Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 27 of 279
Found at i:8860258 original size:64 final size:64
Alignment explanation
Indices: 8860157--8860349 Score: 386
Period size: 64 Copynumber: 3.0 Consensus size: 64
8860147 TTTGGCTTAG
8860157 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
1 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
8860221 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
1 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
8860285 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
1 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
8860349 A
1 A
8860350 GTTCAAACTC
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (64 bp):
AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
Found at i:8862164 original size:48 final size:48
Alignment explanation
Indices: 8862105--8863226 Score: 2019
Period size: 48 Copynumber: 23.4 Consensus size: 48
8862095 ATATGTGTGT
* * *
8862105 GGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862153 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862201 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862249 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862297 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862345 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862393 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862441 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862489 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862537 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862585 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862633 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862681 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862729 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862777 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8862825 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* *
8862873 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGA
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* *
8862921 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* * * *
8862969 GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* * * * * *
8863017 GGTAAAGCTGAATGGCTAGTGTGAACTATGTATGAGATATGTATACGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* * * *
8863065 GGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* *
8863113 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* *
8863161 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8863209 GGTAAAGCCGAATGGCTA
1 GGTAAAGCCGAATGGCTA
8863227 GTGATTCGGC
Statistics
Matches: 1060, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 1060 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
Found at i:8863449 original size:37 final size:37
Alignment explanation
Indices: 8863399--8863501 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
8863389 GGAAATATAT
8863399 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
8863436 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
8863473 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
8863502 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:8864837 original size:40 final size:40
Alignment explanation
Indices: 8864783--8865017 Score: 339
Period size: 40 Copynumber: 5.9 Consensus size: 40
8864773 ATTGAGAGTT
* * *
8864783 ATATAGCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
8864823 TTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
8864863 TTATGTCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
8864903 ATATATCCGGGCTAAGTCCCGAAGCGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
8864943 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
8864983 ATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 ATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
8865018 GGAATTATGA
Statistics
Matches: 180, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.07
40 167 0.93
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:8866772 original size:64 final size:64
Alignment explanation
Indices: 8866671--8866863 Score: 386
Period size: 64 Copynumber: 3.0 Consensus size: 64
8866661 TTTGGCTTAG
8866671 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
1 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
8866735 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
1 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
8866799 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
1 AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
8866863 A
1 A
8866864 GTTCAAACTC
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (64 bp):
AAGATGGCTAGAATGAGGTATGTATTGAATGGTTCTTGAAAATCTATGCATGTTTGAGATGATC
Found at i:8868677 original size:48 final size:48
Alignment explanation
Indices: 8868618--8869547 Score: 1752
Period size: 48 Copynumber: 19.4 Consensus size: 48
8868608 ATATGTGTGT
* * *
8868618 GGTAAAGCCGAATGGCTAATGTTAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
*
8868666 GGTAAAGCCGAATTGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8868714 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8868762 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8868810 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8868858 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8868906 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8868954 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869002 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869050 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869098 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869146 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869194 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869242 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869290 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
8869338 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* *
8869386 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGA
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* *
8869434 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
* * *
8869482 GGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGT
1 GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
*
8869530 GGTAAAGTCGAATGGCTA
1 GGTAAAGCCGAATGGCTA
8869548 GTGATTTGGC
Statistics
Matches: 872, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 872 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (48 bp):
GGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGC
Found at i:8869770 original size:37 final size:37
Alignment explanation
Indices: 8869720--8869822 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
8869710 GGAAATATAT
8869720 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
8869757 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
8869794 TCCAGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATAACTACGTGTGG
8869823 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:8872581 original size:18 final size:18
Alignment explanation
Indices: 8872558--8872593 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8872548 AATTGGTAGT
8872558 TTAGATATAAGTCATGCA
1 TTAGATATAAGTCATGCA
8872576 TTAGATATAAGTCATGCA
1 TTAGATATAAGTCATGCA
8872594 ACTAGGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
TTAGATATAAGTCATGCA
Found at i:8874444 original size:7 final size:6
Alignment explanation
Indices: 8874412--8874442 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
8874402 ATTCAAACTA
8874412 ATTTTT ATTTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT
8874443 TAAAAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
ATTTTT
Found at i:8883008 original size:5 final size:5
Alignment explanation
Indices: 8882998--8883041 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
8882988 AAGAGAAAGA
*
8882998 AAATT AAATT -AA-T AAATA ATAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT A-AATT AAATT AAATT AAATT AAATT
8883042 GCAAGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 25 0.74
6 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:8886681 original size:16 final size:15
Alignment explanation
Indices: 8886657--8886690 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8886647 GTTTAAAAAC
8886657 ATTTATTTAATATTTT
1 ATTTATTTAAT-TTTT
*
8886673 ATTTTTTTAATTTTT
1 ATTTATTTAATTTTT
8886688 ATT
1 ATT
8886691 AAAACTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTATTTAATTTTT
Found at i:8892046 original size:19 final size:19
Alignment explanation
Indices: 8892022--8892060 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8892012 AAGTTATATG
8892022 ATGTTTTGTTATGTGACTA
1 ATGTTTTGTTATGTGACTA
8892041 ATGTTTTGTTATGTGACTA
1 ATGTTTTGTTATGTGACTA
8892060 A
1 A
8892061 CTCATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.51
Consensus pattern (19 bp):
ATGTTTTGTTATGTGACTA
Found at i:8898642 original size:40 final size:40
Alignment explanation
Indices: 8898410--8898635 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
8898400 TTGAATGATG
* * * *
8898410 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
8898450 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
8898490 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
8898530 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8898570 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
8898611 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8898636 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:8903558 original size:47 final size:47
Alignment explanation
Indices: 8903495--8904176 Score: 1231
Period size: 47 Copynumber: 14.4 Consensus size: 47
8903485 CCCTTCGGGA
* * *
8903495 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903542 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903589 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903636 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903683 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903730 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903777 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903824 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903871 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8903918 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGG--C
