Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012328.1 Kokia drynarioides strain JFW-HI SEQ_127330, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 243924
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 76 characters in sequence are not A, C, G, or T
Found at i:4133 original size:206 final size:202
Alignment explanation
Indices: 3401--4576 Score: 1333
Period size: 206 Copynumber: 5.9 Consensus size: 202
3391 ATCCATGAAC
* * * *
3401 GACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAGATC-AA--A--CT--CACGAACA
1 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCACGCTGATACGAACA
3459 AATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCT
66 AATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCT
* * * * **********
3524 TCTTGGTAAGATACGAAGAAGTGGACCAAATCCAGT-TTCCTGATGAG--ATACANNNNNNNNNN
131 TCCTGATAAGATACGAAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATATAGAGAAGCGATTG
*
3586 AAACAAAC
195 AAACAAAT
* * * *
3594 GACGCGGTCATCTTCCTAATGAGATATTGAGAAGAAGACCAGATC-AA--A--CT--CACGAATA
1 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCACGCTGATACGAACA
* *
3652 AATCCTCGAACCCAAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCT
66 AATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCT
* * * *
3717 TCCTGGTAAGATACGAAGAAGTGGACCAAATCCAAT-TTCCTGATGAGATACAGAGAAGCGAATT
131 TCCTGATAAGATACGAAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATATAGAGAAGCG-ATT
3781 GAAACAAAT
194 GAAACAAAT
* *
3790 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAGATC-AA--A--CT--CACGAACA
1 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCACGCTGATACGAACA
3848 AATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAAGGTTAGC
66 AATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCAT-AAAAGGTTAGC
* * *
3913 TTCCTGATAAGATACGAAGAAGTGGACGAAATTCGTCTTCCTGGTGAGATATAGAAAAGCAGATT
130 TTCCTGATAAGATACGAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGC-GATT
3978 GAAACAAAT
194 GAAACAAAT
* *
3987 GATGCGGTCATCTTCTTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTTGATACGAA
1 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAA-CCACGC-TGATACGAA
* *
4052 CAAATCCTAGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAAGGTTA
64 CAAATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCAT-AAAAGGTTA
* * * *
4117 GCTTCCTGATAAGATACAAAGAAGTGGACTAAATTCGTCTTCCTGGTGAGATACAGAGAAGCGGA
128 GCTTCCTGATAAGATACGAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGC-GA
*
4182 TTGAAACAAAC
192 TTGAAACAAAT
* * *
4193 GACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGTCAAAATCAAACTCACGCTTGATACGAA
1 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAAC-CACGC-TGATACGAA
* * *
4258 CAAATCCTCGAACCCCAACTTCCTGATGAGACATTAAGAAGCAGGTCGAAGCCATAAAAGGTTAG
64 CAAATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAG
* *
4323 CTTCCTTATAAGATACGAAGAAGTGGACCAAATTCGTTTTCCTGATGAGATATAGAGGAA-CGAA
129 CTTCCTGATAAGATACGAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGA-GAAGCG-A
*
4387 TTGAAACAATT
192 TTGAAACAAAT
* * ** * * ** **
4398 GACGCAGCCATCTTCCCGATGAGATACTAAGAAGAAGACCAAATCAAACTCACGCCCGATGTGGG
1 GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAAC-CACG-CTGATACGAA
* * * * * * * *
4463 CAAATCTTCGAACTCTAGTTTCCTGATGAGACAATGAGAAACAGGTCGAAGCAATAAAGTGGTTA
64 CAAATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAA-AGGTTA
* * ** * * *
4528 GCTCCCTGATGAGATATAAAGAAGCGAACCAAATTCGTCTTCCTAATGA
128 GCTTCCTGATAAGATACGAAGAAGTGGACCAAATTCGTCTTCCTGATGA
4577 AACACGAAGA
Statistics
Matches: 873, Mismatches: 90, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
193 162 0.19
195 3 0.00
196 115 0.13
197 116 0.13
198 3 0.00
201 1 0.00
203 1 0.00
204 2 0.00
205 173 0.20
206 297 0.34
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.20
Consensus pattern (202 bp):
GACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCACGCTGATACGAACA
AATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCT
TCCTGATAAGATACGAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGATTGA
AACAAAT
Found at i:4341 original size:608 final size:597
Alignment explanation
Indices: 3452--4571 Score: 1485
Period size: 608 Copynumber: 1.8 Consensus size: 597
3442 GATCAAACTC
* *
3452 ACGAACAAATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAG
1 ACGAACAAATCCTAGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAG
* * * ******
3517 GTTAGCTTCTTGGTAAGATACGAAGAAGTGGACCAAATCCAGTTTCCTGATGAGATACANNNNNN
66 GTTAGCTTCCTGATAAGATACAAAGAAGTGGACCAAATCCAGTTTCCTGATGAGATACAAAGCGG
**** * * *
3582 NNNNAAACAAACGACGCGGTCATCTTCCTAATGAGATATTGAGAAGAAGACCAGATCAAACTCAC
131 ATTGAAACAAACGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACAAAATCAAACTCAC
* * *
3647 GAATAAATCCTCGAACCCAAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGT
196 GAACAAATCCTCGAACCCAAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAGGT
*
3712 TAGCTTCCTGGTAAGATACGAAGAAGTGGACCAAATCCAATTTCCTGATGAGATACAGA-GAAGC
261 TAGCTTCCTGATAAGATACGAAGAAGTGGACCAAATCCAATTTCCTGATGAGATACAGAGGAA-C
* * * * *
3776 GAATTGAAACAAATGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAGATCAAACTC
325 GAATTGAAACAAATGACGCAGCCATCTTCCCAATGAGATACTAAGAAGAAGACCAAATCAAACTC
* * *
3841 A-CGA-ACAAATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAA
390 ACCGAGACAAATCCTCGAACCCCAGCTTCCTGATGAGACAATGAGAAACAGGTCGAAGCAATAAA
* * * * *
3904 AAGGTTAGCTTCCTGATAAGATACGAAGAAGTGGACGAAATTCGTCTTCCTGGTGAGATATAGAA
455 AAGGTTAGCTCCCTGATAAGATACAAAGAAGCGAACCAAATTCGTCTTCCTGGTGAGATATAGAA
3969 AAGCAGATTGAAACAAATGATGCGGTCATCTTCTTAATGAGATACTGAGAAGAAGACCAAATCAA
520 AAGCAGATTGAAACAAATGATGCGGTCATCTTCTTAATGAGATACTGAGAAGAAGACCAAATCAA
4034 ACCCACGCTTGAT
585 ACCCACGCTTGAT
4047 ACGAACAAATCCTAGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAA
1 ACGAACAAATCCTAGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCAT-AAAA
* * *
4112 GGTTAGCTTCCTGATAAGATACAAAGAAGTGGACTAAATTC-GTCTTCCTGGTGAGATACAGAGA
65 GGTTAGCTTCCTGATAAGATACAAAGAAGTGGACCAAATCCAGT-TTCCTGATGAGATAC--A-A
* *
4176 AGCGGATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGTCAAAATCAAA
126 AGCGGATTGAAACAAACGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACAAAATCAAA
*
4241 CTCACGCTTGATACGAACAAATCCTCGAACCCCAA-CTTCCTGATGAGACATTAAGAAGCAGGTC
191 CT----C-----ACGAACAAATCCTCGAA-CCCAAGCTTCCTGATGAGACACTAAGAAGCAGGTC
* * **
4305 GAAGCCATAAAAGGTTAGCTTCCTTATAAGATACGAAGAAGTGGACCAAATTCGTTTTCCTGATG
246 GAAGCCATAAAAGGTTAGCTTCCTGATAAGATACGAAGAAGTGGACCAAATCCAATTTCCTGATG
* * *
4370 AGATATAGAGGAACGAATTGAAACAATTGACGCAGCCATCTTCCCGATGAGATACTAAGAAGAAG
311 AGATACAGAGGAACGAATTGAAACAAATGACGCAGCCATCTTCCCAATGAGATACTAAGAAGAAG
* * * * *
4435 ACCAAATCAAACTCACGCCCGATGTGGGCAAATCTTCGAACTCTAGTTTCCTGATGAGACAATGA
376 ACCAAATCAAACTCA---CCGA----GACAAATCCTCGAACCCCAGCTTCCTGATGAGACAATGA
** * *
4500 GAAACAGGTCGAAGCAATAAAGTGGTTAGCTCCCTGATGAGATATAAAGAAGCGAACCAAATTCG
434 GAAACAGGTCGAAGCAATAAAAAGGTTAGCTCCCTGATAAGATACAAAGAAGCGAACCAAATTCG
4565 TCTTCCT
499 TCTTCCT
4572 AATGAAACAC
Statistics
Matches: 443, Mismatches: 57, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
595 60 0.14
596 54 0.12
598 1 0.00
599 53 0.12
603 1 0.00
608 170 0.38
609 8 0.02
612 3 0.01
617 93 0.21
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (597 bp):
ACGAACAAATCCTAGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAG
GTTAGCTTCCTGATAAGATACAAAGAAGTGGACCAAATCCAGTTTCCTGATGAGATACAAAGCGG
ATTGAAACAAACGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACAAAATCAAACTCAC
GAACAAATCCTCGAACCCAAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAGGT
TAGCTTCCTGATAAGATACGAAGAAGTGGACCAAATCCAATTTCCTGATGAGATACAGAGGAACG
AATTGAAACAAATGACGCAGCCATCTTCCCAATGAGATACTAAGAAGAAGACCAAATCAAACTCA
CCGAGACAAATCCTCGAACCCCAGCTTCCTGATGAGACAATGAGAAACAGGTCGAAGCAATAAAA
AGGTTAGCTCCCTGATAAGATACAAAGAAGCGAACCAAATTCGTCTTCCTGGTGAGATATAGAAA
AGCAGATTGAAACAAATGATGCGGTCATCTTCTTAATGAGATACTGAGAAGAAGACCAAATCAAA
CCCACGCTTGAT
Found at i:4490 original size:411 final size:397
Alignment explanation
Indices: 3398--4576 Score: 1462
Period size: 411 Copynumber: 2.9 Consensus size: 397
3388 ATTATCCATG
*
3398 AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAGATCAAACTCACGAACAAATC
1 AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAGATCAAACTCACGAACAAATC
3463 CTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCTT-CT
66 CTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCTTCCT
* * * **********
3527 TGGTAAGATACGAAGAAGTGGACCAAATCCAG-TTTCCTGATGAGATACA-NNNNNNNNNNAAAC
131 T-ATAAGATACGAAGAAGTGGACCAAATTC-GTTTTCCTGATGAGATATAGAAAAGAATTGAAAC
* * *
3590 AAACGACGCGGTCATCTTCCTAATGAGATATTGAGAAGAAGACCAGATCAAACTCA---CGA-AT
194 AAATGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCCGATAT
*
3651 --AAATCCTCGAACCCAAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAGCCAT-AAAAGGTT
259 GCAAATCCTCGAACCCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAAGGTT
* * * *
3713 AGCTTCCTGGTAAGATACGAAGAAGTGGACCAAATCCAAT-TTCCTGATGAGATACAGAGAAGCG
324 AGCTTCCTGATAAGATACAAAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAGAGAAGCG
3777 AATTGAAACA
388 AATTGAAACA
* *
3787 AATGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAGATCAAACTCACGAACAAATC
1 AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAGATCAAACTCACGAACAAATC
3852 CTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAAGGTTAGCTTCC
66 CTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCAT-AAAAGGTTAGCTTCC
* * * *
3917 TGATAAGATACGAAGAAGTGGACGAAATTCGTCTTCCTGGTGAGATATAGAAAAGCAGATTGAAA
130 TTATAAGATACGAAGAAGTGGACCAAATTCGTTTTCCTGATGAGATATAGAAAAG-A-ATTGAAA
* * * *
3982 CAAATGATGCGGTCATCTTCTTAATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTTGAT
193 CAAATGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCACGC-CGAT
* * * *
4047 ACGAACAAATCCTAGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCCATAAAAA
257 ATG--CAAATCCTCGAACCCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAA
* *
4112 GGTTAGCTTCCTGATAAGATACAAAGAAGTGGACTAAATTCGTCTTCCTGGTGAGATACAGAGAA
320 GGTTAGCTTCCTGATAAGATACAAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
*
4177 GCGGATTGAAACA
385 GCGAATTGAAACA
* * *
4190 AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGTCAAAATCAAACTCACGCTTGATAC
1 AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAGATCAAACT----C-----AC
* * *
4255 GAACAAATCCTCGAACCCCAACTTCCTGATGAGACATTAAGAAGCAGGTCGAAGCCATAAAAGGT
57 GAACAAATCCTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGT
*
4320 TAGCTTCCTTATAAGATACGAAGAAGTGGACCAAATTCGTTTTCCTGATGAGATATAGAGGAACG
122 TAGCTTCCTTATAAGATACGAAGAAGTGGACCAAATTCGTTTTCCTGATGAGATATAGA--AAAG
* * * ** *
4385 AATTGAAACAATTGACGCAGCCATCTTCCCGATGAGATACTAAGAAGAAGACCAAATCAAACTCA
185 AATTGAAACAAATGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCA
* * * * * * *
4450 CGCCCGATGTGGGCAAATCTTCGAACTCTAGTTTCCTGATGAGACAATGAGAAACAGGTCGAAGC
250 CG-CCGATAT--GCAAATCCTCGAACCCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGC
* ** * * * * * *
4515 AATAAAGTGGTTAGCTCCCTGATGAGATATAAAGAAGCGAACCAAATTCGTCTTCCTAATGA
312 CATAAAAAGGTTAGCTTCCTGATAAGATACAAAGAAGTGGACCAAATTCGTCTTCCTGATGA
4577 AACACGAAGA
Statistics
Matches: 676, Mismatches: 83, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
389 112 0.17
390 52 0.08
391 2 0.00
393 54 0.08
397 2 0.00
398 1 0.00
402 51 0.08
403 121 0.18
407 1 0.00
411 217 0.32
412 59 0.09
413 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.20
Consensus pattern (397 bp):
AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAGATCAAACTCACGAACAAATC
CTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAGGTTAGCTTCCT
TATAAGATACGAAGAAGTGGACCAAATTCGTTTTCCTGATGAGATATAGAAAAGAATTGAAACAA
ATGACGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCCGATATGC
AAATCCTCGAACCCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCCATAAAAAGGTTAG
CTTCCTGATAAGATACAAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAAT
TGAAACA
Found at i:5001 original size:35 final size:35
Alignment explanation
Indices: 4955--5044 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 35
4945 CTGGGCCCCA
* * *
4955 ATAAACTTAAATTTATTTTAAAAATTGAGTTTATT
1 ATAAATTTAAATTTATTTTAAAAATTAAATTTATT
** * *
4990 ATAAATTTAAATTTA-GCTGAAATTTAAATTTATT
1 ATAAATTTAAATTTATTTTAAAAATTAAATTTATT
5024 ATAAATTTTAAAATTTATTTT
1 ATAAA-TTT-AAATTTATTTT
5045 GAATGTCCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
34 18 0.42
35 17 0.40
36 7 0.16
37 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (35 bp):
ATAAATTTAAATTTATTTTAAAAATTAAATTTATT
Found at i:5035 original size:18 final size:17
Alignment explanation
Indices: 4955--5042 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
4945 CTGGGCCCCA
*
4955 ATAAACTTAAATTTATT
1 ATAAATTTAAATTTATT
* * * *
4972 TTAAAAATTGAGTTTATT
1 AT-AAATTTAAATTTATT
*
4990 ATAAATTTAAATTTAGCT
1 ATAAATTTAAATTTA-TT
*
5008 -GAAATTTAAATTTATT
1 ATAAATTTAAATTTATT
5024 ATAAATTTTAAAATTTATT
1 ATAAA-TTT-AAATTTATT
5043 TTGAATGTCC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.02
17 27 0.50
18 17 0.31
19 9 0.17
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
ATAAATTTAAATTTATT
Found at i:29796 original size:24 final size:24
Alignment explanation
Indices: 29769--29825 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
29759 AAACTTAATT
* *
29769 CTAATCAATGTCAAATATATTATG
1 CTAATAAATGTCAAATATATTATA
*
29793 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATA
29817 CTAATAAAT
1 CTAATAAAT
29826 ACAAAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATA
Found at i:29832 original size:24 final size:24
Alignment explanation
Indices: 29781--29832 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
29771 AATCAATGTC
* ***
29781 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACA
29805 AAATATATTATACTAATAAATACA
1 AAATATATTATACTAATAAATACA
29829 AAAT
1 AAAT
29833 CTTCCTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACA
Found at i:37877 original size:21 final size:21
Alignment explanation
Indices: 37851--37892 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37841 CATTATTAGT
37851 TCTAAAGATATAGTCTTTTAA
1 TCTAAAGATATAGTCTTTTAA
37872 TCTAAAGATATAGTCTTTTAA
1 TCTAAAGATATAGTCTTTTAA
37893 GGCAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
TCTAAAGATATAGTCTTTTAA
Found at i:50725 original size:18 final size:18
Alignment explanation
Indices: 50695--50736 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
50685 TAATTTTTTT
*
50695 CTTTTT-TCTTTTTCTTC
1 CTTTTTCTCATTTTCTTC
*
50712 CTTTTTCTCATTTTTTTC
1 CTTTTTCTCATTTTCTTC
*
50730 TTTTTTC
1 CTTTTTC
50737 AAGAGACTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTTTTCTCATTTTCTTC
Found at i:61134 original size:15 final size:15
Alignment explanation
Indices: 61114--61160 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
61104 AGTATACATA
61114 ATAAAAACAATATAC
1 ATAAAAACAATATAC
*
61129 ATAAAATACAACA-AC
1 ATAAAA-ACAATATAC
61144 ATAAAAA-AATATAC
1 ATAAAAACAATATAC
61158 ATA
1 ATA
61161 TACATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.11
14 6 0.21
15 14 0.50
16 5 0.18
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAAACAATATAC
Found at i:61210 original size:2 final size:2
Alignment explanation
Indices: 61205--61229 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61195 AAAAAATGTA
61205 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
61230 GGACAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61304 original size:30 final size:30
Alignment explanation
Indices: 61270--61453 Score: 178
Period size: 30 Copynumber: 6.2 Consensus size: 30
61260 TTAAAATCGA
* * *
61270 GTCAAATTTGAATTTTTTGAAACTTCAGGG
1 GTCAAATTTGAATTTTTGGAAAATTTAGGG
** * *
61300 GTCAAATCAGAATTTTTAG-AAATTTAAGG
1 GTCAAATTTGAATTTTTGGAAAATTTAGGG
*
61329 GTCAAATCAT-AATTTTTGGAAAATTTAGGG
1 GTCAAAT-TTGAATTTTTGGAAAATTTAGGG
* * * * *
61359 ATCAATTTTGAATTTTT-AAAAAGTTCGAGG
1 GTCAAATTTGAATTTTTGGAAAATTTAG-GG
* *
61389 GTCAAATTTGAATTTTTGGAAAAATTA-AG
1 GTCAAATTTGAATTTTTGGAAAATTTAGGG
*
61418 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
1 GTCAAATTTGAATTTTTGGAAAATTTAGGG
61448 GTCAAA
1 GTCAAA
61454 ATATAATTTT
Statistics
Matches: 123, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
29 56 0.46
30 61 0.50
31 6 0.05
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (30 bp):
GTCAAATTTGAATTTTTGGAAAATTTAGGG
Found at i:61372 original size:59 final size:58
Alignment explanation
Indices: 61299--61464 Score: 190
Period size: 59 Copynumber: 2.8 Consensus size: 58
61289 AAACTTCAGG
** * *
61299 GGTCAAATCAGAATTTTTAGAAA-TTTAAGGGTCAAATCATAATTTTTGGAAAATTTAG
1 GGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAAT-ATAATTTTTGGAAAAATTAA
* * ** *
61357 GGATCAATTTTGAATTTTTAAAAAGTTCGAGGGTCAAATTTGAATTTTTGGAAAAATTAA
1 GG-TCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAATAT-AATTTTTGGAAAAATTAA
* *
61417 GGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTCAAAATATAATTTTT
1 GGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTC-AAATATAATTTTT
61465 AGATAGTTTG
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
58 2 0.02
59 51 0.58
60 35 0.40
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (58 bp):
GGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAATATAATTTTTGGAAAAATTAA
Found at i:61421 original size:89 final size:89
Alignment explanation
Indices: 61271--61453 Score: 219
Period size: 89 Copynumber: 2.1 Consensus size: 89
61261 TAAAATCGAG
** *
61271 TCAAATTTGAATTTTTTGAAACTTCAGGGGTCAAATCAGAATTTTTAGAAATTTAAGGGTCAAAT
1 TCAAATTTGAATTTTTAAAAACTTCAGGGGTCAAATCAGAATTTTTAGAAAATTAAGGGTCAAAT
61336 CAT-AATTTTTGGAAAATTTAGGGA
66 -ATGAATTTTTGGAAAATTTAGGGA
* * ** *
61360 TCAATTTTGAATTTTTAAAAAGTTC-GAGGGTCAAATTTGAATTTTTGGAAAAATTAA-GGTCAA
1 TCAAATTTGAATTTTTAAAAACTTCAG-GGGTCAAATCAGAATTTTTAG-AAAATTAAGGGTCAA
* * *
61423 ATTTGAATTTTTGGAAAGTTTAGGGG
64 ATATGAATTTTTGGAAAATTTAGGGA
61449 TCAAA
1 TCAAA
61454 ATATAATTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
88 2 0.03
89 70 0.89
90 7 0.09
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (89 bp):
TCAAATTTGAATTTTTAAAAACTTCAGGGGTCAAATCAGAATTTTTAGAAAATTAAGGGTCAAAT
ATGAATTTTTGGAAAATTTAGGGA
Found at i:61462 original size:30 final size:29
Alignment explanation
Indices: 61270--61492 Score: 130
Period size: 30 Copynumber: 7.5 Consensus size: 29
61260 TTAAAATCGA
* * * *
61270 GTCAAATTTGAATTTTTTGAAACTTCAGGG
1 GTCAAATAT-AATTTTTAGAAAGTTTAGGG
* *
61300 GTCAAATCAGAATTTTTAGAAA-TTTAAGG
1 GTCAAAT-ATAATTTTTAGAAAGTTTAGGG
* *
61329 GTCAAATCATAATTTTTGGAAAATTTAGGG
1 GTCAAAT-ATAATTTTTAGAAAGTTTAGGG
* * * * *
61359 ATCAATTTTGAATTTTTAAAAAG-TTCGAGG
1 GTCAAATAT-AATTTTTAGAAAGTTTAG-GG
* * ** *
61389 GTCAAATTTGAATTTTTGGAAAAATTA-AG
1 GTCAAATAT-AATTTTTAGAAAGTTTAGGG
* *
61418 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
1 GTCAAATAT-AATTTTTAGAAAGTTTAGGG
*
61448 GTCAAAATATAATTTTTAGATAGTTT-GGAG
1 GTC-AAATATAATTTTTAGAAAGTTTAGG-G
* *
61478 GTTAAAAATAATTTT
1 GTCAAATATAATTTT
61493 AAAATAAAGT
Statistics
Matches: 155, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
29 68 0.44
30 80 0.52
31 7 0.05
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (29 bp):
GTCAAATATAATTTTTAGAAAGTTTAGGG
Found at i:66972 original size:20 final size:21
Alignment explanation
Indices: 66947--66989 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
66937 ACAAAACCCA
*
66947 ATTTTATTTATTT-TTATTTT
1 ATTTTATTTATTTATCATTTT
66967 ATTTTATTTATTTATCATTTT
1 ATTTTATTTATTTATCATTTT
66988 AT
1 AT
66990 AAATGTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
ATTTTATTTATTTATCATTTT
Found at i:67120 original size:16 final size:16
Alignment explanation
Indices: 67083--67121 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
67073 GTTTTAACTT
*
67083 TATTTATTTATTTTTA
1 TATTTATTTATTTATA
* *
67099 TTTTTATTTATTTATC
1 TATTTATTTATTTATA
67115 TATTTAT
1 TATTTAT
67122 AAATATAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATTTATTTATA
Found at i:68330 original size:30 final size:30
Alignment explanation
Indices: 68212--68369 Score: 140
Period size: 30 Copynumber: 5.3 Consensus size: 30
68202 AAAATTACGT
* * *
68212 TTTGA-CCTCTAAACTTTTCAAAAAATCAAAA
1 TTTGACCCTC-AAACTTTCCAAAAATTC-CAA
* * * **
68243 ATTCACCCTCAAACTTTCTAAAAATTTGAA
1 TTTGACCCTCAAACTTTCCAAAAATTCCAA
*
68273 TTTGACCC-CAAACTTTCCAAAATTTCCAA
1 TTTGACCCTCAAACTTTCCAAAAATTCCAA
* * *
68302 TTTAACCCTCAAATTTTCCATAAATTCCAA
1 TTTGACCCTCAAACTTTCCAAAAATTCCAA
* * **
68332 TTTGACCATTAAACTTTCCAAAAATTAAAA
1 TTTGACCCTCAAACTTTCCAAAAATTCCAA
68362 TTTGACCC
1 TTTGACCC
68370 AGTTTTAATG
Statistics
Matches: 100, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
29 24 0.24
30 56 0.56
31 16 0.16
32 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (30 bp):
TTTGACCCTCAAACTTTCCAAAAATTCCAA
Found at i:68437 original size:3 final size:3
Alignment explanation
Indices: 68429--68478 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
68419 TTTATCTTGT
68429 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68477 TT
1 TT
68479 TAATCCCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:68585 original size:18 final size:19
Alignment explanation
Indices: 68562--68606 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
68552 GTTTACTCAA
68562 TTTATTATA-TTATTGTAT
1 TTTATTATATTTATTGTAT
*
68580 TTTATT-TATTTATTGTTT
1 TTTATTATATTTATTGTAT
68598 TGTTATTAT
1 T-TTATTAT
68607 CTATACCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 5 0.22
20 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTATTATATTTATTGTAT
Found at i:70188 original size:16 final size:17
Alignment explanation
Indices: 70167--70200 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
70157 TATCCAAATT
*
70167 AGAAAAA-TATCAAGGA
1 AGAAAAACTAACAAGGA
70183 AGAAAAACTAACAAGGA
1 AGAAAAACTAACAAGGA
70200 A
1 A
70201 CTTGAAGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AGAAAAACTAACAAGGA
Found at i:91244 original size:11 final size:11
Alignment explanation
Indices: 91230--91290 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
91220 AGATACGTCG
91230 GAAAAGAGAAA
1 GAAAAGAGAAA
*
91241 GAAATG-GAAAA
1 GAAAAGAG-AAA
91252 GAAAAGAGAAA
1 GAAAAGAGAAA
* * *
91263 GGAATGAGAGA
1 GAAAAGAGAAA
*
91274 GAAATGAGAAA
1 GAAAAGAGAAA
91285 GAAAAG
1 GAAAAG
91291 TGAGAGGCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 1 0.03
11 38 0.95
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (11 bp):
GAAAAGAGAAA
Found at i:91258 original size:22 final size:22
Alignment explanation
Indices: 91230--91288 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
91220 AGATACGTCG
91230 GAAAAGAGAAAGAAATG-GAAAA
1 GAAAAGAGAAAGAAATGAG-AAA
* *
91252 GAAAAGAGAAAGGAATGAGAGA
1 GAAAAGAGAAAGAAATGAGAAA
*
91274 GAAATGAGAAAGAAA
1 GAAAAGAGAAAGAAA
91289 AGTGAGAGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (22 bp):
GAAAAGAGAAAGAAATGAGAAA
Found at i:91266 original size:17 final size:17
Alignment explanation
Indices: 91229--91266 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
