Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 80 of 171
Found at i:26976349 original size:201 final size:201
Alignment explanation
Indices: 26975997--26976705 Score: 898
Period size: 206 Copynumber: 3.5 Consensus size: 201
26975987 CAATTATCCA
* * * *
26975997 GAAACAA-TGAGGCGGTCATCTTCCTGATGAGGTACAGAGAAGTATACCAGCTC-A--AT-G--A
1 GAAACAAGTGAGGCGGTCATCTTTCTGATGAGATACAGAGAAGTATACCAACTCGACGCTCGATA
* * * * **
26976055 -GAACAAATCTGCGAACCCCAGCTTCTTGATGAGATGCTGAGAAGCAGGTCGAAACAATAAAATG
66 TGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATG
*
26976119 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAG
131 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
*
26976184 CGAATT
196 CGGATT
* * *
26976190 GAAACAAGTGAGGCGATTATC-TTCTTGATGAGATACAGAGAAGTATACCAACTCGAGGCTCGAT
1 GAAACAAGTGAGGCGGTCATCTTTC-TGATGAGATACAGAGAAGTATACCAACTCGACGCTCGAT
* *
26976254 ATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGATGCAGGTCTAAGTAATAAAAT
65 ATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAAT
* * ** *
26976319 GGTTAGCTTCTTGATGAGATACTAAGAAGTGGACCAAATTTATCTTCTTGATGAGATACAGAGAA
130 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
26976384 GCGGATT
195 GCGGATT
** ** * * * * * *
26976391 GAAACAAACGATACGGTCATCTTTCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCT
1 GAAACAAGTGAGGCGGTCATCTTTCTGATGAGATACAGAGAAGTATACC-AA-C---TCGACGCT
* *
26976456 CGATATGAGAAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATA
61 CGATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATA
*
26976521 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAA
126 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
26976586 AGAAGCGGATT
191 AGAAGCGGATT
* * * * *
26976597 GAAATAAGTGAGGCGGTCATCTTTCTGAAGAGATACAGAGAAG-GTACCAACTCGACACTCGATG
1 GAAACAAGTGAGGCGGTCATCTTTCTGATGAGATACAGAGAAGTATACCAACTCGACGCTCGATA
** * *
26976661 CAAGCAAACCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAG
66 TGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
26976706 TGGACCAAAT
Statistics
Matches: 438, Mismatches: 63, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
193 9 0.02
194 38 0.09
195 1 0.00
197 1 0.00
198 1 0.00
200 50 0.11
201 155 0.35
202 5 0.01
203 2 0.00
204 2 0.00
205 3 0.01
206 171 0.39
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (201 bp):
GAAACAAGTGAGGCGGTCATCTTTCTGATGAGATACAGAGAAGTATACCAACTCGACGCTCGATA
TGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATG
GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
CGGATT
Found at i:26976873 original size:358 final size:363
Alignment explanation
Indices: 26976323--26977007 Score: 1049
Period size: 358 Copynumber: 1.9 Consensus size: 363
26976313 TAAAATGGTT
* * * * *
26976323 AGCTTCTTGATGAGATACTAAGAAGTGGACCAAATTTATCTTCTTGATGAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAGAAGCAG
* *
26976388 ATTGAAACAAACGATACGGTCATCTTTCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAACGATACAGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
*
26976453 GCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTA
131 GCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGGA
*
26976518 ATAAAATGGTTAGCTTCCTGATGAGATACTGAG-A-A-GT-G-GACCAAATTCGTCTTCCTGATG
196 ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAACAGGTAGAGACCAAATTCGTCTTCCTGATG
* * *
26976578 AGATACAAAGAAGCGGATTGAAATA-AGTGAGGCGGTCATCTTTCTGAAGAGATACAGAGAAGGT
261 AGATACAAAGAAGCGGATTGAAACATA-CGAGGCGGTCATCTTCCTGAAGAGATACAGAGAAGGT
26976642 ACCAACTCGACACTCGATGCAAGCAAACCTTCGAACCTC
325 ACCAACTCGACACTCGATGCAAGCAAACCTTCGAACCTC
* *
26976681 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCAG
1 AGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAGAAGCAG
*
26976746 ATTGAAACAAACGATGCAGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAACGATACAGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
* * * *
26976811 GCTCGATATGAGTAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAGGA
131 GCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGGA
* *
26976876 ATAAAATGGTTAGCTTCTTAATGAGATACTGAGAAGCAGGTCGAAGTAGACTAAATTCGTCTTCC
196 ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAA-CAGGT---AG-AGACCAAATTCGTCTTCC
* * * *
26976941 TGATGAGATACAGAGAAGCGGATTGAAACATACGATGCGGTCATCTTCCTGATGAGATACTGAGA
256 TGATGAGATACAAAGAAGCGGATTGAAACATACGAGGCGGTCATCTTCCTGAAGAGATACAGAGA
26977006 AG
321 AG
26977008 AAGACCAAAT
Statistics
Matches: 291, Mismatches: 25, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
358 211 0.73
359 1 0.00
361 1 0.00
362 2 0.01
366 1 0.00
368 74 0.25
369 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (363 bp):
AGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAGAAGCAG
ATTGAAACAAACGATACAGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
GCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGGA
ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAACAGGTAGAGACCAAATTCGTCTTCCTGATG
AGATACAAAGAAGCGGATTGAAACATACGAGGCGGTCATCTTCCTGAAGAGATACAGAGAAGGTA
CCAACTCGACACTCGATGCAAGCAAACCTTCGAACCTC
Found at i:26977104 original size:216 final size:216
Alignment explanation
Indices: 26976702--26977127 Score: 681
Period size: 216 Copynumber: 2.0 Consensus size: 216
26976692 GAGATACTGA
*
26976702 GAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAACGATGCAGTC
1 GAAGTAGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAACGATGCAGTC
**
26976767 ATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATATGAGTAAATCTTC
66 ATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATATGAACAAATCTTC
* * * * * *
26976832 GAACCCCAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAGGAATAAAATGGTTAGCTTCTTAA
131 GAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGACGAAGCAATAAAATGGTTAGCTTCCTAA
*
26976897 TGAGATACTGAGAAGCAGGTC
196 TGAGATACGGAGAAGCAGGTC
* * * * *
26976918 GAAGTAGACTAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACATACGATGCGGTC
1 GAAGTAGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAACGATGCAGTC
* *
26976983 ATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAACAAATCTTC
66 ATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATATGAACAAATCTTC
* *
26977048 GAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGACGAAGCAATAAAGTGGTTAGCTTCCTGA
131 GAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGACGAAGCAATAAAATGGTTAGCTTCCTAA
26977113 TGAGATACGGAGAAG
196 TGAGATACGGAGAAG
26977128 TGAACCAAAT
Statistics
Matches: 191, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
216 191 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (216 bp):
GAAGTAGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCAGATTGAAACAAACGATGCAGTC
ATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATATGAACAAATCTTC
GAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGACGAAGCAATAAAATGGTTAGCTTCCTAA
TGAGATACGGAGAAGCAGGTC
Found at i:26977206 original size:574 final size:559
Alignment explanation
Indices: 26976122--26977213 Score: 1546
Period size: 574 Copynumber: 1.9 Consensus size: 559
26976112 TAAAATGGTT
26976122 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGA
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGA
** * * * * * * * *
26976187 ATTGAAACAAGTGAGGCGATTATCTTCTTGATGAGATACAGAGAAGTATACCAACTCGAGGCTCG
66 ATTGAAACAAACGAGGCGATCATCTTCCTAATGAGATACAGAGAAGAAGACCAACCCCACGCTCG
* * *
26976252 ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGATGCAGGTCTAAGTAATAAA
131 ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAA
* * * *
26976317 ATGGTTAGCTTCTTGATGAGATACTAAGAAGTGGACCAAATTTATCTTCTTGATGAGATACAGAG
196 ATGGTTAGCTTCTTAATGAGATACTAAGAAGTAGACCAAATTCATCTTCCTGATGAGATACAGAG
*
26976382 AAGCGGATTGAAACAAACGATACGGTCATCTTTCTAATGAGATACTGAGAAGAAGACCAAATCAA
261 AAGCGGATTGAAACAAACGATACGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAA
* *
26976447 ACCCACGCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTC
326 ACCCACGCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAAGAC
* * * *
26976512 GAAGTAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGAT
391 GAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGAT
* ** * * *
26976577 GAGATACAAAGAAGCGGATTGAAATAAGTGAGGCGGTCATCTTTCTGAAGAGATACAGAGAAGGT
456 GAGATACAAAGAAGCGAATCAAAACAAGTAAGGCGGTCATCTTCCTGAAGAGATACAGAGAAGGT
26976642 ACCAACTCGACACTCGATGCAAGCAAACCTTCGAACCTC
521 ACCAACTCGACACTCGATGCAAGCAAACCTTCGAACCTC
26976681 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGC-A
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGA
* *
26976745 GATTGAAACAAACGATGC-AGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCC
66 -ATTGAAACAAACGAGGCGA-TCATCTTCCTAATGAGATACAGAGAAGAAGACC-AA-C---CCC
* * *
26976809 ACGCTCGATATGAGTAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAG
124 ACGCTCGATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
* *
26976874 GAATAAAATGGTTAGCTTCTTAATGAGATACTGAGAAGCAGGTCGAAGTAGACTAAATTCGTCTT
189 GAATAAAATGGTTAGCTTCTTAATGAGATACT----A--A----GAAGTAGACCAAATTCATCTT
* * *
26976939 CCTGATGAGATACAGAGAAGCGGATTGAAACATACGATGCGGTCATCTTCCTGATGAGATACTGA
244 CCTGATGAGATACAGAGAAGCGGATTGAAACAAACGATACGGTCATCTTCCTAATGAGATACTGA
*
26977004 GAAGAAGACCAAATCAAACTCACGCTCGATATGA-ACAAATCTTCGAACCCCAGCTTCCTAATGA
309 GAAGAAGACCAAATCAAACCCACGCTCGATATGAGA-AAATCTTCGAACCCCAGCTTCCTAATGA
* *
26977068 GATACTGAGAAGCAGGACGAAGCAATAAAGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAAC
373 GATACTGAGAAGCAAGACGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAAC
* *
26977133 CAAATCCGTCTTCCTGATGA-A-ACATAGAGAAGTGAATCAAAACAAGTAATGCGGTCATCTTCC
438 CAAATCCGTCTTCCTGATGAGATACA-A-AGAAGCGAATCAAAACAAGTAAGGCGGTCATCTTCC
* *
26977196 TGATGAGATACTGAGAAG
501 TGAAGAGATACAGAGAAG
26977214 AAGGCCAAGT
Statistics
Matches: 466, Mismatches: 47, Indels: 25
0.87 0.09 0.05
Matches are distributed among these distances:
558 2 0.00
559 104 0.22
560 2 0.00
561 1 0.00
564 90 0.19
568 1 0.00
570 1 0.00
572 3 0.01
573 3 0.01
574 259 0.56
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (559 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGA
ATTGAAACAAACGAGGCGATCATCTTCCTAATGAGATACAGAGAAGAAGACCAACCCCACGCTCG
ATATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAA
ATGGTTAGCTTCTTAATGAGATACTAAGAAGTAGACCAAATTCATCTTCCTGATGAGATACAGAG
AAGCGGATTGAAACAAACGATACGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAA
ACCCACGCTCGATATGAGAAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAAGAC
GAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGAT
GAGATACAAAGAAGCGAATCAAAACAAGTAAGGCGGTCATCTTCCTGAAGAGATACAGAGAAGGT
ACCAACTCGACACTCGATGCAAGCAAACCTTCGAACCTC
Found at i:26977603 original size:6 final size:6
Alignment explanation
Indices: 26977594--26977645 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
26977584 GATTTATTTC
** *
26977594 TAAATT TAAATT T-ACCT TAAATT TAAATT TAAATT T-AGTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
26977640 TGAAAT
1 T-AAAT
26977646 AATTCTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
5 7 0.19
6 26 0.70
7 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:26977620 original size:23 final size:23