* *
8903967 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
8904014 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
8904061 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
8904108 CTTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
8904157 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
8904177 GTACATCAAT
Statistics
Matches: 619, Mismatches: 10, Indels: 12
0.97 0.02 0.02
Matches are distributed among these distances:
47 530 0.86
48 2 0.00
49 87 0.14
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:8911687 original size:40 final size:40
Alignment explanation
Indices: 8911456--8911680 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
8911446 TTGAATGATG
* * * *
8911456 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
8911496 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
8911536 TCCAGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
8911576 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
8911615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
8911656 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8911681 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:8911699 original size:119 final size:120
Alignment explanation
Indices: 8911456--8911686 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
8911446 TTGAATGATG
*
8911456 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
***
8911521 GTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
66 GTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * **
8911576 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
8911638 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGATACTA-AATCCAGACTAAGAT-CCGAAGGCATTTGAACGAG
8911687 TAGCTATATC
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 2 0.02
119 72 0.77
120 20 0.21
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:8911703 original size:79 final size:80
Alignment explanation
Indices: 8911463--8911680 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 80
8911453 ATGTCCGGGC
* * * *
8911463 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
**
8911526 AGATACTAAATCCAGAC
64 AGATACTAAATCCAGGT
* *
8911543 TAAGAT-CCGAAGGCATTTGTGTGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* *
8911605 AGTTACTAAATCCGGGT
64 AGATACTAAATCCAGGT
* *
8911622 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
8911681 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 67 0.57
80 42 0.36
81 7 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
ATACTAAATCCAGGT
Found at i:8911711 original size:79 final size:79
Alignment explanation
Indices: 8911509--8911713 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
8911499 GGACTAAGAT
** * * ** *
8911509 CCGAAGGCATTTGTGCGAGATACTAAATCCAGACTAAGA-TCCGAAGGCATTTGTGTGAGATACT
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAA-ATTCCGAAGGCATTTGTGCGAGATACT
*
8911573 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * *
8911588 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGATACTA
*
8911652 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
*
8911668 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATTCCGAAGG
8911714 TACGTGATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 80 0.75
80 25 0.23
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:8918116 original size:43 final size:42
Alignment explanation
Indices: 8918054--8918140 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 42
8918044 TATCGGTATC
*
8918054 GGCATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAAAA
1 GGCATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAAAA
8918096 GNGCATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAAAA
1 G-GCATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAAAA
8918139 GG
1 GG
8918141 TCCCGTTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.21
Consensus pattern (42 bp):
GGCATTCCGTAGAAGATGGTTAAGACACATGATTGGGAAAAA
Found at i:8927876 original size:37 final size:37
Alignment explanation
Indices: 8927817--8927888 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
8927807 AACTCAGATG
* *
8927817 AAATCTCTACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCTACACGAAGTCATCGGGTCTTACCCGGACA
*
8927854 AAATCTCTACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCTACACGAAGTCATCGGGTCTTACCCGGA
8927889 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (37 bp):
AAATCTCTACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:8928119 original size:48 final size:48
Alignment explanation
Indices: 8928056--8928410 Score: 674
Period size: 48 Copynumber: 7.4 Consensus size: 48
8928046 CACTAGCCCA
*
8928056 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
* * *
8928104 CGTATAAATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
8928152 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
8928200 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
8928248 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
8928296 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
8928344 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
8928392 CATATACATATCTCATACA
1 CATATACATATCTCATACA
8928411 GTATCTCATA
Statistics
Matches: 302, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 302 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (48 bp):
CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCT
Found at i:8939207 original size:28 final size:27
Alignment explanation
Indices: 8939176--8939266 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 27
8939166 CTGATTGATT
*
8939176 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* *
8939204 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
*
8939233 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
8939261 TCGCAC
1 TCGCAC
8939267 TCTCAGTGCC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.04
28 26 0.50
29 23 0.44
30 1 0.02
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:8939521 original size:40 final size:40
Alignment explanation
Indices: 8939489--8939795 Score: 407
Period size: 40 Copynumber: 7.7 Consensus size: 40
8939479 CCAGCATGAT
* * *
8939489 TGCTCTTCGGGACCTAGCCCGGTTATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* ** * * *
8939529 TGCTCTTCGGGACTTAACCTTGATATAGCTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * *
8939569 TGCTCTTTGAGACTTAGCCCGAATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * * * *
8939609 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
8939649 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * * * *
8939689 TGCTCTTCGGGACTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
*
8939729 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCATAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
8939769 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
8939796 TATAACTCTC
Statistics
Matches: 227, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 227 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
Found at i:8939599 original size:80 final size:80
Alignment explanation
Indices: 8939473--8939793 Score: 462
Period size: 80 Copynumber: 4.0 Consensus size: 80
8939463 GCCCGAATAC
* * * * * *
8939473 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGTTATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
**
8939538 GGACTTAACCTTGAT
66 GGACTTAACCCGGAT
* * * * * * *
8939553 ATAGCTCTAGCACAAATGCTCTTTGAGACTTAGCCCGAATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
* *
8939618 AGACTTAGCCCGGAT
66 GGACTTAACCCGGAT
8939633 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
*
8939698 GGACTTATCCCGGAT
66 GGACTTAACCCGGAT
*
8939713 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCATAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
*
8939778 GGACTTAGCCCGGAT
66 GGACTTAACCCGGAT
8939793 A
1 A
8939794 TATATAACTC
Statistics
Matches: 213, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 213 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
GGACTTAACCCGGAT
Found at i:8941358 original size:48 final size:48
Alignment explanation
Indices: 8941303--8942269 Score: 1853
Period size: 48 Copynumber: 20.1 Consensus size: 48
8941293 ACACATCGCC
*
8941303 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941351 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941399 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941447 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941495 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941543 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941591 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941639 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941687 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941735 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941783 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941831 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941879 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8941927 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
8941975 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
8942023 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
8942071 TATATAAATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACAT--ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
8942121 TACATATTTCACATTAGCCATTCGGCTTTACCACATACACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8942169 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8942217 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
8942265 TACAT
1 TACAT
8942270 CAATTTCATC
Statistics
Matches: 904, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
48 859 0.95
50 45 0.05
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:8942640 original size:36 final size:36
Alignment explanation
Indices: 8942558--8942629 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
8942548 CTACGAATCA