91219 GAGATACGTC
*
91229 GGAAAAGAGAAAGAAAT
1 GGAAAAGAGAAAGAAAA
91246 GGAAAAGA-AAAGAGAAA
1 GGAAAAGAGAAAGA-AAA
91263 GGAA
1 GGAA
91267 TGAGAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (17 bp):
GGAAAAGAGAAAGAAAA
Found at i:95812 original size:13 final size:13
Alignment explanation
Indices: 95794--95818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95784 AGGGTAGTTC
95794 ATCTCTATAAATA
1 ATCTCTATAAATA
95807 ATCTCTATAAAT
1 ATCTCTATAAAT
95819 CCTTCAGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
ATCTCTATAAATA
Found at i:97860 original size:16 final size:16
Alignment explanation
Indices: 97836--97866 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97826 AACGGTCAAT
*
97836 GGTTTGACTTGGTTTG
1 GGTTAGACTTGGTTTG
97852 GGTTAGACTTGGTTT
1 GGTTAGACTTGGTTT
97867 AAATGGGTTT
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:0.10, C:0.06, G:0.35, T:0.48
Consensus pattern (16 bp):
GGTTAGACTTGGTTTG
Found at i:103808 original size:43 final size:42
Alignment explanation
Indices: 103699--103912 Score: 207
Period size: 43 Copynumber: 5.0 Consensus size: 42
103689 TCGCCGAGTT
* * * * *
103699 ATAAGTTCTTCCATTTACA-AAAATCTTATGCTCTTTTCGAGAC
1 ATAAG-TCTTCCATTTATATATAATCTCATGCTCATCT-GAGAC
* * * *
103742 ATAAGTTCTTGCATTTACA-ATAATCTTATGCTCTTACTGAGAC
1 ATAAG-TCTTCCATTTATATATAATCTCATGCTCAT-CTGAGAC
*
103785 ATAAGTCTTCCATTTATATATAATCTCATGCTCATCCCGAGAC
1 ATAAGTCTTCCATTTATATATAATCTCATGCTCAT-CTGAGAC
* * *
103828 ATGAGTCTTTCATTTGTATATAATCTCATGCTCATCTCGAGAC
1 ATAAGTCTTCCATTTATATATAATCTCATGCTCATCT-GAGAC
* * *
103871 TTGATTCTTCCATTTATATATAATCTCATGCTCATCCTGAGA
1 ATAAGTCTTCCATTTATATATAATCTCATGCTCAT-CTGAGA
103913 AATGAGTATT
Statistics
Matches: 150, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
42 12 0.08
43 135 0.90
44 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (42 bp):
ATAAGTCTTCCATTTATATATAATCTCATGCTCATCTGAGAC
Found at i:103810 original size:86 final size:86
Alignment explanation
Indices: 103699--103912 Score: 236
Period size: 86 Copynumber: 2.5 Consensus size: 86
103689 TCGCCGAGTT
* * * * **
103699 ATAAGTTCTTCCATTTACA-AAAATCTTATGCTCTTTTCGAGACATAAGTTCTTGCATTTACA-A
1 ATAAG-TCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATAAG-TCTTGCATTTACATA
* *
103762 TAATCTTATGCTCTTACT-GAGAC
64 TAATCTCATGCTCAT-CTCGAGAC
* * **
103785 ATAAGTCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATGAGTCTTTCATTTGTATATA
1 ATAAGTCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATAAGTCTTGCATTTACATATA
103850 ATCTCATGCTCATCTCGAGAC
66 ATCTCATGCTCATCTCGAGAC
* * * *
103871 TTGATTCTTCCATTTATATATAATCTCATGCTCATCCTGAGA
1 ATAAGTCTTCCATTTATATATAATCTCATGCTCATCCCGAGA
103913 AATGAGTATT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 24 0.22
86 85 0.78
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (86 bp):
ATAAGTCTTCCATTTATATATAATCTCATGCTCATCCCGAGACATAAGTCTTGCATTTACATATA
ATCTCATGCTCATCTCGAGAC
Found at i:103925 original size:43 final size:43
Alignment explanation
Indices: 103737--103925 Score: 220
Period size: 43 Copynumber: 4.4 Consensus size: 43
103727 TGCTCTTTTC
* * * * * *
103737 GAGACATAAGTTCTTGCATTTACA-ATAATCTTATGCTCTTACT
1 GAGACATGAG-TCTTCCATTTATATATAATCTCATGCTCATCCT
* *
103780 GAGACATAAGTCTTCCATTTATATATAATCTCATGCTCATCCC
1 GAGACATGAGTCTTCCATTTATATATAATCTCATGCTCATCCT
* *
103823 GAGACATGAGTCTTTCATTTGTATATAATCTCATGCTCAT-CT
1 GAGACATGAGTCTTCCATTTATATATAATCTCATGCTCATCCT
* *
103865 CGAGACTTGATTCTTCCATTTATATATAATCTCATGCTCATCCT
1 -GAGACATGAGTCTTCCATTTATATATAATCTCATGCTCATCCT
* *
103909 GAGAAATGAGTATTCCA
1 GAGACATGAGTCTTCCA
103926 CGTTAAGCAT
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 12 0.10
43 111 0.89
44 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (43 bp):
GAGACATGAGTCTTCCATTTATATATAATCTCATGCTCATCCT
Found at i:108976 original size:155 final size:155
Alignment explanation
Indices: 108694--109004 Score: 595
Period size: 155 Copynumber: 2.0 Consensus size: 155
108684 TCGTCACAAC
108694 ATAGGGAGCTCTATGTTAGAAAAAAGGGGCCAGCAGCGAAGAATAAAGAAACTTCTTGCTTAGTC
1 ATAGGGAGCTCTATGTTAGAAAAAAGGGGCCAGCAGCGAAGAATAAAGAAACTTCTTGCTTAGTC
108759 ATGACATAAGTCCTGGTGTGTCGCGACATCGACCCCAAATGGCAACTCTGCATCAAGTGAGGGAC
66 ATGACATAAGTCCTGGTGTGTCGCGACATCGACCCCAAATGGCAACTCTGCATCAAGTGAGGGAC
108824 ATTTTCATCTCCACAATGCGACTTA
131 ATTTTCATCTCCACAATGCGACTTA
*
108849 ATAGGGAGCTCTATGTTAGAAAAAAGGGGCCAGCAGCGAAGAATAAAGAAACTTCTTGCTTTGTC
1 ATAGGGAGCTCTATGTTAGAAAAAAGGGGCCAGCAGCGAAGAATAAAGAAACTTCTTGCTTAGTC
* *
108914 ATGACATAAGTCCTGGTGTGTCGCGACATTGACCCCAAATGGCAACTCTGCATCAAGTGAGGGGC
66 ATGACATAAGTCCTGGTGTGTCGCGACATCGACCCCAAATGGCAACTCTGCATCAAGTGAGGGAC
108979 ATTTTCATCTCCACAATGCGACTTA
131 ATTTTCATCTCCACAATGCGACTTA
109004 A
1 A
109005 ACACGAAGGA
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 153 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (155 bp):
ATAGGGAGCTCTATGTTAGAAAAAAGGGGCCAGCAGCGAAGAATAAAGAAACTTCTTGCTTAGTC
ATGACATAAGTCCTGGTGTGTCGCGACATCGACCCCAAATGGCAACTCTGCATCAAGTGAGGGAC
ATTTTCATCTCCACAATGCGACTTA
Found at i:114099 original size:102 final size:101
Alignment explanation
Indices: 113791--114230 Score: 346
Period size: 101 Copynumber: 4.4 Consensus size: 101
113781 AATTAAACAA
* ** *
113791 CAAATC-TATATCCCTGAAGTTGCAGTGGATCGGATTAAAAGCTACA-TGAACAAATCTTTATCT
1 CAAATCTTATATCCCTGAAGTTGCAGTAGATCGGATTAAAAATTACAGT-AGCAAATCTTTATCT
* * * *
113854 TTCTAAAGTTACAGTGGAGCAAGATGAAGCTACAAAT
65 CTCTGAAGTTACAGTAGAGCAAGATGAAGCTACACAT
* * * * * *
113891 CAAGTCTTATATCCTTGAAGTTGCAGTGGATTGGA-TCAAAATTAC-GATAGCAAATC-CTATCT
1 CAAATCTTATATCCCTGAAGTTGCAGTAGATCGGATTAAAAATTACAG-TAGCAAATCTTTATCT
* * * *
113953 C-CTTGAAGTTACAGTAAAGCAGGATGAAGTCAAAACCAT
65 CTC-TGAAGTTACAGTAGAGCAAGATGAAG-CTACA-CAT
* *
113992 CAAATCTTATATCCCTGAAGTTGCAGTAGATCAGATTAAAAATTTCAGTAGCAAATCTTTATCTC
1 CAAATCTTATATCCCTGAAGTTGCAGTAGATCGGATTAAAAATTACAGTAGCAAATCTTTATCTC
** * *
114057 TCTGAAGTTATTGTAGAGCAAGAT-AATGCTACGGCGT
66 TCTGAAGTTACAGTAGAGCAAGATGAA-GCTAC-ACAT
* * * * * * * *
114094 CAAATCATATATCCTTGAAGTTGCAGTAGATCGAATT-AAAACTACAATAACGAATCTTAATCTC
1 CAAATCTTATATCCCTGAAGTTGCAGTAGATCGGATTAAAAATTACAGTAGCAAATCTTTATCTC
* * *
114158 -CTTGAAGTTGCAGT-G-G-AATGGAGTGAAGTTACAACAC
66 TC-TGAAGTTACAGTAGAGCAA--GA-TGAAGCTAC-ACAT
* * *
114195 CAAATCCTATATCCCTGAAATTGCAGTGGATCGGAT
1 CAAATCTTATATCCCTGAAGTTGCAGTAGATCGGAT
114231 CAAAGCTATG
Statistics
Matches: 268, Mismatches: 55, Indels: 33
0.75 0.15 0.09
Matches are distributed among these distances:
98 3 0.01
99 28 0.10
100 26 0.10
101 126 0.47
102 58 0.22
103 26 0.10
104 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (101 bp):
CAAATCTTATATCCCTGAAGTTGCAGTAGATCGGATTAAAAATTACAGTAGCAAATCTTTATCTC
TCTGAAGTTACAGTAGAGCAAGATGAAGCTACACAT
Found at i:114191 original size:51 final size:51
Alignment explanation
Indices: 114136--114314 Score: 136
Period size: 51 Copynumber: 3.5 Consensus size: 51
114126 GAATTAAAAC
* * *
114136 TACAATAACGAATCTTAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
1 TACAACAACAAATCTTAATCTCCTTGAAATTGCAGTGGAATGGAGTGAAGT
* * * *
114187 TACAACACCAAATCCTATATC-CC-TGAAATTGCAGTGG-ATCGGA-TCAAAGC
1 TACAACAACAAATCTTA-ATCTCCTTGAAATTGCAGTGGAAT-GGAGT-GAAGT
** * * * * * *
114237 TATGATAGCGAATCTCAATCTCCCTGAAATTGCAATGGAATGGAGTGAAGCT
1 TACAACAACAAATCTTAATCTCCTTGAAATTGCAGTGGAATGGAGTGAAG-T
*
114289 T-CAACAACAAATCTT-ATCTCTTTGAA
1 TACAACAACAAATCTTAATCTCCTTGAA
114315 GTTTCCATGG
Statistics
Matches: 95, Mismatches: 25, Indels: 17
0.69 0.18 0.12
Matches are distributed among these distances:
49 6 0.06
50 40 0.42
51 42 0.44
52 7 0.07
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (51 bp):
TACAACAACAAATCTTAATCTCCTTGAAATTGCAGTGGAATGGAGTGAAGT
Found at i:114208 original size:101 final size:101
Alignment explanation
Indices: 114094--114317 Score: 270
Period size: 101 Copynumber: 2.2 Consensus size: 101
114084 GCTACGGCGT
* *
114094 CAAATCATATATCCTTGAAGTTGCAGTAGATCGAATTAAAACTACAATAACGAATCTTAATCTCC
1 CAAATCATATATCCTTGAAGTTGCAGTAGATCGAATCAAAACTACAATAACGAATCTCAATCTCC
* * * *
114159 TTGAAGTTGCAGTGGAATGGAGTGAAG-TTACAACAC
66 CTGAAATTGCAATGGAATGGAGTGAAGCTT-CAACAA
* * * * * * ** *
114195 CAAATCCTATATCCCTGAAATTGCAGTGGATCGGATCAAAGCTATGATAGCGAATCTCAATCTCC
1 CAAATCATATATCCTTGAAGTTGCAGTAGATCGAATCAAAACTACAATAACGAATCTCAATCTCC
114260 CTGAAATTGCAATGGAATGGAGTGAAGCTTCAACAA
66 CTGAAATTGCAATGGAATGGAGTGAAGCTTCAACAA
* * *
114296 CAAATCTTATCTCTTTGAAGTT
1 CAAATCATATATCCTTGAAGTT
114318 TCCATGGGGC
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
101 100 0.98
102 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (101 bp):
CAAATCATATATCCTTGAAGTTGCAGTAGATCGAATCAAAACTACAATAACGAATCTCAATCTCC
CTGAAATTGCAATGGAATGGAGTGAAGCTTCAACAA
Found at i:117061 original size:19 final size:20
Alignment explanation
Indices: 117037--117083 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
117027 TTTATTCTAT
117037 TTTATTTTTAATTTAGTCC-
1 TTTATTTTTAATTTAGTCCA
117056 TTTA--TTTAATTTAGTCCTA
1 TTTATTTTTAATTTAGTCC-A
117075 TTTATTTTT
1 TTTATTTTT
117084 TTATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 13 0.54
19 8 0.33
21 3 0.12
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTATTTTTAATTTAGTCCA
Found at i:117098 original size:18 final size:20
Alignment explanation
Indices: 117077--117134 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 20
117067 TAGTCCTATT
117077 TATTTTTTTA-TTATTTT-G
1 TATTTTTTTATTTATTTTGG
*
117095 TATTATTTTATTTATTTTGG
1 TATTTTTTTATTTATTTTGG
117115 TATTTAATTTTCATTTATTT
1 TATTT--TTTT-ATTTATTT
117135 ATTGTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 9 0.27
19 7 0.21
20 5 0.15
22 4 0.12
23 8 0.24
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTTTTTATTTATTTTGG
Found at i:118492 original size:61 final size:62
Alignment explanation
Indices: 118359--118504 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 62
118349 TTATGTTATA
* * ** * **
118359 ATTTTTATTAATTTATATTTTAATATTTCTTATATTAAGAATATTATTAAATTATATATTTTT
1 ATTTTTATTAAATTATA-TTTAATAATAATTACATTAAGAATACGATTAAATTATATATTTTT
*
118422 ATTTTTATTAAATTATATTTAATAATAATTACATTAA-AATACGATTAAATTATTTATTATTT
1 ATTTTTATTAAATTATATTTAATAATAATTACATTAAGAATACGATTAAATTATATATT-TTT
*
118484 -TTTTTATTAAATTACATTTAA
1 ATTTTTATTAAATTATATTTAA
118505 GAGACCTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 38 0.52
62 19 0.26
63 16 0.22
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (62 bp):
ATTTTTATTAAATTATATTTAATAATAATTACATTAAGAATACGATTAAATTATATATTTTT
Found at i:119137 original size:24 final size:23
Alignment explanation
Indices: 119107--119165 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 23
119097 TAAAACATTA
119107 AAATATTAATTTTATTAAATAAT
1 AAATATTAATTTTATTAAATAAT
119130 -AA-ATT-ATTTT-TTAAAATAAT
1 AAATATTAATTTTATT-AAATAAT
*
119150 AAATATTAATTCTATT
1 AAATATTAATTTTATT
119166 TTAATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 5 0.17
22 5 0.17
23 4 0.13
24 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATTAATTTTATTAAATAAT
Found at i:128476 original size:33 final size:33
Alignment explanation
Indices: 128436--128502 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
128426 AAACTTTATG
128436 TAAATATTCCTCTAAACAATTAAATAAATTTAA
1 TAAATATTCCTCTAAACAATTAAATAAATTTAA
128469 TAAATATTCCTCTAAACAATTAAATAAATTTAA
1 TAAATATTCCTCTAAACAATTAAATAAATTTAA
128502 T
1 T
128503 CTAATATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (33 bp):
TAAATATTCCTCTAAACAATTAAATAAATTTAA
Found at i:133818 original size:43 final size:43
Alignment explanation
