Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 37
Found at i:716832 original size:26 final size:26
Alignment explanation
Indices: 716796--716847 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
716786 GTTTCTCTCG
* *
716796 AACACTAAATATATGTTATTTAGTCA
1 AACACAAAATATATGTTACTTAGTCA
716822 AACACAAAATATATGTTACTTAGTCA
1 AACACAAAATATATGTTACTTAGTCA
716848 TTCTCTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (26 bp):
AACACAAAATATATGTTACTTAGTCA
Found at i:716946 original size:21 final size:20
Alignment explanation
Indices: 716917--716955 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
716907 TAAGGCATTA
*
716917 AACATCATAAACAAAACAAAT
1 AACAACATAAA-AAAACAAAT
716938 AACAACATAAAAAAACAA
1 AACAACATAAAAAAACAA
716956 CCATCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.18, G:0.00, T:0.10
Consensus pattern (20 bp):
AACAACATAAAAAAACAAAT
Found at i:719438 original size:5 final size:5
Alignment explanation
Indices: 719428--719460 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
719418 ATTTCTTAAG
719428 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
719461 TAGAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:719792 original size:37 final size:37
Alignment explanation
Indices: 719751--719830 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
719741 TTTCATAAGG
719751 CTCCTGCAGCATTAAAATGAATCAATCTTCATGAAAA
1 CTCCTGCAGCATTAAAATGAATCAATCTTCATGAAAA
719788 CTCCTGCAGCATTAAAATGAATCAATCTTCATGAAAA
1 CTCCTGCAGCATTAAAATGAATCAATCTTCATGAAAA
719825 CTCCTG
1 CTCCTG
719831 ATGAAATGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (37 bp):
CTCCTGCAGCATTAAAATGAATCAATCTTCATGAAAA
Found at i:726667 original size:39 final size:39
Alignment explanation
Indices: 726587--726671 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
726577 ATATAACCAC
* * *
726587 TGATGGCTATGATGTAATTGGCTCGTGACATGATGATTA
1 TGATGGCTATGATATAATTGGCTCATGACACGATGATTA
* * *
726626 TGATGGCTATGATATAATTGGTTCATGGCACGGT-ATGTA
1 TGATGGCTATGATATAATTGGCTCATGACACGATGAT-TA
726665 TGATGGC
1 TGATGGC
726672 ATGTTCATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.05
39 37 0.95
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (39 bp):
TGATGGCTATGATATAATTGGCTCATGACACGATGATTA
Found at i:735562 original size:50 final size:51
Alignment explanation
Indices: 735425--735566 Score: 128
Period size: 50 Copynumber: 2.8 Consensus size: 51
735415 GCCCTTTGAC
* * * * *
735425 CCGCGCTATATGCTGATTTGGCGTCACGTGGGGTATAGCGCGCCCCCTATA
1 CCGCGCTATACGCTGACTAGGTGACACGTGGGGTATAGCGCGCCCCCTATA
* * * * * * *
735476 CCGCGTTATACGCTGACTGGGTTACACGT-GGCTATAGCGCGCCCCTTGTT
1 CCGCGCTATACGCTGACTAGGTGACACGTGGGGTATAGCGCGCCCCCTATA
* *
735526 CCGCGCTATAC-CT-ATTTATGTGACACGTGGGGTATAGCGCG
1 CCGCGCTATACGCTGA-CTAGGTGACACGTGGGGTATAGCGCG
735567 GTACAGGGGG
Statistics
Matches: 72, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 11 0.15
50 38 0.53
51 22 0.31
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.27
Consensus pattern (51 bp):
CCGCGCTATACGCTGACTAGGTGACACGTGGGGTATAGCGCGCCCCCTATA
Found at i:735766 original size:17 final size:18
Alignment explanation
Indices: 735729--735769 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
735719 ATATTATGTA
*
735729 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
735747 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
735764 TTTACT
1 TTTACT
735770 AATATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:738036 original size:26 final size:24
Alignment explanation
Indices: 737965--738036 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
737955 TTATATTTGT
737965 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
737990 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
738012 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