8942558 AATTTCTCATTGTAAAGAATTCAAAATGTGTTCTAC
1 AATTTCTCATTGTAAAGAATTCAAAATGTGTTCTAC
8942594 AATTTCTCATTGTAAAGAATTCAAAATGTGTTCTAC
1 AATTTCTCATTGTAAAGAATTCAAAATGTGTTCTAC
8942630 TGGATTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
AATTTCTCATTGTAAAGAATTCAAAATGTGTTCTAC
Found at i:8953447 original size:28 final size:28
Alignment explanation
Indices: 8953384--8953561 Score: 243
Period size: 28 Copynumber: 6.4 Consensus size: 28
8953374 ATATTAAGTC
* *
8953384 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
8953411 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
8953439 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
8953467 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
8953495 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
8953522 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
8953551 CGCACACTTAG
1 CGCACACTTAG
8953562 CGCCAATCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 43 0.32
28 80 0.59
29 13 0.10
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:8953525 original size:83 final size:83
Alignment explanation
Indices: 8953384--8953536 Score: 245
Period size: 83 Copynumber: 1.8 Consensus size: 83
8953374 ATATTAAGTC
* *
8953384 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
8953449 GTGCTACATAGTCAAACT
66 GTGCTACATAGTCAAACT
* * *
8953467 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
8953531 AGTGCT
65 AGTGCT
8953537 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
83 39 0.61
84 25 0.39
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:8959885 original size:101 final size:98
Alignment explanation
Indices: 8959697--8959939 Score: 272
Period size: 100 Copynumber: 2.4 Consensus size: 98
8959687 TATTGTGAGG
* * * *
8959697 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTAGTCACATGTGTAGTACT
*
8959762 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGTAGGCTACTACGCGTACCCGATAA-TT-GA
** * * * ** *
8959797 TCATGTGTGTAGTACTAAGTGCAGTCTACTATGTGTATCTGATGGTTAAGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-AGTCACATGTGTAGTAC
* * *
8959862 TAAGTGCT-GGCTACTACGTGTACCGGATAATTGG
65 TAAGTG-TAGGCTACTACGCGTACCCGATAATTGA
* * *
8959896 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
8959940 GTTTTGGCTA
Statistics
Matches: 117, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
99 37 0.32
100 40 0.34
101 39 0.33
102 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTAGTCACATGTGTAGTACT
AAGTGTAGGCTACTACGCGTACCCGATAATTGA
Found at i:8959934 original size:49 final size:50
Alignment explanation
Indices: 8959694--8959939 Score: 271
Period size: 49 Copynumber: 4.9 Consensus size: 50
8959684 ATCTATTGTG
* *
8959694 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
8959744 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT
* * ** * * * **
8959794 CGATCATGTGTGTAGTACTAAGTGCAGTCTACTATGTGTATCTGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * *
8959844 AAGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
8959894 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
8959940 GTTTTGGCTA
Statistics
Matches: 159, Mismatches: 35, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
49 80 0.50
50 43 0.27
51 36 0.23
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:8963192 original size:21 final size:21
Alignment explanation
Indices: 8963166--8963205 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8963156 TTTAAAATAT
8963166 GGCAATGTGGCTTATAATGTA
1 GGCAATGTGGCTTATAATGTA
8963187 GGCAATGTGGCTTATAATG
1 GGCAATGTGGCTTATAATG
8963206 CAGGTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (21 bp):
GGCAATGTGGCTTATAATGTA
Found at i:8964938 original size:26 final size:26
Alignment explanation
Indices: 8964902--8964955 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
8964892 CAACATCAGG
8964902 TAAGTTAAACAAATCATTGATGGACT
1 TAAGTTAAACAAATCATTGATGGACT
8964928 TAAGTTAAACAAATCATTGATGGACT
1 TAAGTTAAACAAATCATTGATGGACT
8964954 TA
1 TA
8964956 GAAGTAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (26 bp):
TAAGTTAAACAAATCATTGATGGACT
Found at i:8969265 original size:27 final size:27
Alignment explanation
Indices: 8969202--8969259 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
8969192 ACAATCATAC
8969202 ATCACATAGGGGCAAAACAGTCACTTT
1 ATCACATAGGGGCAAAACAGTCACTTT
* * *
8969229 ATCACATAGGGGCATAATAGTCATTTT
1 ATCACATAGGGGCAAAACAGTCACTTT
8969256 ATCA
1 ATCA
8969260 ATTAGGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
ATCACATAGGGGCAAAACAGTCACTTT
Found at i:8970546 original size:19 final size:19
Alignment explanation
Indices: 8970522--8970558 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8970512 TCGGACTCCA
8970522 AGTAGA-AAAGAACCAAAAG
1 AGTAGACAAA-AACCAAAAG
8970541 AGTAGACAAAAACCAAAA
1 AGTAGACAAAAACCAAAA
8970559 TGAAGAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.65, C:0.14, G:0.16, T:0.05
Consensus pattern (19 bp):
AGTAGACAAAAACCAAAAG
Found at i:8977620 original size:39 final size:40
Alignment explanation
Indices: 8977575--8977799 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
8977565 GCTCCTCGTT
* * * *
8977575 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
8977615 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
8977654 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
8977694 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
8977734 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
8977775 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
8977800 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:8977808 original size:41 final size:41
Alignment explanation
Indices: 8977731--8977808 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
8977721 TTTGTATCTC
* * *
8977731 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
8977772 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
8977809 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:8986571 original size:27 final size:27
Alignment explanation
Indices: 8986540--8986600 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
8986530 ATACATTACA
*
8986540 TAGGGGTATAACAGTCATTTTATCACC
1 TAGGGGCATAACAGTCATTTTATCACC
**
8986567 TAGGGGCATAACAGTCATTTTATCAAT
1 TAGGGGCATAACAGTCATTTTATCACC
8986594 TAGGGGC
1 TAGGGGC
8986601 TCTAGGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (27 bp):
TAGGGGCATAACAGTCATTTTATCACC
Found at i:8998944 original size:22 final size:21
Alignment explanation
Indices: 8998916--8998980 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
8998906 GCAAAGACAT
8998916 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
*
8998938 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACA-AACCATA-ATCAGG
*
8998960 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
8998981 AATAATTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 31 0.86
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:8999186 original size:41 final size:41
Alignment explanation
Indices: 8999123--8999243 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
8999113 AAAGCCACCA
* * *
8999123 GTGGATCCACAGTCATCAAGCAACCATGCGATCCTTAATAG
1 GTGGATCCACAGTCGTCGAGCAACCATGCGATCCTCAATAG
*
8999164 GTGGATCCAC-GATCGTCGAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACAG-TCGTCGAGCAACCATGCGATCCTCAATAG
8999205 GTGGATCCACAGTCGT-GAAGCAACCATGCGATCCTCAAT
1 GTGGATCCACAGTCGTCG-AGCAACCATGCGATCCTCAAT
8999244 TTCTTCTTCC
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 2 0.03
41 70 0.96
42 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
GTGGATCCACAGTCGTCGAGCAACCATGCGATCCTCAATAG
Found at i:8999533 original size:27 final size:27
Alignment explanation
Indices: 8999501--8999852 Score: 178
Period size: 27 Copynumber: 13.0 Consensus size: 27
8999491 TTGGTAAATC
*
8999501 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
8999528 TGCAAACCAATGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
** * * *
8999555 TTGAAAGTTAAGGGCATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTT
**
8999583 TGTAAATC-AGAGGTATTTCTG-TAATTT
1 TACAAATCAAG-GGTATTTC-GATAATTT
* *
8999610 TCCAAATTAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
8999637 TCCAAAT-TAGAGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCGATAATTT
* * * *
8999664 TATAAATCGAGGATATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* ** *
8999691 TACAAGTTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* ** * * *
8999718 TATAGGTCGAGGGTATTT-TAGTAGTTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * *
8999745 CACAAATCAGGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
8999772 TACAAA-CTATGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCGATAATTT
* * * * *
8999799 TTCTAATCGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * *
8999826 TGTAAACCAAGGGTATTTAG-TAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
8999852 T
1 T
8999853 GTAAACTAAG
Statistics
Matches: 254, Mismatches: 58, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
26 13 0.05
27 215 0.85
28 26 0.10
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:8999649 original size:54 final size:55
Alignment explanation
Indices: 8999509--8999853 Score: 217
Period size: 54 Copynumber: 6.4 Consensus size: 55
8999499 TCTACAAACC
* * **
8999509 AAGGGTATTTCGATAATTTTGCAAACCA-ATGGTATTTCTGTAATTTTTGAAAGTT
1 AAGGGTATTTCGATAATTTTGCAAATCAGAGGGTATTTCTGTAATTTTACAAA-TT
* * * *
8999564 AAGGGCATTTCTATAATTTTGTAAATCAGA-GGTATTTCTGTAATTTTCCAAATT
1 AAGGGTATTTCGATAATTTTGCAAATCAGAGGGTATTTCTGTAATTTTACAAATT
* * * *
8999618 AAGGGTATTTCGATAATTTTCCAAATTAGA-GGTATTT-TGGTAATTTTATAAATC
1 AAGGGTATTTCGATAATTTTGCAAATCAGAGGGTATTTCT-GTAATTTTACAAATT
* * * * * * * * ** *
8999672 GAGGATATTTTGATAATTTTACAAGT-TGAGGGTATTTCGGTAATTTTATAGGTC
1 AAGGGTATTTCGATAATTTTGCAAATCAGAGGGTATTTCTGTAATTTTACAAATT
* * * ** *
8999726 GAGGGTATTT-TAGTAGTTTCACAAATCAG-GGGTATTT-TGATAATTTTACAAACT
1 AAGGGTATTTCGA-TAATTTTGCAAATCAGAGGGTATTTCTG-TAATTTTACAAATT
* * * * * ** **
8999780 ATGGGTATTTTGGTAATTTTTCTAATC-GAGGGTATTT-TGGTAATTTTGTAAACC
1 AAGGGTATTTCGATAATTTTGCAAATCAGAGGGTATTTCT-GTAATTTTACAAATT
*
8999834 AAGGGTATTTAG-TAATTTTG
1 AAGGGTATTTCGATAATTTTG
8999854 TAAACTAAGC