Alignment explanation
Indices: 26977594--26977645 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
26977584 GATTTATTTC
26977594 TAAATTTAAATTTACCTTAAATT
1 TAAATTTAAATTTACCTTAAATT
**
26977617 TAAATTTAAATTTAGTTTAAATT
1 TAAATTTAAATTTACCTTAAATT
26977640 TGAAAT
1 T-AAAT
26977646 AATTCTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (23 bp):
TAAATTTAAATTTACCTTAAATT
Found at i:26977635 original size:11 final size:11
Alignment explanation
Indices: 26977596--26977640 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
26977586 TTTATTTCTA
26977596 AATTTAAATTT
1 AATTTAAATTT
**
26977607 ACCTTAAATTT
1 AATTTAAATTT
26977618 AAATTTAAATTT
1 -AATTTAAATTT
*
26977630 AGTTTAAATTT
1 AATTTAAATTT
26977641 GAAATAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:26978481 original size:22 final size:21
Alignment explanation
Indices: 26978424--26978482 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 21
26978414 TTAATGGCAT
* *
26978424 TAATAACTTTAATAAATATTAA
1 TAATAA-TTTATTAAATAATAA
26978446 TAA-AATTT-TT-AATAATAA
1 TAATAATTTATTAAATAATAA
26978464 TAAATAATTTATTAAATAA
1 T-AATAATTTATTAAATAA
26978483 AAAAAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 8 0.26
19 3 0.10
20 8 0.26
21 4 0.13
22 8 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAATTTATTAAATAATAA
Found at i:26978812 original size:59 final size:58
Alignment explanation
Indices: 26978749--26978898 Score: 151
Period size: 59 Copynumber: 2.6 Consensus size: 58
26978739 AGAATTACCC
*
26978749 TTTTACCCTCGAATGTCTAAAGATTTCATTTTTTATCCCGATTTTTCTAAAAATTA-TCA
1 TTTTACCC-CGAATGTCTAAAGATTTCATTTTTGATCCCGATTTTTCTAAAAATTACT-A
* * * * ** * *
26978808 TTTTACCCCCGGATGTCCAAAAATTTCGTTTTTGATCTTGATTTTTCTAAAAGTTACTG
1 TTTTA-CCCCGAATGTCTAAAGATTTCATTTTTGATCCCGATTTTTCTAAAAATTACTA
* *
26978867 TTTTAGCCCCGAGTGTCTAAAG-TTCCATTTTT
1 TTTTA-CCCCGAATGTCTAAAGATTTCATTTTT
26978899 AACCTTGAAC
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
58 8 0.11
59 61 0.84
60 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (58 bp):
TTTTACCCCGAATGTCTAAAGATTTCATTTTTGATCCCGATTTTTCTAAAAATTACTA
Found at i:26979322 original size:96 final size:96
Alignment explanation
Indices: 26979180--26979364 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
26979170 AAAACTTTAA
* * * **
26979180 AATCGAGGCAATATTCTTTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCAATT
1 AATCGAGGCAATATTCTCTTATTTCGAGTTATGAAAATTTGCGCCTTAACTTACTAGGTGCAACC
26979245 TTTCTTCAAATCGAAATAATCGAATACCCTT
66 TTTCTTCAAATCGAAATAATCGAATACCCTT
*
26979276 AATCGAGGCAATGTT-TCCTTATCTTCGA-TTATGAAAATTTGCGCCTTAACTTACTAGGTGCAA
1 AATCGAGGCAATATTCT-CTTAT-TTCGAGTTATGAAAATTTGCGCCTTAACTTACTAGGTGCAA
*
26979339 CCTTTCTTCAACTCGAAATAATCGAA
64 CCTTTCTTCAAATCGAAATAATCGAA
26979365 CATCCTTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 1 0.01
96 74 0.93
97 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (96 bp):
AATCGAGGCAATATTCTCTTATTTCGAGTTATGAAAATTTGCGCCTTAACTTACTAGGTGCAACC
TTTCTTCAAATCGAAATAATCGAATACCCTT
Found at i:26982591 original size:16 final size:16
Alignment explanation
Indices: 26982570--26982622 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
26982560 AATCGTGTAA
26982570 AATTTTGGTTTAATTC
1 AATTTTGGTTTAATTC
** ** *
26982586 AATTTTACTTTTCTCC
1 AATTTTGGTTTAATTC
*
26982602 AATTTTGGCTTAATTC
1 AATTTTGGTTTAATTC
26982618 AATTT
1 AATTT
26982623 GGCTTCTTAA
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.55
Consensus pattern (16 bp):
AATTTTGGTTTAATTC
Found at i:26983611 original size:59 final size:59
Alignment explanation
Indices: 26983530--26983701 Score: 181
Period size: 59 Copynumber: 2.9 Consensus size: 59
26983520 GAAGAAAAAA
* * * *
26983530 TTTTGGGTGTTGGCCATGCAATGACCGACACCCTTTTTTTGTCAGAT-AAAAAATACAAAT
1 TTTTGGGTATTAGCCATACAATGGCCGACACCCTTTTTTT-TCAGATAAAAAAAT-CAAAT
* *
26983590 TTTT-TGTATTAGCCATACAATGGCCGACACCCCTATTTATTT--GATAAAAAAATCAAAT
1 TTTTGGGTATTAGCCATACAATGGCCGACA-CCCT-TTTTTTTCAGATAAAAAAATCAAAT
* * * *
26983648 TTTTGGGTGTTGGCCATACAATGGCCGACACCCCCTTTTTATCAGATAAAAAAA
1 TTTTGGGTATTAGCCATACAATGGCCGACA-CCCTTTTTTTTCAGATAAAAAAA
26983702 ATTCAATTAC
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
58 17 0.18
59 53 0.56
60 19 0.20
61 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (59 bp):
TTTTGGGTATTAGCCATACAATGGCCGACACCCTTTTTTTTCAGATAAAAAAATCAAAT
Found at i:26983883 original size:62 final size:61
Alignment explanation
Indices: 26983710--26984137 Score: 368
Period size: 62 Copynumber: 7.0 Consensus size: 61
26983700 AAATTCAATT
* * * * * *
26983710 ACCAAAAAAATTTGAAATTCTTTTATCTGAGAAAAGGGGGTGTCAGCCATTGCATGGCTAAC
1 ACCAAAAAAATTTG-AATTTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
** * * * * **
26983772 A-CAAAAAAAAATGAA-TTTTTTATCTGAGAAAAAAGGGTGCCGGTTATTGCATGGCCAAC
1 ACCAAAAAAATTTGAATTTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
* * *
26983831 ACCAAAAAAATTTGAGATTTTTTCATCAGATAAATAGGGGTGTCGGCCATTGCATGACCAAC
1 ACCAAAAAAATTTGA-ATTTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
** * * * *** *
26983893 ACCAAAAAAAATTAAAATTTTTTTATCTGAGAAAATGGGGTGTCGATAATTGCATGGTCAAC
1 ACC-AAAAAAATTTGAATTTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
* * * * *
26983955 ACC-CAAAAATTT-TATTTTTTTATCAGATAAATAGGAGTGTCGACCATTGCATGGCCAAC
1 ACCAAAAAAATTTGAATTTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
** * *
26984014 ACC-AAAAAA-TT-AATTTTTTTATTTGATAAAAAAAGAGGTGTCAGCCATTGCATGGCCAAC
1 ACCAAAAAAATTTGAATTTTTTTATCAGAT--AAAAAGGGGTGTCGGCCATTGCATGGCCAAC
* * * * ** *
26984074 ACC-CAAAAATTTGATTTTTTTTATCAGATTAAAAAGGAGTGTCGACGGTTGCATGACCAAC
1 ACCAAAAAAATTTGAATTTTTTTATCAGA-TAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
26984135 ACC
1 ACC
26984138 CAATTTTTTT
Statistics
Matches: 293, Mismatches: 64, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
58 15 0.05
59 83 0.28
60 54 0.18
61 40 0.14
62 90 0.31
63 11 0.04
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (61 bp):
ACCAAAAAAATTTGAATTTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAAC
Found at i:26983984 original size:121 final size:119
Alignment explanation
Indices: 26983756--26984137 Score: 430
Period size: 121 Copynumber: 3.2 Consensus size: 119
26983746 GGGGTGTCAG
* * * * * * * *
26983756 CCATTGCATGGCTAACACAAAAAAAAATGAA-TTTTTTATCTGAGAAAAAAGGGTGCCGGTTATT
1 CCATTGCATGACCAACACCAAAAAAAATTAATTTTTTTATCTGAGAAAAAGGGGTGTCGATAATT
* * * *
26983820 GCATGGCCAACACCAAAAAAATTTGAGATTTTTTCATCAGATAAATAGGGGTGTCGG
66 GCATGGCCAACACC-CAAAAATTT--GATTTTTTTATCAGATAAATAGGAGTGTCGA
*
26983877 CCATTGCATGACCAACACCAAAAAAAATTAAAATTTTTTTATCTGAGAAAATGGGGTGTCGATAA
1 CCATTGCATGACCAACACCAAAAAAAATT--AATTTTTTTATCTGAGAAAAAGGGGTGTCGATAA
* *
26983942 TTGCATGGTCAACACCCAAAAATTTTATTTTTTTATCAGATAAATAGGAGTGTCGA
64 TTGCATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATAAATAGGAGTGTCGA
* * * * **
26983998 CCATTGCATGGCCAACACC--AAAAAATTAATTTTTTTATTTGATAAAAAAAGAGGTGTC-AGCC
1 CCATTGCATGACCAACACCAAAAAAAATTAATTTTTTTATCTG--AGAAAAAGGGGTGTCGA-TA
*
26984060 ATTGCATGGCCAACACCCAAAAATTTGATTTTTTTTATCAGATTAAAAAGGAGTGTCGA
63 ATTGCATGGCCAACACCCAAAAATTTGA-TTTTTTTATCAGA-TAAATAGGAGTGTCGA
**
26984119 CGGTTGCATGACCAACACC
1 CCATTGCATGACCAACACC
26984138 CAATTTTTTT
Statistics
Matches: 225, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
117 13 0.06
118 1 0.00
119 46 0.20
120 13 0.06
121 101 0.45
123 10 0.04
124 41 0.18
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (119 bp):
CCATTGCATGACCAACACCAAAAAAAATTAATTTTTTTATCTGAGAAAAAGGGGTGTCGATAATT
GCATGGCCAACACCCAAAAATTTGATTTTTTTATCAGATAAATAGGAGTGTCGA
Found at i:26984417 original size:9 final size:9
Alignment explanation
Indices: 26984405--26984491 Score: 74
Period size: 9 Copynumber: 10.1 Consensus size: 9
26984395 TACTTTCATT
26984405 ATTATTATC
1 ATTATTATC
26984414 ATTATTATC
1 ATTATTATC
26984423 ---ATTATC
1 ATTATTATC
*
26984429 ATTATTATT
1 ATTATTATC
* *
26984438 ATTATTTTT
1 ATTATTATC
*
26984447 ATTATTATT
1 ATTATTATC
26984456 ATTATTATC
1 ATTATTATC
* **
26984465 ATCACCATC
1 ATTATTATC
*
26984474 A-TATTATT
1 ATTATTATC
26984482 ATTATTATC
1 ATTATTATC
26984491 A
1 A
26984492 GCTTCAATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
6 6 0.10
8 4 0.06
9 52 0.84
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATTATC
Found at i:26984483 original size:3 final size:3
Alignment explanation
Indices: 26984402--26984463 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
26984392 AATTACTTTC
* * * *
26984402 ATT ATT ATT ATC ATT ATT ATC ATT ATC ATT ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26984450 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
26984464 CATCACCATC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:26987608 original size:61 final size:60
Alignment explanation
Indices: 26987523--26987743 Score: 331
Period size: 61 Copynumber: 3.6 Consensus size: 60
26987513 ATTTTGCATG
* *
26987523 AACACCAAAAAATTTTAAAATTTTTTTATCTGAAAAAGG-GGATGTCAGCCATTGCATGGCC
1 AACACTAAAAAATTTTGAAATTTTTTTATCTGAAAAAGGAGG-TGTC-GCCATTGCATGGCC
*
26987584 AACACTAAAAAATTTTGAAATTTTTTTATCTAAAAAAGGAGGTGTCGACCATTGCATGGCC
1 AACACTAAAAAATTTTGAAATTTTTTTATCTGAAAAAGGAGGTGTCG-CCATTGCATGGCC
*
26987645 AACA-TAAAAAAATTTTGAAATTTTTTTATCTGAAAAAGGAGGTATCTGCCATTGCATGGCC
1 AACACT-AAAAAATTTTGAAATTTTTTTATCTGAAAAAGGAGGTGTC-GCCATTGCATGGCC
*
26987706 AACACTAAAAAAATTTGAAA-TTTTTTATCTGAAAAAGG
1 AACACTAAAAAATTTTGAAATTTTTTTATCTGAAAAAGG
26987744 CAATGACCAA
Statistics
Matches: 149, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
60 20 0.13
61 125 0.84
62 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (60 bp):
AACACTAAAAAATTTTGAAATTTTTTTATCTGAAAAAGGAGGTGTCGCCATTGCATGGCC
Found at i:26987877 original size:61 final size:61
Alignment explanation
Indices: 26987750--26987878 Score: 136
Period size: 61 Copynumber: 2.1 Consensus size: 61
26987740 AAGGCAATGA
** * * * * * **
26987750 CCAACACCCAAAAATTTAATTTTTTTTTATTAGATAAATAGGGGTGTCGGCCATTGTTTGG
1 CCAACACAAAAAAATTTAATATTTTTTTATTAGAAAAAAAGGGGTCTCGACCATTGCATGG
*
26987811 TCAACACAAAAAAATTT-ATATTTTTTTATCT-GACAAAAAAGGGGTCTCGACCATTGCATGG
1 CCAACACAAAAAAATTTAATATTTTTTTAT-TAGA-AAAAAAGGGGTCTCGACCATTGCATGG
26987872 CCAACAC
1 CCAACAC
26987879 CCAAATTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
60 13 0.24
61 42 0.76
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (61 bp):
CCAACACAAAAAAATTTAATATTTTTTTATTAGAAAAAAAGGGGTCTCGACCATTGCATGG
Found at i:26989765 original size:53 final size:53
Alignment explanation
Indices: 26989663--26989765 Score: 118
Period size: 53 Copynumber: 1.9 Consensus size: 53
26989653 TTATTTTTTA
* **
26989663 AAAATTTTAAATTAATAAAAATAAAATTATATTGTAATTTTCTTGAAAATGAT
1 AAAATTTTAAATTAATAAAAATAAAATTATATTGTAATTATCTAAAAAATGAT
* ** * *
26989716 AAAATTTTAATTTAAT-AATTTAAAATTATATTTTTATTATCGTAAAAAAT
1 AAAATTTTAAATTAATAAAAATAAAATTATATTGTAATTATC-TAAAAAAT
26989766 AAATAATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
52 20 0.49
53 21 0.51
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (53 bp):