738037 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:747811 original size:28 final size:28
Alignment explanation
Indices: 747757--747812 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
747747 TATGATCGTC
*
747757 ATTTTAATTTTTCCTTAAACTTTTGAAT
1 ATTTTAATTTTTCCTTAAACTTATGAAT
747785 ATTTTAATTTTATCCTTAAAC-TATGAAT
1 ATTTTAATTTT-TCCTTAAACTTATGAAT
747813 CTCGTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.54
Consensus pattern (28 bp):
ATTTTAATTTTTCCTTAAACTTATGAAT
Found at i:748539 original size:60 final size:60
Alignment explanation
Indices: 748470--748583 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
748460 ATAGTCATAT
* * *
748470 ACTATAAGATGTTATTTTATTGAGT-TATTCGACTATTAAAAGTTACAAAATGATTATCTG
1 ACTATAAGATGTTACTTTATTGAGTCGA-TCAACTATTAAAAGTTACAAAATGATTATCTG
* *
748530 ACTATAAGATGTTACTTTGTTGAGTCGATCAACTATTAAAATTTACAAAATGAT
1 ACTATAAGATGTTACTTTATTGAGTCGATCAACTATTAAAAGTTACAAAATGAT
748584 CACTCTACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 47 0.98
61 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (60 bp):
ACTATAAGATGTTACTTTATTGAGTCGATCAACTATTAAAAGTTACAAAATGATTATCTG
Found at i:748594 original size:60 final size:59
Alignment explanation
Indices: 748464--748594 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 59
748454 ATAAAAATAG
* * * *
748464 TCATATACTATAAGATGTTATTTTATTGAGTTATTCGACTATTAAAAGTTACAAAATGA
1 TCATCTACTATAAGATGTTACTTTATTGAGTGATTCAACTATTAAAAGTTACAAAATGA
* * *
748523 TTATCTGACTATAAGATGTTACTTTGTTGAGTCGA-TCAACTATTAAAATTTACAAAATGA
1 TCATCT-ACTATAAGATGTTACTTTATTGAGT-GATTCAACTATTAAAAGTTACAAAATGA
748583 TCACTCTACTAT
1 TCA-TCTACTAT
748595 TCATATATTC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
59 4 0.07
60 53 0.87
61 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (59 bp):
TCATCTACTATAAGATGTTACTTTATTGAGTGATTCAACTATTAAAAGTTACAAAATGA
Found at i:757722 original size:25 final size:25
Alignment explanation
Indices: 757693--757740 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
757683 ACATATTTAA
*
757693 AATATTTTTAATA-ATATAATATAAT
1 AATATTATTAATACA-ATAATATAAT
*
757718 AATATTATTATTACAATAATATA
1 AATATTATTAATACAATAATATA
757741 CTCAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATATTATTAATACAATAATATAAT
Found at i:757854 original size:23 final size:24
Alignment explanation
Indices: 757825--757877 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
757815 GTTATATTAT
* *
757825 TTATTAATTTCTTAAAAAT-AATA
1 TTATTAAATTATTAAAAATGAATA
*
757848 TTATTAAATTATTAATAATGAATA
1 TTATTAAATTATTAAAAATGAATA
*
757872 ATATTA
1 TTATTA
757878 TTTGTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TTATTAAATTATTAAAAATGAATA
Found at i:758136 original size:23 final size:23
Alignment explanation
Indices: 758097--758157 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
758087 AAATAATATT
*
758097 AAATAAATTAT-TATAATATTTTTA
1 AAATAAATAATAT-TAAT-TTTTTA
758121 AAAT-AATAATATTAATTTTTTA
1 AAATAAATAATATTAATTTTTTA
*
758143 TAATAAATAATATTA
1 AAATAAATAATATTA
758158 TTTATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 9 0.27
23 19 0.58
24 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATAAATAATATTAATTTTTTA
Found at i:765188 original size:16 final size:17
Alignment explanation
Indices: 765167--765200 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
765157 TTTTTAATAC
*
765167 ATTATTAACTA-TTGAT
1 ATTATTAAATATTTGAT
765183 ATTATTAAATATTTGAT
1 ATTATTAAATATTTGAT
765200 A
1 A
765201 AATGTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTATTAAATATTTGAT
Found at i:776257 original size:29 final size:29
Alignment explanation
Indices: 776166--776250 Score: 161
Period size: 29 Copynumber: 2.9 Consensus size: 29
776156 GATAAAAATG
*
776166 AAATGTTCAAAAGTTTAAGGACTAATCTA
1 AAATGTTCAAAAGTTTGAGGACTAATCTA