Statistics
Matches: 231, Mismatches: 49, Indels: 22
0.76 0.16 0.07
Matches are distributed among these distances:
53 13 0.06
54 171 0.74
55 46 0.20
56 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (55 bp):
AAGGGTATTTCGATAATTTTGCAAATCAGAGGGTATTTCTGTAATTTTACAAATT
Found at i:8999840 original size:81 final size:81
Alignment explanation
Indices: 8999483--8999870 Score: 279
Period size: 81 Copynumber: 4.8 Consensus size: 81
8999473 TCACCCTACA
* * * * * * * *
8999483 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAACCAAT-GGTATTTC
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAA-CTATGGGTATTTC
* * **
8999547 TGTAATTTTTGAAAGTTA
65 GGTAATTTTTCAAA-TCG
* * * * * *
8999565 AGGGCATTTCT-ATAATTTTGTAAATC-AGAGGTATTTCTG-TAATTTTCCAAATTAAGGGTATT
1 AGGGTATTT-TGGTAATTTTATAAATCAAG-GGTATTT-TGATAATTTTACAAACTATGGGTATT
* * *
8999627 TCGATAATTTTCCAAAT-T
63 TCGGTAATTTTTCAAATCG
* * **
8999645 AGAGGTATTTTGGTAATTTTATAAATCGAGGATATTTTGATAATTTTACAAGTTGA-GGGTATTT
1 AG-GGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACT-ATGGGTATTT
**
8999709 CGGTAATTTTAT-AGGTCG
64 CGGTAATTTT-TCAAATCG
* * * * * *
8999727 AGGGTATTTTAGTAGTTTCACAAATCAGGGGTATTTTGATAATTTTACAAACTATGGGTATTTTG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACTATGGGTATTTCG
*
8999792 GTAATTTTTCTAATCG
66 GTAATTTTTCAAATCG
* * * ** * *
8999808 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTAG-TAATTTTGTAAACTAAGCGTATTTC
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACTATGGGTATTTC
8999871 AATACTTCTA
Statistics
Matches: 238, Mismatches: 55, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
80 27 0.11
81 152 0.64
82 57 0.24
83 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAACTATGGGTATTTCG
GTAATTTTTCAAATCG
Found at i:8999848 original size:26 final size:26
Alignment explanation
Indices: 8999808--8999869 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
8999798 TTTCTAATCG
*
8999808 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTA-TTTAGTAATTTTGTAAACCA
*
8999835 AGGGTATTTAGTAATTTTGTAAACTA
1 AGGGTATTTAGTAATTTTGTAAACCA
*
8999861 AGCGTATTT
1 AGGGTATTT
8999870 CAATACTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (26 bp):
AGGGTATTTAGTAATTTTGTAAACCA
Found at i:8999940 original size:27 final size:27
Alignment explanation
Indices: 8999866--8999942 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
8999856 AACTAAGCGT
* * * *
8999866 ATTTCAATACTTCTATCCTACAGGGGT
1 ATTTCAGTAATTCTATCCTATAGGGGC
*
8999893 ATTTTAGTAATTCTATCCTATAGGGGC
1 ATTTCAGTAATTCTATCCTATAGGGGC
*
8999920 ATTTCAGTAATTCTACCCTATAG
1 ATTTCAGTAATTCTATCCTATAG
8999943 ATATGAGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (27 bp):
ATTTCAGTAATTCTATCCTATAGGGGC
Found at i:9006657 original size:22 final size:22
Alignment explanation
Indices: 9006615--9006657 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9006605 ATCACTCTTC
* *
9006615 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCTTTTATTATTATTTTT
9006637 CTCTCCATTTT-TTATTATTTT
1 CTCTCC-TTTTATTATTATTTT
9006658 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (22 bp):
CTCTCCTTTTATTATTATTTTT
Found at i:9007936 original size:27 final size:27
Alignment explanation
Indices: 9007896--9008000 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
9007886 AGGAAGCGTC
*
9007896 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
9007923 CTGGTGGCTCTGCCATATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
9007950 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
9007978 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
9008001 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.04
27 46 0.69
28 18 0.27
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:9008006 original size:54 final size:54
Alignment explanation
Indices: 9007896--9008007 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
9007886 AGGAAGCGTC
* * * *
9007896 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * *
9007950 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
9008004 CTGG
1 CTGG
9008008 CAGCCATGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:9014376 original size:22 final size:22
Alignment explanation
Indices: 9014337--9014379 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9014327 ATCACTCTTC
* *
9014337 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
9014359 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
9014380 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:9015705 original size:28 final size:26
Alignment explanation
Indices: 9015613--9015723 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
9015603 GGAAGCGTCT
* *
9015613 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
* *
9015640 TTGTGGCTCTGCCACATATTTCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
9015667 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* * *
9015695 TGGTGACTCTGTCACATCATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
9015721 TGG
1 TGG
9015724 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.67
28 17 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:9015718 original size:54 final size:53
Alignment explanation
Indices: 9015613--9015723 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
9015603 GGAAGCGTCT
* *
9015613 TGGTGGCTATGCCACAATTATCTGATCTTGTGGCTCTGCCACATATTTCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATA-TTCTGTTC
* * *
9015667 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATCA-TCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACAT-ATTCTGTTC
9015721 TGG
1 TGG
9015724 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 32 0.64
55 17 0.34
56 1 0.02
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTCTGTTC
Found at i:9021440 original size:14 final size:15
Alignment explanation
Indices: 9021421--9021452 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
9021411 GATGTTAAGG
9021421 TGCAAATATTG-AAA
1 TGCAAATATTGCAAA
9021435 TGCAAATATTGCAAA
1 TGCAAATATTGCAAA
9021450 TGC
1 TGC
9021453 GTCACGGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (15 bp):
TGCAAATATTGCAAA
Found at i:9027430 original size:42 final size:41
Alignment explanation
Indices: 9027330--9027478 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 41
9027320 TCTGATTTCA
*
9027330 TGTAAGACCACGTCTGGGACATTGGCATC-GATTTGAAATTTATG
1 TGTAAGACCACGTCTGGGACA-TGGCATCATATTTG--ATTT-TG
* *
9027374 TGTAAGACCATGTCTGGGACATCGGTATCATATTTGATTTTG
1 TGTAAGACCACGTCTGGGACAT-GGCATCATATTTGATTTTG
***
9027416 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACA-TGGCATC-ATATTTGATTTTG
9027459 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
9027479 GTTAGCATTG
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
42 26 0.29
43 34 0.37
44 26 0.29
45 5 0.05
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACATGGCATCATATTTGATTTTG
Found at i:9028199 original size:23 final size:22
Alignment explanation
Indices: 9028168--9028217 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
9028158 TTATGAATCA
*
9028168 TATGTTTTGGTATGACTTTGGTT
1 TATGATTTGGTATG-CTTTGGTT
*
9028191 TATGATTTGGTATGTTTTGGTT
1 TATGATTTGGTATGCTTTGGTT
9028213 T-TGAT
1 TATGAT
9028218 GTAAACATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 13 0.52
ACGTcount: A:0.14, C:0.02, G:0.26, T:0.58
Consensus pattern (22 bp):
TATGATTTGGTATGCTTTGGTT
Found at i:9032964 original size:30 final size:30
Alignment explanation
Indices: 9032909--9032965 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9032899 CTTCTGAAAA
** *
9032909 TATTTACAAAAAGAGGTACCTAATTTTTAT
1 TATTTACAAAAAGAGCAACCAAATTTTTAT
*
9032939 TATTTACGAAAAGAGCAACCAAATTTT
1 TATTTACAAAAAGAGCAACCAAATTTT
9032966 AAAAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGCAACCAAATTTTTAT
Found at i:9033865 original size:13 final size:13
Alignment explanation
Indices: 9033843--9033875 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9033833 AAGGATTTGT
9033843 TTAT-TAAACTAA
1 TTATCTAAACTAA
9033855 TTATCTAAACTAA
1 TTATCTAAACTAA
*
9033868 TTAACTAA
1 TTATCTAA
9033876 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:9042074 original size:13 final size:13
Alignment explanation
Indices: 9042056--9042084 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9042046 TTTATTTTAA
9042056 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9042069 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9042082 TTA
1 TTA
9042085 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:9047572 original size:6 final size:6
Alignment explanation
Indices: 9047561--9047599 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
9047551 TCCTCTTATC
*
9047561 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
9047600 CAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:9047605 original size:18 final size:18
Alignment explanation
Indices: 9047566--9047606 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9047556 TTATCTTTTT
* **
9047566 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTCATTTCA
9047584 ATTTTTATTTTCATTTCA
1 ATTTTTATTTTCATTTCA
9047602 ATTTT
1 ATTTT
9047607 ATTATTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTCATTTCA
Found at i:9048016 original size:59 final size:59
Alignment explanation
Indices: 9047924--9048042 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
9047914 GAGTTTCACC
* *
9047924 TCTTTCCCTCTTATGATTTTCTTTATTTTGAATAATCTATCTTTGTACATTGAGGGCAA
1 TCTTTCCCTCTTATGACTTTATTTATTTTGAATAATCTATCTTTGTACATTGAGGGCAA
9047983 TCTTTCCCTCTTATGACTTTATTTATTTTGAATAATCTATCTTTGTACATTGAGGGCAA
1 TCTTTCCCTCTTATGACTTTATTTATTTTGAATAATCTATCTTTGTACATTGAGGGCAA
9048042 T
1 T
9048043 GTACATCTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.49
Consensus pattern (59 bp):
TCTTTCCCTCTTATGACTTTATTTATTTTGAATAATCTATCTTTGTACATTGAGGGCAA
Found at i:9050603 original size:13 final size:13
Alignment explanation
Indices: 9050585--9050613 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9050575 TTTATTTTAA
9050585 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9050598 TTAGTTAATTAGT
1 TTAGTTAATTAGT
9050611 TTA
1 TTA