AAAATTTTAAATTAATAAAAATAAAATTATATTGTAATTATCTAAAAAATGAT
Found at i:26992782 original size:9 final size:9
Alignment explanation
Indices: 26992754--26992797 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
26992744 TAAGCAACCA
26992754 TTTTTTC-T
1 TTTTTTCTT
*
26992762 TTTTCTCATT
1 TTTTTTC-TT
26992772 TTTTTTCTT
1 TTTTTTCTT
26992781 TTTTTTCTT
1 TTTTTTCTT
26992790 TTCTTTTC
1 TT-TTTTC
26992798 GAACCTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 6 0.19
9 13 0.42
10 12 0.39
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:26992783 original size:19 final size:17
Alignment explanation
Indices: 26992754--26992797 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
26992744 TAAGCAACCA
26992754 TTTTTTCTTTTTCTCATT
1 TTTTTTCTTTTTCTC-TT
*
26992772 TTTTTTCTTTTTTTTCTT
1 TTTTTTC-TTTTTCTCTT
26992790 TTCTTTTC
1 TT-TTTTC
26992798 GAACCTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCTTTTTCTCTT
Found at i:26997639 original size:23 final size:23
Alignment explanation
Indices: 26997613--26997656 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26997603 CTAACTAGAC
*
26997613 TTCTAGAAGCTGCTGACTGGACA
1 TTCTAGAAGCTACTGACTGGACA
*
26997636 TTCTAGAATCTACTGACTGGA
1 TTCTAGAAGCTACTGACTGGA
26997657 TGCCATGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
TTCTAGAAGCTACTGACTGGACA
Found at i:27003251 original size:20 final size:20
Alignment explanation
Indices: 27003228--27003271 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
27003218 CTTTTAGAAA
*
27003228 ATTTAATAATATTTTATT-AT
1 ATTTAAGAA-ATTTTATTAAT
*
27003248 ATTTTAGAAATTTTATTAAT
1 ATTTAAGAAATTTTATTAAT
27003268 ATTT
1 ATTT
27003272 TTATTGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTAAGAAATTTTATTAAT
Found at i:27003254 original size:30 final size:30
Alignment explanation
Indices: 27003214--27003272 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
27003204 ATCAACTCTT
*
27003214 TTATCTTTTAGAAAATTTAATAATATTTTA
1 TTATATTTTAGAAAATTTAATAATATTTTA
* *
27003244 TTATATTTTAGAAATTTTATTAATATTTT
1 TTATATTTTAGAAAATTTAATAATATTTT
27003273 TATTGGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (30 bp):
TTATATTTTAGAAAATTTAATAATATTTTA
Found at i:27004541 original size:23 final size:22
Alignment explanation
Indices: 27004498--27004542 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
27004488 CGGATCAAAA
*
27004498 TTTATTAAATATATAATTATGT
1 TTTATTAAATATATAACTATGT
*
27004520 TTTATTATATGATATAACTATGT
1 TTTATTAAAT-ATATAACTATGT
27004543 CAAATGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTATTAAATATATAACTATGT
Found at i:27005787 original size:17 final size:18
Alignment explanation
Indices: 27005761--27005794 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27005751 AAAATTTATA
*
27005761 CGATACAAA-TTATTAAC
1 CGATAAAAATTTATTAAC
27005778 CGATAAAAATTTATTAA
1 CGATAAAAATTTATTAA
27005795 ATATATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (18 bp):
CGATAAAAATTTATTAAC
Found at i:27007315 original size:6 final size:6
Alignment explanation
Indices: 27007306--27007378 Score: 89
Period size: 6 Copynumber: 12.2 Consensus size: 6
27007296 TTTGAATTTT
*
27007306 TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA
27007354 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
27007379 ACTAAAGTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 43 0.73
7 2 0.03
8 6 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:27007329 original size:17 final size:16
Alignment explanation
Indices: 27007307--27007369 Score: 85
Period size: 17 Copynumber: 3.9 Consensus size: 16
27007297 TTGAATTTTT
27007307 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTA-C
*
27007324 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAC
27007340 TT--ATTTAAATTTAC
1 TTAAATTTAAATTTAC
27007354 TTTAAATTTAAATTTA
1 -TTAAATTTAAATTTA
27007370 AATTTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.27
15 2 0.05
16 2 0.05
17 26 0.63
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTTAC
Found at i:27007347 original size:31 final size:29
Alignment explanation
Indices: 27007306--27007378 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 29
27007296 TTTGAATTTT
27007306 TTTAAATTTAAATTTA-TCTTAAATTTAAA
1 TTTAAATTTAAATTTACT-TTAAATTTAAA
27007335 TTTAATTATTTAAATTTACTTTAAATTTAAA
1 TTTAA--ATTTAAATTTACTTTAAATTTAAA
27007366 TTTAAATTTAAAT
1 TTTAAATTTAAAT
27007379 ACTAAAGTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
29 13 0.32
31 27 0.66
32 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TTTAAATTTAAATTTACTTTAAATTTAAA
Found at i:27008703 original size:25 final size:23
Alignment explanation
Indices: 27008595--27008732 Score: 163
Period size: 23 Copynumber: 5.9 Consensus size: 23
27008585 CGAAGTACTT
27008595 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
27008621 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * *
27008643 ATCAGTAGGCACACGAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
27008666 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
27008689 AACAATAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
27008712 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
27008733 TGAACGGTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
22 18 0.18
23 62 0.63
26 14 0.14
27 5 0.05
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.10
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:27009199 original size:11 final size:11
Alignment explanation
Indices: 27009174--27009202 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
27009164 AGACTCTAAT
27009174 AATTTTTCTAC
1 AATTTTTCTAC
27009185 -ATTTTTCTAC
1 AATTTTTCTAC
27009195 AATTTTTC
1 AATTTTTC
27009203 AAAGTCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (11 bp):
AATTTTTCTAC
Found at i:27011028 original size:24 final size:23
Alignment explanation
Indices: 27010983--27011029 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27010973 TAAAAAATAT
*
27010983 AATAAAAAGGTTCGTTTTAAAAA
1 AATAAAAAGGATCGTTTTAAAAA
*
27011006 AATAAAAAGGGAT-GTTTTGAAAA
1 AATAAAAA-GGATCGTTTTAAAAA
27011029 A
1 A
27011030 TCCCAGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.17, T:0.28
Consensus pattern (23 bp):
AATAAAAAGGATCGTTTTAAAAA
Found at i:27011889 original size:31 final size:31
Alignment explanation
Indices: 27011854--27012034 Score: 174
Period size: 30 Copynumber: 6.0 Consensus size: 31
27011844 CCCTAAATTG
*
27011854 TCCAAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAAATTACATTTTAACCCCAAAACTTT
*
27011885 TCC-AAAAGTACATTTTAACCCCAAAACTTT
1 TCCAAAAATTACATTTTAACCCCAAAACTTT
* * *
27011915 TCC-AAAAGTACATTTTGACCCTAAAACTTT
1 TCCAAAAATTACATTTTAACCCCAAAACTTT
* * * *
27011945 TTCAAAAATCATATTTTAACCCTAAAA--TT
1 TCCAAAAATTACATTTTAACCCCAAAACTTT
* * * *
27011974 TCCAAAAATTGCATTTTTACTCCGAAAC-TT
1 TCCAAAAATTACATTTTAACCCCAAAACTTT
* * *
27012004 TCAAAAAATTACCATTTTTACCCCTAAACTT
1 TCCAAAAATTA-CATTTTAACCCCAAAACTT
27012035 CCTTAAATCC
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
29 21 0.17
30 66 0.53
31 37 0.30
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (31 bp):
TCCAAAAATTACATTTTAACCCCAAAACTTT
Found at i:27012073 original size:59 final size:59
Alignment explanation
Indices: 27012008--27012139 Score: 205
Period size: 58 Copynumber: 2.2 Consensus size: 59
27011998 AAACTTTCAA
* *
27012008 AAAATTACCATTTTTACCC-CTAAACTTCCTTAAATCCCATTTTAAACCCCGATTTCACT
1 AAAATTACCATTTTTACCCTC-AAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
27012067 AAAATTACCA-TTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
27012125 AAAATCTACCATTTT
1 AAAAT-TACCATTTT
27012140 GCCCCCGGGT
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
58 48 0.72
59 16 0.24
60 3 0.04
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTTACCCTCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:27012078 original size:30 final size:29
Alignment explanation
Indices: 27012044--27012139 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 29
27012034 TCCTTAAATC
27012044 CCATTTTAAACCCCGATTTCACTAAAATTA
1 CCATTTT-AACCCCGATTTCACTAAAATTA
* * * *
27012074 CCATTTT-ACCCTCAAACTTCCCT-AAA-TC
1 CCATTTTAACCC-C-GATTTCACTAAAATTA
*
27012102 CCATTTTTAACCCCGATTTCACCAAAATCTA
1 CCA-TTTTAACCCCGATTTCACTAAAAT-TA
27012133 CCATTTT
1 CCATTTT
27012140 GCCCCCGGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
28 13 0.26
29 12 0.24
30 21 0.42
31 4 0.08
ACGTcount: A:0.31, C:0.32, G:0.02, T:0.34
Consensus pattern (29 bp):
CCATTTTAACCCCGATTTCACTAAAATTA
Found at i:27023957 original size:68 final size:68
Alignment explanation
Indices: 27023867--27024125 Score: 421
Period size: 68 Copynumber: 3.8 Consensus size: 68
27023857 ATCATTTCCG
* * * * *
27023867 ATCCGCTTGAAATTGAAGTAGAGAGGATAACAAGTCTTTATCTTTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
27023932 GTC
66 GTC
*
27023935 ATCGC-CTTGAAATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATC-CTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
27023999 CGTT
65 CGTC
*
27024003 ATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
27024068 GTC
66 GTC
*
27024071 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAAG
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAG
27024126 AAGTAGAGTG
Statistics
Matches: 178, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
67 1 0.01
68 176 0.99
69 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (68 bp):
ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:27024014 original size:31 final size:31
Alignment explanation
Indices: 27023910--27024090 Score: 111
Period size: 31 Copynumber: 5.5 Consensus size: 31
27023900 GTCTTTATCT
* *
27023910 TTGAAATTGAAGTAAGAGCAATGTCATCGC-C
1 TTGAAATTGAAGTAAGAGCAACGTTATC-CTC
**
27023941 TTGAAATTGAAGTAGAGTGGATAATACGTCTTTAT-CTC
1 TTGAAATTGAAGTA-A---GAGCA-ACG---TTATCCTC
27023979 -TGAAATTGAAGTAAGAGCAACGTTATCCTC
1 TTGAAATTGAAGTAAGAGCAACGTTATCCTC
* *
27024009 TTGAAATTGAAGTAGAGTGGATAACATGTCTTTAT-CTC
1 TTGAAATTGAAGTA-AG-AG-CAAC--G---TTATCCTC
*
27024047 -TGAAATTGAAGTAAGAGCAACGTCATCCTC
1 TTGAAATTGAAGTAAGAGCAACGTTATCCTC
27024077 TTGAAATTGAAGTA
1 TTGAAATTGAAGTA
27024091 GAGTGGATAA
Statistics
Matches: 118, Mismatches: 11, Indels: 42
0.69 0.06 0.25
Matches are distributed among these distances:
29 7 0.06
30 6 0.05
31 40 0.34
32 7 0.06
33 4 0.03
34 6 0.05
35 4 0.03
36 6 0.05
37 27 0.23
38 4 0.03
39 7 0.06
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (31 bp):
TTGAAATTGAAGTAAGAGCAACGTTATCCTC
Found at i:27024129 original size:40 final size:40
Alignment explanation
Indices: 27024085--27024165 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
27024075 TCTTGAAATT
27024085 GAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
*
27024125 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
27024165 G
1 G
27024166 TAAGAGCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (40 bp):
GAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
Found at i:27024165 original size:176 final size:176
Alignment explanation
Indices: 27023949--27024301 Score: 643