Indices: 133760--133843 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
133750 AATAACAACC
* *
133760 AAAATAGCAGCAAAAATAA-AAGCAAAACAACAACAGAAACAAA
1 AAAATAGCAACAAAAATAATAAGAAAAACAACAACA-AAACAAA
* * *
133803 AAAATAGTAACAAAAATAATAATAAAAACAACACCAAAACA
1 AAAATAGCAACAAAAATAATAAGAAAAACAACAACAAAACA
133844 GCAACTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 22 0.63
44 13 0.37
ACGTcount: A:0.70, C:0.15, G:0.06, T:0.08
Consensus pattern (43 bp):
AAAATAGCAACAAAAATAATAAGAAAAACAACAACAAAACAAA
Found at i:142144 original size:15 final size:17
Alignment explanation
Indices: 142114--142153 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
142104 TAGTAAAAAT
142114 GTAATTTTACTATTTTA
1 GTAATTTTACTATTTTA
142131 GTAA-TTTA-TATTTTTA
1 GTAATTTTACTA-TTTTA
142147 -TAATTTT
1 GTAATTTT
142154 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (17 bp):
GTAATTTTACTATTTTA
Found at i:142332 original size:13 final size:13
Alignment explanation
Indices: 142314--142343 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
142304 TATTACGCTA
142314 TCTACTCTAATTG
1 TCTACTCTAATTG
*
142327 TCTACTTTAATTG
1 TCTACTCTAATTG
142340 TCTA
1 TCTA
142344 AAGTGGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (13 bp):
TCTACTCTAATTG
Found at i:147892 original size:29 final size:29
Alignment explanation
Indices: 147854--147927 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
147844 TTTGTCTCAG
*
147854 GTTACATTTTAGTCACTTATGTTTGAAAT
1 GTTACGTTTTAGTCACTTATGTTTGAAAT
147883 GTTACGTTTTAGTCACTTATGTTTGAAAT
1 GTTACGTTTTAGTCACTTATGTTTGAAAT
147912 GTTACGTTTTAGTCAC
1 GTTACGTTTTAGTCAC
147928 CTACGTTATC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (29 bp):
GTTACGTTTTAGTCACTTATGTTTGAAAT
Found at i:148146 original size:18 final size:18
Alignment explanation
Indices: 148123--148165 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
148113 GATCTAGGTG
148123 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
148141 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
148159 TAATTAA
1 TAATTAA
148166 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:150024 original size:12 final size:12
Alignment explanation
Indices: 150007--150032 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
149997 AGTTGACTGG
150007 AATAATCCGAAT
1 AATAATCCGAAT
150019 AATAATCCGAAT
1 AATAATCCGAAT
150031 AA
1 AA
150033 CTCGATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AATAATCCGAAT
Found at i:150575 original size:12 final size:12
Alignment explanation
Indices: 150508--150646 Score: 53
Period size: 12 Copynumber: 11.4 Consensus size: 12
150498 CTTATCAAGA
*
150508 TAAATATTAGAT
1 TAAATATTAAAT
150520 TAAAT-TTAATAT
1 TAAATATTAA-AT
150532 TAAATCCATTAAATT
1 TAAAT--ATTAAA-T
150547 AATAAAATATTAAAT
1 --T-AAATATTAAAT
150562 TAAAT-TTAAGAT
1 TAAATATTAA-AT
* * *
150574 TAAGATAATCAGT
1 TAA-ATATTAAAT
*
150587 TTAATATTAAAT
1 TAAATATTAAAT
150599 T-AATA--AAA-
1 TAAATATTAAAT
* *
150607 T-ACTATCAAGA-
1 TAAATATTAA-AT
150618 TAAATATTAAAT
1 TAAATATTAAAT
150630 TAAAT-TTAATAT
1 TAAATATTAA-AT
150642 TAAAT
1 TAAAT
150647 CAATTAAAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 34
0.69 0.08 0.24
Matches are distributed among these distances:
8 4 0.04
9 3 0.03
10 2 0.02
11 18 0.18
12 46 0.46
13 6 0.06
14 3 0.03
15 6 0.06
16 6 0.06
17 1 0.01
18 4 0.04
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:150657 original size:17 final size:17
Alignment explanation
Indices: 150518--150646 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
150508 TAAATATTAG
150518 ATTAAATTTAATATTAAAT
1 ATTAAA-TTAA-ATTAAAT
*
150537 CCATTAAATT-AATAAAAT
1 --ATTAAATTAAATTAAAT
* *
150555 ATTAAATTAAATTTAAG
1 ATTAAATTAAATTAAAT
*
150572 ATTAAGA-TAATCAGTTTAAT
1 ATTAA-ATTAA--A-TTAAAT
*
150592 ATTAAATT-AATAAAAT
1 ATTAAATTAAATTAAAT
* *
150608 ACT--ATCAAGA-TAAAT
1 ATTAAATTAA-ATTAAAT
*
150623 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTAAAT
150640 ATTAAAT
1 ATTAAAT
150647 CAATTAAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
14 2 0.02
15 7 0.08
16 16 0.19
17 29 0.35
18 7 0.08
19 4 0.05
20 13 0.15
21 6 0.07
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (17 bp):
ATTAAATTAAATTAAAT
Found at i:152023 original size:31 final size:31
Alignment explanation
Indices: 151932--152025 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
151922 ATGTCTCTAT
* *
151932 TCGTGGAGTAAACTGCTTCGACAGCCAAGAA
1 TCGTGGAGTCAACTGCTTCGACAGCCAAGAC
151963 TCGTGGAGTCAACTGCTTCGACAGCCAAGAC
1 TCGTGGAGTCAACTGCTTCGACAGCCAAGAC
**
151994 TCGTGGAGTCAACTGCTTCGACAATCAAGAC
1 TCGTGGAGTCAACTGCTTCGACAGCCAAGAC
152025 T
1 T
152026 AGTCATCTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (31 bp):
TCGTGGAGTCAACTGCTTCGACAGCCAAGAC
Found at i:155519 original size:30 final size:29
Alignment explanation
Indices: 155485--155947 Score: 220
Period size: 30 Copynumber: 15.7 Consensus size: 29
155475 GCACGGGGGC
* *
155485 AAAATGGTAGTTTTGGAAGGTTCGGAGTAA
1 AAAATGGTAATTTTGGAAGGTTCGGGGT-A
*
155515 AAAATAGG-ATTTTTGGAA-GTTCGAGGGT-
1 AAAAT-GGTAATTTTGGAAGGTTCG-GGGTA
** *
155543 AAAATGGTAATTTTCAAAAGGTTTGAGGGTCA
1 AAAATGGTAATTTT-GGAAGGTTCG-GGGT-A
* *
155575 AAAATGG-AACTTTTGGAAGTTTGGGGGT-
1 AAAATGGTAA-TTTTGGAAGGTTCGGGGTA
* *
155603 AAAATGGTAATTTTCGCAAGGTTCGGTGTCA
1 AAAATGGTAATTTT-GGAAGGTTCGGGGT-A
* * * *
155634 AAAATGGGATTTTTGGAAGTTTGGGGGT-
1 AAAATGGTAATTTTGGAAGGTTCGGGGTA
** *
155662 AAAATGGTAATTTTTAAAAGGTTCGAGGTAAA
1 AAAATGGTAA-TTTTGGAAGGTTCGGGGT--A
* *
155694 AAAATGGGATTTTTAGG-A-GTTCGGGGGT-
1 AAAATGGTAATTTT-GGAAGGTTC-GGGGTA
* * **
155722 AAAATGGTAATTTTTAGAAGTTTTAGGGTCA
1 AAAATGGTAA-TTTTGGAAGGTTCGGGGT-A
* * *
155753 AAAATGGGATTTTTGGGA-GTTCGGGGGT-
1 AAAATGGTAATTTTGGAAGGTTC-GGGGTA
* **
155781 AAAATGGTAATTTTTAGAAGGTTCGAAGTCA
1 AAAATGGTAA-TTTTGGAAGGTTCGGGGT-A
* * *
155812 AAAGTGGTATTTTTGGGA-GTTCGGGGGT-
1 AAAATGGTAATTTTGGAAGGTTC-GGGGTA
* *
155840 AAAATGGTAATTTTTAGAGGGTTCGGGGTTA
1 AAAATGGTAA-TTTTGGAAGGTTCGGGG-TA
* *
155871 AAAATGGTATTTTTGGGA-GTTCGGGGGT-
1 AAAATGGTAATTTTGGAAGGTTC-GGGGTA
* *
155899 -AAATGGTAATTTTTAGAAGGTTCGAGGTCA
1 AAAATGGTAA-TTTTGGAAGGTTCGGGGT-A
* * *
155929 AAAGTGGGATTTTTGGAAG
1 AAAATGGTAATTTTGGAAG
155948 TTTAGGGACC
Statistics
Matches: 320, Mismatches: 74, Indels: 78
0.68 0.16 0.17
Matches are distributed among these distances:
27 10 0.03
28 64 0.20
29 74 0.23
30 91 0.28
31 62 0.19
32 19 0.06
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAGGTTCGGGGTA
Found at i:155589 original size:60 final size:60
Alignment explanation
Indices: 155478--155949 Score: 570
Period size: 59 Copynumber: 8.0 Consensus size: 60
155468 TTCGGATGCA
* * * * * *
155478 CGGGGGCAAAATGGT-AGTTTTGGAAGGTTCG-GAGTAAAAAATAGGATTTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
* * * * * *
155536 CGAGGGTAAAATGGTAATTTTCAAAAGGTTTGAGGGTCAAAAATGGAACTTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
* * *
155596 TGGGGGTAAAATGGTAA-TTTTCGCAAGGTTCG-GTGTCAAAAATGGGATTTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTAG-AAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
* * *
155655 TGGGGGTAAAATGGTAATTTTTAAAAGGTTCGA-GGTAAAAAAATGGGATTTTTAGG-AGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGT-CAAAAATGGGATTTTT-GGAAGTT
** *
155715 CGGGGGTAAAATGGTAATTTTTAGAA-GTTTTAGGGTCAAAAATGGGATTTTTGGGAGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
* * * *
155774 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGA-AGTCAAAAGTGGTATTTTTGGGAGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
* * * *
155833 CGGGGGTAAAATGGTAATTTTTAGAGGGTTCG-GGGTTAAAAATGGTATTTTTGGGAGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
*
155892 CGGGGGT-AAATGGTAATTTTTAGAAGGTTCGA-GGTCAAAAGTGGGATTTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
155950 TAGGGACCTC
Statistics
Matches: 358, Mismatches: 44, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
58 60 0.17
59 198 0.55
60 98 0.27
61 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33
Consensus pattern (60 bp):
CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGAGGGTCAAAAATGGGATTTTTGGAAGTT
Found at i:155675 original size:119 final size:117
Alignment explanation
Indices: 155478--155949 Score: 592
Period size: 119 Copynumber: 4.0 Consensus size: 117
155468 TTCGGATGCA
* * * * * *
155478 CGGGGGCAAAATGGT-AGTTTTGGAAGGTTCGGAGTAAAAAATAGGATTTTTGGAAGTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGG-GTCAAAAATGGGATTTTTGGAAGTTCGGGGG
* * * *
155542 TAAAATGGTAATTTTCAAAAGGTTTGAGGGTCAAAAATGGAACTTTTGGAAGTT
65 TAAAATGGTAATTTTTAAAAGGTTCGA-GGTCAAAAATGGGATTTTTGGAAGTT
* * *
155596 TGGGGGTAAAATGGTAA-TTTTCGCAAGGTTCGGTGTCAAAAATGGGATTTTTGGAAGTTTGGGG
1 CGGGGGTAAAATGGTAATTTTTAG-AAGGTTCGG-GTCAAAAATGGGATTTTTGGAAGTTCGGGG
*
155660 GTAAAATGGTAATTTTTAAAAGGTTCGAGGTAAAAAAATGGGATTTTTAGG-AGTT
64 GTAAAATGGTAATTTTTAAAAGGTTCGAGGT-CAAAAATGGGATTTTT-GGAAGTT
* * *
155715 CGGGGGTAAAATGGTAATTTTTAGAAGTTTTAGGGTCAAAAATGGGATTTTTGGGAGTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTAGAAG-GTTCGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
* * * * *
155780 TAAAATGGTAATTTTTAGAAGGTTCGAAGTCAAAAGTGGTATTTTTGGGAGTT
65 TAAAATGGTAATTTTTAAAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
* * * *
155833 CGGGGGTAAAATGGTAATTTTTAGAGGGTTCGGGGTTAAAAATGGTATTTTTGGGAGTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTC-GGGTCAAAAATGGGATTTTTGGAAGTTCGGGGG
* *
155898 T-AAATGGTAATTTTTAGAAGGTTCGAGGTCAAAAGTGGGATTTTTGGAAGTT
65 TAAAATGGTAATTTTTAAAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
155950 TAGGGACCTC
Statistics
Matches: 314, Mismatches: 32, Indels: 17
0.87 0.09 0.05
Matches are distributed among these distances:
117 52 0.17
118 96 0.31
119 155 0.49
120 11 0.04
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33
Consensus pattern (117 bp):
CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGT
AAAATGGTAATTTTTAAAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
Found at i:155804 original size:178 final size:175
Alignment explanation
Indices: 155478--155949 Score: 592
Period size: 178 Copynumber: 2.7 Consensus size: 175
155468 TTCGGATGCA
* * * * *
155478 CGGGGGCAAAATGGT-AGTTTTGGAAGGTTCGGAGTAAAAAATAGGATTTTTGGAAGTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGG-GTAAAAAATGGGATTTTTGG-AGTTCGGGGG
* * * * * *
155542 TAAAATGGTAATTTTCAAAAGGTTTGAGGGTCAAAAATGGAACTTTTGGAAGTTTGGGGGTAAAA
64 TAAAATGGTAATTTTTAGAA-GTTTTAGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAA
* **
155607 TGGTAATTTTCGCAAGGTTCGGTGTCAAAAATGGGATTTTTGGAAGTT
128 TGGTAATTTTAGCAAGGTTCGAAGTCAAAAATGGGATTTTTGGAAGTT
* *
155655 TGGGGGTAAAATGGTAATTTTTAAAAGGTTCGAGGTAAAAAAATGGGATTTTTAGGAGTTCGGGG
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTCG-GGT-AAAAAATGGGATTTTT-GGAGTTCGGGG
*
155720 GTAAAATGGTAATTTTTAGAAGTTTTAGGGTCAAAAATGGGATTTTTGGGAGTTCGGGGGTAAAA
63 GTAAAATGGTAATTTTTAGAAGTTTTAGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAA
* * *
155785 TGGTAATTTTTAG-AAGGTTCGAAGTCAAAAGTGGTATTTTTGGGAGTT
128 TGGTAA-TTTTAGCAAGGTTCGAAGTCAAAAATGGGATTTTTGGAAGTT
* * *
155833 CGGGGGTAAAATGGTAATTTTTAGAGGGTTCGGGGTTAAAAATGGTATTTTTGGGAGTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTAGAAGGTTC-GGGTAAAAAATGGGATTTTT-GGAGTTCGGGGG
* * *
155898 T-AAATGGTAATTTTTAGAAG-GTTCGAGGTCAAAAGTGGGATTTTTGGAAGTT
64 TAAAATGGTAATTTTTAGAAGTTTTAG-GGTCAAAAATGGGATTTTTGGAAGTT
155950 TAGGGACCTC
Statistics
Matches: 258, Mismatches: 30, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
175 3 0.01
176 43 0.17
177 40 0.16
178 121 0.47
179 49 0.19
