Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3738426
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 16
Found at i:592165 original size:65 final size:64
Alignment explanation
Indices: 592033--592189 Score: 165
Period size: 65 Copynumber: 2.4 Consensus size: 64
592023 CACACCCATT
* * *
592033 TCGAATAC-AATTTATGTACCGATGCACAACCATGCATCGATGCACTCTGGATTTTATTAAAACA
1 TCGAA-ACAAATTTATGCACCGATGCACAACCATGCATCGATGCACCCCGGATTTTATTAAAACA
*** * * ** *
592097 TCGAATTGATTTTATGCACCGATGCACAAGTCATGCATCGATGCACCCCGTCTATTT-TTGAAAC
1 TCGAAACAAATTTATGCACCGATGCACAA-CCATGCATCGATGCACCCCGGAT-TTTATTAAAAC
592161 A
64 A
*
592162 TCGAAACAAATTTGTGCACCGATGCACA
1 TCGAAACAAATTTATGCACCGATGCACA
592190 CTATAGTGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
64 24 0.32
65 48 0.64
66 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (64 bp):
TCGAAACAAATTTATGCACCGATGCACAACCATGCATCGATGCACCCCGGATTTTATTAAAACA
Found at i:592207 original size:20 final size:20
Alignment explanation
Indices: 592179--592225 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
592169 AAATTTGTGC
592179 ACCGATGCACACTATAGTGT
1 ACCGATGCACACTATAGTGT
*
592199 ACTGATGCACACTATAGTGT
1 ACCGATGCACACTATAGTGT
592219 ACCGATG
1 ACCGATG
592226 AACTAAGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (20 bp):
ACCGATGCACACTATAGTGT
Found at i:593523 original size:65 final size:65
Alignment explanation
Indices: 593390--593549 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
593380 TGCACTAAGA
* * *
593390 GTGCAACGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
593454 GTGCATCTATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
593517 AT
65 -G
*
593519 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
593550 CAATTTAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 27 0.33
65 53 0.64
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:602188 original size:65 final size:65
Alignment explanation
Indices: 602040--602199 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 65
602030 TGCACTAAGA
* * *
602040 GTGCAACGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCATAGTGCATCGATGCATGTCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATGTATG
* * * *
602104 GTGCATCAATGGATCAAATGCATTCGATGTTTTCATAAA-ATCC-TCAGTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCAT-AGTGCATCGATGCAT-GT
602167 AT-
63 ATG
* * *
602169 GTGCTTCGATGCATGAAATGCACTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
602200 CAATTTAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
64 26 0.32
65 48 0.60
66 6 0.08
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCATAGTGCATCGATGCATGTATG
Found at i:606249 original size:29 final size:28
Alignment explanation
Indices: 606177--606245 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 28
606167 TGAAAAATAA
*
606177 TTTTAAAAGTGTTGTATAAATAGATTTT
1 TTTTAAATGTGTTGTATAAATAGATTTT
*
606205 TTTTAAAAATAATGTTGTATAAATAGATTTT
1 TTTT--AAAT-GTGTTGTATAAATAGATTTT
606236 TTTTAAATGT
1 TTTTAAATGT
606246 TGTTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 5 0.14
29 4 0.11
30 3 0.09
31 23 0.66
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.51
Consensus pattern (28 bp):
TTTTAAATGTGTTGTATAAATAGATTTT
Found at i:606649 original size:18 final size:19
Alignment explanation
Indices: 606626--606666 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
606616 TAAAAACACA
606626 AATAAAAAATATA-ATTAT
1 AATAAAAAATATATATTAT
*
606644 AAT-AAAAATATATTTTAT
1 AATAAAAAATATATATTAT
606662 AATAA
1 AATAA
606667 CTCACTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAAAAAATATATATTAT
Found at i:606652 original size:17 final size:18
Alignment explanation
Indices: 606630--606666 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
606620 AACACAAATA
606630 AAAAATATA-ATTATAAT
1 AAAAATATATATTATAAT
*
606647 AAAAATATATTTTATAAT
1 AAAAATATATATTATAAT
606665 AA
1 AA
606667 CTCACTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATATATATTATAAT
Found at i:609046 original size:5 final size:5
Alignment explanation
Indices: 609036--609064 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
609026 ATATATATGC
609036 ACCTA ACCTA ACCTA ACCTA ACCTA ACCT
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCT
609065 CACCATCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (5 bp):
ACCTA
Found at i:614245 original size:15 final size:15
Alignment explanation
Indices: 614225--614256 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
614215 GAGGAGAACC
*
614225 CTTATAAAATTATGT
1 CTTATAAAAATATGT
614240 CTTATAAAAATATGT
1 CTTATAAAAATATGT
614255 CT
1 CT
614257 AAGTGAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (15 bp):
CTTATAAAAATATGT
Found at i:617554 original size:7 final size:7
Alignment explanation
Indices: 617542--617572 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
617532 CCTGGAGCCT
617542 AGGCACA
1 AGGCACA
617549 AGGCACA
1 AGGCACA
617556 AGGCACA
1 AGGCACA
617563 AGGCACA
1 AGGCACA
617570 AGG
1 AGG
617573 GCATGCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.26, G:0.32, T:0.00
Consensus pattern (7 bp):
AGGCACA
Found at i:620760 original size:20 final size:21
Alignment explanation
Indices: 620737--620775 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
620727 ATAATATGTG
*
620737 AATATAATAAT-TAATTTTAA
1 AATAAAATAATATAATTTTAA
*
620757 AATAAAATACTATAATTTT
1 AATAAAATAATATAATTTT
620776 CATTATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAAAATAATATAATTTTAA
Found at i:626754 original size:64 final size:64
Alignment explanation
Indices: 626676--626805 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 64
626666 TATGTTAATC
* * *
626676 ATTTAATTGAAAATATTATTAAGTAAAATAATATATTAGGTAACACTTATATAATAAAATAGAT
1 ATTTAATCGAAAATATTATTAAGTAAAATAACATATAAGGTAACACTTATATAATAAAATAGAT
* * * * **
626740 ATTTAATCGGAAATATTATTAAGTACAATAACATATAAGGTATCATTTATATAATGTAATAGAT
1 ATTTAATCGAAAATATTATTAAGTAAAATAACATATAAGGTAACACTTATATAATAAAATAGAT
626804 AT
1 AT
626806 GTTTATATTG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (64 bp):
ATTTAATCGAAAATATTATTAAGTAAAATAACATATAAGGTAACACTTATATAATAAAATAGAT
Found at i:627034 original size:14 final size:14
Alignment explanation
Indices: 626991--627035 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
626981 CATTATAGAT
*
626991 ATAATATTTTAAT-A
1 ATAATA-TTAAATAA
627005 ATAATATTAACATAA
1 ATAATATTAA-ATAA
627020 ATAATATTAAATAA
1 ATAATATTAAATAA
627034 AT
1 AT
627036 TATTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 11 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATATTAAATAA
Found at i:627043 original size:14 final size:15
Alignment explanation
Indices: 627004--627035 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
626994 ATATTTTAAT
627004 AATAATATTAACATA
1 AATAATATTAACATA
627019 AATAATATTAA-ATA
1 AATAATATTAACATA
627033 AAT
1 AAT
627036 TATTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATATTAACATA
Found at i:627820 original size:31 final size:30
Alignment explanation
Indices: 627779--627864 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
627769 TTATAATAAA
*
627779 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TCATAATAATTTT-TTAT
*
627809 TAATAAAATATAATCATCATAATTTTTTAT
1 TAATAAAATATAATCATAATAATTTTTTAT
*
627839 TTATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATCATAATAATTTT
627865 AATAATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 28 0.58
31 16 0.33
32 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (30 bp):
TAATAAAATATAATCATAATAATTTTTTAT
Found at i:627959 original size:24 final size:24
Alignment explanation
Indices: 627908--627959 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
627898 ATTATTCTAA
627908 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
627931 T-TTGTTAATAAATACTATTATT-T
1 TATTGTTAA-AAATAATATTATTAT
627954 TATTGT
1 TATTGT
627960 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:628555 original size:32 final size:32
Alignment explanation
Indices: 628519--628581 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
628509 TTATGCACAA
628519 CAATAACAAAACCGATACCGCCTTTTTTTAGT
1 CAATAACAAAACCGATACCGCCTTTTTTTAGT
* * *
628551 CAATAACAGAATCGGTACCGCCTTTTTTTAG
1 CAATAACAAAACCGATACCGCCTTTTTTTAG
628582 CAGTATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (32 bp):
CAATAACAAAACCGATACCGCCTTTTTTTAGT
Found at i:631341 original size:23 final size:22
Alignment explanation
Indices: 631307--631413 Score: 119
Period size: 23 Copynumber: 4.8 Consensus size: 22
631297 GTGTCGAGGG
*
631307 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGAC-A
631330 TTCTACGTGGTCCTTCGGGACA
1 TTCTACGTGGTCCTTCGGGACA
* *
631352 TTTTTACGCGGTCCTTCGGGACA
1 -TTCTACGTGGTCCTTCGGGACA
* *
631375 -TCTATGTGGTCCTTTGGGACA
1 TTCTACGTGGTCCTTCGGGACA
*
631396 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
631414 TGCAATTTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
21 18 0.25
22 15 0.21
23 40 0.55
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (22 bp):
TTCTACGTGGTCCTTCGGGACA
Found at i:636096 original size:41 final size:41
Alignment explanation
Indices: 636033--636113 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
636023 ACTAAGGCAG
* * * *
636033 TATCGATACCCTAAGACCGATATTGATATTGACAGTCTCAA
1 TATCAATACCCTAAGACCGATATAGATACTGACAGGCTCAA
*