9050614 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:9052183 original size:31 final size:31
Alignment explanation
Indices: 9052145--9052378 Score: 360
Period size: 31 Copynumber: 7.5 Consensus size: 31
9052135 TTTAACGGGT
9052145 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
9052176 ACTGGGCCGAAGCGTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
9052207 TCTGGACCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
9052238 ACTGGGCCGAAGCGTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
9052269 TCTGGACCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
9052300 ACTGGGCCGAAGCGTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
9052331 TCTGGACCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
9052362 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
9052379 ACTGTAAACG
Statistics
Matches: 179, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 179 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:9052225 original size:62 final size:62
Alignment explanation
Indices: 9052146--9052374 Score: 449
Period size: 62 Copynumber: 3.7 Consensus size: 62
9052136 TTAACGGGTA
*
9052146 CTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
1 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
9052208 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
1 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
9052270 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
1 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
9052332 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGC
1 CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGC
9052375 CTTTACTGTA
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 166 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (62 bp):
CTGGACCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCGTTATCATAAATCATATCT
Found at i:9052636 original size:24 final size:25
Alignment explanation
Indices: 9052609--9052664 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
9052599 CTTGGAAAAA
9052609 CCCTTTT-GATAAACTGGGGCAAAG
1 CCCTTTTCGATAAACTGGGGCAAAG
* *
9052633 CCCTTTTCGGTAAACTGGGGCATAG
1 CCCTTTTCGATAAACTGGGGCAAAG
9052658 CCCTTTT
1 CCCTTTT
9052665 AGCACTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (25 bp):
CCCTTTTCGATAAACTGGGGCAAAG
Found at i:9052716 original size:16 final size:16
Alignment explanation
Indices: 9052695--9052725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9052685 AACCCAACCC
*
9052695 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
9052711 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
9052726 CCCATATTTG
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:9053514 original size:27 final size:27
Alignment explanation
Indices: 9053477--9053552 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
9053467 TATTCGTCAT
*
9053477 TTTACCATACAGGGG-TATTACGATCAC
1 TTTACCCTACAGGGGCT-TTACGATCAC
9053504 TTTACCCTACAGGGGCTTTACGATCAC
1 TTTACCCTACAGGGGCTTTACGATCAC
*
9053531 TTTACCCTATAGGGGCTTTACG
1 TTTACCCTACAGGGGCTTTACG
9053553 GTCTTTTTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGATCAC
Found at i:9053900 original size:81 final size:81
Alignment explanation
Indices: 9053709--9053913 Score: 252
Period size: 81 Copynumber: 2.5 Consensus size: 81
9053699 TAAATTAGGA
* * ** *
9053709 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTA
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTA
*
9053774 ATTTTACAAGCTAGGG
66 ATTTTACAAGCGAGGG
* * *
9053790 GTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGCAATTTTACAGACCAG-GGTATTTTGGTA
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTA
* *
9053854 ATTTTTACTGATCGA-GG
66 A-TTTTAC-AAGCGAGGG
** *
9053871 GTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTT
9053914 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 13 0.12
81 90 0.85
82 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGTA
ATTTTACAAGCGAGGG
Found at i:9053918 original size:27 final size:27
Alignment explanation
Indices: 9053594--9053913 Score: 218
Period size: 27 Copynumber: 11.8 Consensus size: 27
9053584 TTTCACCCTA
* *
9053594 CAAGGGTATTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*** **
9053621 CAAGGGTATTTCATTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
9053648 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
* **
9053677 CAAAGGTATTTAT-GTAATTTTGTAAA-
1 CAAGGGTATTT-TGGTAATTTTACAAAC
** *
9053703 TTAGGAGTATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTTGGTAATTTTACAAAC
** * *
9053731 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
9053758 C-AGTGGTATTTTGGTAATTTTACAAGC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
9053785 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * * *
9053812 TAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
9053839 C-AGGGTATTTTGGTAATTTTTACTGAT
1 CAAGGGTATTTTGGTAA-TTTTACAAAC
* **
9053866 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
9053893 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
9053914 GTAAATCGAG
Statistics
Matches: 233, Mismatches: 50, Indels: 20
0.77 0.17 0.07
Matches are distributed among these distances:
26 17 0.07
27 168 0.72
28 34 0.15
29 14 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:9053925 original size:27 final size:27
Alignment explanation
Indices: 9053623--9054008 Score: 117
Period size: 27 Copynumber: 14.2 Consensus size: 27
9053613 CTACAAACCA
* * * *
9053623 AGGGTATTTCATTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
* *
9053650 ATGGTATTTCTA-TAATTTT-TAGAAAGTCA
1 AGGGTATTT-TAGTAATTTTGT--AAA-TCG
* *
9053679 AAGGTA-TTTATGTAATTTTGTAAAT-T
1 AGGGTATTTTA-GTAATTTTGTAAATCG
* ** *
9053705 AGGAGTATTTTGGTAATTTTACAAATTG
1 AGG-GTATTTTAGTAATTTTGTAAATCG
** *** *
9053733 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTAGTAATTTTGTAAATCG
* * *
9053759 AGTGGTATTTTGGTAA-TTT-TACAAGCT
1 AG-GGTATTTTAGTAATTTTGTA-AATCG
* ** *
9053786 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTAGTAATTTTGTAAATCG
* ** * *
9053813 AGGGGTATTTTAGCAATTTTACAGA-CC
1 A-GGGTATTTTAGTAATTTTGTAAATCG
* *
9053840 AGGGTATTTTGGTAATTTT-TACTGATCG
1 AGGGTATTTTAGTAATTTTGTA--AATCG
* * *
9053868 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
9053895 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
**** * *
9053922 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
* *** * *
9053949 ATGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
***** *
9053976 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
9054003 AGGGTA
1 AGGGTA
9054009 AAACGGTAAT
Statistics
Matches: 292, Mismatches: 47, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.01
26 25 0.09
27 206 0.71
28 41 0.14
29 17 0.06
30 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAATCG
Found at i:9053937 original size:54 final size:54
Alignment explanation
Indices: 9053879--9054011 Score: 176
Period size: 54 Copynumber: 2.5 Consensus size: 54
9053869 GGGTATTTTG
* * *** * *
9053879 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
* *
9053933 GTAATTCTGTAAATCAATGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
*
9053987 GTAATTCTGTAAATCGAGGGTAAAA
1 GTAATTCTGTAAATCAAGGGTAAAA
9054012 CGGTAATTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:9054035 original size:27 final size:27
Alignment explanation
Indices: 9053905--9054027 Score: 174
Period size: 27 Copynumber: 4.6 Consensus size: 27
9053895 AGGGTATTTT
*
9053905 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
9053932 AGTAATTCTGTAAATCAATGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
9053959 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
9053986 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
9054013 GGTAATTATGTAAAT
1 AGTAATTCTGTAAAT
9054028 TAGGGGTACT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:9054073 original size:81 final size:81
Alignment explanation
Indices: 9053895--9054073 Score: 187
Period size: 81 Copynumber: 2.2 Consensus size: 81
9053885 TTGTAAACCA
* * * *
9053895 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAATGGTAAAATA
1 AGGGTATTTCAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
*
9053960 GTAATTCTATAAATCG
66 GTAATTCTACAAATCG
*** * * * * *** *
9053976 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATTAGGGGTACTTTG
1 AGGGTATTTCAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
* *
9054041 GTAATTTTACAAGTCG
66 GTAATTCTACAAATCG
*
9054057 AGGGTATTTCAATAATT
1 AGGGTATTTCAGTAATT
9054074 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.34
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
GTAATTCTACAAATCG
Found at i:9059482 original size:46 final size:48
Alignment explanation
Indices: 9059378--9059497 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
9059368 TGTCTTCGAC
** * * *
9059378 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
9059426 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
9059472 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
9059498 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 27 0.44
47 1 0.02
48 34 0.55
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:9063832 original size:46 final size:48
Alignment explanation
Indices: 9063728--9063847 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
9063718 TGTCTTCAAC
** * *
9063728 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
9063776 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
9063822 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
9063848 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:9071948 original size:13 final size:13
Alignment explanation
Indices: 9071930--9071971 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
9071920 TTTCAAAAAT
9071930 TATTATTATTTTA
1 TATTATTATTTTA
9071943 TATTATTA-TTTA
1 TATTATTATTTTA
9071955 TA-TATTATTGTTA
1 TATTATTATT-TTA
9071968 TATT
1 TATT
9071972 TTTACTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 7 0.27
13 13 0.50
14 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:9071949 original size:16 final size:16
Alignment explanation
Indices: 9071864--9071952 Score: 63
Period size: 16 Copynumber: 5.1 Consensus size: 16