180 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33
Consensus pattern (175 bp):
CGGGGGTAAAATGGTAATTTTTAGAAGGTTCGGGTAAAAAATGGGATTTTTGGAGTTCGGGGGTA
AAATGGTAATTTTTAGAAGTTTTAGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGG
TAATTTTAGCAAGGTTCGAAGTCAAAAATGGGATTTTTGGAAGTT
Found at i:157262 original size:18 final size:19
Alignment explanation
Indices: 157241--157282 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
157231 ATTAGTATTA
*
157241 TTATTAATATTAA-AACAG
1 TTATTAATATTAATAAAAG
157259 TTATTAATATTAATAAAAG
1 TTATTAATATTAATAAAAG
157278 TTATT
1 TTATT
157283 GAAACGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (19 bp):
TTATTAATATTAATAAAAG
Found at i:157951 original size:34 final size:33
Alignment explanation
Indices: 157913--158010 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 33
157903 TTTATTTATT
*
157913 TTAAACTTTAAATTTGAAAATAATTTTAAATAAA
1 TTAAA-TTTAAATTTGAAAATAAATTTAAATAAA
*
157947 TTAAATTTAAATTTTAAAATAAATTTAAATTTTTAAA
1 TTAAATTTAAATTTGAAAATAAATTTAAA----TAAA
* *
157984 -CAAATTT-AATTTTAAAATAAATTTAAA
1 TTAAATTTAAATTTGAAAATAAATTTAAA
158011 GGGAATATGG
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
33 22 0.39
34 5 0.09
35 20 0.35
36 6 0.11
37 4 0.07
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (33 bp):
TTAAATTTAAATTTGAAAATAAATTTAAATAAA
Found at i:157970 original size:23 final size:23
Alignment explanation
Indices: 157934--157978 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
157924 ATTTGAAAAT
157934 AATTTTAAATAAA-TTAAATTTA
1 AATTTTAAATAAATTTAAATTTA
157956 AATTTTAAAATAAATTTAAATTT
1 AATTTT-AAATAAATTTAAATTT
157979 TTAAACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTTAAATAAATTTAAATTTA
Found at i:157996 original size:17 final size:18
Alignment explanation
Indices: 157914--158010 Score: 112
Period size: 18 Copynumber: 5.6 Consensus size: 18
157904 TTATTTATTT
*
157914 TAAACTTTAAATTTGAAAA
1 TAAA-TTTAAATTTTAAAA
* *
157933 TAATTTTAAA---TAAAT
1 TAAATTTAAATTTTAAAA
157948 TAAATTTAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
*
157966 TAAATTTAAATTTTTAAA
1 TAAATTTAAATTTTAAAA
*
157984 CAAATTT-AATTTTAAAA
1 TAAATTTAAATTTTAAAA
158001 TAAATTTAAA
1 TAAATTTAAA
158011 GGGAATATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.18
17 15 0.23
18 35 0.54
19 3 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
TAAATTTAAATTTTAAAA
Found at i:159778 original size:43 final size:42
Alignment explanation
Indices: 159605--159901 Score: 204
Period size: 43 Copynumber: 6.9 Consensus size: 42
159595 AAAACATCAT
* * ** * * *
159605 TATAAAACATGATCTTTAGCAACGCTTTTCTCATAAACGCCGC
1 TATAGAACATGGTCTTTAGCGGCGTTTTTC-CACAAACGTCGC
* * ** * *
159648 TATAGAACATGGTTTTTAGTC-ACGCTTTCCCCACAAAC-ACTAC
1 TATAGAACATGGTCTTTAG-CGGCG-TTTTTCCACAAACGTC-GC
* * * *
159691 TATAGAGA-ATGGTTTTTAGCGGTGCTTTTCCTACAAACGCCGC
1 TATAGA-ACATGGTCTTTAGCGGCGTTTTTCC-ACAAACGTCGC
* * * *
159734 TATAGAGCTTGGTCTTTAGCGGTGTTTTTACCACAAGCGTCGC
1 TATAGAACATGGTCTTTAGCGGCGTTTTT-CCACAAACGTCGC
* * *
159777 TATAGAACATGGCCTTTAGCAGCGTTTTTCTCACAAACGTCAC
1 TATAGAACATGGTCTTTAGCGGCGTTTTTC-CACAAACGTCGC
* * * *
159820 TATAGAACATGATCTTTAGCTGCGTTTTTCCCACAAATGTCGT
1 TATAGAACATGGTCTTTAGCGGCGTTTTT-CCACAAACGTCGC
** *
159863 TATAGAACATGGTCTTTAGCGATGCTTTTCCTACAAACG
1 TATAGAACATGGTCTTTAGCGGCGTTTTTCC-ACAAACG
159902 CCACTAACAT
Statistics
Matches: 201, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
42 9 0.04
43 183 0.91
44 9 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (42 bp):
TATAGAACATGGTCTTTAGCGGCGTTTTTCCACAAACGTCGC
Found at i:159780 original size:86 final size:86
Alignment explanation
Indices: 159690--159907 Score: 251
Period size: 86 Copynumber: 2.5 Consensus size: 86
159680 ACAAACACTA
* * * * *
159690 CTATAGAGA-ATGGTTTTTAGCGGTGCTTTTCCTACAAACGCCGCTATAGAGCTTGGTCTTTAGC
1 CTATAGA-ACATGGTCTTTAGCGGTGCTTTTCCTACAAACGCCACTATAGAACATGATCTTTAGC
* *
159754 GGTGTTTTTACCACAAGCGTCG
65 GGCGTTTTTACCACAAACGTCG
* * * * *
159776 CTATAGAACATGGCCTTTAGCAGCG-TTTTTCTCACAAACGTCACTATAGAACATGATCTTTAGC
1 CTATAGAACATGGTCTTTAGCGGTGCTTTTCCT-ACAAACGCCACTATAGAACATGATCTTTAGC
* * *
159840 TGCGTTTTTCCCACAAATGTCG
65 GGCGTTTTTACCACAAACGTCG
* *
159862 TTATAGAACATGGTCTTTAGCGATGCTTTTCCTACAAACGCCACTA
1 CTATAGAACATGGTCTTTAGCGGTGCTTTTCCTACAAACGCCACTA
159908 ACATTAACAG
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
85 7 0.07
86 94 0.88
87 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (86 bp):
CTATAGAACATGGTCTTTAGCGGTGCTTTTCCTACAAACGCCACTATAGAACATGATCTTTAGCG
GCGTTTTTACCACAAACGTCG
Found at i:160288 original size:66 final size:66
Alignment explanation
Indices: 160175--160306 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
160165 TTTGAAGCTA
* * *
160175 TAGCTGCAGTTCGTCATACTTTCTTTTAGACCTTGCTTCCCTTGTTGTTGCCT-TAGCTTCAAGT
1 TAGCTGAAGTTCATCATACTTTCTTTGAGACCTTGCTTCCCTTGTTGTTGCCTCT-GCTTCAAGT
160239 TG
65 TG
* * *
160241 TAGCTGAAGTTCATCATATTTTCTTTGAG-CCTCTGCTT-CTTTCGTTGTTGCCTCTGCTTTAAG
1 TAGCTGAAGTTCATCATACTTTCTTTGAGACCT-TGCTTCCCTT-GTTGTTGCCTCTGCTTCAAG
160304 TTG
64 TTG
160307 AGCAGTTTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
65 6 0.11
66 50 0.88
67 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (66 bp):
TAGCTGAAGTTCATCATACTTTCTTTGAGACCTTGCTTCCCTTGTTGTTGCCTCTGCTTCAAGTT
G
Found at i:160535 original size:15 final size:15
Alignment explanation
Indices: 160515--160545 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
160505 TCCTCCAAAT
160515 TAATCAAACTATCAC
1 TAATCAAACTATCAC
160530 TAATCAAACTATCAC
1 TAATCAAACTATCAC
160545 T
1 T
160546 TGAAGCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCAAACTATCAC
Found at i:163570 original size:30 final size:29
Alignment explanation
Indices: 163534--163686 Score: 141
Period size: 30 Copynumber: 5.1 Consensus size: 29
163524 TATTTTAGCC
*
163534 CCCTAAACTTTCTAAAAATTACATTTTGAT
1 CCCTAAACTTTCTAAAAATTACATTTT-AA
* *
163564 CTCTAAACATTT-TTAAAATTACATTTTAA
1 CCCTAAAC-TTTCTAAAAATTACATTTTAA
* *
163593 CACAC-AAACTTTCTAAAAATTGCACTTTAA
1 C-C-CTAAACTTTCTAAAAATTACATTTTAA
*
163623 CCCTTAAACTTTCTAAAAATTACATTTTGAC
1 CCC-TAAACTTTCTAAAAATTACATTTT-AA
* **
163654 CCCTAAACATTTC-AAAATTTTGATTTTAA
1 CCCTAAAC-TTTCTAAAAATTACATTTTAA
163683 CCCT
1 CCCT
163687 TTTTTCATTA
Statistics
Matches: 101, Mismatches: 14, Indels: 17
0.77 0.11 0.13
Matches are distributed among these distances:
28 1 0.01
29 11 0.11
30 77 0.76
31 12 0.12
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.39
Consensus pattern (29 bp):
CCCTAAACTTTCTAAAAATTACATTTTAA
Found at i:163631 original size:60 final size:60
Alignment explanation
Indices: 163513--163650 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
163503 CTTTGTTTTA
* * * * * * *
163513 TTTTAAAATTATATTTTAGCCCCCTAAACTTTCTAAAAATTACATTTTGATCTCTAAACAT
1 TTTTAAAATTACATTTTAACACACTAAACTTTCTAAAAATTACACTTTAACCTCTAAAC-T
*
163574 TTTTAAAATTACATTTTAACACAC-AAACTTTCTAAAAATTGCACTTTAACC-CTTAAACT
1 TTTTAAAATTACATTTTAACACACTAAACTTTCTAAAAATTACACTTTAACCTC-TAAACT
*
163633 TTCTAAAAATTACATTTT
1 TT-TTAAAATTACATTTT
163651 GACCCCTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
59 4 0.06
60 42 0.64
61 20 0.30
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.41
Consensus pattern (60 bp):
TTTTAAAATTACATTTTAACACACTAAACTTTCTAAAAATTACACTTTAACCTCTAAACT
Found at i:175198 original size:54 final size:54
Alignment explanation
Indices: 175116--175223 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
175106 CCTGTTCAAG
175116 CATTTTCACACTAAGATAATGGATAATAGACTAATATCACAATGTACACAAGGA
1 CATTTTCACACTAAGATAATGGATAATAGACTAATATCACAATGTACACAAGGA
175170 CATTTTCACACTAAGATAATGGATAATAGACTAATATCACAATGTACACAAGGA
1 CATTTTCACACTAAGATAATGGATAATAGACTAATATCACAATGTACACAAGGA
175224 TCTACATGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (54 bp):
CATTTTCACACTAAGATAATGGATAATAGACTAATATCACAATGTACACAAGGA
Found at i:175890 original size:192 final size:194
Alignment explanation
Indices: 175562--176404 Score: 973
Period size: 196 Copynumber: 4.3 Consensus size: 194
175552 TCTACAGGTT
* * ** *
175562 TGGAGGGAAAGGTTGAAGCCACAATGGTGAACCTTATACCTTAGATGTGATGGCAAAGATTGAAG
1 TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTAGATGTGATGGGAAAGATTGAAG
* * * *
175627 CCGTATTGGTGAATCGTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCACAACGACGAACCT
66 CCATAATGGTGAATCGTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCCACAACGGCGAACCT
*
175692 TATACCTTAG-AAAATAATGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCACGAAGATA
131 TATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCACGAAGATA
175755 TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTAGATGTGATGGGAAA-ATTGAAG
1 TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTAGATGTGATGGGAAAGATTGAAG
* ** * * **
175819 CCACAATGGAAAATCGTGTACCATAAAGATATGGAGAGAAAGGTTGAAGCCGTAACGGCGAACCT
66 CCATAATGGTGAATCGTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCCACAACGGCGAACCT
* * *
175884 TATACCTTAGAAAAAT-ATGGGAAAGATTAAAGCCGCAACGGCGAATCTTGTTCCAC-AGAGATA
131 TATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCACGA-AGATA
* * * * * *
175947 TGGAGGGAAAGGTTGAAGCCTCAA-CAGCAAACCTTATACTTTAGATGTGATGAGAAAGATTGAA
1 TGGAGGGAAAGGTTAAAGCCGCAATGA-CGAACCTTATACCTTAGATGTGATGGGAAAGATTGAA
** * * * * *
176011 GCCATAACAGCGAATTGTGTACCCTTG-AGATATAGAGGGAAAGGTTGAAGTCACAACGGCGAAC
65 GCCATAATGGTGAATCGTGTA-CCATGAAGATATGGAGGGAAAGGTTGAAGCCACAACGGCGAAC
*
176075 CTTATACCTTAGAAAAATAATGGGAACA-ATTGAAGCCGCAACGACGAATCTTGTACCACGGAGA
129 CTTATACCTTAGAAAAATAATGGGAA-AGATTGAAGCCGCAACGACGAATCTTGTACCACGAAGA
176139 TA
193 TA
* * * * * *
176141 TGGAGGGAAAGGTAAAAGACGAAACGACGAACCTTATACCTTAGTGAGGTTATGGGAAAGATTGA
1 TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTA--GATGTGATGGGAAAGATTGA
* * * * * *
176206 AGCCATAATGGTGAACCGTGTACCATGGAA-ATATGGAGTGAAAGGTTAAAGCCGCAACAGTGAA
64 AGCCATAATGGTGAATCGTGTACCAT-GAAGATATGGAGGGAAAGGTTGAAGCCACAACGGCGAA
* * ** * * *
176270 CCTTATACCTTAGAAAAATAATGGGAAAGATTGAAGCTGCAATGGGGAATCATGTACCATGGAGA
128 CCTTATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCACGAAGA
176335 TA
193 TA
* ** * ** ** * * *
176337 TGGAAGGAACTGTTGAAGCCATAATGGTGAACCTTACACATTGGAAATGTGATGGGAAAGATTGA
1 TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTT--AGATGTGATGGGAAAGATTGA
176402 AGC
64 AGC
176405 TACAACGACG
Statistics
Matches: 545, Mismatches: 89, Indels: 29
0.82 0.13 0.04
Matches are distributed among these distances:
191 2 0.00
192 161 0.30
193 128 0.23
194 76 0.14
195 6 0.01
196 170 0.31
197 1 0.00
198 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.21
Consensus pattern (194 bp):
TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTAGATGTGATGGGAAAGATTGAAG
CCATAATGGTGAATCGTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCCACAACGGCGAACCT
TATACCTTAGAAAAATAATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCACGAAGATA
Found at i:176100 original size:49 final size:49
Alignment explanation
Indices: 175566--176425 Score: 328
Period size: 49 Copynumber: 17.7 Consensus size: 49
175556 CAGGTTTGGA
* * *
175566 GGGAAAGGTTGAAGCCACAATGGTGAACCTTATACCTTAG--ATGTGAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * ** ** * * * * * * *
175613 GGCAAAGATTGAAGCCGTATTGGTGAATCGTGTACCATGGAGATATGGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATAT-GAT
* *
175662 GGGAAAGGTTGAAGCCACAACGACGAACCTTATACCTTAGAAA-ATAAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * * *
175710 GGGAAAGATTGAAGCCGCAACGACGAATCTTATACC--ACGAAGATATGGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTA-GAA-ATAT-GAT