636074 TATCAATACCCTAAGACTGATATAGATACTGACAGGCTCA
1 TATCAATACCCTAAGACCGATATAGATACTGACAGGCTCA
636114 GTGTCGATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (41 bp):
TATCAATACCCTAAGACCGATATAGATACTGACAGGCTCAA
Found at i:640629 original size:22 final size:22
Alignment explanation
Indices: 640601--640647 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
640591 GATTTCTGGG
* *
640601 CAAGGGGGAATCGGTACCCATT
1 CAAGGGGGAACCGATACCCATT
*
640623 CAA-GGGGAACCGATACCCCTT
1 CAAGGGGGAACCGATACCCATT
640644 CAAG
1 CAAG
640648 CGAATATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (22 bp):
CAAGGGGGAACCGATACCCATT
Found at i:641255 original size:18 final size:18
Alignment explanation
Indices: 641232--641266 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
641222 CTAGGAGATT
641232 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
641250 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
641267 CTAGAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:642365 original size:22 final size:22
Alignment explanation
Indices: 642291--642357 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
642281 TTATGGACAT
642291 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
642313 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
642335 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
642357 A
1 A
642358 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:645512 original size:22 final size:22
Alignment explanation
Indices: 645484--645530 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
645474 GATTTCTGGG
* *
645484 CAAGGGGGAATCGGTACCCATT
1 CAAGGGGGAACCGATACCCATT
*
645506 CAA-GGGGAACCGATACCCCTT
1 CAAGGGGGAACCGATACCCATT
645527 CAAG
1 CAAG
645531 CGAATATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (22 bp):
CAAGGGGGAACCGATACCCATT
Found at i:646138 original size:18 final size:18
Alignment explanation
Indices: 646115--646149 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
646105 CTAGGAGATT
646115 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
646133 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
646150 CTAGAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:647242 original size:22 final size:22
Alignment explanation
Indices: 647168--647234 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
647158 TTATGGACAT
647168 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
647190 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
647212 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
647234 A
1 A
647235 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:649780 original size:22 final size:19
Alignment explanation
Indices: 649754--649798 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
649744 CATAAATTCA
649754 TTTGAAAGTTGGTATGTATTAT
1 TTTGAAAGTT--TATGT-TTAT
*
649776 TTTGAATGTTTATGTTTAT
1 TTTGAAAGTTTATGTTTAT
649795 TTTG
1 TTTG
649799 GAAGCTCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 5 0.23
22 9 0.41
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (19 bp):
TTTGAAAGTTTATGTTTAT
Found at i:652584 original size:28 final size:28
Alignment explanation
Indices: 652552--652621 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
652542 TGGGTGGTAA
652552 AGAAACTTAAGGAATCTTAAAGATAACT
1 AGAAACTTAAGGAATCTTAAAGATAACT
652580 AGAAACTTAAGGAATCTTAAAGATAACT
1 AGAAACTTAAGGAATCTTAAAGATAACT
*
652608 AGAAACTAAAGGAA
1 AGAAACTTAAGGAA
652622 AGAGGAGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (28 bp):
AGAAACTTAAGGAATCTTAAAGATAACT
Found at i:661849 original size:21 final size:23
Alignment explanation
Indices: 661822--661912 Score: 75
Period size: 23 Copynumber: 4.0 Consensus size: 23
661812 TCGTAATTTG
661822 CACCGAAGTGCCACATA-ATTGT
1 CACCGAAGTGCCACATAGATTGT
* *
661844 C-CCGAAG-GACCACATAGGTTTTT
1 CACCGAAGTG-CCACATA-GATTGT
* *
661867 CATCGAAGTGCCACATAGGTT-T
1 CACCGAAGTGCCACATAGATTGT
*
661889 GCACCGAAGTGCCATATA-ATTGT
1 -CACCGAAGTGCCACATAGATTGT
661912 C
1 C
661913 TCGAAGGACC
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
20 1 0.02
21 13 0.24
22 5 0.09
23 23 0.42
24 12 0.22
25 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGATTGT
Found at i:661880 original size:24 final size:23
Alignment explanation
Indices: 661818--661902 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 23
661808 CAGCTCGTAA
661818 TTTGCACCGAAGTGCCACATA--
1 TTTGCACCGAAGTGCCACATAGG
*
661839 ATTGTC-CCGAAG-GACCACATAGG
1 TTTG-CACCGAAGTG-CCACATAGG
* *
661862 TTTTTCATCGAAGTGCCACATAGG
1 -TTTGCACCGAAGTGCCACATAGG
661886 TTTGCACCGAAGTGCCA
1 TTTGCACCGAAGTGCCA
661903 TATAATTGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 16 0.31
22 1 0.02
23 16 0.31
24 16 0.31
25 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:664065 original size:15 final size:14
Alignment explanation
Indices: 664045--664102 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
664035 TATTTGATAA
664045 TGCTATGTGATAATG
1 TGCTATGTGA-AATG
*
664060 TGCTATGTTAAATG
1 TGCTATGTGAAATG
664074 T--TATGTGAATATG
1 TGCTATGTGAA-ATG
*
664087 TGCTAAGTGAATATG
1 TGCTATGTGAA-ATG
664102 T
1 T
664103 TATATGGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
14 5 0.14
15 21 0.57
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.41
Consensus pattern (14 bp):
TGCTATGTGAAATG
Found at i:664078 original size:27 final size:27
Alignment explanation
Indices: 664043--664105 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
664033 AATATTTGAT
* * *
664043 AATGCTATGTG-ATAATGTGCTATGTTA
1 AATGTTATGTGAAT-ATGTGCTAAGTGA
664070 AATGTTATGTGAATATGTGCTAAGTGA
1 AATGTTATGTGAATATGTGCTAAGTGA
664097 ATATGTTAT
1 A-ATGTTAT
664106 ATGGAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (27 bp):
AATGTTATGTGAATATGTGCTAAGTGA
Found at i:664320 original size:23 final size:23
Alignment explanation
Indices: 664290--664379 Score: 117
Period size: 23 Copynumber: 3.9 Consensus size: 23
664280 GTCGAGGGTT
* *
664290 CTATGTGGTCCTTCGGGACAATC
1 CTATGTGGTCCTTCGAGACAAAC
*
664313 CTATGTGGTCTTTCGAGACAAAC
1 CTATGTGGTCCTTCGAGACAAAC
*
664336 CTATGTGGTCCTTCTAGACAAAC
1 CTATGTGGTCCTTCGAGACAAAC
* * *
664359 TTATGTGGTCATTCGGGACAA
1 CTATGTGGTCCTTCGAGACAA
664380 TTATGTGACA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTCGAGACAAAC
Found at i:668732 original size:18 final size:18
Alignment explanation
Indices: 668708--668766 Score: 109
Period size: 18 Copynumber: 3.3 Consensus size: 18
668698 GAAACTTAAG
668708 GAAGCTTAAAGATAATTA
1 GAAGCTTAAAGATAATTA
*
668726 AAAGCTTAAAGATAATTA
1 GAAGCTTAAAGATAATTA
668744 GAAGCTTAAAGATAATTA
1 GAAGCTTAAAGATAATTA
668762 GAAGC
1 GAAGC
668767 CAAAGGAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (18 bp):
GAAGCTTAAAGATAATTA
Found at i:669629 original size:42 final size:42
Alignment explanation
Indices: 669570--669664 Score: 190
Period size: 42 Copynumber: 2.3 Consensus size: 42
669560 TTTGCTTATT
669570 TTATTTATGAATGGAGGATGGCTTGCGAGGAGTCAACCTCAA
1 TTATTTATGAATGGAGGATGGCTTGCGAGGAGTCAACCTCAA
669612 TTATTTATGAATGGAGGATGGCTTGCGAGGAGTCAACCTCAA
1 TTATTTATGAATGGAGGATGGCTTGCGAGGAGTCAACCTCAA
669654 TTATTTATGAA
1 TTATTTATGAA
669665 CAAAATAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
TTATTTATGAATGGAGGATGGCTTGCGAGGAGTCAACCTCAA
Found at i:669691 original size:2 final size:2
Alignment explanation
Indices: 669684--669715 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
669674 ATGATATGAG
669684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
669716 ATTTCTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:669871 original size:15 final size:14
Alignment explanation
Indices: 669851--669914 Score: 60
Period size: 15 Copynumber: 4.5 Consensus size: 14
669841 TATTTGATAA
669851 TGCTATGTGATAATG
1 TGCTATGTGA-AATG
669866 TGCTATGTGAAATG
1 TGCTATGTGAAATG
*
669880 T--TATGTGAATATT
1 TGCTATGTGAA-ATG
*
669893 TGCTAAGTGAATATG
1 TGCTATGTGAA-ATG
*
669908 TTCTATG
1 TGCTATG
669915 GAACATAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
12 8 0.20
13 3 0.07
14 5 0.12
15 25 0.61
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.42
Consensus pattern (14 bp):
TGCTATGTGAAATG
Found at i:669884 original size:27 final size:27
Alignment explanation
Indices: 669849--669909 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
669839 AATATTTGAT
* *
669849 AATGCTATGTG-ATAATGTGCTATGTGA
1 AATGTTATGTGAAT-ATGTGCTAAGTGA
*
669876 AATGTTATGTGAATATTTGCTAAGTGA
1 AATGTTATGTGAATATGTGCTAAGTGA
669903 ATATGTT
1 A-ATGTT
669910 CTATGGAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (27 bp):
AATGTTATGTGAATATGTGCTAAGTGA
Found at i:670127 original size:23 final size:23
Alignment explanation
Indices: 670097--670186 Score: 162
Period size: 23 Copynumber: 3.9 Consensus size: 23
670087 GTGGATGGTT
*
670097 CTATGTGGTCCTTCGGGACAATC
1 CTATGTGGTCCTTCGGGACAAAC
670120 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
670143 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
*
670166 TTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCGGGACAA
670187 TTATGTTTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAC
Found at i:670325 original size:19 final size:20
Alignment explanation
Indices: 670292--670330 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
670282 TTGGGCTAAC
670292 TAAACAAATGAATA-TAAAT
1 TAAACAAATGAATATTAAAT
670311 TAAACAAATTG-ATATTAAAT
1 TAAACAAA-TGAATATTAAAT