Period size: 176 Copynumber: 2.0 Consensus size: 176
27023939 CCTTGAAATT
* * *
27023949 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTTATCCTCTTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
*
27024014 ATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
66 ATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
27024079 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
131 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
*
27024125 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
*
27024190 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
66 ATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
*
27024255 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAA
131 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
27024301 G
1 G
27024302 TAAGAGCAAT
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
176 170 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (176 bp):
GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
ATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
Found at i:27024229 original size:68 final size:68
Alignment explanation
Indices: 27024125--27024581 Score: 772
Period size: 68 Copynumber: 6.7 Consensus size: 68
27024115 TAAAATTGAA
* *
27024125 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
27024190 ATT
66 ATT
*
27024193 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAA
1 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
27024258 ATT
66 ATT
* *
27024261 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
27024326 ATT
66 ATT
*
27024329 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAA
1 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
27024394 ATT
66 ATT
* * *
27024397 GAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
27024462 ATT
66 ATT
*
27024465 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAA
1 GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
27024530 ATT
66 ATT
* * *
27024533 GAAGTAAAACTGGAT-ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGC
1 GAAGT-AGAGTGGATAAT-ACGTCTTTATCTCTGAAATTGAAGTAAGAGC
27024582 TAGACAAGGC
Statistics
Matches: 367, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
68 330 0.90
69 37 0.10
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (68 bp):
GAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAA
ATT
Found at i:27024282 original size:136 final size:136
Alignment explanation
Indices: 27024125--27024581 Score: 860
Period size: 136 Copynumber: 3.4 Consensus size: 136
27024115 TAAAATTGAA
27024125 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
27024190 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
66 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
27024255 GAAATT
131 GAAATT
27024261 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
27024326 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
66 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
27024391 GAAATT
131 GAAATT
*
27024397 GAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
27024462 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
66 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
27024527 GAAATT
131 GAAATT
* * * *
27024533 GAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGC
1 GAAGT-AGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
27024582 TAGACAAGGC
Statistics
Matches: 314, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 276 0.88
137 38 0.12
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (136 bp):
GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
GAAATT
Found at i:27024310 original size:244 final size:244
Alignment explanation
Indices: 27023881--27024369 Score: 888
Period size: 244 Copynumber: 2.0 Consensus size: 244
27023871 GCTTGAAATT
* *
27023881 GAAGTAGAGAGGATAACAAGTCTTTATCTTTGAAATTGAAGTAAGAGCAATGTCATCGCCTTGAA
1 GAAGTAGAGAGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
*
27023946 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTTATCCTCTT
66 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
* *
27024011 GAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCT
131 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCC
27024076 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
196 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
* *
27024125 GAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
1 GAAGTAGAGAGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
27024190 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
66 ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
*
27024255 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCC
131 GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCC
* *
27024320 CTTGAAATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAA
196 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
27024369 G
1 G
27024370 TAAGAGCAAC
Statistics
Matches: 235, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 235 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (244 bp):
GAAGTAGAGAGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCATCCCCTTGAA
ATTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCTCTT
GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCC
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTAAAATTGAA
Found at i:27024972 original size:6 final size:6
Alignment explanation
Indices: 27024963--27025035 Score: 80
Period size: 6 Copynumber: 12.2 Consensus size: 6
27024953 TTTGAATTTT
*
27024963 TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A TTTAAA TTTAAA
*
27025011 TTTAAA TTTAAA TTTAAA TTAAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
27025036 ACTAAAGTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 42 0.72
7 2 0.03
8 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:27024984 original size:17 final size:16
Alignment explanation
Indices: 27024964--27025026 Score: 85
Period size: 17 Copynumber: 3.9 Consensus size: 16
27024954 TTGAATTTTT
27024964 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTA-C
*
27024981 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAC
27024997 TT--ATTTAAATTTAC
1 TTAAATTTAAATTTAC
27025011 TTTAAATTTAAATTTA
1 -TTAAATTTAAATTTA
27025027 AATTAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.27
15 2 0.05
16 2 0.05
17 26 0.63
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTTAC
Found at i:27025004 original size:31 final size:31
Alignment explanation
Indices: 27024968--27025027 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
27024958 ATTTTTTTAA
27024968 ATTTAAATTTA-TCTTAAATTTAAATTTAATT
1 ATTTAAATTTACT-TTAAATTTAAATTTAATT
27024999 ATTTAAATTTACTTTAAATTTAAATTTAA
1 ATTTAAATTTACTTTAAATTTAAATTTAA
27025028 ATTAAAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTAATT
Found at i:27026116 original size:24 final size:23
Alignment explanation
Indices: 27026071--27026117 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27026061 TAAAAAATAT
*
27026071 AATAAAAAGGTTCGTTTTAAAAA
1 AATAAAAAGGATCGTTTTAAAAA
*
27026094 AATAAAAAGGGAT-GTTTTGAAAA
1 AATAAAAA-GGATCGTTTTAAAAA
27026117 A
1 A
27026118 TCCCAGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.17, T:0.28
Consensus pattern (23 bp):
AATAAAAAGGATCGTTTTAAAAA
Found at i:27026984 original size:30 final size:30
Alignment explanation
Indices: 27026947--27027181 Score: 233
Period size: 30 Copynumber: 7.8 Consensus size: 30
27026937 TTAAATTGTC
*
27026947 CAAAAATTATATTTTGACCCCAAAAC-TTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
27026976 CTAAAAATTACATTTTAACCCCAAAACTTTT
1 C-AAAAATTACATTTTGACCCCAAAACTTTT
* *
27027007 CCAAAATTATATTTTGACCCCAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* * *
27027037 CCAAAAGTACATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
27027067 CCAAAATTACATTTTGACCCCAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* * * * ** *
27027097 CCAAAATCATATTTTAACCGTAAAA-TTTC
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* * * *
27027126 CAAAAATTGCATTTTTACTCCGAAAC-TTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
27027155 CAAAAAATTACCATTTTTACCCTCAAA
1 C-AAAAATTA-CATTTTGACCC-CAAA
27027182 CTTCCCTAAA
Statistics
Matches: 171, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
29 23 0.13
30 131 0.77
31 14 0.08
32 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.34
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCCAAAACTTTT
Found at i:27027184 original size:90 final size:87
Alignment explanation
Indices: 27026939--27027181 Score: 272
Period size: 90 Copynumber: 2.7 Consensus size: 87
27026929 GTAAGTCTTT
*
27026939 AAATTGTCCAAAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACT
1 AAATT-TCCAAAAATTACATTTTGA-CCCAAAACTTTC-AAAAATTACATTTTAACCCCAAAACT
* *
27027004 TTTCCAAAATTATATTTTGACCCCA
63 TTTCCAAAATCATATTTTAACCCCA
* * *
27027029 AAACTTTTCC-AAAAGTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAAC
1 AAA--TTTCCAAAAATTACATTTTGACCC-AAAAC-TTTCAAAAATTACATTTTAACCCCAAAAC
**
27027093 TTTTCCAAAATCATATTTTAACCGTA
62 TTTTCCAAAATCATATTTTAACCCCA
* * * *
27027119 AAATTTCCAAAAATTGCATTTTTACTCCGAAACTTTCAAAAAATTACCATTTTTACCCTCAAA
1 AAATTTCCAAAAATTACATTTTGAC-CCAAAACTTTC-AAAAATTA-CATTTTAACCC-CAAA
27027182 CTTCCCTAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 17
0.81 0.09 0.11
Matches are distributed among these distances:
88 9 0.07
89 27 0.21
90 81 0.62
91 11 0.08
92 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.35
Consensus pattern (87 bp):
AAATTTCCAAAAATTACATTTTGACCCAAAACTTTCAAAAATTACATTTTAACCCCAAAACTTTT
CCAAAATCATATTTTAACCCCA
Found at i:27030651 original size:18 final size:18
Alignment explanation
Indices: 27030628--27030666 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27030618 GTGATCTTTA
27030628 TTTTCTA-AATTTTCATGT
1 TTTTCTAGAATTTTC-TGT
27030646 TTTTCTAGAATTTTCTGT
1 TTTTCTAGAATTTTCTGT
27030664 TTT
1 TTT
27030667 GCTTCGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (18 bp):
TTTTCTAGAATTTTCTGT
Found at i:27031583 original size:23 final size:23
Alignment explanation
Indices: 27031544--27031620 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
27031534 ACCAGTTATT
*
27031544 ATTAT-TTTGTAATTTTCTTGCC
1 ATTATGTTTGTAACTTTCTTGCC
*
27031566 ATTATGTTTGTAACTTTCCTGCC
1 ATTATGTTTGTAACTTTCTTGCC
27031589 ATTATGTTTGTAACTCTT-TTGCC
1 ATTATGTTTGTAACT-TTCTTGCC
27031612 ATTATGTTT
1 ATTATGTTT
27031621 TGTTTTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 5 0.10
23 43 0.86
24 2 0.04
ACGTcount: A:0.18, C:0.16, G:0.12, T:0.55
Consensus pattern (23 bp):
ATTATGTTTGTAACTTTCTTGCC
Found at i:27035154 original size:23 final size:25
Alignment explanation
Indices: 27035127--27035182 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
27035117 ATATTATTCA
*
27035127 TTTATATA-TTATA-AAAAT-AAATT
1 TTTATATATTTA-AGAAAATCAAAAT
*
27035150 TTTATAAATTTAAGAAAATCAAAAT
1 TTTATATATTTAAGAAAATCAAAAT
27035175 TTTATATA
1 TTTATATA
27035183 ATTTTAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 8 0.30
25 11 0.41