* * * * *
175759 GGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTAG--ATGTGAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * ** * * * *
175806 GGGAAA-ATTGAAGCCACAATGGAAAATCGTGTACCATA-AAGATATGGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAA-ATAT-GAT
* ** *
175854 GAGAAAGGTTGAAGCCGTAACGGCGAACCTTATACCTTAGAAAAAT-AT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * * * * * ** *
175902 GGGAAAGATTAAAGCCGCAACGGCGAATCTTGTTCCACAGAGATATGGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATAT-GAT
* * * * *
175951 GGGAAAGGTTGAAGCCTCAACAGCAAACCTTATACTTTAG--ATGTGAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * * * * * *
175998 GAGAAAGATTGAAGCCATAACAGCGAA-TTGTGTACCCTT-GAGATATAGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCT-TATA-CCTTAGAAATAT-GAT
* * *
176047 GGGAAAGGTTGAAGTCACAACGGCGAACCTTATACCTTAGAAAAATAAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * * * * *** *
176096 GGGAACA-ATTGAAGCCGCAACGACGAATCTTGTACCACGGAGATATGGA-
1 GGGAA-AGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATAT-GAT
** * * ** ** *
176145 GGGAAAGGTAAAAGACGA-AACGACGAACCTTATACCTTAGTGAGGTTAT
1 GGGAAAGGTTGAAG-CCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * * * * * * *
176194 GGGAAAGATTGAAGCCATAATGGTGAACCGTGTACCATGGAAATATGGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATAT-GAT
* * * * * * *
176243 GTGAAAGGTTAAAGCCGCAACAGTGAACCTTATACCTTAGAAAAATAAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* ** * * * * * * * *
176292 GGGAAAGATTGAAGCTGCAATGGGGAATCATGTACCATGGAGATATGGA-
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATAT-GAT
* ** * * * * * * *
176341 AGGAACTGTTGAAGCCATAATGGTGAACCTTACACATTGGAAATGTGAT
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
* * * *
176390 GGGAAAGATTGAAGCTACAACGACGAATCTTATACC
1 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACC
176426 CTAAAGTTGA
Statistics
Matches: 576, Mismatches: 198, Indels: 76
0.68 0.23 0.09
Matches are distributed among these distances:
46 28 0.05
47 73 0.13
48 94 0.16
49 365 0.63
50 15 0.03
51 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (49 bp):
GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAATATGAT
Found at i:176147 original size:98 final size:97
Alignment explanation
Indices: 175562--176425 Score: 742
Period size: 98 Copynumber: 8.9 Consensus size: 97
175552 TCTACAGGTT
* * * *
175562 TGGAGGGAAAGGTTGAAGCCACAATGGTGAACCTTATACCTTAG-ATGTGATGGCAAAGATTGAA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAAGTGATGGGAAAGATTGAA
* ** ** * *
175626 GCCGTATTGGTGAATCGTGTACCATGGAGATA
66 GCCGCAACGACGAATCTTGTACCACGGAGATA
* * *
175658 TGGAGGGAAAGGTTGAAGCCACAACGACGAACCTTATACCTTAGAAAATAATGGGAAAGATTGAA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAAGTGATGGGAAAGATTGAA
* *
175723 GCCGCAACGACGAATCTTATACCACGAAGATA
66 GCCGCAACGACGAATCTTGTACCACGGAGATA
* * * * *
175755 TGGAGGGAAAGGTTAAAGCCGCAATGACGAACCTTATACCTTAG-ATGTGATGGGAAA-ATTGAA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAAGTGATGGGAAAGATTGAA
* * * * ***
175818 GCCACAATGGA-AAATCGTGTACCATAAAGATA
66 GCCGCAA-CGACGAATCTTGTACCACGGAGATA
* ** * *
175850 TGGAGAGAAAGGTTGAAGCCGTAACGGCGAACCTTATACCTTAGAAAAAT-ATGGGAAAGATTAA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAG-AAAGTGATGGGAAAGATTGA
* * *
175914 AGCCGCAACGGCGAATCTTGTTCCACAGAGATA
65 AGCCGCAACGACGAATCTTGTACCACGGAGATA
* * * * * *
175947 TGGAGGGAAAGGTTGAAGCCTCAACAGCAAACCTTATACTTTAG-ATGTGATGAGAAAGATTGAA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAAGTGATGGGAAAGATTGAA
** *
176011 GCCATAAC-AGCGAAT-TGTGTACC-CTTGAGATA
66 GCCGCAACGA-CGAATCT-TGTACCAC-GGAGATA
* * * *
176043 TAGAGGGAAAGGTTGAAGTCACAACGGCGAACCTTATACCTTAGAAAAATAATGGGAACA-ATTG
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAG-AAAGTGATGGGAA-AGATTG
176107 AAGCCGCAACGACGAATCTTGTACCACGGAGATA
64 AAGCCGCAACGACGAATCTTGTACCACGGAGATA
** * * * * *
176141 TGGAGGGAAAGGTAAAAGACGA-AACGACGAACCTTATACCTTAGTGAGGTTATGGGAAAGATTG
1 TGGAGGGAAAGGTTGAAG-CCACAACGGCGAACCTTATACCTTAG-AAAGTGATGGGAAAGATTG
** * ** * * * *
176205 AAGCCATAATGGTGAACCGTGTACCATGGAAATA
64 AAGCCGCAACGACGAATCTTGTACCACGGAGATA
* * * * * * *
176239 TGGAGTGAAAGGTTAAAGCCGCAACAGTGAACCTTATACCTTAGAAAAATAATGGGAAAGATTGA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAG-AAAGTGATGGGAAAGATTGA
* * ** * *
176304 AGCTGCAATGGGGAATCATGTACCATGGAGATA
65 AGCCGCAACGACGAATCTTGTACCACGGAGATA
* ** * * * * * *
176337 TGGAAGGAACTGTTGAAGCCATAATGGTGAACCTTACACATTGGAAATGTGATGGGAAAGATTGA
1 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAA-GTGATGGGAAAGATTGA
** *
176402 AGCTACAACGACGAATCTTATACC
65 AGCCGCAACGACGAATCTTGTACC
176426 CTAAAGTTGA
Statistics
Matches: 616, Mismatches: 132, Indels: 38
0.78 0.17 0.05
Matches are distributed among these distances:
95 71 0.12
96 135 0.22
97 152 0.25
98 253 0.41
99 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (97 bp):
TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAAAGTGATGGGAAAGATTGAA
GCCGCAACGACGAATCTTGTACCACGGAGATA
Found at i:178233 original size:32 final size:32
Alignment explanation
Indices: 178197--178292 Score: 192
Period size: 32 Copynumber: 3.0 Consensus size: 32
178187 ATTTTCTCGA
178197 GAAAAAGATTGTTTATTTGTGAAATTTAATTT
1 GAAAAAGATTGTTTATTTGTGAAATTTAATTT
178229 GAAAAAGATTGTTTATTTGTGAAATTTAATTT
1 GAAAAAGATTGTTTATTTGTGAAATTTAATTT
178261 GAAAAAGATTGTTTATTTGTGAAATTTAATTT
1 GAAAAAGATTGTTTATTTGTGAAATTTAATTT
178293 TCTAATAACA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (32 bp):
GAAAAAGATTGTTTATTTGTGAAATTTAATTT
Found at i:186185 original size:18 final size:19
Alignment explanation
Indices: 186153--186188 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
186143 TAATTATACA
186153 TGATATAATTAAAAATTTT
1 TGATATAATTAAAAATTTT
*
186172 TGATA-AATTTAAAATTT
1 TGATATAATTAAAAATTT
186189 AAAATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
TGATATAATTAAAAATTTT
Found at i:187930 original size:40 final size:40
Alignment explanation
Indices: 187788--187928 Score: 162
Period size: 39 Copynumber: 3.5 Consensus size: 40
187778 CCCATAAATG
*
187788 CCGCTATTGCTCTTTACCTTTGGCGGCGGTTT-TAGGAAAAACG
1 CCGCTATTG--CTTTACCTTTGGCGGC-GTTTAT-GGAAAAACT
* * *
187831 CCACTATTACTTTACCTTTGGCTGCGTTTATGGAAAACACT
1 CCGCTATTGCTTTACCTTTGGCGGCGTTTATGGAAAA-ACT
* *
187872 --GCTATTGCTTTACCTTTTGCGGTGTTTATGGAAAAACT
1 CCGCTATTGCTTTACCTTTGGCGGCGTTTATGGAAAAACT
187910 CCGCTATTGCTTTACCTTT
1 CCGCTATTGCTTTACCTTT
187929 TGGGACGTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.04
39 30 0.35
40 27 0.32
41 18 0.21
43 7 0.08
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (40 bp):
CCGCTATTGCTTTACCTTTGGCGGCGTTTATGGAAAAACT
Found at i:188775 original size:27 final size:27
Alignment explanation
Indices: 188744--188809 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
188734 TAAATTCAAT
188744 GTTTCAATCTTTCTTTTCTTTCAAAAA
1 GTTTCAATCTTTCTTTTCTTTCAAAAA
188771 GTTTCAATCTTTCTTTTCTTTCAAAAA
1 GTTTCAATCTTTCTTTTCTTTCAAAAA
188798 GTTTCAATCTTT
1 GTTTCAATCTTT
188810 TATAAGTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.05, T:0.53
Consensus pattern (27 bp):
GTTTCAATCTTTCTTTTCTTTCAAAAA
Found at i:197727 original size:21 final size:22
Alignment explanation
Indices: 197691--197732 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
197681 TTTTTCTGAT
197691 TTTTAGTTAAAATAAA-TTTTA
1 TTTTAGTTAAAATAAACTTTTA
* *
197712 TTTTAGTTAGAGTAAACTTTT
1 TTTTAGTTAAAATAAACTTTT
197733 TCTTAAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTTAGTTAAAATAAACTTTTA
Found at i:200183 original size:43 final size:43
Alignment explanation
Indices: 200119--200686 Score: 656
Period size: 43 Copynumber: 13.2 Consensus size: 43
200109 TTTACATAAT
* *
200119 GCCGCTAAAGAACATGATCTTTAGCCGCGCTTTTCCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* * *
200162 GCCGCTAAA-AACCATGGTCTTTAGCGGCCCTTCTCCCACAAAC
1 GCCGCTAAAGAA-CATGATCTTTAGCGGCGCTTATCCCACAAAC
* * *
200205 GTCGCTAAAGAACATGGTCTTTAGCGGTGCTTA-CTCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATC-CCACAAAC
* * *
200248 GCCGCTAAAGAACATGATCTTTATCGGCGCTTACCCCAAAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* * * **
200291 ACCGCTAAAGAGCATGATCTTTAGCGGTGCTTATAACACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* * ** * * *
200334 ACCGCTAAAAAACATGGCCTTTAGTGGCACTTACCCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* *
200377 GCCGTTAAAGAACATGATCTTTAGCGGCGCTTATACCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* *
200420 GTCGCTAAAGAACATGGTCTTTAGCGGCGCTTA-CTCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATC-CCACAAAC
* * * *
200463 GCCGCTAAAGAACATGGTCTTTATCGGCGCTTACCCCAAAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* * * * * **
200506 GTCGCTAATGAGCGTGATCTTTAGCGGTGCTTATAACACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* * * *
200549 ACCGCTAAAGAACATGACCTTTAGCGGCACTTACCCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
*
200592 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATACCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
* * * * *
200635 GTCGCTAAAGAACATGGTCTTTAGCGACGCTTTTCTCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
200678 GCCGCTAAA
1 GCCGCTAAA
200687 ATTATCAGAT
Statistics
Matches: 438, Mismatches: 81, Indels: 12
0.82 0.15 0.02
Matches are distributed among these distances:
42 3 0.01
43 431 0.98
44 4 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGCTTATCCCACAAAC
Found at i:201037 original size:21 final size:21
Alignment explanation
Indices: 201008--201047 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
200998 ATTCTCTTTT
*
201008 CTCGCTGTTGCCTTCGCTTCC
1 CTCGCTGTTGCCTCCGCTTCC
*
201029 CTCGTTGTTGCCTCCGCTT
1 CTCGCTGTTGCCTCCGCTT
201048 TAAGTTGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (21 bp):
CTCGCTGTTGCCTCCGCTTCC
Found at i:206676 original size:19 final size:19
Alignment explanation
Indices: 206652--206697 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
206642 AAATCATCAC
206652 TTATATTTATATTTAGTTG
1 TTATATTTATATTTAGTTG
*
206671 TTATATTCATATTTAGTTG
1 TTATATTTATATTTAGTTG
206690 TTATATTT
1 TTATATTT
206698 GCTTTCCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (19 bp):
TTATATTTATATTTAGTTG
Found at i:206742 original size:41 final size:41
Alignment explanation
Indices: 206698--207058 Score: 278
Period size: 41 Copynumber: 8.9 Consensus size: 41
206688 TGTTATATTT
* * * *
206698 GCTTTCCCAGAAGTGCCGTTATTGCTCTAACCTTTAGTGGT
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * * *
206739 GCTTTCTCATAAGCGCCGCTATTACTCTGACCTTTAGCGGC
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * * ** * * *
206780 GCTTACTCAGAAG-ACCATTATTACTTTGACCTTTAGTGGC
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * * *
206820 ACTTTCCTAGAAGCGCCGCTATTGCTCTAACCTTTAGCGGC
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * * * *
206861 GTTTTCCCAAAAATGTCGCTATTGCTCTAACCTTTAGCGGC
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * * *
206902 GCTTACCCA-AAATCGTCGCTATTGCTCTGACCTTTAGCGGT
1 GCTTTCCCAGAAGT-GCCGCTATTGCTCTGACCTTTAGCGGC
* * * * * * *
206943 GCTTGCCCATAAGAGCTGCTATTGCTTTGACCTTTAGTGAC
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * * ***
206984 GCCTTCCTAAAAGCATCGCTATTGCTCTGACCTTTAGCGGC
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
* * **
207025 GCCTTCCAAGAAGCACCGCTATTGCTCT-ACCTTT
1 GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTT
207059 TGAGGCGTTT
Statistics