670331 AAAAAGTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
TAAACAAATGAATATTAAAT
Found at i:689083 original size:20 final size:20
Alignment explanation
Indices: 689047--689094 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
689037 TTAAAATCAT
* *
689047 TTTTCAAAATTTCATTTTTC
1 TTTTCAAAACTTCATTTTGC
689067 TTTTCAAAACCTT-ATTTTGC
1 TTTTCAAAA-CTTCATTTTGC
689087 -TTTCAAAA
1 TTTTCAAAA
689095 GAAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.32
20 15 0.60
21 2 0.08
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTCAAAACTTCATTTTGC
Found at i:691550 original size:21 final size:21
Alignment explanation
Indices: 691505--691558 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
691495 ATACTAGGGT
691505 CAATATCGATAC-CATATGAC
1 CAATATCGATACTCATATGAC
*
691525 CAATATCGATACTCATA-GGC
1 CAATATCGATACTCATATGAC
*
691545 CTAATATCGGTACT
1 C-AATATCGATACT
691559 GACGTCCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (21 bp):
CAATATCGATACTCATATGAC
Found at i:691871 original size:22 final size:22
Alignment explanation
Indices: 691823--691871 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
691813 AGTGTTATGA
*
691823 CACTTTTGTATTAGTGCAAAAG
1 CACTTTTGTATCAGTGCAAAAG
* * *
691845 AACTTTTGTATCAGTGCTAATG
1 CACTTTTGTATCAGTGCAAAAG
691867 CACTT
1 CACTT
691872 CCGTGATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (22 bp):
CACTTTTGTATCAGTGCAAAAG
Found at i:692703 original size:13 final size:13
Alignment explanation
Indices: 692685--692732 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
692675 GATTAAAATT
692685 TTATAAAATAATA
1 TTATAAAATAATA
* *
692698 TTATAATTTATAAATT
1 TTATAA--AAT-AATA
692714 TTATAAAATAATA
1 TTATAAAATAATA
692727 TTATAA
1 TTATAA
692733 TTTATAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 15 0.54
14 2 0.07
15 2 0.07
16 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTATAAAATAATA
Found at i:692719 original size:16 final size:16
Alignment explanation
Indices: 692694--692755 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 16
692684 TTTATAAAAT
692694 AATATTATAATTTATA
1 AATATTATAATTTATA
* *
692710 AATTTTATAA--AAT-
1 AATATTATAATTTATA
692723 AATATTATAATTTATA
1 AATATTATAATTTATA
* *
692739 AATATTAAAAATTATA
1 AATATTATAATTTATA
692755 A
1 A
692756 TTAATATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 2 0.05
16 24 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTATAATTTATA
Found at i:692722 original size:29 final size:29
Alignment explanation
Indices: 692680--692767 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
692670 TAAAAGATTA
692680 AAATTTTATAAAATAATATTATAATTTAT
1 AAATTTTATAAAATAATATTATAATTTAT
692709 AAATTTTATAAAATAATATTATAATTTAT
1 AAATTTTATAAAATAATATTATAATTTAT
* * *
692738 AAATATTA-AAAATTATAAT-TAATATTAT
1 AAATTTTATAAAATAATATTATAAT-TTAT
692766 AA
1 AA
692768 GCATAACAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 4 0.07
28 15 0.27
29 36 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATTTTATAAAATAATATTATAATTTAT
Found at i:692724 original size:21 final size:20
Alignment explanation
Indices: 692700--692740 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
692690 AAATAATATT
692700 ATAAT-TTATAAATTTTATAAA
1 ATAATATTAT-AA-TTTATAAA
692721 ATAATATTATAATTTATAAA
1 ATAATATTATAATTTATAAA
692741 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATATTATAATTTATAAA
Found at i:699574 original size:15 final size:15
Alignment explanation
Indices: 699554--699585 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
699544 AATTACCAAT
699554 TTCCATTAAAATATC
1 TTCCATTAAAATATC
699569 TTCCATTAAAATATC
1 TTCCATTAAAATATC
699584 TT
1 TT
699586 ATAGTCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (15 bp):
TTCCATTAAAATATC
Found at i:703971 original size:6 final size:6
Alignment explanation
Indices: 703962--704918 Score: 1873
Period size: 6 Copynumber: 159.8 Consensus size: 6
703952 TATACCATAT
* * *
703962 CATAAT CATAAT CATAAT CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704010 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704058 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704106 CATAAC C--AAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704152 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704200 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704248 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704296 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704344 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704392 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704440 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704488 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704536 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704584 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704632 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704680 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704728 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704776 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704824 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC
704872 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAA
1 CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAAC CATAA
704919 TCACTCCACC
Statistics
Matches: 948, Mismatches: 1, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
4 4 0.00
6 944 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
CATAAC
Found at i:709203 original size:54 final size:54
Alignment explanation
Indices: 709111--709338 Score: 361
Period size: 54 Copynumber: 4.2 Consensus size: 54
709101 TTACTGAATG
709111 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
709165 GGCATTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTACGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
709219 GGCACTATGTGTGCAACCT-ATAAATTCATAATAAGTTTATGAATTTCTGTACT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
709272 GGCACTATGTGTGCAACCTAATAAATTCATAATTAA-TTTATGAATTTCCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAA-TAAGTTTATGAATTTCCGTATT
709326 GGCACTATGTGTG
1 GGCACTATGTGTG
709339 TGTTAACTTC
Statistics
Matches: 160, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.30
54 109 0.68
55 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
Found at i:709298 original size:107 final size:108
Alignment explanation
Indices: 709111--709338 Score: 377
Period size: 107 Copynumber: 2.1 Consensus size: 108
709101 TTACTGAATG
* *
709111 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCATTATGTG
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTACTGGCACTATGTG
* *
709176 TGCAACCTAAGAAATTCATAATTAGTTTATGAATTTACGTATT
66 TGCAACCTAAGAAATTCATAATTAATTTATGAATTTACATATT
* *
709219 GGCACTATGTGTGCAACCT-ATAAATTCATAATAAGTTTATGAATTTCTGTACTGGCACTATGTG
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTACTGGCACTATGTG
* *
709283 TGCAACCTAATAAATTCATAATTAATTTATGAATTTCCATATT
66 TGCAACCTAAGAAATTCATAATTAATTTATGAATTTACATATT
709326 GGCACTATGTGTG
1 GGCACTATGTGTG
709339 TGTTAACTTC
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
107 93 0.83
108 19 0.17
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (108 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTACTGGCACTATGTG
TGCAACCTAAGAAATTCATAATTAATTTATGAATTTACATATT
Found at i:709920 original size:14 final size:13
Alignment explanation
Indices: 709892--709916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
709882 AAAAATCAGA
709892 TTTTTATTTTCTC
1 TTTTTATTTTCTC
709905 TTTTTATTTTCT
1 TTTTTATTTTCT
709917 TCTTCCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTCTC
Found at i:717111 original size:19 final size:21
Alignment explanation
Indices: 717074--717116 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
717064 TAACTTTTTC
717074 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
717094 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
717114 TTT
1 TTT
717117 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:717122 original size:19 final size:20
Alignment explanation
Indices: 717073--717122 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
717063 TTAACTTTTT
*
717073 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
717093 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
717112 CTTTTACCTTT
1 CTTTTACCTTT
717123 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:721361 original size:54 final size:54
Alignment explanation
Indices: 721293--721546 Score: 339
Period size: 54 Copynumber: 4.7 Consensus size: 54
721283 CACGCGAATA
* * * * *
721293 GTGTGCAACTTAAGAAATTCACAATAAGTTTATGATTTTTCGTATTTGG-ACTAT
1 GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTA-TTGGCACTAT
721347 GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCACTAT
1 GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCACTAT
* *
721401 GTGTGCAACCTAAGAAATTCATAATTAGTTTTTGAATTTCCGTATTGGCACTTT
1 GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCACTAT
* * *
721455 GTGTACACCCCAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCACTAT
1 GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCACTAT
* * * * * * *
721509 GTGTGTACCCCACGTAATTCATAATGAGTTTGTGAATT
1 GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATT
721547 ACAGTACCAA
Statistics
Matches: 181, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 4 0.02