776195 AAATGTTCAAAAGTTTGAGGACTAATCTA
1 AAATGTTCAAAAGTTTGAGGACTAATCTA
776224 AAATGTTCAAAAGTTTGAGGACTAATC
1 AAATGTTCAAAAGTTTGAGGACTAATC
776251 CAGAATGATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (29 bp):
AAATGTTCAAAAGTTTGAGGACTAATCTA
Found at i:785639 original size:32 final size:32
Alignment explanation
Indices: 785602--785681 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
785592 ACGATTAGAA
785602 GGATAAAATATAATTAATCATAAATAATGAAG
1 GGATAAAATATAATTAATCATAAATAATGAAG
785634 GGATAAAATATAATTAATCATAAATAATGAAG
1 GGATAAAATATAATTAATCATAAATAATGAAG
*
785666 GGGTAAAATATAATTA
1 GGATAAAATATAATTA
785682 TTATAAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.29
Consensus pattern (32 bp):
GGATAAAATATAATTAATCATAAATAATGAAG
Found at i:789424 original size:30 final size:30
Alignment explanation
Indices: 789389--789447 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 30
789379 GTTGGTTACG
789389 TATATTTCTTA-TTTATTTTT-ATTTTTATAT
1 TATATTT-TTACTTT-TTTTTAATTTTTATAT
789419 TATATTTTTACTTTTTTTTGAATTTTTAT
1 TATATTTTTACTTTTTTTT-AATTTTTAT
789448 TAATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 8 0.31
30 10 0.38
31 8 0.31
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (30 bp):
TATATTTTTACTTTTTTTTAATTTTTATAT
Found at i:789426 original size:19 final size:19
Alignment explanation
Indices: 789398--789434 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
789388 GTATATTTCT
789398 TATTTATTTTTA-TTTTTA
1 TATTTATTTTTACTTTTTA
789416 TATTATATTTTTACTTTTT
1 TATT-TATTTTTACTTTTT
789435 TTTGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTATTTTTACTTTTTA
Found at i:789504 original size:23 final size:21
Alignment explanation
Indices: 789461--789506 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
789451 TTTTCAATAA
789461 TTATATTTTTATCATACGTTT
1 TTATATTTTTATCATACGTTT
* *
789482 TTATATGTCTTTATGATATGTTT
1 TTATAT-T-TTTATCATACGTTT
789505 TT
1 TT
789507 CTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 14 0.67
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.63
Consensus pattern (21 bp):
TTATATTTTTATCATACGTTT
Found at i:790717 original size:2 final size:2
Alignment explanation
Indices: 790710--790734 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
790700 TAATACGATA
790710 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
790735 ATTGATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:814645 original size:17 final size:17
Alignment explanation
Indices: 814605--814643 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
814595 TTAATATTTT
*
814605 GTATTTGATTTATTTAA
1 GTATTTAATTTATTTAA
814622 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
814639 -TATTT
1 GTATTT
814644 TACCTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:819507 original size:32 final size:31
Alignment explanation
Indices: 819432--819512 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 31
819422 AAAAAATGTT
* *
819432 TAAAATTATTATTAAATTTATTAATTTTTAA
1 TAAAATAATTATTAATTTTATTAATTTTTAA
** *
819463 TGGAATATTTATTACATTTTATTAATTTATT-A
1 TAAAATAATTATTA-ATTTTATTAATTT-TTAA
819495 TAAAATAATTATTAATTT
1 TAAAATAATTATTAATTT
819513 ATCATCTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 14 0.35
32 24 0.60
33 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (31 bp):
TAAAATAATTATTAATTTTATTAATTTTTAA
Found at i:826713 original size:13 final size:13
Alignment explanation
Indices: 826695--826720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826685 CCAGTCAAAG
826695 CAAGAACTGAAGT
1 CAAGAACTGAAGT
826708 CAAGAACTGAAGT
1 CAAGAACTGAAGT
826721 TCCATCAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
CAAGAACTGAAGT
Found at i:828455 original size:29 final size:29
Alignment explanation