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTATATATTTAAGAAAATCAAAAT
Found at i:27037978 original size:15 final size:14
Alignment explanation
Indices: 27037946--27037974 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27037936 TAATATTAAA
27037946 TAAATAATAAATTT
1 TAAATAATAAATTT
27037960 TAAATAATAAATTT
1 TAAATAATAAATTT
27037974 T
1 T
27037975 TAAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATAATAAATTT
Found at i:27038098 original size:16 final size:16
Alignment explanation
Indices: 27038065--27038112 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
27038055 TAGGCTACAT
*
27038065 CTGCCGC-CCTGTTGC
1 CTGCCGCACCTGCTGC
* *
27038080 CTGCCGCGCTTGCTGC
1 CTGCCGCACCTGCTGC
27038096 CTGCCGCACCTGCTGC
1 CTGCCGCACCTGCTGC
27038112 C
1 C
27038113 AACCGAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.02, C:0.48, G:0.27, T:0.23
Consensus pattern (16 bp):
CTGCCGCACCTGCTGC
Found at i:27038413 original size:17 final size:17
Alignment explanation
Indices: 27038391--27038424 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27038381 AAAAAAATTC
*
27038391 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
*
27038408 ATTTAATTATTATTTAA
1 ATTTAAATATTATTTAA
27038425 TTATTATAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:27041620 original size:26 final size:26
Alignment explanation
Indices: 27041565--27041640 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
27041555 GCTAAACCTC
**
27041565 ATTAAATAAATTCAAACATAAAAATT
1 ATTAAATAAATTCAAACATAAAAAGA
** *
27041591 ATTAAATAAATTCAAATTTAAATAGA
1 ATTAAATAAATTCAAACATAAAAAGA
* *
27041617 ATTAATTCCAAATTCAATCATAAA
1 ATTAAAT--AAATTCAAACATAAA
27041641 CTTAATTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (26 bp):
ATTAAATAAATTCAAACATAAAAAGA
Found at i:27044466 original size:25 final size:26
Alignment explanation
Indices: 27044417--27044468 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
27044407 AACCTTCTGT
* *
27044417 TTCCTTTTCTTCTTCAAAACTTTTGC
1 TTCCTTTCCTTCTTCAAAACATTTGC
27044443 TTCCTTTCCTTCTTCAAAA-ATTTGC
1 TTCCTTTCCTTCTTCAAAACATTTGC
27044468 T
1 T
27044469 GTTAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.17, C:0.27, G:0.04, T:0.52
Consensus pattern (26 bp):
TTCCTTTCCTTCTTCAAAACATTTGC
Found at i:27044564 original size:27 final size:26
Alignment explanation
Indices: 27044505--27044566 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
27044495 TAGTTTTGAC
*
27044505 AAAGGCACCACTAGTGCCGCCTACCT
1 AAAGGCACCACTAGTGACGCCTACCT
* * *
27044531 AGTAGGCACCATTGGTGACGCCTACCCT
1 A-AAGGCACCACTAGTGACGCCTA-CCT
27044559 AAAGGCAC
1 AAAGGCAC
27044567 TACTTGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.03
27 24 0.83
28 4 0.14
ACGTcount: A:0.27, C:0.34, G:0.23, T:0.16
Consensus pattern (26 bp):
AAAGGCACCACTAGTGACGCCTACCT
Found at i:27044615 original size:15 final size:15
Alignment explanation
Indices: 27044578--27044616 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
27044568 ACTTGTCAAA
27044578 TTTTAATTTTATTTT
1 TTTTAATTTTATTTT
* * *
27044593 ATTCAATTTTCTTTT
1 TTTTAATTTTATTTT
27044608 TTTTAATTT
1 TTTTAATTT
27044617 AAAAATATAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTAATTTTATTTT
Found at i:27045771 original size:15 final size:15
Alignment explanation
Indices: 27045719--27045771 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
27045709 TTATTTAAGT
*
27045719 TATTAATTTTTTTTG
1 TATTATTTTTTTTTG
* **
27045734 TATTATATTTTGGTG
1 TATTATTTTTTTTTG
*
27045749 TATAATTTTTTTTTG
1 TATTATTTTTTTTTG
27045764 TATTATTT
1 TATTATTT
27045772 AGGTAAAAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (15 bp):
TATTATTTTTTTTTG
Found at i:27045835 original size:27 final size:27
Alignment explanation
Indices: 27045797--27045876 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
27045787 AAAATACGGG
27045797 TTGGTGCCGCCTGACAGGAAGGCACCA
1 TTGGTGCCGCCTGACAGGAAGGCACCA
*
27045824 TTGGTGCCGCCTGATAGGAAGGCACCA
1 TTGGTGCCGCCTGACAGGAAGGCACCA
* * * *
27045851 CTAGTGTCGCCT-ATCAGGTAGGCACC
1 TTGGTGCCGCCTGA-CAGGAAGGCACC
27045877 GCCCTCTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (27 bp):
TTGGTGCCGCCTGACAGGAAGGCACCA
Found at i:27055745 original size:17 final size:16
Alignment explanation
Indices: 27055725--27055816 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
27055715 TTAGTTTAAA
*
27055725 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
27055742 TTAAATTTAAATTTAT
1 TTAAATTTAAATTTAT
*
27055758 CCTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
27055775 TT--ATTTAAATTTATT
1 TTAAATTTAAATTTA-T
*
27055790 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
27055806 TTAAATTTAAA
1 TTAAATTTAAA
27055817 AATGATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 17 0.25
17 36 0.54
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:27055749 original size:6 final size:6
Alignment explanation
Indices: 27055719--27055816 Score: 75
Period size: 6 Copynumber: 17.0 Consensus size: 6
27055709 GATTTTTTAG
* * *
27055719 TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT--A TCCTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* *
27055764 TTTAAA TTTATTTA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
27055811 TTTAAA
1 TTTAAA
27055817 AATGATATTA
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
4 4 0.06
5 17 0.24
6 44 0.61
7 2 0.03
8 5 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:27055807 original size:11 final size:11
Alignment explanation
Indices: 27055714--27055816 Score: 66
Period size: 11 Copynumber: 9.0 Consensus size: 11
27055704 ATTTTGATTT
*
27055714 TTTAGTTTAAA
1 TTTAATTTAAA
27055725 -TTAATTTTAAA
1 TTTAA-TTTAAA
*
27055736 TTTTATTTAAA
1 TTTAATTTAAA
**
27055747 TTTAAATTTATC
1 TTT-AATTTAAA
* *
27055759 CTAAATTTAAA
1 TTTAATTTAAA
27055770 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
27055784 TTTATTTTAAA
1 TTTAATTTAAA
27055795 TTTAAATTT-AA
1 TTT-AATTTAAA
*
27055806 TTAAATTTAAA
1 TTTAATTTAAA
27055817 AATGATATTA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
10 8 0.11
11 38 0.54
12 13 0.19
14 11 0.16
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:27057898 original size:29 final size:27
Alignment explanation
Indices: 27057775--27058021 Score: 131
Period size: 30 Copynumber: 8.4 Consensus size: 27
27057765 TAGGAAATTA
* * *
27057775 CATTTTGACCCCGAAACTTCCAAAATTCAC
1 CATTTT-ACCCCCAAATTTCTAAAA-T-AC
27057805 CATTTTACCCCCAAACTTTCTAAAATAC
1 CATTTTACCCCCAAA-TTTCTAAAATAC
* *
27057833 CATTTTTAACCCC-AATTTCACCAAAAATCAC
1 CA-TTTTACCCCCAAATTT---CTAAAAT-AC
27057864 CATTTTACCCCCAAAATTTCTAAAATAC
1 CATTTTACCCCC-AAATTTCTAAAATAC
* * * *
27057892 CATTTTTAACCCC-AGTTTCACCAAAAAATAA
1 CA-TTTTACCCCCAAATTT---C-TAAAATAC
*
27057923 CATTTTACCCCCGAACTTTCTAAAATAC
1 CATTTTACCCCC-AAATTTCTAAAATAC
* * *
27057951 CATTTTTAACCCC-GATTTCACCAAAAATTAC
1 CA-TTTTACCCCCAAATTT---CTAAAA-TAC
* *
27057982 CATTTTACCCCTAAACTTTCTAAAATTC
1 CATTTTACCCCCAAA-TTTCTAAAATAC
*
27058010 CATTTTAACCCC
1 CATTTTACCCCC
27058022 GATCTCACCA
Statistics
Matches: 169, Mismatches: 26, Indels: 46
0.70 0.11 0.19
Matches are distributed among these distances:
27 10 0.06
28 30 0.18
29 48 0.28
30 51 0.30
31 18 0.11
32 12 0.07
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.32
Consensus pattern (27 bp):
CATTTTACCCCCAAATTTCTAAAATAC
Found at i:27058023 original size:58 final size:59
Alignment explanation
Indices: 27057796--27058165 Score: 430
Period size: 59 Copynumber: 6.3 Consensus size: 59
27057786 CGAAACTTCC
*
27057796 AAAATTCACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCAATTTCACCA
1 AAAATT-ACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCA
* *
27057856 AAAATCACCATTTTACCCCCAAAATTTCTAAAATACCATTTTTAACCCC-AGTTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGA-TTTCACCA
* * *
27057915 AAAAATAACATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCA
* * *
27057974 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCA-TTTTAACCCCGATCTCACC-
1 AAAATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCA
** * ** * *
27058031 AAAATTACCATTTTACCCTTAAAC-CTCTTAAAACCCCA-TTTTAACCTCGATTTTACCA
1 AAAATTACCATTTTACCCCCAAACTTTC-TAAAATACCATTTTTAACCCCGATTTCACCA
* *** * * * * *
27058089 AAAATTACCATTTTACCCCCGAAGGCTCAAAAATTCTATTTTTAACCTCGATTTTACC-
1 AAAATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCA
*
27058147 AAAA-TAACATTTTACCCCC
1 AAAATTACCATTTTACCCCC
27058166 GGGTATCCAA
Statistics
Matches: 275, Mismatches: 29, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
56 2 0.01
57 61 0.22
58 49 0.18
59 157 0.57
60 6 0.02
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTTCTAAAATACCATTTTTAACCCCGATTTCACCA
Found at i:27058041 original size:29 final size:29
Alignment explanation
Indices: 27057769--27058045 Score: 145
Period size: 29 Copynumber: 9.5 Consensus size: 29
27057759 AAATTTTAGG
*
27057769 AAATTA-CATTTTGACCCCGAAACT-TCCA
1 AAATTACCATTTTAACCCC-AAACTCTCCA
* * *
27057797 AAATTCACCATTTTACCCCCAAACTTTCTA
1 AAATT-ACCATTTTAACCCCAAACTCTCCA
** *
27057827 AAA-TACCATTTTTAACCCCAATTTCACCAA
1 AAATTACCA-TTTTAACCCCAAACTCTCC-A
* * * * *
27057857 AAATCACCATTTTACCCCCAAAATTTCTA
1 AAATTACCATTTTAACCCCAAACTCTCCA
*** *
27057886 AAA-TACCATTTTTAACCCCAGTTTCACCAA
1 AAATTACCA-TTTTAACCCCAAACTCTCC-A
* * * * * *
27057916 AAAATAACATTTTACCCCCGAACTTTCTA
1 AAATTACCATTTTAACCCCAAACTCTCCA
* ** *
27057945 AAA-TACCATTTTTAACCCCGATTTCACCAA
1 AAATTACCA-TTTTAACCCCAAACTCTCC-A
* *
27057975 AAATTACCATTTT-ACCCCTAAACTTTCTA
1 AAATTACCATTTTAACCCC-AAACTCTCCA
* * *
27058004 AAATT-CCATTTTAACCCCGATCTCACCA
1 AAATTACCATTTTAACCCCAAACTCTCCA
27058032 AAATTACCATTTTA
1 AAATTACCATTTTA
27058046 CCCTTAAACC
Statistics
Matches: 183, Mismatches: 51, Indels: 29
0.70 0.19 0.11
Matches are distributed among these distances:
28 34 0.19
29 77 0.42
30 59 0.32
31 13 0.07
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATTACCATTTTAACCCCAAACTCTCCA
Found at i:27058101 original size:30 final size:29
Alignment explanation
Indices: 27058066--27058150 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
27058056 TCTTAAAACC
27058066 CCATTTTAACCTCGATTTTACCAAAAATT
1 CCATTTTAACCTCGATTTTACCAAAAATT
* * ***
27058095 ACCATTTTACCCCCGA--AGGCTCAAAAATT
1 -CCATTTTAACCTCGATTTTAC-CAAAAATT
*
27058124 CTATTTTTAACCTCGATTTTACCAAAA
1 CCA-TTTTAACCTCGATTTTACCAAAA
27058151 TAACATTTTA
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
28 3 0.08
29 18 0.45
30 18 0.45
31 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (29 bp):
CCATTTTAACCTCGATTTTACCAAAAATT
Found at i:27070372 original size:76 final size:76
Alignment explanation
Indices: 27070239--27070991 Score: 1204
Period size: 76 Copynumber: 10.0 Consensus size: 76
27070229 CAGACCGCAC
* * * *
27070239 CAAGATTATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
27070304 TGAAGTAAGAG
66 TGAAGTAAGAG
27070315 CAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
1 CAA-GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
27070379 TTGAAGTAAGAG
65 TTGAAGTAAGAG
* * *
27070391 CAAGATCTTTTCCTATCCGCTGGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