54 177 0.98
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (54 bp):
GTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCACTAT
Found at i:722564 original size:29 final size:29
Alignment explanation
Indices: 722530--722682 Score: 152
Period size: 29 Copynumber: 5.2 Consensus size: 29
722520 TTAAAATCAC
722530 ATCTTAACATTAAAAAATATA-TTTATTTT
1 ATCTTAAC-TTAAAAAATATATTTTATTTT
* * ***
722559 TTCTTAAC-CAGTGAATATATTTTATTCTT
1 ATCTTAACTTAAAAAATATATTTTATT-TT
*
722588 ATCTTAAC-TAAAAAATATATTTTAATCTT
1 ATCTTAACTTAAAAAATATATTTT-ATTTT
* *
722617 ATCTTAATTTATAAAATATATTTTATTTCT
1 ATCTTAACTTAAAAAATATATTTTATTT-T
*
722647 ACCTTAACTT-AAAAATATATTTTATTTTT
1 ATCTTAACTTAAAAAATATATTTTA-TTTT
722676 ATCTTAA
1 ATCTTAA
722683 TTTGTTACAT
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.07
28 6 0.06
29 59 0.59
30 28 0.28
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.50
Consensus pattern (29 bp):
ATCTTAACTTAAAAAATATATTTTATTTT
Found at i:722635 original size:30 final size:30
Alignment explanation
Indices: 722572--722735 Score: 165
Period size: 30 Copynumber: 5.5 Consensus size: 30
722562 TTAACCAGTG
* *
722572 AATATATTTTATTCTTATCTTAA-CTAAAA
1 AATATATTTTATTCTTATCTTAATTTATAA
*
722601 AATATATTTTAATCTTATCTTAATTTATAA
1 AATATATTTTATTCTTATCTTAATTTATAA
* *
722631 AATATATTTTATT-TCTACCTTAACTTA-AA
1 AATATATTTTATTCT-TATCTTAATTTATAA
* * *
722660 AATATATTTTATTTTTATCTTAATTTGTTA
1 AATATATTTTATTCTTATCTTAATTTATAA
* * * * *
722690 CATATATTATATTCTTAACTTAAATTATTA
1 AATATATTTTATTCTTATCTTAATTTATAA
722720 AATAT-TATTTATTCTT
1 AATATAT-TTTATTCTT
722736 TTTTTCGGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
29 48 0.43
30 64 0.57
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.54
Consensus pattern (30 bp):
AATATATTTTATTCTTATCTTAATTTATAA
Found at i:722653 original size:59 final size:59
Alignment explanation
Indices: 722572--722712 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 59
722562 TTAACCAGTG
*
722572 AATATATTTTATTCTTATCTTAACTAAAAAATATATTTTAATCTTATCTTAATTTATAA
1 AATATATTTTATTCTTACCTTAACTAAAAAATATATTTTAATCTTATCTTAATTTATAA
* * * * *
722631 AATATATTTTATT-TCTACCTTAACTTAAAAATATATTTTATTTTTATCTTAATTTGTTA
1 AATATATTTTATTCT-TACCTTAACTAAAAAATATATTTTAATCTTATCTTAATTTATAA
* * *
722690 CATATATTATATTCTTAACTTAA
1 AATATATTTTATTCTTACCTTAA
722713 ATTATTAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 69 0.97
60 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (59 bp):
AATATATTTTATTCTTACCTTAACTAAAAAATATATTTTAATCTTATCTTAATTTATAA
Found at i:723293 original size:24 final size:23
Alignment explanation
Indices: 723229--723294 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 23
723219 AAGGAGATGA
*
723229 AAAAT-AATAAAAGAAAAAAACC
1 AAAATGAATGAAAGAAAAAAACC
* * *
723251 AAAATGAAAGGAAATAAAAAACCC
1 AAAATG-AATGAAAGAAAAAAACC
723275 AAAATGAATGAAAGAAAAAA
1 AAAATGAATGAAAGAAAAAA
723295 GGGCTAATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.14
23 12 0.33
24 19 0.53
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAATGAATGAAAGAAAAAAACC
Found at i:724445 original size:5 final size:5
Alignment explanation
Indices: 724435--724486 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
724425 GATGAAACAA
* ** *
724435 AAAAT AAAAT AAAAT GAAAT TTAAT AAAAT AAAAT AAAAT GAAGAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
724486 A
1 A
724487 TATATACAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 35 0.90
6 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:724460 original size:20 final size:20
Alignment explanation
Indices: 724437--724474 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
724427 TGAAACAAAA
*
724437 AATAAAATAAAATGAAATTT
1 AATAAAATAAAATAAAATTT
724457 AATAAAATAAAATAAAAT
1 AATAAAATAAAATAAAAT
724475 GAAGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAAAATAAAATAAAATTT
Found at i:725506 original size:37 final size:37
Alignment explanation
Indices: 725413--725514 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
725403 ATGCTTGTGG
* * ** * *
725413 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
* * *
725450 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
725487 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
725515 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTAT
Found at i:726451 original size:106 final size:106
Alignment explanation
Indices: 726267--727542 Score: 1998
Period size: 106 Copynumber: 12.0 Consensus size: 106
726257 GCATTGTTCC
* * *
726267 GAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
726332 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
726373 GAGTCCAATATCCTTTATTGTGAAGTTGAAATTGACTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
726438 CCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
726479 TAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
726544 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
726585 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
726650 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
726691 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
726756 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
726797 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCT-TCGAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTGTTTGTTGACA
* * * *
726861 ACCAGTGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
726903 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
726968 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
727009 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAAAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGACA
*
727073 ACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
727115 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
727180 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTATCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
727221 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
727286 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGACTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
727327 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
** *
727392 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
727433 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
** * * * *
727498 CCAGCCCTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
727539 GAGT
1 GAGT
727543 GGCACGATAT
Statistics
Matches: 1081, Mismatches: 85, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
105 4 0.00
106 1073 0.99
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:729169 original size:25 final size:24
Alignment explanation
Indices: 729141--729208 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
729131 TTTTGTCCCT
729141 TTTTCTTTTTGATTTTTGTT-CTTTC
1 TTTTCTTTTTG-TTTTTGTTGC-TTC
* * *
729166 TTTTTTGTTTTCTTTTTTTTGCTTC
1 TTTTCT-TTTTGTTTTTGTTGCTTC
729191 TTTTCTTTTTTGTTTTTG
1 TTTTC-TTTTTGTTTTTG
729209 CCTTTTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 28 0.82
26 6 0.18
ACGTcount: A:0.01, C:0.10, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTCTTTTTGTTTTTGTTGCTTC
Found at i:729170 original size:14 final size:14
Alignment explanation
Indices: 729153--729220 Score: 68
Period size: 14 Copynumber: 4.7 Consensus size: 14
729143 TTCTTTTTGA
729153 TTTTTGTTCTTTCT
1 TTTTTGTTCTTTCT
*
729167 TTTTTGTT-TTCTTT
1 TTTTTGTTCTT-TCT
729181 TTTTTGCTTCTTTTCT
1 TTTTTG-TTC-TTTCT
*
729197 TTTTTGTT-TTTGCC
1 TTTTTGTTCTTT-CT
729211 TTTTTGTTCT
1 TTTTTGTTCT
729221 GATTGAATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 5 0.11
14 25 0.56
15 5 0.11
16 8 0.18
17 2 0.04
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (14 bp):
TTTTTGTTCTTTCT
Found at i:729215 original size:30 final size:28
Alignment explanation
Indices: 729140--729220 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 28
729130 TTTTTGTCCC
*
729140 TTTTTCTTTTTGATTTTTGTTC-TTTCT
1 TTTTTGTTTTTGATTTTTGTTCTTTTCT
**
729167 TTTTTGTTTTCTTTTTTTTGCTTCTTTTCT
1 TTTTTGTTTT-TGATTTTTG-TTCTTTTCT
*
729197 TTTTTGTTTTTGCCTTTTTGTTCT
1 TTTTTGTTTTTG-ATTTTTGTTCT
729221 GATTGAATCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.20
28 7 0.16
29 8 0.18
30 21 0.47
ACGTcount: A:0.01, C:0.12, G:0.09, T:0.78
Consensus pattern (28 bp):
TTTTTGTTTTTGATTTTTGTTCTTTTCT
Found at i:733632 original size:17 final size:17
Alignment explanation
Indices: 733610--733657 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
733600 AAATGAAACC
733610 AATAATAATAAACAAAA
1 AATAATAATAAACAAAA
*
733627 AATAATTGGATGAAACAAAA
1 AATAA-T-AAT-AAACAAAA
733647 AATAA-AATAAA
1 AATAATAATAAA
733658 ATGAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 3 0.12
17 7 0.27
18 1 0.04
19 2 0.08
20 13 0.50
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (17 bp):
AATAATAATAAACAAAA
Found at i:733655 original size:5 final size:5
Alignment explanation
Indices: 733645--733695 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
733635 GATGAAACAA
* ** *
733645 AAAAT AAAAT AAAAT GAAAT TTAAT AAAAT AAAAT -AAAT GAAGAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
733695 A
1 A
733696 TATATATACT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 4 0.11
5 30 0.81
6 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:733691 original size:20 final size:20
Alignment explanation
