154 TGTGGGCTTTGGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246182 TGTGGGCTTTGAAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG--GAAGGTTGCCACTGACT
*
246212 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246240 TCTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGG--AAGGTTGCCACTGACT
*
246270 TGTGGGCTTTGGAAGGTTTCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
*
246298 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGG--AAGGTTGCCACTGACT
*
246328 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
*
246356 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGG--AAGGTTGCCACTGACT
* *
246386 TGTGGGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* ** *
246414 TGTGGGCTTTGGAAAGGATAACACGGACT
1 TGTGGGCTTTGG-AAGGTTGCCACTGACT
*
246443 TGTGGGCTTTGGAAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246471 TGTGGGCTTTGGAAAGGATGCCACAGACT
1 TGTGGGCTTTGG-AAGGTTGCCACTGACT
246500 TGTGGGCTTTGGAA
1 TGTGGGCTTTGGAA
246514 AAGGTGAGGA
Statistics
Matches: 407, Mismatches: 55, Indels: 26
0.83 0.11 0.05
Matches are distributed among these distances:
28 211 0.52
29 69 0.17
30 127 0.31
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGGAAGGTTGCCACTGACT
Found at i:246149 original size:58 final size:57
Alignment explanation
Indices: 246011--246513 Score: 670
Period size: 58 Copynumber: 8.8 Consensus size: 57
246001 CACCAACTTG
* * * * * * * *
246011 TGTGGGCTTTTG-AAGGTTGCCACTGACTTTTGGGCATTTGAAAAGATACCACTAACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGC-TTTGGAAGGTTGCCACTGACT
* * * *
246068 TGTGGGCTTTTG-AAGGTTGCCACTGACTTATGGGCTTTGGAGAAGGGTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTT-G-GAAGGTTGCCACTGACT
* *
246126 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246182 TGTGGGCTTTGAAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTG-GAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246240 TCTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTTCCACTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
*
246298 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246356 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTGG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
* ** * *
246414 TGTGGGCTTTGGAAAGGATAACACGGACTTGTGGGCTTTGGAAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
* *
246471 TGTGGGCTTTGGAAAGGATGCCACAGACTTGTGGGCTTTGGAA
1 TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAA
246514 AAGGTGAGGA
Statistics
Matches: 413, Mismatches: 28, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
56 29 0.07
57 116 0.28
58 268 0.65
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (57 bp):
TGTGGGCTTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACT
Found at i:246177 original size:86 final size:87
Alignment explanation
Indices: 246022--246513 Score: 638
Period size: 86 Copynumber: 5.7 Consensus size: 87
246012 GTGGGCTTTT
* * * * * * * *
246022 GAAGGTTGCCACTGACTTTTGGGCATTTGAAAAGATACCACTAACTTGTGGGCTTTTGAAGGTTG
1 GAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTG
*
246087 CCACTGACTTATGGGCTTTGGA
66 CCACTGACTTGTGGGCTTTGGA
246109 GAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTG
1 GAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTG
*
246173 CCACTGACTTGTGGGCTTTGAA
66 CCACTGACTTGTGGGCTTTGGA
* * *
246195 AAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTCTGGGCTTTGGAAAAGGG
1 GAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGG--AAGGT
246259 TGCCACTGACTTGTGGGCTTT-G-
64 TGCCACTGACTTGTGGGCTTTGGA
* * * * *
246281 GAAGGTTTCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTT
1 GAAGGGTGCCACTGACTTGTGGGCTTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTT
246346 GCCACTGACTTGTGGGCTTTGGA
65 GCCACTGACTTGTGGGCTTTGGA
* * *
246369 AAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGAT
1 GAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGG-AAGGTT
** *
246433 AACACGGACTTGTGGGCTTT-G-
65 GCCACTGACTTGTGGGCTTTGGA
* * * * *
246454 GAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACAGACTTGTGGGCTTTGGAA
1 GAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAA
246514 AAGGTGAGGA
Statistics
Matches: 357, Mismatches: 40, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
85 27 0.08
86 206 0.58
87 49 0.14
88 75 0.21
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (87 bp):
GAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAGGTTG
CCACTGACTTGTGGGCTTTGGA
Found at i:247984 original size:9 final size:9
Alignment explanation
Indices: 247961--248000 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
247951 CTTTTTGTTG
*
247961 TTGTTGTTT
1 TTGTTTTTT
247970 TTGTTTTTT
1 TTGTTTTTT
*
247979 TTGTTTATT
1 TTGTTTTTT
*
247988 TGGTTTTTT
1 TTGTTTTTT
247997 TTGT
1 TTGT
248001 GGAGGATGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.80
Consensus pattern (9 bp):
TTGTTTTTT
Found at i:249200 original size:19 final size:19
Alignment explanation
Indices: 249176--249243 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
249166 AATTCAACAA
249176 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
249195 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