27070456 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
27070467 TAAGATCTTTTCCTATCCGCTGGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
27070532 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
27070543 CAACG-TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAA
1 CAA-GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
27070607 TTGAAGTAAGAG
65 TTGAAGTAAGAG
27070619 CAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
1 CAA-GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
27070683 TTGAAGTAAGAG
65 TTGAAGTAAGAG
*
27070695 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
27070760 TGAAGTAAGAG
66 TGAAGTAAGAG
*
27070771 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
27070836 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
27070847 CAAGATCTTTTCCTATCCGCTTGAAATTGAAGAAGAGTTAGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
27070912 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
27070923 C-A-A-CGA----C-ATCCGCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAA
1 CAAGATC-ATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
27070980 TTGAAGTAAGAG
65 TTGAAGTAAGAG
27070992 TAAAATGAGG
Statistics
Matches: 645, Mismatches: 27, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
69 57 0.09
70 1 0.00
73 1 0.00
74 1 0.00
75 3 0.00
76 580 0.90
77 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:27070972 original size:69 final size:69
Alignment explanation
Indices: 27070861--27070991 Score: 219
Period size: 69 Copynumber: 1.9 Consensus size: 69
27070851 ATCTTTTCCT
*
27070861 ATCCGCTTGAAATTGAAGAAGAGTTAGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGAAGAGTTAGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
27070926 CGAC
66 CGAC
* *
27070930 ATCCGCTTGAAATTGAAGTAA-AGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAG
1 ATCCGCTTGAAATTGAAG-AAGAGTTAGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
27070992 TAAAATGAGG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 56 0.97
70 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (69 bp):
ATCCGCTTGAAATTGAAGAAGAGTTAGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGAC
Found at i:27071324 original size:17 final size:16
Alignment explanation
Indices: 27071304--27071395 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
27071294 TTAGTTTAAA
*
27071304 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
27071321 TTAAATTTAAATTTAT
1 TTAAATTTAAATTTAT
*
27071337 CCTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
27071354 TT--ATTTAAATTTATT
1 TTAAATTTAAATTTA-T
*
27071369 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
27071385 TTAAATTTAAA
1 TTAAATTTAAA
27071396 AATGATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 17 0.25
17 36 0.54
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:27071328 original size:6 final size:6
Alignment explanation
Indices: 27071298--27071395 Score: 75
Period size: 6 Copynumber: 17.0 Consensus size: 6
27071288 GATTTTTTAG
* * *
27071298 TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT--A TCCTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* *
27071343 TTTAAA TTTATTTA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
27071390 TTTAAA
1 TTTAAA
27071396 AATGATATTA
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
4 4 0.06
5 17 0.24
6 44 0.61
7 2 0.03
8 5 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:27071386 original size:11 final size:11
Alignment explanation
Indices: 27071293--27071395 Score: 66
Period size: 11 Copynumber: 9.0 Consensus size: 11
27071283 ATTTTGATTT
*
27071293 TTTAGTTTAAA
1 TTTAATTTAAA
27071304 -TTAATTTTAAA
1 TTTAA-TTTAAA
*
27071315 TTTTATTTAAA
1 TTTAATTTAAA
**
27071326 TTTAAATTTATC
1 TTT-AATTTAAA
* *
27071338 CTAAATTTAAA
1 TTTAATTTAAA
27071349 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
27071363 TTTATTTTAAA
1 TTTAATTTAAA
27071374 TTTAAATTT-AA
1 TTT-AATTTAAA
*
27071385 TTAAATTTAAA
1 TTTAATTTAAA
27071396 AATGATATTA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
10 8 0.11
11 38 0.54
12 13 0.19
14 11 0.16
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:27071480 original size:27 final size:27
Alignment explanation
Indices: 27071445--27071505 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
27071435 ATTTACAAGG
*
27071445 GCCCAAAAGGCCCAATTACATTCAAAA
1 GCCCAAAAGGCCCAATTACATTAAAAA
*
27071472 GCCCGAAAGGCCCAATTACATTAAAAA
1 GCCCAAAAGGCCCAATTACATTAAAAA
27071499 GCCCAAA
1 GCCCAAA
27071506 CGACCCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.30, G:0.13, T:0.13
Consensus pattern (27 bp):
GCCCAAAAGGCCCAATTACATTAAAAA
Found at i:27073440 original size:30 final size:29
Alignment explanation
Indices: 27073364--27073575 Score: 98
Period size: 29 Copynumber: 7.2 Consensus size: 29
27073354 CCAGAAATTA
* ** *
27073364 CATTTTGACCCCAAAATTTTAGGAAATTA-
1 CATTTTGACCCCAAAACTTT-CCAAAATAC
27073393 CATTTTGACCCCAAAAC-TTCCAAAATTCAC
1 CATTTTGACCCCAAAACTTTCCAAAA-T-AC
* *
27073423 CATTTT-ACCCCCCAAACTTTCTAAAATAC
1 CATTTTGA-CCCCAAAACTTTCCAAAATAC
* * * *
27073452 CATTTTTAACCTC--GATTTTACCAAAAATCAC
1 CA-TTTTGACCCCAAAACTTT-CC-AAAAT-AC
* *
27073483 CATTTT-ACCCCTAAACTTTCTAAAATAC
1 CATTTTGACCCCAAAACTTTCCAAAATAC
* * * *
27073511 CATTTTTAACCC-TAATTTTACCAAAAATTAC
1 CATTTTGACCCCAAAACTTT-CC-AAAA-TAC
** *
27073542 CATTTT-ACCCCCGAACTTTCTAAAATAC
1 CATTTTGACCCCAAAACTTTCCAAAATAC
27073570 CATTTT
1 CATTTT
27073576 TAACCTCGAT
Statistics
Matches: 144, Mismatches: 22, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
27 3 0.02
28 29 0.20
29 41 0.28
30 41 0.28
31 30 0.21
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
CATTTTGACCCCAAAACTTTCCAAAATAC
Found at i:27073453 original size:29 final size:28
Alignment explanation
Indices: 27073393--27073634 Score: 125
Period size: 30 Copynumber: 8.2 Consensus size: 28
27073383 TAGGAAATTA
* *
27073393 CATTTTGACCCCAAAAC-TTCCAAAATTCAC
1 CATTTT-ACCCCCAAACTTTCTAAAA-T-AC
27073423 CATTTTACCCCCCAAACTTTCTAAAATAC
1 CATTTTA-CCCCCAAACTTTCTAAAATAC
* * * * *
27073452 CATTTTTAACCTC-GATTTTACCAAAAATCAC
1 CA-TTTTACCCCCAAACTTT--CTAAAAT-AC
*
27073483 CATTTTACCCCTAAACTTTCTAAAATAC
1 CATTTTACCCCCAAACTTTCTAAAATAC
* * * *
27073511 CATTTTTA-ACCCTAATTTTACCAAAAATTAC
1 CA-TTTTACCCCCAAACTTT--CTAAAA-TAC
*
27073542 CATTTTACCCCCGAACTTTCTAAAATAC
1 CATTTTACCCCCAAACTTTCTAAAATAC
* * * *
27073570 CATTTTTAACCTC-GA-TTTCACCAAAAATTAC
1 CA-TTTTACCCCCAAACTTT---CTAAAA-TAC
* *
27073601 CATTTTACCCCCGAACTTTCTAAAATTC
1 CATTTTACCCCCAAACTTTCTAAAATAC
27073629 CATTTT
1 CATTTT
27073635 TAACCCCGAT
Statistics
Matches: 162, Mismatches: 31, Indels: 40
0.70 0.13 0.17
Matches are distributed among these distances:
27 3 0.02
28 29 0.18
29 37 0.23
30 56 0.35
31 34 0.21
32 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (28 bp):
CATTTTACCCCCAAACTTTCTAAAATAC
Found at i:27073457 original size:59 final size:58
Alignment explanation
Indices: 27073393--27073780 Score: 346
Period size: 59 Copynumber: 6.6 Consensus size: 58
27073383 TAGGAAATTA
* *
27073393 CATTTTGACCCCAAAACTT-CC-AAAATTCACCATTTTACCCCCCAAACTTTCTAAAATAC
1 CATTTTAACCCC-AAATTTACCAAAAATT-ACCATTTTA-CCCCCAAACTTTCTAAAATAC
* * * * *
27073452 CATTTTTAACCTCGATTTTACCAAAAATCACCATTTTACCCCTAAACTTTCTAAAATAC
1 CA-TTTTAACCCCAAATTTACCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATAC
* * *
27073511 CATTTTTAACCCTAATTTTACCAAAAATTACCATTTTACCCCCGAACTTTCTAAAATAC
1 CA-TTTTAACCCCAAATTTACCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATAC
* * * *
27073570 CATTTTTAACCTC-GATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCTAAAATTC
1 CA-TTTTAACCCCAAATTT-ACCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATAC
* * * **
27073629 CATTTTTAACCCC-GATCTCACC-AAGATTACCATTTTACCCCTGAACTTTCT-AAA-AC
1 CA-TTTTAACCCCAAAT-TTACCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATAC
* * * * *
27073685 CTTATTTTAACCCC-AATTTCACCAAAAATTATCATTTTACCCCCGAAGC-CTCAAAAATTC
1 C--ATTTTAACCCCAAATTT-ACCAAAAATTACCATTTTACCCCC-AAACTTTCTAAAATAC
* *
27073745 CATTTTTAACCCCAATTTTACC-AAAATTACTATTTT
1 CA-TTTTAACCCCAAATTTACCAAAAATTACCATTTT
27073781 GCCCACGGGT
Statistics
Matches: 279, Mismatches: 36, Indels: 29
0.81 0.10 0.08
Matches are distributed among these distances:
56 3 0.01
57 18 0.06
58 63 0.23
59 164 0.59
60 26 0.09
61 5 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
CATTTTAACCCCAAATTTACCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATAC
Found at i:27073573 original size:118 final size:117
Alignment explanation
Indices: 27073412--27073780 Score: 492
Period size: 118 Copynumber: 3.1 Consensus size: 117
27073402 CCCAAAACTT
* *
27073412 CCAAAATTCACCATTTTACCCCCCAAACTTTCTAAAATACCATTTTTAACCTCGATTTTACCAAA
1 CCAAAATT-ACCATTTTA-CCCCCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAAA
* * * *
27073477 AATCACCATTTTACCCCTAAACTTTCTAAAATACCATTTTTAACCCTAATTTTA
64 AATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCAATTTTA
27073531 CCAAAAATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAAAA
1 CC-AAAATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAAAA
* * * *
27073596 ATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATCTCA
65 ATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCAATTTTA
* * * * *
27073649 CCAAGATTACCATTTTACCCCTGAACTTTCT-AAA-ACCTTATTTTAACCCCAATTTCACCAAAA
1 CCAAAATTACCATTTTACCCCCGAACTTTCTAAAATACCAT-TTTTAACCTCGATTTCACCAAAA
* * * *
27073712 ATTATCATTTTACCCCCGAAGC-CTCAAAAATTCCATTTTTAACCCCAATTTTA
65 ATTACCATTTTACCCCC-AAACTTTCTAAAATTCCATTTTTAACCCCAATTTTA
*
27073765 CCAAAATTACTATTTT
1 CCAAAATTACCATTTT
27073781 GCCCACGGGT
Statistics
Matches: 222, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
115 4 0.02
116 80 0.36
117 29 0.13
118 92 0.41
119 11 0.05
120 6 0.03
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (117 bp):
CCAAAATTACCATTTTACCCCCGAACTTTCTAAAATACCATTTTTAACCTCGATTTCACCAAAAA
TTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCAATTTTA
Found at i:27073635 original size:29 final size:28
Alignment explanation
Indices: 27073421--27073683 Score: 156
Period size: 29 Copynumber: 9.0 Consensus size: 28
27073411 TCCAAAATTC
*
27073421 ACCATTTTACCCCCCAAACTTTCTAAAAT
1 ACCATTTTA-CCCCCGAACTTTCTAAAAT
* * * *
27073450 ACCATTTTTAACCTCG-ATTTTACCAAAAAT
1 ACCA-TTTTACCCCCGAACTTT--CTAAAAT
**
27073480 CACCATTTTACCCCTAAACTTTCTAAAAT
1 -ACCATTTTACCCCCGAACTTTCTAAAAT
* * * *
27073509 ACCATTTTTA-ACCCTAATTTTACCAAAAATT
1 ACCA-TTTTACCCCCGAACTTT--CTAAAA-T
27073540 ACCATTTTACCCCCGAACTTTCTAAAAT
1 ACCATTTTACCCCCGAACTTTCTAAAAT
* * *
27073568 ACCATTTTTAACCTCG-A-TTTCACCAAAAATT
1 ACCA-TTTTACCCCCGAACTTT---CTAAAA-T
27073599 ACCATTTTACCCCCGAACTTTCTAAAAT
1 ACCATTTTACCCCCGAACTTTCTAAAAT
* * * ** * *
27073627 TCCATTTTTAACCCCGATCTCACCAAGATT
1 ACCA-TTTTACCCCCGAACTTTCTAA-AAT
*
27073657 ACCATTTTACCCCTGAACTTTCTAAAA
1 ACCATTTTACCCCCGAACTTTCTAAAA
27073684 CCTTATTTTA
Statistics
Matches: 174, Mismatches: 41, Indels: 39
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.02
28 26 0.15
29 68 0.39
30 47 0.27