Indices: 733646--733695 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
733636 ATGAAACAAA
*
733646 AAATAAAATAAAATGAAATT
1 AAATAAAATAAAATGAAATG
*
733666 TAATAAAATAAAAT-AAATG
1 AAATAAAATAAAATGAAATG
733685 AAGATAAAATA
1 AA-ATAAAATA
733696 TATATATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (20 bp):
AAATAAAATAAAATGAAATG
Found at i:733841 original size:25 final size:25
Alignment explanation
Indices: 733787--733839 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
733777 TAATGAAAAT
* *
733787 AAATAAATAGTATAAATAAAATAATA
1 AAATATATA-TATATATAAAATAATA
733813 AAATATATATATATATAAAAT-ATA
1 AAATATATATATATATAAAATAATA
733837 AAA
1 AAA
733840 ATGTATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
AAATATATATATATATAAAATAATA
Found at i:733850 original size:25 final size:25
Alignment explanation
Indices: 733787--733856 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
733777 TAATGAAAAT
* *
733787 AAATAAATAGTATAAATAAAATAATA
1 AAATATAT-GTATATATAAAATAATA
*
733813 AAATATATATATATATAAAAT-ATAA
1 AAATATATGTATATATAAAATAAT-A
*
733838 AAATGTATGTATAATATAA
1 AAATATATGTAT-ATATAA
733857 TACAATACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 22 0.59
26 13 0.35
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AAATATATGTATATATAAAATAATA
Found at i:740824 original size:59 final size:59
Alignment explanation
Indices: 740759--740978 Score: 214
Period size: 59 Copynumber: 3.7 Consensus size: 59
740749 AACTTAATGG
* *
740759 AATATATTTTATTCTTATCTTAACTAAAAAATATATTTTAATCTTATCTAAACTTATAA
1 AATATATTTTATTCTTATCTTAACTAAAAAATATATTTTATTCTTATCTAAACTTATTA
* * * **
740818 AATATATTTTATTCTTA-CATTAACTGAAAAATATATTTTATTTTTATCTTAACTCGTTA
1 AATATATTTTATTCTTATC-TTAACTAAAAAATATATTTTATTCTTATCTAAACTTATTA
* * * * * * * *
740877 CATATATTATATTCTTAACTTAAAT-TAAATTATATTATATTGTTATCTTAAA-TTATTA
1 AATATATTTTATTCTTATCTTAACTAAAAAATATATTTTATTCTTATC-TAAACTTATTA
* *
740935 AATAT-TATTTATTCTTATCTTAAGTTAAAAATAAATATTTTATT
1 AATATAT-TTTATTCTTATCTTAA-CTAAAAA-ATATATTTTATT
740979 TTAATTTAAA
Statistics
Matches: 129, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
57 1 0.01
58 41 0.32
59 74 0.57
60 4 0.03
61 9 0.07
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (59 bp):
AATATATTTTATTCTTATCTTAACTAAAAAATATATTTTATTCTTATCTAAACTTATTA
Found at i:740884 original size:30 final size:29
Alignment explanation
Indices: 740759--741065 Score: 180
Period size: 30 Copynumber: 10.6 Consensus size: 29
740749 AACTTAATGG
740759 AATATATTTTATTCTTATCTTAACTAAAA
1 AATATATTTTATTCTTATCTTAACTAAAA
* * *
740788 AATATATTTTAATCTTATCTAAACTTATAA
1 AATATATTTTATTCTTATCTTAAC-TAAAA
*
740818 AATATATTTTATTCTTA-CATTAACTGAAA
1 AATATATTTTATTCTTATC-TTAACTAAAA
* ***
740847 AATATATTTTATTTTTATCTTAACTCGTTA
1 AATATATTTTATTCTTATCTTAACT-AAAA
* * * * *
740877 CATATATTATATTCTTAACTTAAAT-TAA
1 AATATATTTTATTCTTATCTTAACTAAAA
* * * * **
740905 ATTATATTATATTGTTATCTTAAATTATTA
1 AATATATTTTATTCTTATCTT-AACTAAAA
* *
740935 AATAT-TATTTATTCTTATCTTAAGTTAAA
1 AATATAT-TTTATTCTTATCTTAACTAAAA
* * * *
740964 AATA-A--ATATT-TTATTTTAATTTAAA
1 AATATATTTTATTCTTATCTTAACTAAAA
* * * * **
740989 AATGTATATTTACTCTTATTTTAATTTATGA
1 AATATAT-TTTATTCTTATCTTAA-CTAAAA
* *
741020 AATATATTTTATTTTTATCTTAAGTATAAA
1 AATATATTTTATTCTTATCTTAACTA-AAA
*
741050 AATATTTTTTA-TCTTA
1 AATATATTTTATTCTTA
741066 ATTTTAAAAT
Statistics
Matches: 216, Mismatches: 47, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
25 16 0.07
26 5 0.02
28 19 0.09
29 69 0.32
30 98 0.45
31 9 0.04
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (29 bp):
AATATATTTTATTCTTATCTTAACTAAAA
Found at i:740927 original size:58 final size:58
Alignment explanation
Indices: 740849--740963 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 58
740839 AACTGAAAAA
* * * * *
740849 TATATTTTATTTTTATCTTAACTCGTTACATA-TATTATATTCTTAACTTAAATTAAAT
1 TATATTATATTGTTATCTTAAATCATTAAATATTATT-TATTCTTAACTTAAATTAAAT
* * *
740907 TATATTATATTGTTATCTTAAATTATTAAATATTATTTATTCTTATCTTAAGTTAAA
1 TATATTATATTGTTATCTTAAATCATTAAATATTATTTATTCTTAACTTAAATTAAA
740964 AATAAATATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 44 0.92
59 4 0.08
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (58 bp):
TATATTATATTGTTATCTTAAATCATTAAATATTATTTATTCTTAACTTAAATTAAAT
Found at i:741038 original size:85 final size:84
Alignment explanation
Indices: 740919--741075 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 84
740909 TATTATATTG
* *
740919 TTATCTTAAATTATTAAATATTATTTATTCTTATCTTAAGT-TAAAAATAAATATTTTATTTTAA
1 TTATCTTAAATTATGAAATATTATTTATTCTTATCTTAAGTATAAAAAT--ATATTTTATCTTAA
740983 TTTAAAAATGTATATTTACTC
64 TTTAAAAATGTATATTTACTC
* * * *
741004 TTATTTTAATTTATGAAATA-TATTTTATTTTTATCTTAAGTATAAAAATATTTTTTATCTTAAT
1 TTATCTTAAATTATGAAATATTA-TTTATTCTTATCTTAAGTATAAAAATATATTTTATCTTAAT
*
741068 TTTAAAAT
65 TTAAAAAT
741076 ATTATAAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 22 0.35
85 34 0.54
86 7 0.11
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (84 bp):
TTATCTTAAATTATGAAATATTATTTATTCTTATCTTAAGTATAAAAATATATTTTATCTTAATT
TAAAAATGTATATTTACTC
Found at i:741073 original size:24 final size:23
Alignment explanation
Indices: 741031--741078 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
741021 ATATATTTTA
741031 TTTTTATCTTAAGTATAAAAATAT
1 TTTTTATCTTAAGTAT-AAAATAT
* *
741055 TTTTTATCTTAATTTTAAAATAT
1 TTTTTATCTTAAGTATAAAATAT
741078 T
1 T
741079 ATAAGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTTATCTTAAGTATAAAATAT
Found at i:743329 original size:131 final size:131
Alignment explanation
Indices: 743091--743853 Score: 1111
Period size: 131 Copynumber: 5.8 Consensus size: 131
743081 TAATTCTAGG
* *
743091 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCACATGCCTTAAAGTAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
*
743156 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTCTTTCGTCTTAAAATTCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATTC
743221 A
131 A
* *
743222 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAGTAC
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
* * * *
743287 TCATTTATTACTCCAATCGAAATTAAGAGAAATAACTATTTCGTCTTAAAATTCAATAATGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATTC
743352 A
131 A
* * * **
743353 AGAGAAAACGATAATATCTAATCATTACCAATTGAGAATAAATGACCTCTCATGCCTTAAAACAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
* * * *
743418 TAATTTATTACAT-CGATTGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATT
66 TCATTTATTAC-TCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
743482 CA
130 CA
** *
743484 AGAGAAAATAATAATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
** *
743549 TCATTTATTACTCCAATAAAAAT-AATGAGATATCACTATTGCGTCTTAAAATTCAATATTGATT
66 TCATTTATTACTCCAATCGAAATGAA-GAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
*
743613 CG
130 CA
* * * * *
743615 AGAGAAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATTATCTC-CTAGGCCTTAAAGC
1 AGAG-AAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTC-ATGCCTTAAAGT
* * *
743679 AATAATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTTTTAAAAATCAATATTGAT
64 AATCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGAT
743744 TCA
129 TCA
* *
743747 AGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
* * *
743812 TCATTTATTACTCCAA-CTGAAATGAAAAAATATTACTATTTC
66 TCATTTATTACTCCAATC-GAAATGAAGAGATATCACTATTTC
743854 ATTCTAAAAT
Statistics
Matches: 562, Mismatches: 62, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
130 4 0.01
131 441 0.78
132 115 0.20
133 2 0.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTAA
TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATTC
A
Found at i:744877 original size:108 final size:108
Alignment explanation
Indices: 744696--744892 Score: 268
Period size: 108 Copynumber: 1.8 Consensus size: 108
744686 ACCTAATAAG
* * * * **
744696 TAAACAACAAATATCCCAAAAATACATAGCATGCATAAGAAATGGATAAATAACAATTTCAGTTT
1 TAAACAAAAAATATCCCAAAAATACATAACATGCATAAAAAATGGATAAATAACAAGTTCAGTCC
744761 TTACAGGTGACCAACATGCAAAAACACGCTAAACTATTGGGAC
66 TTACAGGTGACCAACATGCAAAAACACGCTAAACTATTGGGAC
* * ** *
744804 TAAACAAAAAATATCCCAAAAATATATAACATGCATAAAAAATGGGTAAATAGTAAGTTCGGTCC
1 TAAACAAAAAATATCCCAAAAATACATAACATGCATAAAAAATGGATAAATAACAAGTTCAGTCC
* * *
744869 TTATAGGTGACTAACATGTAAAAA
66 TTACAGGTGACCAACATGCAAAAA
744893 TGCATTAAAG
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
108 75 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (108 bp):
TAAACAAAAAATATCCCAAAAATACATAACATGCATAAAAAATGGATAAATAACAAGTTCAGTCC
TTACAGGTGACCAACATGCAAAAACACGCTAAACTATTGGGAC
Found at i:745962 original size:3 final size:3
Alignment explanation
Indices: 745954--745981 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
745944 CTGCACAAAT
745954 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
745982 GATATCGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:746409 original size:132 final size:132
Alignment explanation
Indices: 746215--746519 Score: 407
Period size: 132 Copynumber: 2.3 Consensus size: 132
746205 ATCGAGAAAT
* * *
746215 GTTGATTCATTCACTGATT-TTCAGGGAAGATTGAATCGAGGCAGACTTGTTTCACTGCTACTCA
1 GTTGATTCATTCACTG-TTCTTCATGGAAGATTGAATCGAGCCAGACTTGTTCCACTGCTACTCA
* *
746279 GGGAAGATCAAATCTGGAAAGAGGGGATCTGTTCCACTGCTTCTTCAAGGAAAATCAGATCTGGA
65 GGGAAGATCAAATCTAGAAAGAGGAGATCTGTTCCACTGCTTCTTCAAGGAAAATCAGATCTGGA