Indices: 828419--828476 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
828409 TATTACGAAG
828419 ACCAATGATTACAGTGAAAGAACACAAGT
1 ACCAATGATTACAGTGAAAGAACACAAGT
828448 ACCAATGATTACAGTGAAAGAACACAAGT
1 ACCAATGATTACAGTGAAAGAACACAAGT
828477 CTAATATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (29 bp):
ACCAATGATTACAGTGAAAGAACACAAGT
Found at i:836347 original size:2 final size:2
Alignment explanation
Indices: 836342--836383 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
836332 AATCTTTTGC
* *
836342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
836384 TTAAGATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:836418 original size:16 final size:16
Alignment explanation
Indices: 836397--836438 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
836387 AGATATTTGA
836397 TTCAAGATTTTTTAAG
1 TTCAAGATTTTTTAAG
836413 TTCAAGATTTTTTAAG
1 TTCAAGATTTTTTAAG
836429 TTCAAGATTT
1 TTCAAGATTT
836439 ACATTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (16 bp):
TTCAAGATTTTTTAAG
Found at i:838737 original size:15 final size:15
Alignment explanation
Indices: 838717--838747 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
838707 CCAGACATCC
*
838717 TGGAAACTCAAATTT
1 TGGAAACCCAAATTT
838732 TGGAAACCCAAATTT
1 TGGAAACCCAAATTT
838747 T
1 T
838748 AGTCATTACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (15 bp):
TGGAAACCCAAATTT
Found at i:843067 original size:29 final size:29
Alignment explanation
Indices: 843034--843091 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
843024 AGTCCATTGC
843034 ATAAACAAAGAACCATTAAAAAAAATTAA
1 ATAAACAAAGAACCATTAAAAAAAATTAA
843063 ATAAACAAAGAACCATTAAAAAAAATTAA
1 ATAAACAAAGAACCATTAAAAAAAATTAA
843092 CTCACCGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.17
Consensus pattern (29 bp):
ATAAACAAAGAACCATTAAAAAAAATTAA
Found at i:844842 original size:17 final size:19
Alignment explanation
Indices: 844812--844850 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
844802 TAAAAATTAT
844812 TTAATTAAATAAATTAAAA
1 TTAATTAAATAAATTAAAA
*
844831 TTAA-TAAA-AAATTCAAA
1 TTAATTAAATAAATTAAAA
844848 TTA
1 TTA
844851 GGCAGTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAATTAAATAAATTAAAA
Found at i:845402 original size:65 final size:65
Alignment explanation
Indices: 845310--845440 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
845300 AATGATGTGT
* * * *
845310 TTCAGTCTACGACGTTCACTTTAGATTCATCGAAGGAGAAATATAGTTTAATTTTAATTTTAAAA
1 TTCAGTATACAACGTTCACTGTAGATTCATCGAAGGAGAAATATAGTTTAATTTTAAATTTAAAA
*
845375 TTCAGTATACAACGTTCACTGTAGATTCATCGGAGGAGAAATATAGTTTAATTTTAAATTTAAAA
1 TTCAGTATACAACGTTCACTGTAGATTCATCGAAGGAGAAATATAGTTTAATTTTAAATTTAAAA
845440 T
1 T
845441 AATTAATTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (65 bp):
TTCAGTATACAACGTTCACTGTAGATTCATCGAAGGAGAAATATAGTTTAATTTTAAATTTAAAA
Found at i:846107 original size:21 final size:21
Alignment explanation
Indices: 846081--846142 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
846071 CTTAACACAG
*
846081 GGAGTATCAGTACTGTCTTTA
1 GGAGTATCGGTACTGTCTTTA
846102 GGAGTATCGGTACTGTCTTTA
1 GGAGTATCGGTACTGTCTTTA
*
846123 GGAGTATCGGTACTTTCTTT
1 GGAGTATCGGTACTGTCTTT
846143 GTTATATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (21 bp):
GGAGTATCGGTACTGTCTTTA
Found at i:851383 original size:2 final size:2
Alignment explanation
Indices: 851376--851414 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
851366 AAAAGTAAAT
851376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
851415 TTGTGTCGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:856680 original size:2 final size:2
Alignment explanation
Indices: 856675--856713 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
856665 TATATTTTAT
856675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