9071854 CTTATTTTTA
9071864 TATTTTATATTA-TAT
1 TATTTTATATTATTAT
* *
9071879 AATTATTCTATTATATAT
1 TATT-TTATATTAT-TAT
9071897 TATTTGTATTATTATTTAT
1 TATTT-TA-TATTA-TTAT
*
9071916 TATTTTTCAAAAATTATTAT
1 TA-TTTT---ATATTATTAT
9071936 TATTTTATATTATTAT
1 TATTTTATATTATTAT
9071952 T
1 T
9071953 TATATATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
15 3 0.05
16 17 0.29
17 1 0.02
18 7 0.12
19 15 0.26
20 10 0.17
21 4 0.07
22 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (16 bp):
TATTTTATATTATTAT
Found at i:9071962 original size:30 final size:30
Alignment explanation
Indices: 9071855--9072119 Score: 88
Period size: 30 Copynumber: 8.8 Consensus size: 30
9071845 TCTTTTTACC
* *
9071855 TTATTTTTATATT-TTA-TATTATATAATTA
1 TTATTTATATATTATTATTATTTTAT-ATTA
*
9071884 TTCTATTATATATTATT-TGTATTATTAT-TTA
1 TTAT-TTATATATTATTAT-TATT-TTATATTA
* *
9071915 TTATTTTTCAAAAATTATTATTATTTTATATTA
1 TTA--TTT-ATATATTATTATTATTTTATATTA
* * * *
9071948 TTATTTATATATTATTGTTATATTTTTACTC
1 TTATTTATATATTATTATTAT-TTTATATTA
* *
9071979 GTA-TTATATATTTATTAATCA-TTTATA-T-
1 TTATTTATATA-TTATT-ATTATTTTATATTA
* * *
9072007 GTA-TTATATATTA-TATTCACATATATACTT-
1 TTATTTATATATTATTATT-A-TTTTATA-TTA
* *
9072037 TCATATTATATATTATAATTATTTTATATTA
1 TTAT-TTATATATTATTATTATTTTATATTA
* * * * * *
9072068 TTATGTCATTTTTTA-TACTATTATAT-TTT
1 TTAT-TTATATATTATTATTATTTTATATTA
* *
9072097 TTATCTATATATTATTATCATTT
1 TTATTTATATATTATTATTATTT
9072120 AAGTTTTTAA
Statistics
Matches: 174, Mismatches: 39, Indels: 46
0.67 0.15 0.18
Matches are distributed among these distances:
25 2 0.01
26 2 0.01
27 3 0.02
28 21 0.12
29 15 0.09
30 44 0.25
31 38 0.22
32 23 0.13
33 25 0.14
34 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATTTATATATTATTATTATTTTATATTA
Found at i:9072033 original size:28 final size:28
Alignment explanation
Indices: 9071979--9072033 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
9071969 ATTTTTACTC
*
9071979 GTATTATATATTTATTAATCATTTATAT
1 GTATTATATATTTATTAATCATATATAT
*
9072007 GTATTATATATTATATTCA-CATATATA
1 GTATTATATATT-TATTAATCATATATA
9072034 CTTTCATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (28 bp):
GTATTATATATTTATTAATCATATATAT
Found at i:9072065 original size:18 final size:17
Alignment explanation
Indices: 9072042--9072109 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 17
9072032 TACTTTCATA
9072042 TTATA-TATTATAATTATT
1 TTATACTATTAT-ATT-TT
*
9072060 TTATATTATTATGTCATTTT
1 TTATACTATTA--T-ATTTT
9072080 TTATACTATTATATTTT
1 TTATACTATTATATTTT
9072097 TTAT-CTA-TATATT
1 TTATACTATTATATT
9072110 ATTATCATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
15 6 0.13
16 3 0.07
17 9 0.20
18 6 0.13
19 5 0.11
20 12 0.27
21 4 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (17 bp):
TTATACTATTATATTTT
Found at i:9072112 original size:18 final size:17
Alignment explanation
Indices: 9072054--9072112 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
9072044 ATATATTATA
*
9072054 ATTATTTTATAT-TATT
1 ATTATTTTTTATCTATT
9072070 ATGTCATTTTTTATACTATT
1 AT-T-ATTTTTTAT-CTATT
9072090 A-TATTTTTTATCTATAT
1 ATTATTTTTTATCTAT-T
9072107 ATTATT
1 ATTATT
9072113 ATCATTTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 6 0.17
17 12 0.33
18 13 0.36
20 5 0.14
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTATTTTTTATCTATT
Found at i:9075811 original size:68 final size:68
Alignment explanation
Indices: 9075702--9075890 Score: 193
Period size: 68 Copynumber: 2.8 Consensus size: 68
9075692 ATTCTTGTGG
* * * * * * *
9075702 ACTTCATTTGTTGTAATACCCCAGCTATGGCCTTACACAATATGATGCCATGTTTAATT-TCCTA
1 ACTTCATTCGTTGTCATAGCCTAACTATGGTCTTACACAATATGGTGCCATGTTT-ATTATCCTA
9075766 ACAA
65 ACAA
** * * * ** *
9075770 ACTTCATTTTTTGTTATAG-ATCAATTATGGTCTTACACAATATGGTTTCATGTTTATTATCCTG
1 ACTTCATTCGTTGTCATAGCCT-AACTATGGTCTTACACAATATGGTGCCATGTTTATTATCCTA
*
9075834 GCAA
65 ACAA
*
9075838 ACTTCATTCGTTGTCATAGCCTAGCTATGGTCTTACACAATATGGTGCCATGT
1 ACTTCATTCGTTGTCATAGCCTAACTATGGTCTTACACAATATGGTGCCATGT
9075891 ACCTATGATT
Statistics
Matches: 97, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
67 3 0.03
68 93 0.96
69 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (68 bp):
ACTTCATTCGTTGTCATAGCCTAACTATGGTCTTACACAATATGGTGCCATGTTTATTATCCTAA
CAA
Found at i:9098391 original size:21 final size:21
Alignment explanation
Indices: 9098365--9098407 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9098355 TTGATGTAAA
9098365 ATGTGATATATACATAATTTT
1 ATGTGATATATACATAATTTT
9098386 ATGTGATATATACATAATTTT
1 ATGTGATATATACATAATTTT
9098407 A
1 A
9098408 GGTTAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (21 bp):
ATGTGATATATACATAATTTT
Found at i:9102553 original size:42 final size:42
Alignment explanation
Indices: 9102501--9102603 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
9102491 TAGCCCAGTT
* * * *
9102501 ATGGTC-TACACGATATC-CTGTATCGATGCCATGTCGCAGAC
1 ATGGTCTTACACGAAATCACT-TATCGATGCCATATCCCAAAC
*
9102542 ATGGTCTTACACGAAATCACTTATCGATGCCATATCCCAAAT
1 ATGGTCTTACACGAAATCACTTATCGATGCCATATCCCAAAC
*
9102584 ATGGTCTTACACAAAATCAC
1 ATGGTCTTACACGAAATCAC
9102604 ACATAACCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 6 0.11
42 46 0.85
43 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCACTTATCGATGCCATATCCCAAAC
Found at i:9108666 original size:15 final size:15
Alignment explanation
Indices: 9108646--9108695 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
9108636 TAGTACTTAA
9108646 TTTTTCAATATTTAT
1 TTTTTCAATATTTAT
* *
9108661 TTTTTCAACATTTAA
1 TTTTTCAATATTTAT
*
9108676 TTTTTCAGTATTTGAT
1 TTTTTCAATATTT-AT
9108692 TTTT
1 TTTT
9108696 CAGTTTATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (15 bp):
TTTTTCAATATTTAT
Found at i:9109009 original size:17 final size:16
Alignment explanation
Indices: 9108987--9109023 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
9108977 GTCCATTTAT
9108987 TTTTATATAAAAAATTA
1 TTTTATA-AAAAAATTA
*
9109004 TTTTATAAAATAATTA
1 TTTTATAAAAAAATTA
9109020 TTTT
1 TTTT
9109024 TCAAAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTATAAAAAAATTA
Found at i:9109020 original size:16 final size:15
Alignment explanation
Indices: 9108992--9109032 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
9108982 TTTATTTTTA
9108992 TATAAAAAATTATTT
1 TATAAAAAATTATTT
9109007 TATAAAATAATTATTT
1 TATAAAA-AATTATTT
*
9109023 T-TCAAAAATT
1 TATAAAAAATT
9109033 CTTGAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 11 0.46
16 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAAAAAATTATTT
Found at i:9109024 original size:17 final size:18
Alignment explanation
Indices: 9108983--9109024 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
9108973 AAAGGTCCAT
9108983 TTATTTTTATATAAAAAA
1 TTATTTTTATATAAAAAA
*
9109001 TTA-TTTTATA-AAATAA
1 TTATTTTTATATAAAAAA
9109017 TTATTTTT
1 TTATTTTT
9109025 CAAAAATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTTTATATAAAAAA
Found at i:9109595 original size:34 final size:35
Alignment explanation
Indices: 9109553--9109626 Score: 116
Period size: 34 Copynumber: 2.1 Consensus size: 35
9109543 TATGCATCAT
9109553 ATATTTTGCATT-ATCCTATTTTT-CTAAATTTGAC
1 ATATTTTGCATTGA-CCTATTTTTCCTAAATTTGAC
*
9109587 ATATTTTGCATTGACTTATTTTTCCTAAATTTGAC
1 ATATTTTGCATTGACCTATTTTTCCTAAATTTGAC
9109622 ATATT
1 ATATT
9109627 CAAGTAGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
34 20 0.54
35 17 0.46
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.53
Consensus pattern (35 bp):
ATATTTTGCATTGACCTATTTTTCCTAAATTTGAC
Found at i:9110207 original size:61 final size:61
Alignment explanation
Indices: 9110122--9110242 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
9110112 TCAACCTATC
* * *
9110122 AAACTCCAATCGACAATAAGATGACTCAATACTCATCAACAAATAAAACACACCTTAATCT
1 AAACCCCAATCGACAATAAAATGACTCAATACTCATCAACAAATAAAACAAACCTTAATCT
*
9110183 AAACCCCAATTGACAATAAAATGACTCAATACTCATCAACAAATAAAACAAACCTTAATC
1 AAACCCCAATCGACAATAAAATGACTCAATACTCATCAACAAATAAAACAAACCTTAATC
9110243 CAAGTCCATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.50, C:0.26, G:0.04, T:0.21
Consensus pattern (61 bp):
AAACCCCAATCGACAATAAAATGACTCAATACTCATCAACAAATAAAACAAACCTTAATCT
Found at i:9111034 original size:207 final size:210
Alignment explanation
Indices: 9110651--9111119 Score: 685
Period size: 207 Copynumber: 2.2 Consensus size: 210
9110641 CTGAATCTGC
* * * * * *
9110651 TAATACGTACTTCATCCAGATGATGTATGTATTACCAGATTCACTAATATGATTATATATATATA
1 TAATACATACTT-ATCCGGATGAAGTATGTATTAGCAGATTCAATAATATCA-TATATATATATA
* * *
9110716 TATTTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACTTAATAAATCATGTAT
64 TATTTACGCATATATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTAT
* * * * *
9110781 CTCATTACAATAATTGTTATTTTCCAACTAATATATTATATTATAATTTTATTTCTTATTTAAT-
129 CTCATTACAATAATTATTATTTTCCAAATAACATATTATATTATAATATAATTTCTTATTTAATA
9110845 TTTTAATTTAATTTTAA
194 TTTTAATTTAATTTTAA
* * *
9110862 TAATGCATACTTTATCCGTATGAAGTATGTATTAGCAGATTCAGTAATA-CA-AT-TATATATAT
1 TAATACATAC-TTATCCGGATGAAGTATGTATTAGCAGATTCAATAATATCATATATATATATAT
9110924 ATTTACGCATATATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATC
65 ATTTACGCATATATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATC
* * *
9110989 TCATTACAATAATTATTATTTTTCAAATAACATATTGTTTTATAATATAATTTCTTATTTAATAT
130 TCATTACAATAATTATTATTTTCCAAATAACATATTATATTATAATATAATTTCTTATTTAATAT
9111054 TTTAATTTAATTTTAA
195 TTTAATTTAATTTTAA
* *
9111070 TAATACATACTTATCCGGATGAAGTATGTATTAGTAAATTCAATAATATC
1 TAATACATACTTATCCGGATGAAGTATGTATTAGCAGATTCAATAATATC
9111120 TAGTTGGACT
Statistics
Matches: 231, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
207 160 0.69
208 29 0.13
210 1 0.00
211 39 0.17
212 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (210 bp):
TAATACATACTTATCCGGATGAAGTATGTATTAGCAGATTCAATAATATCATATATATATATATA
TTTACGCATATATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATCT
CATTACAATAATTATTATTTTCCAAATAACATATTATATTATAATATAATTTCTTATTTAATATT
TTAATTTAATTTTAA
Found at i:9116530 original size:22 final size:22
Alignment explanation
Indices: 9116505--9116553 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
9116495 TTGCAACATG