746344 GAC
130 GAC
* *
746347 GTTGATTCATTCCACTGTTCTTCATGGAAGATTGAATTGA-CCTGACTTGTTCCACTGCTACTCA
1 GTTGATTCATT-CACTGTTCTTCATGGAAGATTGAATCGAGCCAGACTTGTTCCACTGCTACTCA
* * * * * *
746411 GGGAAGATGAAGTGTAGAAAGAGGAGATTTGTTCCGCTGCTTCTTCAGGGAAAATCAGATCTGGA
65 GGGAAGATCAAATCTAGAAAGAGGAGATCTGTTCCACTGCTTCTTCAAGGAAAATCAGATCTGGA
746476 GAC
130 GAC
* * * * *
746479 ATTAATTAATTTCACTATTCTTCATGAAAGATTGAATCGAG
1 GTTGATTCA-TTCACTGTTCTTCATGGAAGATTGAATCGAG
746520 TTCGATTTAC
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
132 125 0.83
133 25 0.17
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (132 bp):
GTTGATTCATTCACTGTTCTTCATGGAAGATTGAATCGAGCCAGACTTGTTCCACTGCTACTCAG
GGAAGATCAAATCTAGAAAGAGGAGATCTGTTCCACTGCTTCTTCAAGGAAAATCAGATCTGGAG
AC
Found at i:756463 original size:23 final size:23
Alignment explanation
Indices: 756436--756485 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
756426 TTTAAGAATT
756436 GAACGTCTCTGCCAAAATAGTTG
1 GAACGTCTCTGCCAAAATAGTTG
*
756459 GAACGTCTCTGTCAAAATAGTTG
1 GAACGTCTCTGCCAAAATAGTTG
756482 GAAC
1 GAAC
756486 ATGATCCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (23 bp):
GAACGTCTCTGCCAAAATAGTTG
Found at i:758342 original size:19 final size:18
Alignment explanation
Indices: 758303--758343 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
758293 GTATGTTGTC
*
758303 ATTTTAATAAAAATATTA
1 ATTTTAATAAAAATATAA
*
758321 ATTTTAATTAAAATAATAA
1 ATTTTAATAAAAAT-ATAA
758340 ATTT
1 ATTT
758344 GTGGTCTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAATAAAAATATAA
Found at i:758917 original size:131 final size:131
Alignment explanation
Indices: 758680--759289 Score: 947
Period size: 131 Copynumber: 4.7 Consensus size: 131
758670 AAAATTCTAA
*
758680 GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *
758745 GTTATTTATTACTCCAATTGAAATGAAGAGATATCATTATTTCATCTTAAAATTCAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
758810 C
131 C
758811 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* *
758876 GTCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTTCGTCATAAAATTCAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
758941 C
131 C
* * *
758942 GAGAGAAAAAGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCCCATCCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
759007 ATAATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTGTCTT-AAATTCAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
759071 C
131 C
* *
759072 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAAT--ATGACATCTCAAGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *
759135 GTCATTTATTACTCCAATAGAAATGAAGAGATATAATTATTTCGTCTTAAAATTTAATATTGATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
759200 C
131 C
* * * * ** * *
759201 GAGAGAAAATGATAATAACTAATTATTTTCAATTGATTATAAATGATCTCTCATGCCATAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
*
759266 ATCATTTATTACTCCAATCGAAAT
66 GTCATTTATTACTCCAATCGAAAT
759290 AAAATTCAAT
Statistics
Matches: 437, Mismatches: 39, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
128 61 0.14
129 50 0.11
130 56 0.13
131 270 0.62
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
C
Found at i:759371 original size:107 final size:107
Alignment explanation
Indices: 759182--759399 Score: 312
Period size: 107 Copynumber: 2.0 Consensus size: 107
759172 TATTTCGTCT
* ** * * **
759182 TAAAATTTAATATTGATTCGAGAGAAAATGATAATAACTAATTATTTTCAATTGATTATAAATGA
1 TAAAATTCAATATTGATTCGAGAGAAAACAATAATAACTAATTATTTCCAATCGAGAATAAATGA
*
759247 TCTCTCATGCCATAAAGCAATCATTTATTACTCCAATCGAAA
66 CCTCTCATGCCATAAAGCAATCATTTATTACTCCAATCGAAA
*
759289 TAAAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGA
1 TAAAATTCAATATTGATTCGAGAGAAAACAATAATAACTAATTATTTCCAATCGAGAATAAATGA
* * *
759354 CCTCTCATGCC-TCAAAGCAGTTATTTATTACTCCAATTGAAA
66 CCTCTCATGCCAT-AAAGCAATCATTTATTACTCCAATCGAAA
759396 TAAA
1 TAAA
759400 GAGATATCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
106 1 0.01
107 97 0.99
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (107 bp):
TAAAATTCAATATTGATTCGAGAGAAAACAATAATAACTAATTATTTCCAATCGAGAATAAATGA
CCTCTCATGCCATAAAGCAATCATTTATTACTCCAATCGAAA
Found at i:759483 original size:238 final size:236
Alignment explanation
Indices: 759055--759520 Score: 716
Period size: 238 Copynumber: 2.0 Consensus size: 236
759045 ATTTTGTCTT
*
759055 AAATTCAATATTGATTCGAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATATGACATC
1 AAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATATGACATC
* * *
759120 TCAAGCCTTAAAGCAGTCATTTATTACTCCAATAGAAATGAAGAGATATAATTATTTCGTCTTAA
66 TCAAGCCTCAAAGCAGTCATTTATTACTCCAATAGAAATAAAGAGATATAACTATTTCGTCTTAA
* ** * * ** *
759185 AATTTAATATTGATTCGAGAGAAAATGATAATAACTAATTATTTTCAATTGATTATAAATGATCT
131 AAATTAATATTGATTCGAGAGAAAACAATAATAACTAATTATTTCCAATCGAGAATAAATGACCT
*
759250 CTCATGCCATAAAGCAATCATTTATTACTCCAATCGAAATA
196 CTCATGCCATAAAGCAATCATTTATTAATCCAATCGAAATA
*
759291 AAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGACC
1 AAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAAT--ATGACA
* * * * *
759356 TCTCATGCCTCAAAGCAGTTATTTATTACTCCAATTGAAATAAAGAGATATCACTATTTTGTCTT
64 TCTCAAGCCTCAAAGCAGTCATTTATTACTCCAATAGAAATAAAGAGATATAACTATTTCGTCTT
*
759421 AAAAATTAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC
129 AAAAATTAATATTGATTCGAGAGAAAACAATAATAACTAATTATTTCCAATCGAGAATAAATGAC
* *
759486 CTCTCATGCCTTAAAGCATTCATTTATTAATCCAA
194 CTCTCATGCCATAAAGCAATCATTTATTAATCCAA
759521 CGGAAATGAA
Statistics
Matches: 206, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
236 56 0.27
238 150 0.73
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (236 bp):
AAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATATGACATC
TCAAGCCTCAAAGCAGTCATTTATTACTCCAATAGAAATAAAGAGATATAACTATTTCGTCTTAA
AAATTAATATTGATTCGAGAGAAAACAATAATAACTAATTATTTCCAATCGAGAATAAATGACCT
CTCATGCCATAAAGCAATCATTTATTAATCCAATCGAAATA
Found at i:759527 original size:131 final size:133
Alignment explanation
Indices: 759290--759546 Score: 421
Period size: 131 Copynumber: 1.9 Consensus size: 133
759280 CAATCGAAAT
759290 AAAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC
1 AAAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC
* ** * *
759355 CTCTCATGCCTCAAAGCAGTTATTTATTACTCCAATTGAAAT-AAAGAGATATCACTATTTTGTC
66 CTCTCATGCCTCAAAGCAGTTATTTATTAATCCAACGGAAATGAAAAAAATATCACTATTTTGTC
759419 TTA
131 TTA
759422 AAAATT-AATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC
1 AAAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC
* *
759486 CTCTCATGCCTTAAAGCA-TTCATTTATTAATCCAACGGAAATGAAAAAAATATTACTATTT
66 CTCTCATGCCTCAAAGCAGTT-ATTTATTAATCCAACGGAAATGAAAAAAATATCACTATTT
759547 CATCCTAAAA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
130 2 0.02
131 93 0.80
132 21 0.18
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (133 bp):
AAAATTCAATATTGATTCGAGAGAAAACAATAATATCTAATTATTTCCAATCGAGAATAAATGAC
CTCTCATGCCTCAAAGCAGTTATTTATTAATCCAACGGAAATGAAAAAAATATCACTATTTTGTC
TTA
Found at i:761701 original size:3 final size:3
Alignment explanation
Indices: 761693--761789 Score: 194
Period size: 3 Copynumber: 32.3 Consensus size: 3
761683 TTGCACAAAT
761693 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
761741 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
761789 T
1 T
761790 GGCGTCGGGA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:767663 original size:21 final size:21
Alignment explanation
Indices: 767634--767686 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
767624 ATTCTGACTA
767634 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
767655 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
767676 TCGCAATGCGA
1 TCGCATTGCGA
767687 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:767701 original size:20 final size:20
Alignment explanation
Indices: 767676--767748 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
767666 TTTTCCTAAT
767676 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
767696 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
767716 TCGCAATGCGGATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
767736 TCGCAACGCGAAT
1 TCGCAATGCGAAT
767749 CTGACTATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:767798 original size:20 final size:20
Alignment explanation
Indices: 767735--767801 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
767725 GGATATGTAA
*
767735 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
* *
767755 ATCACAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
767775 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
767795 ATCGCAA
1 ATCGCAA
767802 TACTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:768670 original size:24 final size:24
Alignment explanation
Indices: 768643--768696 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
768633 GTATTCGAAA
768643 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
768667 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
768691 TTTGAT
1 TTTGAT
768697 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:771152 original size:20 final size:21
Alignment explanation
Indices: 771127--771215 Score: 123
Period size: 20 Copynumber: 4.4 Consensus size: 21
771117 CAACGCGGAA
771127 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
* *
771147 ATCGCAACAC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