Matches: 257, Mismatches: 60, Indels: 7
0.79 0.19 0.02
Matches are distributed among these distances:
40 41 0.16
41 214 0.83
42 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (41 bp):
GCTTTCCCAGAAGTGCCGCTATTGCTCTGACCTTTAGCGGC
Found at i:207082 original size:40 final size:41
Alignment explanation
Indices: 207038--207126 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 41
207028 TTCCAAGAAG
* *
207038 CACCGCTATTGCTCTACCTTTTGAGGCG-TTTATGTAAAAA
1 CACCGCTATTACTCTACCTTTCGAGGCGTTTTATGTAAAAA
* * * * **
207078 CACCGTTATTACTTTACCTTTCGTGGCGTTTTCTGTCCAAA
1 CACCGCTATTACTCTACCTTTCGAGGCGTTTTATGTAAAAA
207119 CACCGCTA
1 CACCGCTA
207127 AAAGTGCCGC
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 23 0.59
41 16 0.41
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (41 bp):
CACCGCTATTACTCTACCTTTCGAGGCGTTTTATGTAAAAA
Found at i:207473 original size:17 final size:17
Alignment explanation
Indices: 207448--207483 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
207438 TCGCCATTCA
*
207448 AACTCTTTTGTAGTTAC
1 AACTATTTTGTAGTTAC
207465 AACTATTTTGTAGTTAC
1 AACTATTTTGTAGTTAC
207482 AA
1 AA
207484 TATAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (17 bp):
AACTATTTTGTAGTTAC
Found at i:211467 original size:30 final size:30
Alignment explanation
Indices: 211414--211601 Score: 204
Period size: 30 Copynumber: 6.3 Consensus size: 30
211404 AAGAATTCAG
*
211414 GGTTAAAATGTAATTTT-TAAAAGTTTAGA
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGA
* *
211443 GGTAAAAATGTAATTTTGTAAAAGTTTAG-
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGA
* * * *
211472 GGTCAAAATGTGATTTTGGATAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGA
* *
211502 GGTTAAAGTGCAATTTTGGAAAAGTTTA-A
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGA
* *
211531 GGGTTAAAATGTAATTTTAGAAAAGTTTAGG
1 -GGTTAAAATGTAATTTTGGAAAAGTTTAGA
**
211562 GGTTAAAATGTAATTTTAAAAAAAGTTTA-A
1 GGTTAAAATGTAATTTT-GGAAAAGTTTAGA
211592 GGGTTAAAAT
1 -GGTTAAAAT
211602 ACAATTTTCA
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
29 41 0.30
30 76 0.56
31 19 0.14
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (30 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTAGA
Found at i:211559 original size:60 final size:59
Alignment explanation
Indices: 211412--211601 Score: 247
Period size: 60 Copynumber: 3.2 Consensus size: 59
211402 CGAAGAATTC
* * * *
211412 AGGGTTAAAATGTAATTTTTAAAAGTTTAGAGGTAAAAATGTAATTTTGTAAAAGTTT-
1 AGGGTTAAAATGTAATTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTGAAAAAGTTTA
* * * * * *
211470 AGGGTCAAAATGTGATTTTGGATAAGTTTAGGGGTTAAAGTGCAATTTTGGAAAAGTTTA
1 AGGGTTAAAATGTAATTTT-GAAAAGTTTAGGGGTTAAAATGTAATTTTGAAAAAGTTTA
*
211530 AGGGTTAAAATGTAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAAAAAAGTTTA
1 AGGGTTAAAATGTAATTTT-GAAAAGTTTAGGGGTTAAAATGTAATTTT-GAAAAAGTTTA
211591 AGGGTTAAAAT
1 AGGGTTAAAAT
211602 ACAATTTTCA
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
58 17 0.15
59 32 0.29
60 43 0.38
61 20 0.18
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (59 bp):
AGGGTTAAAATGTAATTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTGAAAAAGTTTA
Found at i:212232 original size:20 final size:20
Alignment explanation
Indices: 212209--212246 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
212199 TCCATTTCCC
212209 TTTTTCAAA-ACTTATTTTGA
1 TTTTTCAAAGA-TTATTTTGA
*
212229 TTTTTTAAAGATTATTTT
1 TTTTTCAAAGATTATTTT
212247 TCTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTCAAAGATTATTTTGA
Found at i:213674 original size:50 final size:49
Alignment explanation
Indices: 213627--213831 Score: 166
Period size: 50 Copynumber: 4.1 Consensus size: 49
213617 TCTAAGGTGC
* *
213627 TAGGTTCGCCGTTGCGGCCTCAACCTTCCCCTTCACATCTTTTAAGGTA
1 TAGGTTCGCCGTTACGGCCTCAACCTTCCCATTCACATCTTTTAAGGTA
* ** * * *
213676 TAGGGTTTGTTGTTACGGCCTCAACCTTTCCC-TTCATATC-TCTATGGTA
1 TA-GGTTCGCCGTTACGGCCTCAACC-TTCCCATTCACATCTTTTAAGGTA
* * * * * *
213725 TCGGGTTCGCAGTTACGGCCTCAACCTTTCCAATCATATCTTTTTAGGTA
1 T-AGGTTCGCCGTTACGGCCTCAACCTTCCCATTCACATCTTTTAAGGTA
** *
213775 CCGGGTTCGCCGTTACGACCTCAACCTTTCCCATT-ACATCTTCTT-AGGTA
1 -TAGGTTCGCCGTTACGGCCTCAACC-TTCCCATTCACATCTT-TTAAGGTA
213825 TCAGGTT
1 T-AGGTT
213832 TTTCGTTCCA
Statistics
Matches: 123, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
48 4 0.03
49 37 0.30
50 69 0.56
51 13 0.11
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.36
Consensus pattern (49 bp):
TAGGTTCGCCGTTACGGCCTCAACCTTCCCATTCACATCTTTTAAGGTA
Found at i:213816 original size:149 final size:149
Alignment explanation
Indices: 213629--213954 Score: 403
Period size: 149 Copynumber: 2.2 Consensus size: 149
213619 TAAGGTGCTA
* *
213629 GGTTCGCCGTTGCGGCCTCAACC-TTCCCCTTCACATCTT-TTAAGGTAT-AGGGTTTGTT-GTT
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCATTCACATCTTCTT-AGGTATCA-GGTTT-TTCGTT
* * * *
213690 ACGGCCTCAACCTTTCCCTTCATATC-TCTATGGTATCGGGTTCGCAGTTACGGCCTCAACCTTT
63 ACAGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCGGGTTCACAGTTACAGCCTCAACCTTT
**
213754 CCAATCATATCTTTTTAGGTACCG
127 CCAATCATATCTTCAT-GGTACCG
* *
213778 GGTTCGCCGTTACGACCTCAACCTTTCCCATT-ACATCTTCTTAGGTATCAGGTTTTTCGTTCCA
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCATTCACATCTTCTTAGGTATCAGGTTTTTCGTTACA
** * * **
213842 GCCTCAACCTTTCCCTTTGTATCTTCATGGTACCGGGTTCACCGTTGCAGCCTCAACCTTTCCCT
66 GCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACAGTTACAGCCTCAACCTTTCCAA
* *
213907 TCGTATCTTCATGGTATCG
131 TCATATCTTCATGGTACCG
213926 GGTTCGCCGTTGCGACCTCAACCTTTCCC
1 GGTTCGCCGTTGCGACCTCAACCTTTCCC
213955 TTCGTATCTT
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
148 36 0.24
149 105 0.69
150 12 0.08
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (149 bp):
GGTTCGCCGTTGCGACCTCAACCTTTCCCATTCACATCTTCTTAGGTATCAGGTTTTTCGTTACA
GCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGGTTCACAGTTACAGCCTCAACCTTTCCAA
TCATATCTTCATGGTACCG
Found at i:213977 original size:98 final size:97
Alignment explanation
Indices: 213629--214341 Score: 432
Period size: 99 Copynumber: 7.4 Consensus size: 97
213619 TAAGGTGCTA
* * * * * * * ** *
213629 GGTTCGCCGTTGCGGCCTCAACCTTCCCCTTCACATCTTTTAAGGTATAGGGTTTGTTGTTACGG
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATC-TTCATGGTATCGGGTTCGCCGTTGC-G
*
213694 CCTCAACCTTTCCCTTCATATC-TCTATGGTATCG
64 CCTCAACCTTTCCCTTCACATCTTC-ATGGTATCG
* * * ** ** * *
213728 GGTTCGCAGTTACGGCCTCAACCTTTCCAATCATATCTTTTTAGGTACCGGGTTCGCCGTTACGA
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCAT-GGTATCGGGTTCGCCGTTGCG-
* *
213793 CCTCAACCTTTCCCATT-ACATCTTCTTAGGTATCA
64 CCTCAACCTTTCCC-TTCACATCTTCAT-GGTATCG
*** * ** * *
213828 GGTTTTTCGTT-CCAGCCTCAACCTTTCCCTTTGTATCTTCATGGTACCGGGTTCACCGTTGCAG
1 GGTTCGCCGTTGCGA-CCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGC-G
**
213892 CCTCAACCTTTCCCTTCGTATCTTCATGGTATCG
64 CCTCAACCTTTCCCTTCACATCTTCATGGTATCG
*
213926 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCGTTGCGAC
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCG-C
* *
213991 CTCAACCTTTTCCATCACATCTT--T--TA---
65 CTCAACCTTTCCCTTCACATCTTCATGGTATCG
* * * *
214017 -------AGTNGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGTCGTTGCGAC
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCG-C
* * * * *
214075 CTCAACCTTTTCCATCACATCTT-TTAAGTACCG
65 CTCAACCTTTCCCTTCACATCTTCAT-GGTATCG
* * * * * * * ** *
214108 GATTCGCTGTCGCGACCTCAGTCC-TTCCCTTTAAATCTTCATGGTA-CAGAGTTTACTGTTATG
1 GGTTCGCCGTTGCGACCTCA-ACCTTTCCCTTCATATCTTCATGGTATC-GGGTTCGCCG-T-TG
* *
214171 -GCCTCAACCTTT-CCTATCACATCTTCTAAGGTATCA
62 CGCCTCAACCTTTCCCT-TCACATCTTC-ATGGTATCG
* * ** * * * *
214207 GATTCACCGTCACGGCCTCAATCC-TTCCCTTCAAATCCTCATGGTATCGGGTTCGCCGTTGTGG
1 GGTTCGCCGTTGCGACCTCAA-CCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTG-CG
* * *
214271 CCTCAACCTTTCCCATCATATCTTCTAAGGTATCG
64 CCTCAACCTTTCCCTTCACATCTTC-ATGGTATCG
* * *
214306 GGTTTGCCATTGC-AGC-CAACCTTTCCCTTCATATCT
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCT
214342 CTAGGGTAAT
Statistics
Matches: 488, Mismatches: 89, Indels: 76
0.75 0.14 0.12
Matches are distributed among these distances:
84 78 0.16
85 1 0.00
88 2 0.00
94 2 0.00
96 3 0.01
97 21 0.04
98 141 0.29
99 196 0.40
100 44 0.09
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (97 bp):
GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTCGCCGTTGCGCC
TCAACCTTTCCCTTCACATCTTCATGGTATCG
Found at i:214013 original size:49 final size:49
Alignment explanation
Indices: 213629--214000 Score: 356
Period size: 49 Copynumber: 7.5 Consensus size: 49
213619 TAAGGTGCTA
* * * * * *
213629 GGTTCGCCGTTGCGGCCTCAACCTTCCCCTTCACATCTTTTAAGGTATAG
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATC-TTCATGGTATCG
* ** * *
213679 GGTTTGTTGTTACGGCCTCAACCTTTCCCTTCATATC-TCTATGGTATCG
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTC-ATGGTATCG
* * * ** ** *
213728 GGTTCGCAGTTACGGCCTCAACCTTTCCAATCATATCTTTTTAGGTACCG
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCAT-GGTATCG
* * * *
213778 GGTTCGCCGTTACGACCTCAACCTTTCCCATT-ACATCTTCTTAGGTATCA
1 GGTTCGCCGTTGCGACCTCAACCTTTCCC-TTCATATCTTCAT-GGTATCG
*** * ** *
213828 GGTTTTTCGTT-CCAGCCTCAACCTTTCCCTTTGTATCTTCATGGTACCG
1 GGTTCGCCGTTGCGA-CCTCAACCTTTCCCTTCATATCTTCATGGTATCG
* *
213877 GGTTCACCGTTGC-AGCCTCAACCTTTCCCTTCGTATCTTCATGGTATCG
1 GGTTCGCCGTTGCGA-CCTCAACCTTTCCCTTCATATCTTCATGGTATCG
*
213926 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCG
1 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTATCG
213975 GGTTCGCCGTTGCGACCTCAACCTTT
1 GGTTCGCCGTTGCGACCTCAACCTTT
214001 TCCATCACAT
Statistics
Matches: 274, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.00
49 163 0.59
50 109 0.40
51 1 0.00
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.35
Consensus pattern (49 bp):
GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTATCG
Found at i:214078 original size:84 final size:83
Alignment explanation
Indices: 213936--214103 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 83
213926 GGTTCGCCGT
213936 TGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTT
1 TGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTT
214001 TCCATCACATCTTTTAAG
66 TCCATCACATCTTTTAAG
*
214019 TNGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGTCGTTGCGACCTCAACCTT
1 T-GCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCGTTGCGACCTCAACCTT
214084 TTCCATCACATCTTTTAAG
65 TTCCATCACATCTTTTAAG
214103 T
1 T
214104 ACCGGATTCG
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 1 0.01
84 82 0.99
ACGTcount: A:0.17, C:0.32, G:0.15, T:0.36
Consensus pattern (83 bp):
TGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTT
TCCATCACATCTTTTAAG
Found at i:214178 original size:182 final size:181
Alignment explanation
Indices: 213843--214200 Score: 393
Period size: 182 Copynumber: 2.0 Consensus size: 181
213833 TTCGTTCCAG
* *
213843 CCTCAACCTTTCCCTTTGTATCTTCATGGTACCGGGTTCACCGTTGCAGCCTCAACCTTTCCCTT
1 CCTCAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTCACCGTTGCAGCCTCAACCTTTCCCAT
** * * * * **
213908 CGTATCTTCATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCGTATCTTCATGGTAT
66 CACATCTTCATAGTACCGGATTCGCCGTCGCGACCTCAACCTTTCCCTTCAAATCTTCATGGTAT
* * * *
213973 CGGGTTCGCCGTTGCGACCTCAACCTTTTCC-ATCACATCTTTTAAGTNGCGA
131 CGAGTTCACCGTTACGACCTCAACC-TTTCCTATCACATCTTCTAAGT-GCGA
* ** *
214025 CCTCAACCTTTCCCTTCGTATCTTCATGGTATCGGGTTCGTCGTTGC-GACCTCAACCTTTTCCA