9116505 GGGAGTTCGATATCACAACTTA
1 GGGAGTTCGATATCACAACTTA
*
9116527 GGGAGTTTGATATCACAACTTA
1 GGGAGTTCGATATCACAACTTA
9116549 GGGAG
1 GGGAG
9116554 CAAAGTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (22 bp):
GGGAGTTCGATATCACAACTTA
Found at i:9116921 original size:11 final size:11
Alignment explanation
Indices: 9116905--9116934 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9116895 ACAAATTTGT
9116905 AATTAAATCAA
1 AATTAAATCAA
*
9116916 AATTAAAACAA
1 AATTAAATCAA
9116927 AATTAAAT
1 AATTAAAT
9116935 GAAGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (11 bp):
AATTAAATCAA
Found at i:9139332 original size:28 final size:29
Alignment explanation
Indices: 9139301--9139399 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
9139291 ATAATAAGCC
9139301 CGCACACTTAGTGCTTA-ATAATCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
9139329 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
9139357 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
9139386 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9139400 CAATCTCATG
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
27 4 0.06
28 36 0.58
29 17 0.27
30 5 0.08
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:9157960 original size:46 final size:46
Alignment explanation
Indices: 9157893--9158158 Score: 226
Period size: 46 Copynumber: 5.7 Consensus size: 46
9157883 TAACCCGCCA
* *
9157893 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
* * *
9157939 ATAAGTGAACTCGAACTCAACTCAACAAGCTT-GGATGCCTAGTT-ACAT-C
1 ATAAGCGAACTCGGACTCAACTCAACGAG-TTCGG--G-C-A-TTCACATCC
* * * * *
9157988 -TCA-CGAACTCGGACTCAACTTAACGAGTTCGGACGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
* *
9158032 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAATT-ACAT-C
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--ATTCACATCC
* * *
9158081 -TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
*
9158125 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
9158159 TTGCCTAAAT
Statistics
Matches: 173, Mismatches: 27, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
42 4 0.02
43 7 0.04
44 4 0.02
45 4 0.02
46 84 0.49
47 50 0.29
48 5 0.03
49 4 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCC
Found at i:9158004 original size:93 final size:93
Alignment explanation
Indices: 9157898--9158166 Score: 416
Period size: 93 Copynumber: 2.9 Consensus size: 93
9157888 CGCCAATAAG
* * *
9157898 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
9157963 ACAAGCTT-GGATGCCTAGTTACATCTCA
66 ACAAG-TTCGGATGCCTAATTACATCTCA
*
9157991 CGAACTCGGACTCAACTTAACGAGTTCGGACGTTCGCATCCATAAGTGAACTC-AGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGA-ACTCAACTC
*
9158055 AACGAGTTCGGATGCCTAATTACATCTCA
65 AACAAGTTCGGATGCCTAATTACATCTCA
* *
9158084 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
* *
9158149 ACGAGTTCGGTTGCCTAA
66 ACAAGTTCGGATGCCTAA
9158167 ATATCCGAAT
Statistics
Matches: 163, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.02
93 160 0.98
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACAAGTTCGGATGCCTAATTACATCTCA
Found at i:9162949 original size:64 final size:64
Alignment explanation
Indices: 9162870--9162996 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
9162860 TGTCGTACCC
9162870 AAAGGAACTAAAAGTACTAGTAATGATTGTCTTTTTATTATCTAGCCTAAGAGTAAAGAGGTTA
1 AAAGGAACTAAAAGTACTAGTAATGATTGTCTTTTTATTATCTAGCCTAAGAGTAAAGAGGTTA
9162934 AAAGGAACTAAAAGTACTAGTAATGATTGTCTTTTTATTATCTAGCCTAAGAGTAAAGAGGTT
1 AAAGGAACTAAAAGTACTAGTAATGATTGTCTTTTTATTATCTAGCCTAAGAGTAAAGAGGTT
9162997 TTCTTTTAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (64 bp):
AAAGGAACTAAAAGTACTAGTAATGATTGTCTTTTTATTATCTAGCCTAAGAGTAAAGAGGTTA
Found at i:9164288 original size:70 final size:70
Alignment explanation
Indices: 9164175--9164336 Score: 315
Period size: 70 Copynumber: 2.3 Consensus size: 70
9164165 TGGAATTTAG
9164175 GCACTAAGTGTGCGAGTATAAACGATTACGGATGTGAATCTTGCACTAAGTATGCAAATGTGGTT
1 GCACTAAGTGTGCGAGTATAAACGATTACGGATGTGAATCTTGCACTAAGTATGCAAATGTGGTT
9164240 ATTGA
66 ATTGA
9164245 GCACTAAGTGTGCGAGTATAAACGATTACGGATGTGAATCTTGCACTAAGTATGCAAATGTGGTT
1 GCACTAAGTGTGCGAGTATAAACGATTACGGATGTGAATCTTGCACTAAGTATGCAAATGTGGTT
9164310 ATTGA
66 ATTGA
*
9164315 GCACTAAGTGTGCGAGTTTAAA
1 GCACTAAGTGTGCGAGTATAAA
9164337 TATCGAGCAC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 91 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (70 bp):
GCACTAAGTGTGCGAGTATAAACGATTACGGATGTGAATCTTGCACTAAGTATGCAAATGTGGTT
ATTGA
Found at i:9170055 original size:55 final size:54
Alignment explanation
Indices: 9169939--9170182 Score: 278
Period size: 55 Copynumber: 4.5 Consensus size: 54
9169929 ATAAGGATAT
* ** * * * *
9169939 CATGTAAGACCATGCCAAGGTATGGCATTGATAAGTTCTATAAGGCAACGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGAAC
* * *
9169993 CATGTAAGATCATGTCAAGACATGGCATTGATGAGTTACTATAACGCAAAGGACC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGAAC
* * *
9170048 CATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGCAAATG-TC
1 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGAAC
* * *
9170102 CTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC-AAGGATAC
1 C-ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGA-AC
*
9170156 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
9170183 ATGGTAAGTT
Statistics
Matches: 162, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.02
53 30 0.19
54 37 0.23
55 92 0.57
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGAAC
Found at i:9170212 original size:108 final size:110
Alignment explanation
Indices: 9169994--9170217 Score: 251
Period size: 108 Copynumber: 2.1 Consensus size: 110
9169984 CAACGAAATC
* * * *
9169994 ATGTAAGATCATGTCAAGACATGGCATTGATGAGTTACTATAACGCAAAGGACCCATGTAAGACC
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAACGCAAAGGAACCACGTAAGACC
* * * * * *
9170059 ATGTCAAGACATGGAATTGATGAGTTACTATAAGGCAAATGTCCT
66 ATGTCAAGACATGGAATTGATAAGTTACAAAAAAGAAAAGGTCCT
* * *
9170104 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGATACCACGTAAGAC
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAACGCAAAGGA-ACCACGTAAGAC
*
9170166 CATGTCAAGACATGGCAA-TGGTAAGTT-CAAAAAAGAAAAGGTTCCT
65 CATGTCAAGACATGG-AATTGATAAGTTACAAAAAAGAAAAGG-TCCT
*
9170212 AAGTAA
1 ATGTAA
9170218 TCCAAAGAGT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
107 14 0.15
108 47 0.49
109 3 0.03
110 32 0.33
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAACGCAAAGGAACCACGTAAGACC
ATGTCAAGACATGGAATTGATAAGTTACAAAAAAGAAAAGGTCCT
Found at i:9174263 original size:50 final size:49
Alignment explanation
Indices: 9174188--9174374 Score: 181
Period size: 50 Copynumber: 3.9 Consensus size: 49
9174178 TGATGCTAAG
*
9174188 GAGATATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTC
* ** *
9174238 GAGATATGAGAGCTAGTGTAAGACCATGTCTGAGACATGATATCGGGT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTC
* * * * *
9174286 -TG--ATGTG-TC-AGTGTAAGACCATGCCTGGGATATGGCATCGGTCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTC
* * *
9174331 AATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC
9174375 AACTTTGATG
Statistics
Matches: 108, Mismatches: 21, Indels: 16
0.74 0.14 0.11
Matches are distributed among these distances:
43 27 0.25
44 2 0.02
45 4 0.04
47 1 0.01
48 3 0.03
49 1 0.01
50 70 0.65
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTC
Found at i:9180095 original size:120 final size:120
Alignment explanation
Indices: 9179863--9180121 Score: 312
Period size: 120 Copynumber: 2.2 Consensus size: 120
9179853 TTGAATGATG
* *
9179863 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
9179928 GTGCGAGTTACTAAATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * **
9179983 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
9180046 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGTTACTA-AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAA
* *
9180103 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
9180122 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
119 17 0.14
120 94 0.78
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:9180102 original size:40 final size:40
Alignment explanation
Indices: 9179863--9180088 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
9179853 TTGAATGATG
* * * * *
9179863 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
9179903 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9179943 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
9179983 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
9180023 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
9180064 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
9180089 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
40 161 0.94
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9202783 original size:27 final size:27
Alignment explanation
Indices: 9202752--9202929 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9202742 TAAATTGTAC
9202752 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
9202779 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9202805 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9202833 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9202861 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9202888 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
9202915 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9202930 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9202866 original size:82 final size:81
Alignment explanation
Indices: 9202753--9202908 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9202743 AAATTGTACA
* *
9202753 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
9202817 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9202834 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9202899 TGCGAGTTGA
65 TGCGAATTGA
9202909 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9202920 original size:82 final size:81
Alignment explanation
Indices: 9202749--9202929 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
9202739 GATTAAATTG