771167 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
771187 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
771207 ATTGCAACG
1 ATCGCAACG
771216 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:771275 original size:34 final size:33
Alignment explanation
Indices: 771187--771282 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
771177 GGAATTGACT
* ** *
771187 ATCGCAACGCGGAAATGACTATTGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
771221 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
771254 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
771283 CGAATTGCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:771278 original size:20 final size:19
Alignment explanation
Indices: 771220--771286 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
771210 GCAACGAGAG
771220 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
771239 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
771253 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
771273 AATCGCAACGCGAA
1 AATCGCAATGCGAA
771287 TTGCGATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
19 11 0.28
20 13 0.33
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:771449 original size:14 final size:14
Alignment explanation
Indices: 771430--771466 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
771420 CATCCATTAA
771430 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
771444 ACAAATCATCGTTT
1 ACAAATCAACATTT
771458 ACAAATCAA
1 ACAAATCAA
771467 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.03, T:0.27
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:773191 original size:20 final size:20
Alignment explanation
Indices: 773168--773256 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
773158 TCTGAAACTT
773168 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
773188 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
773208 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** **
773228 ACTATCGCAATGCG-AAATG
1 AAAATCGCAACACGAAAATG
773247 AAAATCGCAA
1 AAAATCGCAA
773257 TGACAGAATC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
19 11 0.19
20 48 0.81
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:773655 original size:22 final size:22
Alignment explanation
Indices: 773593--773658 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
773583 TGACCGTGAA
* *
773593 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
773615 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
773637 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
773659 AGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:773879 original size:20 final size:20
Alignment explanation
Indices: 773863--773972 Score: 193
Period size: 20 Copynumber: 5.5 Consensus size: 20
773853 CAGATTCACG
*
773863 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTATTCGCA
*
773883 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
773903 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
773923 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
773943 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
773963 TTGCGATTTA
1 TTGCGATTTA
773973 GGAAAGTCGC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 85 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:776526 original size:23 final size:23
Alignment explanation
Indices: 776499--776542 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
776489 ACAAAAGGAG
*
776499 TTCAAAATACAAAAAGAAGAACA
1 TTCAAAAAACAAAAAGAAGAACA
* *
776522 TTCAAAAAAGAAGAAGAAGAA
1 TTCAAAAAACAAAAAGAAGAA
776543 AAAAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.66, C:0.09, G:0.14, T:0.11
Consensus pattern (23 bp):
TTCAAAAAACAAAAAGAAGAACA
Found at i:783437 original size:34 final size:34
Alignment explanation
Indices: 783354--783458 Score: 124
Period size: 34 Copynumber: 3.0 Consensus size: 34
783344 AAAAGATGAA
* *
783354 CACTTGAATCGAAAGTG-CGACG-TCTCCTTCCGTT
1 CACTTGAATCGAAAGTGTCGATGCT-TCCTT-TGTT
*
783388 CGACTTGAATTGAAAGTGTCGATGCTTCCTTTGTT
1 C-ACTTGAATCGAAAGTGTCGATGCTTCCTTTGTT
*
783423 CACTTGAATCGAAAGTGTTGATGCTTCCTTTCGTT
1 CACTTGAATCGAAAGTGTCGATGCTTCCTTT-GTT
783458 C
1 C
783459 TTCTTATTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
34 29 0.47
35 23 0.37
36 9 0.15
37 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (34 bp):
CACTTGAATCGAAAGTGTCGATGCTTCCTTTGTT
Found at i:785656 original size:3 final size:3
Alignment explanation
Indices: 785648--785697 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
785638 TTTTTAATCG
*
785648 TAT TAT TAT T-T TAT T-T TAT TAT TGT TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
785692 T-T TAT T
1 TAT TAT T
785698 TACATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:785675 original size:22 final size:21
Alignment explanation
Indices: 785650--785697 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
785640 TTTAATCGTA
*
785650 TTATTATT-TTATTTTATTATT
1 TTATTATTATTA-TTAATTATT
785671 GTTATTATTATTATTAATTATT
1 -TTATTATTATTATTAATTATT
785693 TTATT
1 TTATT
785698 TACATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 16 0.67
23 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTATTATTATTAATTATT
Found at i:787604 original size:18 final size:17
Alignment explanation
Indices: 787581--787623 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
787571 CTACCTAATC
*
787581 CAAAAATTTCAAATTCAT
1 CAAAAATTCCAAATT-AT
* *
787599 CAAAAACTCCAAATTTT
1 CAAAAATTCCAAATTAT
787616 CAAAAATT
1 CAAAAATT
787624 AAGTCATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (17 bp):
CAAAAATTCCAAATTAT
Found at i:791081 original size:3 final size:3
Alignment explanation
Indices: 791073--791107 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
791063 ATAAATACAT
791073 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
791108 TTTTAAAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:791343 original size:65 final size:60
Alignment explanation
Indices: 791198--791349 Score: 137
Period size: 62 Copynumber: 2.4 Consensus size: 60
791188 TTTTCAAACC
* * *
791198 CTATATTATATTTTCTAAAATTATATTATATATTTATTTTCCAAACTACATTTTTTATAAAA
1 CTATA-TATATTTTCCAAAATTATATTATATATTTATTTTCCAAAC-ACAATTTTTAAAAAA
* * * *
791260 GTATATATGTCTTT-CAAAATTATACTATATATATATTTTTTTTCAAA-ACAATTTTTAAAACTA
1 CTATATATAT-TTTCCAAAATTATA-T-TATATAT-TTATTTTCCAAACACAATTTTTAAAA--A
791323 TA
60 -A
*
791325 CTATATATATTTTCCAAAACTATAT
1 CTATATATATTTTCCAAAATTATAT
791350 ATTTTATAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
61 13 0.18
62 19 0.26
63 7 0.10
64 15 0.21
65 18 0.25
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (60 bp):
CTATATATATTTTCCAAAATTATATTATATATTTATTTTCCAAACACAATTTTTAAAAAA
Found at i:791350 original size:17 final size:17
Alignment explanation
Indices: 791328--791366 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
791318 AACTATACTA
*
791328 TATATATTTTCCAAAAC
1 TATATATTTTACAAAAC
*
791345 TATATATTTTATAAAAC
1 TATATATTTTACAAAAC
791362 TATAT
1 TATAT
791367 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATATTTTACAAAAC
Found at i:791360 original size:41 final size:37
Alignment explanation
Indices: 791283--791416 Score: 155
Period size: 37 Copynumber: 3.5 Consensus size: 37
791273 TCAAAATTAT
* * * *
791283 ACTATA-TATATATTTTTTTTCAAAACAATTTTTAAA
1 ACTATACTATATATATATTTCCAAAACTATTTTTAAA
791319 ACTATACTATATATAT-TTTCCAAAACTATATATTTTATAAA
1 ACTATACTATATATATATTTCCAAAAC----TATTTT-TAAA
* *
791360 ACTATATTATATATATATTTTCAAAACTATTTTTAAA
1 ACTATACTATATATATATTTCCAAAACTATTTTTAAA
791397 ACTATACTATATATATATTT
1 ACTATACTATATATATATTT
791417 TTCTAACTAT
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
36 15 0.18
37 31 0.36
38 6 0.07
40 5 0.06
41 19 0.22
42 9 0.11
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (37 bp):
ACTATACTATATATATATTTCCAAAACTATTTTTAAA
Found at i:791392 original size:78 final size:79
Alignment explanation
Indices: 791283--791474 Score: 230
Period size: 78 Copynumber: 2.4 Consensus size: 79
791273 TCAAAATTAT
* * *
791283 ACTATA-TATATATTTTTTTTCAAAACAATTTTTAAAACTATAC-TATATATATTTTCCAAAACT
1 ACTATATTATATATATATTTTCAAAACTATTTTTAAAACTATACATATATATATTTTCC-AAACT
*
791346 A-TA-TATTTTATAAA
65 ATTATTATTTT-CAAA
* *
791360 ACTATATTATATATATATTTTCAAAACTATTTTTAAAACTATACTATATATATATTTTTCTAACT
1 ACTATATTATATATATATTTTCAAAACTATTTTTAAAACTATAC-ATATATATATTTTCCAAACT
791425 ATTATTTATTTTCAAA
65 ATTA-TTATTTTCAAA
*
791441 ATTATATTAATATATATATATATTCAAAACTATT
1 ACTATATT-ATATATATAT-T-TTCAAAACTATT
791475 ATATATTCTC
Statistics
Matches: 99, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
77 6 0.06
78 34 0.34
79 5 0.05
80 15 0.15
81 10 0.10
82 16 0.16
83 1 0.01
84 12 0.12
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (79 bp):
ACTATATTATATATATATTTTCAAAACTATTTTTAAAACTATACATATATATATTTTCCAAACTA
TTATTATTTTCAAA
Found at i:791458 original size:47 final size:45
Alignment explanation
Indices: 791394--791505 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 45
791384 AACTATTTTT
* * * * *
791394 AAAACTATACTATATATATAT-TTTTC-TAACTATTATTTATTTTC
1 AAAATTATA-TATATATATATATATTCAAAACTATTATATATTCTC
791438 AAAATTATATTAATATATATATATATTCAAAACTATTATATATTCTC
1 AAAATTATA-T-ATATATATATATATTCAAAACTATTATATATTCTC
791485 AAAATTATATATATATATATA
1 AAAATTATATATATATATATA