856714 GTATGTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:862434 original size:17 final size:18
Alignment explanation
Indices: 862406--862444 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
862396 AACCTTGTAA
862406 TTATCATAGACTCGAGTG
1 TTATCATAGACTCGAGTG
*
862424 TTATC-TAGACTCGGGTG
1 TTATCATAGACTCGAGTG
862441 TTAT
1 TTAT
862445 ATTTATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (18 bp):
TTATCATAGACTCGAGTG
Found at i:865827 original size:2 final size:2
Alignment explanation
Indices: 865822--865860 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
865812 ACACAATCTC
865822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
865861 ATTTATGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:876038 original size:22 final size:22
Alignment explanation
Indices: 876011--876052 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
876001 AAAGCTCAAA
* *
876011 CAAATGTCATAAGAAAATTACG
1 CAAATGGCATAAAAAAATTACG
*
876033 CAAATGGCCTAAAAAAATTA
1 CAAATGGCATAAAAAAATTA
876053 ACTGTAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.21
Consensus pattern (22 bp):
CAAATGGCATAAAAAAATTACG
Found at i:886349 original size:11 final size:11
Alignment explanation
Indices: 886333--886393 Score: 59
Period size: 11 Copynumber: 5.2 Consensus size: 11
886323 TTTAAATTAT
886333 TATATATTTTA
1 TATATATTTTA
886344 TATATATTTTA
1 TATATATTTTA
* *
886355 TAACATTTTATTAA
1 T-ATATATT-TT-A
886369 TAATATATTTTA
1 T-ATATATTTTA
*
886381 TATATTTTTTA
1 TATATATTTTA
886392 TA
1 TA
886394 ACTTTTTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
11 23 0.55
12 7 0.17
13 4 0.10
14 8 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATATTTTA
Found at i:886376 original size:37 final size:37
Alignment explanation
Indices: 886334--886416 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
886324 TTAAATTATT
886334 ATATATTTTATATATATTTTATAACATTTTATTAATA
1 ATATATTTTATATATATTTTATAACATTTTATTAATA
* *
886371 ATATATTTTATATATTTTTTATAACTTTTTATTAATA
1 ATATATTTTATATATATTTTATAACATTTTATTAATA
886408 ATATATTTT
1 ATATATTTT
886417 TACTCTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (37 bp):
ATATATTTTATATATATTTTATAACATTTTATTAATA
Found at i:886399 original size:11 final size:11
Alignment explanation
Indices: 886332--886402 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
886322 TTTTAAATTA
886332 TTATATATTTT
1 TTATATATTTT
*
886343 ATATATATTTT
1 TTATATATTTT
* *
886354 ATA-ACATTTT
1 TTATATATTTT
*
886364 ATTAATAATATATT
1 -TT-AT-ATATTTT
886378 TTATATATTTT
1 TTATATATTTT
*
886389 TTATA-ACTTT
1 TTATATATTTT
886399 TTAT
1 TTAT
886403 TAATAATATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 14 0.29
11 25 0.51
12 3 0.06
13 2 0.04
14 5 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATATTTT
Found at i:892133 original size:18 final size:19
Alignment explanation
Indices: 892097--892133 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
892087 TACCGAATGT
892097 AAGATTATCAGTAGGAATAA
1 AAGATTATCAG-AGGAATAA
892117 AAGATTATCAG-GGAATA
1 AAGATTATCAGAGGAATA
892134 GTATTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGAGGAATAA
Found at i:892326 original size:22 final size:21
Alignment explanation
Indices: 892278--892328 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 21
892268 AACAAGTTGG
892278 AAAATATTTATATATTTTCTTT
1 AAAA-ATTTATATATTTTCTTT
892300 AAAAATTTATATAATTTT-TTT
1 AAAAATTTATAT-ATTTTCTTT
892321 ACAAAATT
1 A-AAAATT
892329 GACAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAAATTTATATATTTTCTTT
Found at i:904779 original size:20 final size:20
Alignment explanation
Indices: 904756--904800 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
904746 ACAGGTTCCA
* *
904756 AAATCGCAATGCGAATATGT
1 AAATCGCAACGAGAATATGT
*
904776 AAATCGCAACGATAATATGT