31 27 0.16
32 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (28 bp):
ACCATTTTACCCCCGAACTTTCTAAAAT
Found at i:27073770 original size:29 final size:29
Alignment explanation
Indices: 27073445--27073772 Score: 117
Period size: 29 Copynumber: 11.2 Consensus size: 29
27073435 CAAACTTTCT
* * *
27073445 AAAATACCATTTTTAACCTCGATTTTACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
* * *
27073474 AAAAATCACCA-TTTT-ACCCCTAAACTTT-CT
1 -AAAAT-TCCATTTTTAACCCC--AATTTTACC
* *
27073504 AAAATACCATTTTTAACCCTAATTTTACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
* * *
27073533 AAAAATTACCA-TTTTACCCCCGAACTTT-CT
1 -AAAATT-CCATTTTTAACCCC-AATTTTACC
* * * *
27073563 AAAATACCATTTTTAACCTCGATTTCACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
* * *
27073592 AAAAATTACCA-TTTTACCCCCGAACTTT-CT
1 -AAAATT-CCATTTTTAACCCC-AATTTTACC
* * *
27073622 AAAATTCCATTTTTAACCCCGATCTCACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
* * *
27073651 AAGATTACCA-TTTT-ACCCCTGAACTTT-CT
1 AAAATT-CCATTTTTAACCCC--AATTTTACC
* *
27073680 AAAA--CCTTATTTTAACCCCAATTTCACC
1 AAAATTCCAT-TTTTAACCCCAATTTTACC
* * *** *
27073708 AAAAATTATCA-TTTTACCCCCGAAGCCT-CA
1 -AAAATT-CCATTTTTAACCCC-AATTTTACC
27073738 AAAATTCCATTTTTAACCCCAATTTTACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
27073767 AAAATT
1 AAAATT
27073773 ACTATTTTGC
Statistics
Matches: 211, Mismatches: 57, Indels: 61
0.64 0.17 0.19
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 35 0.17
29 88 0.42
30 57 0.27
31 24 0.11
32 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCAATTTTACC
Found at i:27076009 original size:21 final size:20
Alignment explanation
Indices: 27075971--27076018 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
27075961 CTAGAACTCG
*
27075971 TTTTAAAATGCTTCTAAATGA-
1 TTTT-AAATGCTTATAAAT-AC
27075992 TTTTAAATGACTTATAAATAC
1 TTTTAAATG-CTTATAAATAC
27076013 TTTTAA
1 TTTTAA
27076019 TTAAGGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (20 bp):
TTTTAAATGCTTATAAATAC
Found at i:27077845 original size:25 final size:24
Alignment explanation
Indices: 27077796--27077845 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
27077786 TTCCCTTTAT
*
27077796 ATATATTGTTAATTATGTTGATGGG
1 ATATATTGTAAATTA-GTTGATGGG
27077821 ATATATCTGTAAATTA-TTGAGTGGG
1 ATATAT-TGTAAATTAGTTGA-TGGG
27077846 TAATTTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (24 bp):
ATATATTGTAAATTAGTTGATGGG
Found at i:27079296 original size:24 final size:25
Alignment explanation
Indices: 27079246--27079298 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
27079236 AATCTACATT
* *
27079246 AAGCAGAGTTTAAGTGAGAAACTAA
1 AAGCAGAGTTTAACTGAGAAACAAA
27079271 AAGCAGAGTTTAACT-AGAAGA-AAA
1 AAGCAGAGTTTAACTGAGAA-ACAAA
27079295 AAGC
1 AAGC
27079299 CGATAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (25 bp):
AAGCAGAGTTTAACTGAGAAACAAA
Found at i:27084192 original size:399 final size:399
Alignment explanation
Indices: 27083454--27084248 Score: 1520
Period size: 399 Copynumber: 2.0 Consensus size: 399
27083444 AAATTGATAA
27083454 AAGGTGTAAAGTTGTGGGAATTTCTTGAATTTTTTTTATAATTAAGACCAAACTGATAAAATTTG
1 AAGGTGTAAAGTTGTGGGAATTTCTTGAATTTTTTTTATAATTAAGACCAAACTGATAAAATTTG
* * *
27083519 TAAACATTAGGAGGCTAAATTTATTATTATGCCAATAAAAAAGTCATGTCAATGTTCCGTTCATA
66 TAAACATTAGGAGGCTAAATTTATTATTATGCCAATAAAAAAGTCAAGTCAACGCTCCGTTCATA
27083584 ATTTAACGAATGAGTGACCAAAATGTCAAATGTCAATAACATAAGTGACTAAAACAATTCTTTTG
131 ATTTAACGAATGAGTGACCAAAATGTCAAATGTCAATAACATAAGTGACTAAAACAATTCTTTTG
27083649 AACTTGGATGATCAAATAATCACTGCATAAATATAACACATAATGCATACAATACATAAAACATT
196 AACTTGGATGATCAAATAATCACTGCATAAATATAACACATAATGCATACAATACATAAAACATT
*
27083714 ATAAGCTTATGCACAGATGTCACCATCTGTAGAAAAATTTCAAGTAAAAGAGAAAAATAAATTGA
261 ATAAGCTTATGCACAGATGTCACCATCTGTAGAAAAATTTCAAATAAAAGAGAAAAATAAATTGA
27083779 CAATAATCACAACATTGGAAAAAATCAAAAGCAATCTAGAGATG-ATTCACCTTAATCAATTTAT
326 CAATAATCACAACATTGGAAAAAATCAAAAGCAATCTAGAGATGCA-TCACCTTAATCAATTTAT
27083843 TAATATTCTG
390 TAATATTCTG
27083853 AAGGTGTAAAGTTGTGGGAATTTCTTGAATTTTTTTTATAATTAAGACCAAACTGATAAAATTTG
1 AAGGTGTAAAGTTGTGGGAATTTCTTGAATTTTTTTTATAATTAAGACCAAACTGATAAAATTTG
*
27083918 TAAACATTAGGAGGCTAAATTTATTATTATGCCAATAAAAAAGTCAAGTCAGCGCTCCGTTCATA
66 TAAACATTAGGAGGCTAAATTTATTATTATGCCAATAAAAAAGTCAAGTCAACGCTCCGTTCATA
*
27083983 ATTTAACGAATGAGTGACCCAAATGTCAAATGTCAATAACATAAGTGACTAAAACAATTCTTTTG
131 ATTTAACGAATGAGTGACCAAAATGTCAAATGTCAATAACATAAGTGACTAAAACAATTCTTTTG
27084048 AACTTGGATGATCAAATAATCACTGCATAAATATAACACATAATGCATACAATACATAAAACATT
196 AACTTGGATGATCAAATAATCACTGCATAAATATAACACATAATGCATACAATACATAAAACATT
27084113 ATAAGCTTATGCACAGATGTCACCATCTGTAGAAAAATTTCAAATAAAAGAGAAAAATAAATTGA
261 ATAAGCTTATGCACAGATGTCACCATCTGTAGAAAAATTTCAAATAAAAGAGAAAAATAAATTGA
27084178 CAATAATCACAACATTGGAAAAAATCAAAAGCAATCTAGAGATGCATCACCTTAATCAATTTATT
326 CAATAATCACAACATTGGAAAAAATCAAAAGCAATCTAGAGATGCATCACCTTAATCAATTTATT
27084243 AATATT
391 AATATT
27084249 TACATCTTAA
Statistics
Matches: 389, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
399 388 1.00
400 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (399 bp):
AAGGTGTAAAGTTGTGGGAATTTCTTGAATTTTTTTTATAATTAAGACCAAACTGATAAAATTTG
TAAACATTAGGAGGCTAAATTTATTATTATGCCAATAAAAAAGTCAAGTCAACGCTCCGTTCATA
ATTTAACGAATGAGTGACCAAAATGTCAAATGTCAATAACATAAGTGACTAAAACAATTCTTTTG
AACTTGGATGATCAAATAATCACTGCATAAATATAACACATAATGCATACAATACATAAAACATT
ATAAGCTTATGCACAGATGTCACCATCTGTAGAAAAATTTCAAATAAAAGAGAAAAATAAATTGA
CAATAATCACAACATTGGAAAAAATCAAAAGCAATCTAGAGATGCATCACCTTAATCAATTTATT
AATATTCTG
Found at i:27084998 original size:14 final size:14
Alignment explanation
Indices: 27084981--27085014 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27084971 TGAAAACATG
*
27084981 ATTTTGGGTTGAAA
1 ATTTTGGATTGAAA
*
27084995 ATTTTGGATTTAAA
1 ATTTTGGATTGAAA
27085009 ATTTTG
1 ATTTTG
27085015 TAAAATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
ATTTTGGATTGAAA
Found at i:27087837 original size:18 final size:18
Alignment explanation
Indices: 27087814--27087848 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27087804 AAGAGAAGAG
27087814 GGAAGCATATGTTCATTT
1 GGAAGCATATGTTCATTT
27087832 GGAAGCATATGTTCATT
1 GGAAGCATATGTTCATT
27087849 GATCCACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
GGAAGCATATGTTCATTT
Found at i:27088000 original size:14 final size:14
Alignment explanation
Indices: 27087983--27088016 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27087973 TGAAAACATG
*
27087983 ATTTTGGGTTGAAA
1 ATTTTGGATTGAAA
*
27087997 ATTTTGGATTTAAA
1 ATTTTGGATTGAAA
27088011 ATTTTG
1 ATTTTG
27088017 TAAAATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
ATTTTGGATTGAAA
Found at i:27088474 original size:21 final size:20
Alignment explanation
Indices: 27088450--27088494 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
27088440 TATTAAATTA
* *
27088450 AAAAGAGAAAAAAAATAAGAT
1 AAAAGACAAAAAAAA-AAGAG
27088471 AAAAGACAAAAAAAAAAGAG
1 AAAAGACAAAAAAAAAAGAG
27088491 AAAA
1 AAAA
27088495 TCGGGCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAGACAAAAAAAAAAGAG
Found at i:27106614 original size:17 final size:16
Alignment explanation
Indices: 27106588--27106631 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
27106578 TTATATAAGC
27106588 TTAAATAAATAATAATAT
1 TTAAA-AAATAA-AATAT
27106606 TTAAAAAATAAAATAT
1 TTAAAAAATAAAATAT
27106622 TATAAAAAAT
1 T-TAAAAAAT
27106632 TTGAATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.24
17 14 0.56
18 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAAAATAAAATAT
Found at i:27108636 original size:18 final size:18
Alignment explanation
Indices: 27108613--27108652 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
27108603 CACGAAACTC
27108613 TTTAACTTTATCAAAGGT
1 TTTAACTTTATCAAAGGT
27108631 TTTAACTTTATCAAAGGT
1 TTTAACTTTATCAAAGGT
27108649 TTTA
1 TTTA
27108653 CTCTTACAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (18 bp):
TTTAACTTTATCAAAGGT
Found at i:27118401 original size:2 final size:2
Alignment explanation
Indices: 27118396--27118424 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27118386 TTCCTTTTTT
27118396 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27118425 ATATGTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27121288 original size:23 final size:23
Alignment explanation
Indices: 27121261--27121308 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
27121251 TTGCATAATT
27121261 GTTCGTTTTTGTTTAACAGGCTC
1 GTTCGTTTTTGTTTAACAGGCTC
27121284 GTTCGTTTTTGTTTAACAGGCTC
1 GTTCGTTTTTGTTTAACAGGCTC
27121307 GT
1 GT
27121309 CCTTTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.48
Consensus pattern (23 bp):
GTTCGTTTTTGTTTAACAGGCTC
Found at i:27121316 original size:20 final size:22
Alignment explanation
Indices: 27121268--27121319 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
27121258 ATTGTTCGTT
*
27121268 TTTGTTTAACAGGCTCGTTCGTT
1 TTTGTTTAACAGGCTCGTTCG-C
27121291 TTTGTTTAACAGGCTCG-TC-C
1 TTTGTTTAACAGGCTCGTTCGC
27121311 TTTGTTTAA
1 TTTGTTTAA
27121320 AGATAGAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.32
22 2 0.07
23 17 0.61
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.48
Consensus pattern (22 bp):
TTTGTTTAACAGGCTCGTTCGC
Found at i:27123022 original size:30 final size:30
Alignment explanation
Indices: 27122988--27123058 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
27122978 AATTCTCTCA
* * *
27122988 TTCCTTATCTTGAACTTCGATGCTATTCAT
1 TTCCTTACCATGAACTTCGACGCTATTCAT
** *
27123018 TTCCTCGCCATGAACTTCGACGCTATTCGT
1 TTCCTTACCATGAACTTCGACGCTATTCAT
*
27123048 TTCCTTGCCAT
1 TTCCTTACCAT
27123059 TTGTTTCCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.41
Consensus pattern (30 bp):
TTCCTTACCATGAACTTCGACGCTATTCAT
Found at i:27134065 original size:57 final size:57
Alignment explanation
Indices: 27133977--27134093 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
27133967 GACATTTATT
*
27133977 AAAGAACCAAAAGATTCTTTAATTTAAAGAATTCTCATTTGTTGGTTGTTCTCAATA
1 AAAGAACCAAAAGATTCTTTAATTTAAAGAATTCCCATTTGTTGGTTGTTCTCAATA
27134034 AAAGAACCAAAAGATTCTTTAATTTAAAGAATTCCCATTTGTTGGTTGTTCTCAATA
1 AAAGAACCAAAAGATTCTTTAATTTAAAGAATTCCCATTTGTTGGTTGTTCTCAATA
27134091 AAA
1 AAA
27134094 TTGGTTGTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (57 bp):
AAAGAACCAAAAGATTCTTTAATTTAAAGAATTCCCATTTGTTGGTTGTTCTCAATA
Found at i:27141525 original size:2 final size:2
Alignment explanation
Indices: 27141520--27141553 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27141510 AGAGTAAATT
27141520 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
27141554 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27149011 original size:16 final size:16
Alignment explanation
Indices: 27148981--27149011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27148971 TTCTATCAAG
*
27148981 TACTAAAATAGAAAAC
1 TACTAAAATAAAAAAC
27148997 TACTAAAATAAAAAA
1 TACTAAAATAAAAAA
27149012 GAGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.19
Consensus pattern (16 bp):
TACTAAAATAAAAAAC