791506 ATAAAACAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 9 0.15
45 21 0.36
46 5 0.08
47 24 0.41
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (45 bp):
AAAATTATATATATATATATATATTCAAAACTATTATATATTCTC
Found at i:791479 original size:19 final size:21
Alignment explanation
Indices: 791451--791502 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
791441 ATTATATTAA
791451 TATATATATATAT-TCAAAAC
1 TATATATATATATCTCAAAAC
*
791471 TAT-TATATAT-TCTCAAAAT
1 TATATATATATATCTCAAAAC
791490 TATATATATATAT
1 TATATATATATAT
791503 ATAATAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 16 0.57
20 10 0.36
21 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATATATATATCTCAAAAC
Found at i:791516 original size:47 final size:47
Alignment explanation
Indices: 791421--791517 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
791411 ATATTTTTCT
* * **
791421 AACTATTATTTATTTTCAAAATTATATTAATATATATATATATTCAA
1 AACTATTATATATTCTCAAAATTATATTAATATATATATATAAACAA
791468 AACTATTATATATTCTCAAAATTATA-T-ATATATATATAATAAAACAA
1 AACTATTATATATTCTCAAAATTATATTAATATATATAT-AT-AAACAA
791515 AAC
1 AAC
791518 AAAACAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 10 0.23
46 3 0.07
47 31 0.70
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (47 bp):
AACTATTATATATTCTCAAAATTATATTAATATATATATATAAACAA
Found at i:791788 original size:82 final size:82
Alignment explanation
Indices: 791694--792089 Score: 564
Period size: 82 Copynumber: 4.8 Consensus size: 82
791684 GATAGATCGG
* * ** * * *
791694 ACTTGATTTGTTCCTCTTTTTCGGGTAGTCATATCAATTTTGGAAGATGGGCCTGCTCAATTATT
1 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACAGGTCTGCTCCACTATT
*
791759 CTTTCAGGGGATATCAA
66 CTTTCAGGGGAGATCAA
*
791776 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGAT-ACATTTTGGAAGACAGGTCTACTCCACTAT
1 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCA-ATTTTGGAAGACAGGTCTGCTCCACTAT
*
791840 T-TTTCAGGGGAGATCAG
65 TCTTTCAGGGGAGATCAA
* *
791857 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTCTGCTCCACTCTT
1 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACAGGTCTGCTCCACTATT
* *
791922 CTTTCAGGGGAGATTAG
66 CTTTCAGGGGAGATCAA
* * *
791939 ACTTGAT-TGGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATAGGTCTGCTCCACTCT
1 ACTTGATAT-GTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACAGGTCTGCTCCACTAT
792003 TCTTTCAGGGGAGATCAA
65 TCTTTCAGGGGAGATCAA
* * * *
792021 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGTCGGGTATGCTCCCCTATT
1 ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACAGGTCTGCTCCACTATT
792086 CTTT
66 CTTT
792090 ATGGGGAAAA
Statistics
Matches: 283, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
81 76 0.27
82 206 0.73
83 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (82 bp):
ACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACAGGTCTGCTCCACTATT
CTTTCAGGGGAGATCAA
Found at i:791954 original size:163 final size:164
Alignment explanation
Indices: 791678--792089 Score: 596
Period size: 163 Copynumber: 2.5 Consensus size: 164
791668 TCCATTATAA
** * * * *
791678 TTTCAGGATAGATCGGACTTGATTTGTTCCTCTTTTTCGGGTAGTCATATCAATTTTGGAAGATG
1 TTTCAGGGGAGATCAGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACG
* * * *
791743 GGCCTGCTCAATTATTCTTTCAGGGGATATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAG
66 GGTCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAG
791808 AT-ACATTTTGGAAGACAGGTCTACTCCACTATT-
131 ATCA-ATTTTGGAAGACAGGTCTACTCCACTATTC
791841 TTTCAGGGGAGATCAGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACG
1 TTTCAGGGGAGATCAGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACG
* * * *
791906 GGTCTGCTCCACTCTTCTTTCAGGGGAGATTAGACTTGAT-TGGTTCCTCTTTTTTGGGTAGTCA
66 GGTCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATAT-GTTCCTCTTTTTCGGGTAGTCA
* * *
791970 GATCAATTTTGGAAGATAGGTCTGCTCCACTCTTC
130 GATCAATTTTGGAAGACAGGTCTACTCCACTATTC
* *
792005 TTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGTCG
1 TTTCAGGGGAGATCAGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACG
* *
792070 GGTATGCTCCCCTATTCTTT
66 GGTCTGCTCCACTATTCTTT
792090 ATGGGGAAAA
Statistics
Matches: 224, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
162 1 0.00
163 142 0.63
164 81 0.36
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (164 bp):
TTTCAGGGGAGATCAGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACG
GGTCTGCTCCACTATTCTTTCAGGGGAGATCAAACTTGATATGTTCCTCTTTTTCGGGTAGTCAG
ATCAATTTTGGAAGACAGGTCTACTCCACTATTC
Found at i:793205 original size:18 final size:19
Alignment explanation
Indices: 793175--793213 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
793165 TGAACCCTCC
793175 TTTTATTTAATTTTTATTT
1 TTTTATTTAATTTTTATTT
793194 TTTTATTT-ATTTTTATTT
1 TTTTATTTAATTTTTATTT
793212 TT
1 TT
793214 CTTTTCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTATTTAATTTTTATTT
Found at i:807207 original size:21 final size:20
Alignment explanation
Indices: 807155--807209 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
807145 GTTGTAAATA
*
807155 TTCC-TCCACCACCCTACTC
1 TTCCATCCACCACTCTACTC
807174 TTCCATCCAACCACTCTACTC
1 TTCCATCC-ACCACTCTACTC
807195 -TCTCATTCCACCACT
1 TTC-CA-TCCACCACT
807210 TTGCTCTCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 19 0.61
22 3 0.10
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (20 bp):
TTCCATCCACCACTCTACTC
Found at i:812203 original size:21 final size:21
Alignment explanation
Indices: 812179--812269 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
812169 CAATTATGAG
*
812179 TATTCAATGTTGAAATTTAAT
1 TATTGAATGTTGAAATTTAAT
* *
812200 TATTGAATGATGAATTTTAAGT
1 TATTGAATGTTGAAATTTAA-T
812222 TA--GAATGTTGAAATTTAAT
1 TATTGAATGTTGAAATTTAAT
*
812241 TATTGAATGCTGAAATTTAAT
1 TATTGAATGTTGAAATTTAAT
812262 TATTGAAT
1 TATTGAAT
812270 ACTGAATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.05
20 14 0.23
21 41 0.67
22 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (21 bp):
TATTGAATGTTGAAATTTAAT
Found at i:812274 original size:21 final size:21
Alignment explanation
Indices: 812189--812281 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
812179 TATTCAATGT
812189 TGAAATTTAATTATTGAATGA-
1 TGAAATTTAATTATTGAAT-AC
* **
812210 TGAATTTTAAGTTA--GAATGT
1 TGAAATTTAA-TTATTGAATAC
*
812230 TGAAATTTAATTATTGAATGC
1 TGAAATTTAATTATTGAATAC
812251 TGAAATTTAATTATTGAATAC
1 TGAAATTTAATTATTGAATAC
*
812272 TGAATTTTAA
1 TGAAATTTAA
812282 GTTAGAATGC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
19 3 0.05
20 13 0.21
21 43 0.69
22 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (21 bp):
TGAAATTTAATTATTGAATAC
Found at i:812278 original size:41 final size:40
Alignment explanation
Indices: 812189--812302 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 40
812179 TATTCAATGT
* * **
812189 TGAAATTTAATTATTGAATGATGAATTTTAAGTTAGAATGT
1 TGAAATTTAATTATTGAATGCTGAAATTTAA-TTAGAATAC
812230 TGAAATTTAATTATTGAATGCTGAAATTTAATTATTGAATAC
1 TGAAATTTAATTATTGAATGCTGAAATTTAATTA--GAATAC
* *
812272 TGAATTTTAAGTTA--GAATGCT-TAATTTAATT
1 TGAAATTTAA-TTATTGAATGCTGAAATTTAATT
812303 TATATTATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
40 12 0.19
41 36 0.56
42 13 0.20
43 3 0.05
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.45
Consensus pattern (40 bp):
TGAAATTTAATTATTGAATGCTGAAATTTAATTAGAATAC
Found at i:812286 original size:62 final size:61
Alignment explanation
Indices: 812179--812302 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 61
812169 CAATTATGAG
*
812179 TATTCAATGTTGAAATTTAATTATTGAATGATGAATTTTAAGTTAGAATG-TTGAAATTTAAT
1 TATTCAATGCTGAAATTTAATTATTGAATGATGAATTTTAAGTTAGAATGCTT--AATTTAAT
*
812241 TATTGAATGCTGAAATTTAATTATTGAAT-ACTGAATTTTAAGTTAGAATGCTTAATTTAAT
1 TATTCAATGCTGAAATTTAATTATTGAATGA-TGAATTTTAAGTTAGAATGCTTAATTTAAT
812302 T
1 T
812303 TATATTATTG
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 10 0.17
62 46 0.79
63 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (61 bp):
TATTCAATGCTGAAATTTAATTATTGAATGATGAATTTTAAGTTAGAATGCTTAATTTAAT
Found at i:818394 original size:31 final size:31
Alignment explanation
Indices: 818302--818395 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
818292 ATCGGATCCT
818302 TTAAATTTGATTACACTAGAGGAAATTGAAC
1 TTAAATTTGATTACACTAGAGGAAATTGAAC
* ** * * * * * *
818333 TTCAATCAGACT--AGTCGTACGAAGTAGAAC
1 TTAAATTTGATTACACTAG-AGGAAATTGAAC
818363 TTAAATTTGATTACACTAGAGGAAATTGAAC
1 TTAAATTTGATTACACTAGAGGAAATTGAAC
818394 TT
1 TT
818396 CAATCAGACT
Statistics
Matches: 42, Mismatches: 18, Indels: 6
0.64 0.27 0.09
Matches are distributed among these distances:
29 3 0.07
30 17 0.40
31 19 0.45
32 3 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (31 bp):
TTAAATTTGATTACACTAGAGGAAATTGAAC
Found at i:818397 original size:61 final size:61
Alignment explanation
Indices: 818302--818423 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
818292 ATCGGATCCT
818302 TTAAATTTGATTACACTAGAGGAAATTGAACTTCAATCAGACTAGTCGTACGAAGTAGAAC
1 TTAAATTTGATTACACTAGAGGAAATTGAACTTCAATCAGACTAGTCGTACGAAGTAGAAC
818363 TTAAATTTGATTACACTAGAGGAAATTGAACTTCAATCAGACTAGTCGTACGAAGTAGAAC
1 TTAAATTTGATTACACTAGAGGAAATTGAACTTCAATCAGACTAGTCGTACGAAGTAGAAC
818424 CAATAAAGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (61 bp):
TTAAATTTGATTACACTAGAGGAAATTGAACTTCAATCAGACTAGTCGTACGAAGTAGAAC
Done.