1 CCTCAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTCACCGTTGCAG-CCTCAACCTTTCCCA
* * * *
214089 TCACATCTT-TTAAGTACCGGATTCGCTGTCGCGACCTCAGTCC-TTCCCTTTAAATCTTCATGG
65 TCACATCTTCAT-AGTACCGGATTCGCCGTCGCGACCTCA-ACCTTTCCCTTCAAATCTTCATGG
* * * *
214152 TA-CAGAGTTTACTGTTATGGCCTCAACCTTTCCTATCACATCTTCTAAG
128 TATC-GAGTTCACCGTTACGACCTCAACCTTTCCTATCACATCTTCTAAG
214201 GTATCAGATT
Statistics
Matches: 145, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
181 8 0.06
182 135 0.93
183 2 0.01
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.35
Consensus pattern (181 bp):
CCTCAACCTTTCCCTTCGTATCTTCATGGTACCGGGTTCACCGTTGCAGCCTCAACCTTTCCCAT
CACATCTTCATAGTACCGGATTCGCCGTCGCGACCTCAACCTTTCCCTTCAAATCTTCATGGTAT
CGAGTTCACCGTTACGACCTCAACCTTTCCTATCACATCTTCTAAGTGCGA
Found at i:220508 original size:24 final size:24
Alignment explanation
Indices: 220457--220509 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
220447 CATCATTGTC
* * *
220457 ATTTGTTCCTGTAACTGTTCTTGC
1 ATTTGTTCCTGCAACTCTTCTTGA
* *
220481 ATTTGTTCCTGCATCTCTTTTTGA
1 ATTTGTTCCTGCAACTCTTCTTGA
220505 ATTTG
1 ATTTG
220510 CTCTAGCCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.53
Consensus pattern (24 bp):
ATTTGTTCCTGCAACTCTTCTTGA
Found at i:222367 original size:15 final size:15
Alignment explanation
Indices: 222347--222375 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
222337 AATTAAGCAT
222347 AGGATTAATTAAAAC
1 AGGATTAATTAAAAC
222362 AGGATTAATTAAAA
1 AGGATTAATTAAAA
222376 AGGCGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (15 bp):
AGGATTAATTAAAAC
Found at i:222470 original size:29 final size:28
Alignment explanation
Indices: 222432--222529 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 28
222422 AGAAAAAAAG
222432 GGGTAGAAAATGAAATTTTGAAGAA-TTT-A
1 GGGTA-AAAATG-AATTTTGAA-AAGTTTAA
222461 GGGTTAAAAAT-AATTTTGGAAAAGTTTAA
1 GGG-TAAAAATGAATTTT-GAAAAGTTTAA
*
222490 GGGTAAAAATGTAATTTTGGGAAAGTTT-A
1 GGGTAAAAATG-AATTTT-GAAAAGTTTAA
*
222519 GGGTCAAAATG
1 GGGTAAAAATG
222530 TGATTTTTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
27 8 0.13
28 13 0.21
29 23 0.38
30 17 0.28
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.32
Consensus pattern (28 bp):
GGGTAAAAATGAATTTTGAAAAGTTTAA
Found at i:222507 original size:30 final size:29
Alignment explanation
Indices: 222438--222714 Score: 204
Period size: 30 Copynumber: 9.5 Consensus size: 29
222428 AAAGGGGTAG
* *
222438 AAAATGAAATTTT-GAAGAA-TTTAGGGTT
1 AAAATGTAATTTTAGAA-AAGTTTAGGGTC
* * *
222466 AAAA-ATAATTTTGGAAAAGTTTAAGGGTA
1 AAAATGTAATTTTAGAAAAGTTT-AGGGTC
* *
222495 AAAATGTAATTTTGGGAAAGTTTAGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGTC
* * *
222524 AAAATGTGATTTTTAGAGAAGTTTGGGGTC
1 AAAATGT-AATTTTAGAAAAGTTTAGGGTC
* * * * *
222554 AATATGTGA-TTT-GAGAAGGTTGGGAGTC
1 AAAATGTAATTTTAGAAAAGTTTAGG-GTC
* * * *
222582 AAAATGTGATTTTAGAGAAGTTTGGTGGTT
1 AAAATGTAATTTTAGAAAAGTTTAG-GGTC
** * * * *
222612 AAAATACAATTTTGGATAAGTTCAAGGGTT
1 AAAATGTAATTTTAGAAAAGTT-TAGGGTC
*
222642 AAAATGTAATTTTAGAAAAGTTTGGGGTC
1 AAAATGTAATTTTAGAAAAGTTTAGGGTC
*
222671 AAAATGTAATTTTAGAAAAGTTAAAGGGTC
1 AAAATGTAATTTTAGAAAAGTT-TAGGGTC
*
222701 AAAATATAATTTTA
1 AAAATGTAATTTTA
222715 AAGAAAAGAA
Statistics
Matches: 203, Mismatches: 35, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
27 19 0.09
28 24 0.12
29 50 0.25
30 108 0.53
31 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGTC
Found at i:224260 original size:6 final size:6
Alignment explanation
Indices: 224249--224294 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
224239 GTAAATGGAC
**
224249 AATTTA AATTTA AATTTA AA-TTA AAAATA AATTTA AATTTA AATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
224295 GATTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:224299 original size:17 final size:17
Alignment explanation
Indices: 224249--224300 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
224239 GTAAATGGAC
224249 AATTTAAATTTAAATTTA
1 AATTTAAATTT-AATTTA
* * *
224267 AATTAAAAATAAATTTA
1 AATTTAAATTTAATTTA
*
224284 AATTTAAATTTGATTTA
1 AATTTAAATTTAATTTA
224301 TTGGTTTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AATTTAAATTTAATTTA
Found at i:230311 original size:93 final size:93
Alignment explanation
Indices: 229860--230519 Score: 471
Period size: 93 Copynumber: 7.0 Consensus size: 93
229850 TAAACCGAGT
* * * * * *
229860 TGAAACACCAAATCCTATA-CCCTGAGTTACAGTGGGTCGGATTAAAGCAGTGAAGTGGATCTCA
1 TGAAGCACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAACAATAAAGTAGATCTCA
*
229924 ATGTCCCTGAGGTTACAGTGGAATGGAG
66 ATGTCCCTGAGGTTACAGTGGAGTGGAG
* * * * * *
229952 TGAAGCACCAAATCCTATACCCCT-AGGTGCAGTGGGTCAGATTAAAGCGATAAAGCATATCTCA
1 TGAAGCACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAACAATAAAGTAGATCTCA
* * ** *
230016 ATGTCCTTAAGGTTACAGTGGAGTATAA
66 ATGTCCCTGAGGTTACAGTGGAGTGGAG
* * * * * * * * * * * * *
230044 TGAAGCACTAGATCATATATCCTTGAATTTATAGTGGATCAAATTAAAATGAGTAACG-A-ATTT
1 TGAAGCACCAAATCCTATACCCCTG-AGTTACAGTGGGTCAGATTAAAA-CAATAAAGTAGATCT
* * * * *
230107 CAATATCTCTGAGGTTATAATGGAATGGA-
64 CAATGTCCCTGAGGTTACAGTGGAGTGGAG
* * * * *
230136 TAGAAGCTACAACACTAAATCCTATACCCCTGAGTTACAGTGGGTCAGAGTAAAGCAATTAGGTG
1 T-GAAG---C-AC-C-AAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAACAATAAAGTA
*
230201 GATCTCAACGTCCCTGAGGTTACAGTGGAGTGGAG
59 GATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAG
* * * * *
230236 TGAATCACCAAATCTTATACCCCTGAGTTGCAGTGGGTTAGATTAAAACAACAAAGTAGATCTCA
1 TGAAGCACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAACAATAAAGTAGATCTCA
*
230301 ATGTCCCTGAGGTTATAGTAGG-GTGGAG
66 ATGTCCCTGAGGTTACAGT-GGAGTGGAG
* * * * * *
230329 TGAAGCATCAAATCCTAT-CTTCTTGAGGTTACAGTGAAGT-GGATCAAAACAGATAACA--A-A
1 TGAAGCACCAAATCCTATAC-CCCTGA-GTTACAGTG-GGTCAGATTAAAACA-ATAA-AGTAGA
* * *
230389 TCTTAGTGTCCCT-ATGGTTACAGTGGAATGGAG
61 TCTCAATGTCCCTGA-GGTTACAGTGGAGTGGAG
* * *
230422 TGAAGTTACAACACCAAATCCTATACCCCTAAGTTGCAGTGGGTCAGATTAAAACAATGAAGTAG
1 TGAAG------CACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAACAATAAAGTAG
* * *
230487 ATCTCAACGTCCTTGAGGTTACAGTGAAGTGGA
60 ATCTCAATGTCCCTGAGGTTACAGTGGAGTGGA
230520 TCAAAAAAGG
Statistics
Matches: 428, Mismatches: 106, Indels: 61
0.72 0.18 0.10
Matches are distributed among these distances:
92 95 0.22
93 150 0.35
94 38 0.09
95 11 0.03
96 4 0.01
97 11 0.03
98 35 0.08
99 81 0.19
100 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (93 bp):
TGAAGCACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAACAATAAAGTAGATCTCA
ATGTCCCTGAGGTTACAGTGGAGTGGAG
Found at i:230465 original size:285 final size:284
Alignment explanation
Indices: 229863--230519 Score: 754
Period size: 285 Copynumber: 2.3 Consensus size: 284
229853 ACCGAGTTGA
* * *
229863 AACACCAAATCCTATA-CCCTGAGTTACAGTGGGTCGGATTAAAGCAGTGAAGTGGATCTCAATG
1 AACACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGAAGTGGATCTCAACG
*
229927 TCCCTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTAGGTGCAGTGGGTCAG
66 TCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAAATCCTATACCCCTAGGTGCAGTGGGTCAG
* * * * * * *
229992 ATTAAAGCGATAAAGCATATCTCAATGTCCTTAAGGTTACAGTGGAGTATAATGAAGCACTAGAT
131 ATTAAAACAACAAAGCAGATCTCAATGTCCCTAAGGTTACAGTGGAGTAGAATGAAGCACTAAAT
* * * * * * *
230057 CATATATCCTTGAATTTATAGTGGATCAAATTAAAATGAGTAACGAATTTCAATATCTCTGAGGT
196 CATATATCCTTGAAGTTACAGTGAATCAAATCAAAAAGAGTAACAAATTTCAATATCCCTGAGGT
*
230122 TATAATGGAATGGATAGAAGCTAC
261 TACAATGGAATGGATAGAAGCTAC
* * * *
230146 AACACTAAATCCTATACCCCTGAGTTACAGTGGGTCAGAGTAAAGCAATTAGGTGGATCTCAACG
1 AACACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGAAGTGGATCTCAACG
* * * *
230211 TCCCTGAGGTTACAGTGGAGTGGAGTGAATCACCAAATCTTATACCCCTGAGTTGCAGTGGGTTA
66 TCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAAATCCTATACCCCT-AGGTGCAGTGGGTCA
* * * * *
230276 GATTAAAACAACAAAGTAGATCTCAATGTCCCTGAGGTTATAGTAGG-GTGGAGTGAAGCA-TCA
130 GATTAAAACAACAAAGCAGATCTCAATGTCCCTAAGGTTACAGT-GGAGTAGAATGAAGCACT-A
* * * * ** * *
230339 AATCCTATCTTCTTGAGGTTACAGTGAAGT-GGATCAAAACAGA-TAACAAATCTT-AGTGTCCC
193 AATCATATATCCTTGAAGTTACAGTGAA-TCAAATCAAAA-AGAGTAACAAAT-TTCAATATCCC
* *
230401 T-ATGGTTACAGTGGAATGGAGT-GAAGTTAC
255 TGA-GGTTACAATGGAATGGA-TAGAAGCTAC
* * * *
230431 AACACCAAATCCTATACCCCTAAGTTGCAGTGGGTCAGATTAAAACAATGAAGTAGATCTCAACG
1 AACACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGAAGTGGATCTCAACG
* *
230496 TCCTTGAGGTTACAGTGAAGTGGA
66 TCCCTGAGGTTACAGTGGAGTGGA
230520 TCAAAAAAGG
Statistics
Matches: 313, Mismatches: 52, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
283 15 0.05
284 90 0.29
285 200 0.64
286 8 0.03
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (284 bp):
AACACCAAATCCTATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGAAGTGGATCTCAACG
TCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAAATCCTATACCCCTAGGTGCAGTGGGTCAG
ATTAAAACAACAAAGCAGATCTCAATGTCCCTAAGGTTACAGTGGAGTAGAATGAAGCACTAAAT
CATATATCCTTGAAGTTACAGTGAATCAAATCAAAAAGAGTAACAAATTTCAATATCCCTGAGGT
TACAATGGAATGGATAGAAGCTAC
Found at i:230682 original size:148 final size:148
Alignment explanation
Indices: 230357--230661 Score: 389
Period size: 148 Copynumber: 2.1 Consensus size: 148
230347 CTTCTTGAGG
* * * * * *
230357 TTACAGTGAAGTGGATCAAAACAGATAACAAATCTTAGTGTCCCT-ATGGTTACAGTGGAATGGA
1 TTACAGTGAAGTGGATCAAAAAAGGTAACAGATCTCAATGTCCCTGA-GGCTACAGTGGAATGGA
* * ** *
230421 GTGAAGTTACAACACCAAATCCTATACCCCTAAGTTGCAGTGGGTCAGATTAAAACAATGAAGTA
65 GTGAACTTACAACACCAAATCCTATACCCCTAAGTTACAGTAAGTCAGATTAAAACAACGAAGTA
* * * *
230486 GATCTCAACGTCCTTGAGG
130 GATCTCAAAGTCCCTAAGA
230505 TTACAGTGAAGTGGATCAAAAAAGGTAACAGATCTCAATGTCCCTGAGGCTACAGTGGAATGGAG
1 TTACAGTGAAGTGGATCAAAAAAGGTAACAGATCTCAATGTCCCTGAGGCTACAGTGGAATGGAG
* * * *
230570 TGAACTTACAACATCAAATCCTATACCCTTGAAGTTACAGTAAGTCGGATTAAAATAACGAAGTA
66 TGAACTTACAACACCAAATCCTATACCCCT-AAGTTACAGTAAGTCAGATTAAAACAACGAAGTA
230635 GATC-CAAAAGTCCCTAAGA
130 GATCTC-AAAGTCCCTAAGA
*
230654 TTATAGTG
1 TTACAGTG
230662 GAATGGAGAG
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
148 85 0.63
149 49 0.37
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (148 bp):
TTACAGTGAAGTGGATCAAAAAAGGTAACAGATCTCAATGTCCCTGAGGCTACAGTGGAATGGAG
TGAACTTACAACACCAAATCCTATACCCCTAAGTTACAGTAAGTCAGATTAAAACAACGAAGTAG
ATCTCAAAGTCCCTAAGA
Found at i:231405 original size:4 final size:4
Alignment explanation
Indices: 231370--231400 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
231360 TATATTATAT
231370 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
231401 TATATTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:235350 original size:30 final size:30
Alignment explanation
Indices: 235314--235373 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
235304 TTTTGGAGAA
235314 AACCATAATAATTCGTGAATGTTTCTCGTT
1 AACCATAATAATTCGTGAATGTTTCTCGTT
235344 AACCATAATAATTCGTGAATGTTTCTCGTT
1 AACCATAATAATTCGTGAATGTTTCTCGTT
235374 TCTCTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (30 bp):
AACCATAATAATTCGTGAATGTTTCTCGTT
Found at i:243056 original size:15 final size:15
Alignment explanation
Indices: 243006--243058 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
242996 AAGTCTAAAC
*
243006 ATTTTATGTAATGTA
1 ATTTTTTGTAATGTA
* *
243021 ATTTTTTGCAATTGTTT
1 ATTTTTTGTAA-TG-TA
243038 ATTTTTTGTAATGTA
1 ATTTTTTGTAATGTA
243053 ATTTTT
1 ATTTTT
243059 CATGTAACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 16 0.52
16 4 0.13
17 11 0.35
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (15 bp):
ATTTTTTGTAATGTA
Done.