* *
9202749 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
9202814 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
9202830 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
9202894 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
9202912 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9202930 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:9209375 original size:41 final size:41
Alignment explanation
Indices: 9209329--9209407 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
9209319 TTAGAGTATG
*
9209329 AAGCATTGCGTCAGTGGCAGAAGGTTGAGATTTTCTTTATA
1 AAGCATTGCGTCAGTGGCAAAAGGTTGAGATTTTCTTTATA
9209370 AAGCATTGCGTCAGTGGCAAAAGGTTGAGATTTTCTTT
1 AAGCATTGCGTCAGTGGCAAAAGGTTGAGATTTTCTTT
9209408 CCCATCTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (41 bp):
AAGCATTGCGTCAGTGGCAAAAGGTTGAGATTTTCTTTATA
Found at i:9217302 original size:19 final size:19
Alignment explanation
Indices: 9217278--9217318 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9217268 GGCCATGTGG
9217278 CCAGGCCGTGTGCAATGCC
1 CCAGGCCGTGTGCAATGCC
* *
9217297 CCAGGCCTTGTGGAATGCC
1 CCAGGCCGTGTGCAATGCC
9217316 CCA
1 CCA
9217319 AGCCATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (19 bp):
CCAGGCCGTGTGCAATGCC
Found at i:9217327 original size:19 final size:19
Alignment explanation
Indices: 9217286--9217327 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9217276 GGCCAGGCCG
* *
9217286 TGTGCAATGCCCCAGGCCT
1 TGTGCAATGCCCCAAGCCA
*
9217305 TGTGGAATGCCCCAAGCCA
1 TGTGCAATGCCCCAAGCCA
9217324 TGTG
1 TGTG
9217328 ACTTTCGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (19 bp):
TGTGCAATGCCCCAAGCCA
Found at i:9218395 original size:43 final size:43
Alignment explanation
Indices: 9218343--9218428 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
9218333 TCATTTTTCA
9218343 TTTCCCATCTCATATTCAGTTCTCATCTTT-TCTATTTCAATAT
1 TTTCCCATCTCATATTCAGTTCTCATCTTTGT-TATTTCAATAT
* * * *
9218386 TTTCTCATCTGATATTCATTTCTCATCTTTGTTATTTCGATAT
1 TTTCCCATCTCATATTCAGTTCTCATCTTTGTTATTTCAATAT
9218429 CACACACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.05, T:0.53
Consensus pattern (43 bp):
TTTCCCATCTCATATTCAGTTCTCATCTTTGTTATTTCAATAT
Found at i:9221999 original size:18 final size:19
Alignment explanation
Indices: 9221976--9222016 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9221966 AATATTACAC
9221976 ATTTCAA-TTTCACATTAA
1 ATTTCAATTTTCACATTAA
*
9221994 ATTTCAATTTTCACATTAT
1 ATTTCAATTTTCACATTAA
9222013 ATTT
1 ATTT
9222017 TTCTTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCAATTTTCACATTAA
Found at i:9225830 original size:53 final size:53
Alignment explanation
Indices: 9225750--9225855 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
9225740 TGAGACACAC
*
9225750 GGGCGTGTCTCTGCCTGTGTGGACAAAAATAAAGCTATTTACCAAGCCATTTT
1 GGGCGTGTCTCTGCCTGTGTGGACAAAAATAAAGCAATTTACCAAGCCATTTT
*
9225803 GGGCGTGTCTCTGCCTGTGTGGACAAAAATAAGGCAATTTACCAAGCCATTTT
1 GGGCGTGTCTCTGCCTGTGTGGACAAAAATAAAGCAATTTACCAAGCCATTTT
9225856 TCCACCCTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (53 bp):
GGGCGTGTCTCTGCCTGTGTGGACAAAAATAAAGCAATTTACCAAGCCATTTT
Found at i:9228381 original size:15 final size:16
Alignment explanation
Indices: 9228349--9228382 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9228339 ATTTCATCTC
*
9228349 ATTTGTATTTAGGTTA
1 ATTTGCATTTAGGTTA
9228365 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
9228380 ATT
1 ATT
9228383 AATTTAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:9230474 original size:24 final size:24
Alignment explanation
Indices: 9230447--9230504 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
9230437 GTGAACTTCT
9230447 TGTTTATAGCTCTTACGAGCTGCC
1 TGTTTATAGCTCTTACGAGCTGCC
* * *
9230471 TGTTT-TAAACTCTTATGAGCTTCC
1 TGTTTAT-AGCTCTTACGAGCTGCC
9230495 TG-TTATAGCT
1 TGTTTATAGCT
9230505 TGGATAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTTTATAGCTCTTACGAGCTGCC
Found at i:9235237 original size:28 final size:28
Alignment explanation
Indices: 9235205--9235281 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
9235195 TTATTTGTTT
9235205 AAGGTTTAAGAATTTTAAAAAATAAATC
1 AAGGTTTAAGAATTTTAAAAAATAAATC
* *
9235233 AAGGTTTAGGAATTTTAAAAAATAAATT
1 AAGGTTTAAGAATTTTAAAAAATAAATC
*
9235261 AAGGTTTAAG-TTTTTAAAAAA
1 AAGGTTTAAGAATTTTAAAAAA
9235282 ATTAATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 10 0.22
28 35 0.78
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (28 bp):
AAGGTTTAAGAATTTTAAAAAATAAATC
Found at i:9235282 original size:28 final size:28
Alignment explanation
Indices: 9235203--9235369 Score: 115
Period size: 28 Copynumber: 5.6 Consensus size: 28
9235193 ATTTATTTGT
*
9235203 TTAAGGTTTAAGAATTTT-AAAAAATAAA
1 TTAAGGTTTAAG-TTTTTAAAAAAATAAA
* * *
9235231 TCAAGGTTTAGGAATTTT-AAAAAATAAA
1 TTAAGGTTTAAG-TTTTTAAAAAAATAAA
*
9235259 TTAAGGTTTAAGTTTTTAAAAAAATTAA
1 TTAAGGTTTAAGTTTTTAAAAAAATAAA
*
9235287 TTAAATTAGGTTTAGGGTTTTTAAGAAAATTAATTAAA
1 TT--A--AGGTTTA-AGTTTTT-A-AAAA--AA-TAAA
9235325 TTAAGGTTTAGAGTTTTTAAAAAAAT-AA
1 TTAAGGTTTA-AGTTTTTAAAAAAATAAA
* *
9235353 TTTAGTGTTTAGGTTTT
1 TTAAG-GTTTAAGTTTT
9235370 AAGATTTTTG
Statistics
Matches: 116, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
27 4 0.03
28 58 0.50
29 6 0.05
30 3 0.03
32 11 0.09
33 7 0.06
34 15 0.13
35 4 0.03
36 1 0.01
37 2 0.02
38 5 0.04
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (28 bp):
TTAAGGTTTAAGTTTTTAAAAAAATAAA
Found at i:9235292 original size:33 final size:34
Alignment explanation
Indices: 9235255--9235354 Score: 161
Period size: 33 Copynumber: 3.0 Consensus size: 34
9235245 TTTTAAAAAA
9235255 TAAATTAAGGTTTA-AGTTTTTAAAAAAATTAAT
1 TAAATTAAGGTTTAGAGTTTTTAAAAAAATTAAT
* *
9235288 TAAATT-AGGTTTAGGGTTTTTAAGAAAATTAAT
1 TAAATTAAGGTTTAGAGTTTTTAAAAAAATTAAT
9235321 TAAATTAAGGTTTAGAGTTTTTAAAAAAA-TAAT
1 TAAATTAAGGTTTAGAGTTTTTAAAAAAATTAAT
9235354 T
1 T
9235355 TAGTGTTTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.11
33 34 0.56
34 20 0.33
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (34 bp):
TAAATTAAGGTTTAGAGTTTTTAAAAAAATTAAT
Found at i:9235563 original size:127 final size:123
Alignment explanation
Indices: 9235432--9235841 Score: 459
Period size: 126 Copynumber: 3.2 Consensus size: 123
9235422 AGATGGATTT
* **
9235432 TTTTTTCTACAGTAGCTT-CTAAAAAAATTAATTTTGAGAAGACGACCCTAAAAAAATAGTGACA
1 TTTTTTCTACAGTAG-TTCCTGAAAAAA-TAATTTTGAGAAGACGATTCTAAAAAAATAGTG-C-
* * * * * * *
9235496 AAAAAAGCTTCAAGCAGGATACACTGTTAACAAAAGTACTAAAAAAAGTTGTCACGTGGACGC
62 AAAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCT-CCACGTGGACGC
* * *
9235559 TTTTTTCT-CTAGTAGTTTCTGAAAAAATAATTTTAAGAAGAC-AGTTCTGAAAAAAA-AGCTTC
1 TTTTTTCTAC-AGTAGTTCCTGAAAAAATAATTTTGAGAAGACGA-TTCT-AAAAAAATAG-TGC
* * * *
9235621 AAAAACGCTTCAAGCAGGATGCACAGTCATCAAAATTACTGAAAAAAGCTCCCATGTGGACGT
62 AAAAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCT-CCACGTGGACGC
* *
9235684 TCTTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGCCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTG-CAA
* * *
9235749 AAGCGCTTTAAGCAGGATGCACTGTCAACAAAATTATTGAAAAAAGCTCCTACGTGGACGTTC
64 AAACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCC-ACGTGGACG--C
9235812 TTTTTTCTACAGTAGTTCCTGAAAAAATAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAA
9235842 AAAAAAAATA
Statistics
Matches: 240, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
125 63 0.26
126 119 0.50
127 57 0.24
128 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (123 bp):
TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTAAAAAAATAGTGCAAAA
ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCACGTGGACGC
Found at i:9235850 original size:110 final size:109
Alignment explanation
Indices: 9235733--9235941 Score: 274
Period size: 110 Copynumber: 1.9 Consensus size: 109
9235723 AGACGGTTCT
* * ** *
9235733 AAAAAAATAGTGCCAAAAGCGCTTTAAGCAGGATGCACTGTCAACAAAATTATTGAAAAAAGCTC
1 AAAAAAATAGTGCCAAAAACACTCCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTC
* **
9235798 CTACGTGGACGTTCTTTTTTCTACAGTAGTTCCTGAAAAAATAAA
66 CCACGTGGACACTC-TTTTTCTACAGTAGTTCCTGAAAAAATAAA
* * * * *
9235843 AAAAAAATAGTGTCAAAAACACTCCAAGTAGGATGTACTGTTAGCAAAATTACTGAAAAAAGCTC
1 AAAAAAATAGTGCCAAAAACACTCCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTC
* *
9235908 CCACGTGGACACTCTTTTTCTATATTAGTTCCTG
66 CCACGTGGACACTCTTTTTCTACAGTAGTTCCTG
9235942 CTTGGCCTTA
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
109 18 0.21
110 66 0.79
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (109 bp):
AAAAAAATAGTGCCAAAAACACTCCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTC
CCACGTGGACACTCTTTTTCTACAGTAGTTCCTGAAAAAATAAA
Found at i:9237156 original size:25 final size:24
Alignment explanation
Indices: 9237119--9237175 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
9237109 ACTGTTATAA
* *
9237119 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTACAAAATGAAAAA-AAATT
9237143 AAAATTACATAAATGAAAAAAAATT
1 AAAATTACA-AAATGAAAAAAAATT
9237168 AAATATTA
1 AAA-ATTA
9237176 TTCAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.29
25 11 0.39
26 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAAAATT
Found at i:9246014 original size:27 final size:28
Alignment explanation
Indices: 9245930--9246027 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
9245920 CATGAGATTG
* * * *
9245930 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
9245959 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
9245987 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9246014 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
9246028 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:9246038 original size:27 final size:27
Alignment explanation
Indices: 9245958--9246040 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
9245948 TAAATTGTAC
* *
9245958 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9245986 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
9246013 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
9246040 A
1 A
9246041 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Done.