249210 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
249227 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
249244 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:249215 original size:13 final size:13
Alignment explanation
Indices: 249197--249221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
249187 ACATAAGTTT
249197 TGTATCGATACAA
1 TGTATCGATACAA
249210 TGTATCGATACA
1 TGTATCGATACA
249222 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:249219 original size:32 final size:32
Alignment explanation
Indices: 249178--249240 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
249168 TTCAACAATT
*
249178 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
249210 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
249241 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:249301 original size:13 final size:13
Alignment explanation
Indices: 249283--249308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
249273 CATTTTTTTG
249283 TGTATCGATACAT
1 TGTATCGATACAT
249296 TGTATCGATACAT
1 TGTATCGATACAT
249309 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:249866 original size:16 final size:15
Alignment explanation
Indices: 249841--249870 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
249831 AATCCTTTAG
249841 CAAAAAAAAGAAAAC
1 CAAAAAAAAGAAAAC
249856 CAAAAACAAAGAAAA
1 CAAAAA-AAAGAAAA
249871 ACACTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.13, G:0.07, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAGAAAAC
Found at i:251738 original size:51 final size:53
Alignment explanation
Indices: 251674--252012 Score: 170
Period size: 52 Copynumber: 6.5 Consensus size: 53
251664 AGTTTCTCAA
* * * * *
251674 TTCTCCACAATCGGGGATATTCCAACTCTGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
251725 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * * *
251779 TTCTTCACAATCGGGGATACTCCAAC-CC--CTTAATCATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** *** * * * * *
251831 CCCGTT-ATTTTCGAGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAAT
1 TTC-TTCACAATC--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * * * *
251885 TT-TTCCACAATCGGGGATACTCAAACCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-T
* *
251938 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
251991 TT-TT--C-ATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
252013 CCCGTTACTT
Statistics
Matches: 216, Mismatches: 51, Indels: 43
0.70 0.16 0.14
Matches are distributed among these distances:
50 19 0.09
51 38 0.18
52 75 0.35
53 22 0.10
54 51 0.24
55 8 0.04
57 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:251857 original size:28 final size:27
Alignment explanation
Indices: 251788--251862 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
251778 TTTCTTCACA
251788 ATCGGGGATACTCCAACCCC-TTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
251814 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
251840 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
251863 GTTTTATTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 24 0.55
27 2 0.05
28 18 0.41
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:251992 original size:106 final size:104
Alignment explanation
Indices: 251679--252018 Score: 295
Period size: 106 Copynumber: 3.3 Consensus size: 104
251669 CTCAATTCTC
* * * * *
251679 CACAATCGGGGATATTCCAACTCTGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAACCCCG-TTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
251743 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTT-TT
* ** * * * ** **
251784 CACAATCGGGGATACTCCAACCCC--TTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCGA
1 CACAATCGGGGATACTCCAACCCCGTTTTATTTTC---AAAACACCAATTTTCC-TT-TAATC--
* * * * *
251845 GGGGATACTCCAACCCCGGTTTTA-TTGC-TAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
* *
251889 CCACAATCGGGGATACTCAAACCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAACCCC-GTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
251954 TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
251995 --C-ATCGGGGATACTCCAACCCCGTT
1 CACAATCGGGGATACTCCAACCCCGTT
252019 ACTTCCGAGG
Statistics
Matches: 180, Mismatches: 39, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
101 3 0.02
102 25 0.14
103 1 0.01
104 23 0.13
105 33 0.18
106 61 0.34
107 5 0.03
108 23 0.13
109 6 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (104 bp):
CACAATCGGGGATACTCCAACCCCGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
Found at i:252147 original size:79 final size:79
Alignment explanation
Indices: 251998--252202 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
251988 AATTTTTCAT
* * *
251998 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
252063 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
252077 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
252141 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * * *
252156 CGGGGATACTCGAGCCCCGTTATTTTCAAAGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
252203 TTATTATCTC
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 101 0.97
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Done.