Found at i:27151231 original size:9 final size:9
Alignment explanation
Indices: 27151197--27151231 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
27151187 GGCCTAACAA
27151197 AAATAAAAC
1 AAATAAAAC
27151206 AAA-ATAAAC
1 AAATA-AAAC
27151215 AAATAAAAC
1 AAATAAAAC
27151224 AAATAAAA
1 AAATAAAA
27151232 TTAAAAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.04
9 22 0.92
10 1 0.04
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (9 bp):
AAATAAAAC
Found at i:27153649 original size:9 final size:8
Alignment explanation
Indices: 27153624--27153666 Score: 54
Period size: 7 Copynumber: 5.4 Consensus size: 8
27153614 AAATCGAAAA
27153624 AATTTTCG
1 AATTTTCG
27153632 AA-TTTCG
1 AATTTTCG
27153639 AATTATTCG
1 AATT-TTCG
27153648 AA-TTTCG
1 AATTTTCG
27153655 AATTATTCG
1 AATT-TTCG
27153664 AAT
1 AAT
27153667 CGAGTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 13 0.42
8 5 0.16
9 13 0.42
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (8 bp):
AATTTTCG
Found at i:27153649 original size:16 final size:16
Alignment explanation
Indices: 27153624--27153678 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
27153614 AAATCGAAAA
27153624 AATT-TTCGAATTTCG
1 AATTATTCGAATTTCG
27153639 AATTATTCGAATTTCG
1 AATTATTCGAATTTCG
27153655 AATTATTCGAA--TCG
1 AATTATTCGAATTTCG
*
27153669 AGTTATTCGA
1 AATTATTCGA
27153679 GTTATTCGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 12 0.32
15 4 0.11
16 22 0.58
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (16 bp):
AATTATTCGAATTTCG
Found at i:27153678 original size:9 final size:9
Alignment explanation
Indices: 27153666--27153691 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27153656 ATTATTCGAA
27153666 TCGAGTTAT
1 TCGAGTTAT
27153675 TCGAGTTAT
1 TCGAGTTAT
27153684 TCGAGTTA
1 TCGAGTTA
27153692 AACGAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:27153837 original size:13 final size:13
Alignment explanation
Indices: 27153819--27153845 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27153809 AAATTTATAT
27153819 TACCCAAACCCAA
1 TACCCAAACCCAA
27153832 TACCCAAACCCAA
1 TACCCAAACCCAA
27153845 T
1 T
27153846 TTACTATACC
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:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (13 bp):
TACCCAAACCCAA
Found at i:27154014 original size:42 final size:42
Alignment explanation
Indices: 27153945--27154041 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
27153935 CAAATATTTT
* * * *
27153945 TAAATCCACATATAATTTTATTCTTCAAAAACACTCATAAAC
1 TAAACCCAAATATAATTTCATTATTCAAAAACACTCATAAAC
*
27153987 TAAACCCAAATATAATTTCATTATTCAAAAACACTCATAAAT
1 TAAACCCAAATATAATTTCATTATTCAAAAACACTCATAAAC
27154029 TAAACCCAAATAT
1 TAAACCCAAATAT
27154042 TTTTAAACCC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (42 bp):
TAAACCCAAATATAATTTCATTATTCAAAAACACTCATAAAC
Found at i:27154600 original size:10 final size:10
Alignment explanation
Indices: 27154580--27154614 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
27154570 AATATTTTTT
27154580 TTAAA-AAAA
1 TTAAATAAAA
*
27154589 TTACATAAAA
1 TTAAATAAAA
27154599 TTAAATAAAA
1 TTAAATAAAA
27154609 TTAAAT
1 TTAAAT
27154615 TAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
TTAAATAAAA
Found at i:27155946 original size:20 final size:19
Alignment explanation
Indices: 27155921--27155963 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
27155911 AAAGTTTAGA
27155921 AATTATAAAAAATTATTAAT
1 AATTATAAAAAATTA-TAAT
**
27155941 AATTATTTAAAATTATAAT
1 AATTATAAAAAATTATAAT
27155960 AATT
1 AATT
27155964 GAAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATAAAAAATTATAAT
Found at i:27156967 original size:31 final size:29
Alignment explanation
Indices: 27156930--27157005 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
27156920 AACGGCTCAA
*
27156930 TGACTAAAATGTTACAACACGATAACATAAG
1 TGACTAAAATGTAACAACAC-A-AACATAAG
* ***
27156961 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACAACACAAACATAAG
*
27156990 TGACTAAAATATAACA
1 TGACTAAAATGTAACA
27157006 TGAGGCAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 22 0.58
30 1 0.03
31 15 0.39
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (29 bp):
TGACTAAAATGTAACAACACAAACATAAG
Found at i:27157350 original size:9 final size:8
Alignment explanation
Indices: 27157335--27157359 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27157325 AAATTTAGAA
27157335 ATTTTTTT
1 ATTTTTTT
27157343 ATTTTTTT
1 ATTTTTTT
27157351 ATTTTTTT
1 ATTTTTTT
27157359 A
1 A
27157360 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:27160715 original size:17 final size:16
Alignment explanation
Indices: 27160693--27160726 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
27160683 ATTAATTTAA
27160693 AAAAATTAAAATTATTT
1 AAAAATTAAAATT-TTT
*
27160710 AAAAATTATAATTTTT
1 AAAAATTAAAATTTTT
27160726 A
1 A
27160727 TACTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAAATTAAAATTTTT
Found at i:27160740 original size:20 final size:21
Alignment explanation
Indices: 27160717--27160768 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
27160707 TTTAAAAATT
27160717 ATAATTTTTATACTT-TTT-AA
1 ATAATTTTTATA-TTCTTTAAA
*
27160737 ATAATTCTTA-ATTCTTTAAA
1 ATAATTTTTATATTCTTTAAA
27160757 ATAATTTTTATA
1 ATAATTTTTATA
27160769 AAATTTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.07
19 4 0.15
20 20 0.74
21 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (21 bp):
ATAATTTTTATATTCTTTAAA
Found at i:27164314 original size:24 final size:24
Alignment explanation
Indices: 27164287--27164337 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
27164277 AATTTGACTC
* * * *
27164287 AAACAACTAAATAGAGTTTAATTG
1 AAACAAATAAACAAAGTTTAACTG
27164311 AAACAAATAAACAAAGTTTAACTG
1 AAACAAATAAACAAAGTTTAACTG
27164335 AAA
1 AAA
27164338 GATTATTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAACTG
Found at i:27166301 original size:24 final size:24
Alignment explanation
Indices: 27166274--27166324 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
27166264 AATTTTACTT
* *
27166274 AAACAACTAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAACTG
27166298 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAACTG
27166322 AAA
1 AAA
27166325 GATTATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAACTG
Found at i:27167667 original size:3 final size:3
Alignment explanation
Indices: 27167659--27167685 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27167649 CTTTTTCCTA
27167659 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
27167686 TCATGGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27171194 original size:20 final size:21
Alignment explanation
Indices: 27171152--27171207 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
27171142 AACTTATCAA
27171152 TTCAAATATTATAA-TAAATATT
1 TTCAAATA--ATAATTAAATATT
27171174 TTCAAATAATAATTAAA-ATT
1 TTCAAATAATAATTAAATATT
*
27171194 TGT-AACTAATAATT
1 T-TCAAATAATAATT
27171208 GTAATTTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 18 0.58
21 5 0.16
22 8 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TTCAAATAATAATTAAATATT
Found at i:27172724 original size:10 final size:10
Alignment explanation
Indices: 27172709--27172756 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
27172699 AATTTAAAAT
27172709 TTTATTTAAA
1 TTTATTTAAA
27172719 TTTATTTAAA
1 TTTATTTAAA
*
27172729 TTTA-TAAATA
1 TTTATTTAA-A
*
27172739 TTTAGTTTAAT
1 TTTA-TTTAAA
27172750 TTTATTT
1 TTTATTT
27172757 TAGGTTTGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 3 0.09
10 22 0.69
11 4 0.12
12 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTATTTAAA
Found at i:27172731 original size:21 final size:22
Alignment explanation
Indices: 27172700--27172756 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
27172690 TAAAATATAA
27172700 ATTTAAAATTTTATTTAA-ATTT
1 ATTT-AAATTTTATTTAATATTT
*
27172722 ATTTAAA-TTTA-TAAATATTT
1 ATTTAAATTTTATTTAATATTT
27172742 AGTTT-AATTTTATTT
1 A-TTTAAATTTTATTT
27172757 TAGGTTTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.10
20 11 0.38
21 10 0.34
22 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTAAATTTTATTTAATATTT
Found at i:27172754 original size:31 final size:28
Alignment explanation
Indices: 27172697--27172756 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 28
27172687 AATTAAAATA
27172697 TAAATTTAAAATTTTATTTAAATTTATT
1 TAAATTTAAAATTTTATTTAAATTTATT
*
27172725 TAAATTTATAAATATTTAGTTTAATTTTATT
1 TAAATTTA-AAAT-TTTA-TTTAAATTTATT
27172756 T
1 T
27172757 TAGGTTTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 8 0.29
29 4 0.14
30 4 0.14
31 12 0.43
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TAAATTTAAAATTTTATTTAAATTTATT
Found at i:27172832 original size:23 final size:23
Alignment explanation
Indices: 27172767--27172840 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
27172757 TAGGTTTGTC
* **
27172767 AATTTATAT-TTTAAAAAATTTT
1 AATTTATATATTTATATTATTTT
*
27172789 AAATTATATATTTATATTATTTT
1 AATTTATATATTTATATTATTTT
27172812 AATTTA-ATATTTA-ATGATATTTT
1 AATTTATATATTTATAT--TATTTT
27172835 -ATTTAT
1 AATTTAT
27172841 TAAAATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.05
22 20 0.47
23 21 0.49
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
AATTTATATATTTATATTATTTT
Found at i:27172841 original size:32 final size:34
Alignment explanation
Indices: 27172794--27172856 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
27172784 ATTTTAAATT
**
27172794 ATATATTTATATTATTTTAATTTAATATTTAATG
1 ATATATTTATATTATTAAAATTTAATATTTAATG
*
27172828 ATAT-TTTAT-TTATTAAAATTTTATATTTA
1 ATATATTTATATTATTAAAATTTAATATTTA
27172857 GTTATTTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 17 0.65
33 5 0.19
34 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (34 bp):
ATATATTTATATTATTAAAATTTAATATTTAATG
Found at i:27177385 original size:6 final size:6
Alignment explanation
Indices: 27177374--27177418 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
27177364 TGATCAAAAT
* * *
27177374 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
27177419 TATGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:27187706 original size:21 final size:21
Alignment explanation
Indices: 27187682--27187731 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
27187672 CAAATCATAG
*
27187682 TTAACATAATACATATTATAC
1 TTAACATAATACAGATTATAC
*
27187703 TTAACATAATACAGATTTTAC
1 TTAACATAATACAGATTATAC
*
27187724 TTAGCATA
1 TTAACATA
27187732 TAGATTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAACATAATACAGATTATAC
Found at i:27190542 original size:25 final size:23
Alignment explanation
Indices: 27190498--27190547 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
27190488 ATTTTAGCGC
*
27190498 GCTCTCTGCTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
27190521 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
27190544 GCTC
1 GCTC
27190548 AGTACTCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.10, C:0.26, G:0.24, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Done.