1 AAATCGCAACGAGAATATGT
904796 AAATC
1 AAATC
904801 ATAACACGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGAGAATATGT
Found at i:904979 original size:77 final size:76
Alignment explanation
Indices: 904898--905136 Score: 372
Period size: 77 Copynumber: 3.1 Consensus size: 76
904888 AACAAAACTA
* *
904898 TCGCAACGAGATTTTCAAATTCGCAAAGCTAATTACCGACATAGGTAAATAGTACTATCGCAACA
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACA
904963 CGATTTACAAAT
66 CGATTT-CAAAT
*
904975 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACA
*
905040 CAATTTTCAAAT
66 CGA-TTTCAAAT
* *
905052 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAATACTATTGCAA-A
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACA
*
905116 GCGAATTTCCAAT
66 -CG-ATTTCAAAT
905129 TCGCAACG
1 TCGCAACG
905137 CTAATTACCG
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
77 146 0.97
78 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (76 bp):
TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACA
CGATTTCAAAT
Found at i:904980 original size:20 final size:20
Alignment explanation
Indices: 904955--905002 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
904945 AATAGTACTA
904955 TCGCAAC-ACGATTTACAAAT
1 TCGCAACGA-GATTTACAAAT
*
904975 TCGCAACGAGATTTTCAAAT
1 TCGCAACGAGATTTACAAAT
904995 TCGCAACG
1 TCGCAACG
905003 CTAATTACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
TCGCAACGAGATTTACAAAT
Found at i:905057 original size:20 final size:20
Alignment explanation
Indices: 905032--905085 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
905022 AACAGTACTA
905032 TCGCAACGCAATTTTCAAAT
1 TCGCAACGCAATTTTCAAAT
905052 TCGCAACG-AGATTTTCAAAT
1 TCGCAACGCA-ATTTTCAAAT
905072 TCGCAACGCTAATT
1 TCGCAACGC-AATT
905086 ACCGACATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
20 26 0.84
21 3 0.10
22 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (20 bp):
TCGCAACGCAATTTTCAAAT
Found at i:905130 original size:134 final size:134
Alignment explanation
Indices: 904975--905327 Score: 517
Period size: 134 Copynumber: 2.6 Consensus size: 134
904965 ATTTACAAAT
* *
904975 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG
1 TCGCAAAGAGAATTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG
* * *
905040 CAATTTTCAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAAT
66 CGATTTTCAAATTCGCAACGAGATTTTCAAATTCGCAAAGCTAAATACCGACATAGGTAAACAAT
905105 ACTA
131 ACTA
* * * * *
905109 TTGCAAAGCGAATTTCCAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACTATCGCAACG
1 TCGCAAAGAGAATTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG
* * * ** *
905174 CGATCTTCAAATTCGCAATGCGATTTTCAAATTCGCAAAGCTAAATATTGACATAGGTAAACAGT
66 CGATTTTCAAATTCGCAACGAGATTTTCAAATTCGCAAAGCTAAATACCGACATAGGTAAACAAT
905239 ACTA
131 ACTA
* * * *
905243 TCGCAACGAGATTTTCAAATTCGCAACACTAATTACCGACATAGGTAAATAGTACTATCGCAACG
1 TCGCAAAGAGAATTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG
*
905308 CGATTTACAAATTCGCAACG
66 CGATTTTCAAATTCGCAACG
905328 CTAATTACCG
Statistics
Matches: 191, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
134 191 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (134 bp):
TCGCAAAGAGAATTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG
CGATTTTCAAATTCGCAACGAGATTTTCAAATTCGCAAAGCTAAATACCGACATAGGTAAACAAT
ACTA
Found at i:905142 original size:211 final size:211
Alignment explanation
Indices: 904823--905269 Score: 596
Period size: 211 Copynumber: 2.1 Consensus size: 211
904813 TCCAAAATCA
* * * * * **
904823 CAACGCCATTTTCCAAATTCGCAACGCGGATATGTAAATCGCAACGTTGATTATCGATGTAGGTA
1 CAACGCAATTTT-CAAATTCGCAACGCAGATATGTAAATCGCAACGCTAATTACCGACATAGGTA
* * * *
904888 AACAAAACTATCGCAACGAGATTTTCAAATTCGCAAAGCTAATTACCGACATAGGTAAATAGTAC
65 AACAAAACTATCGCAAAGAGAATTTCAAATTCGCAAAGCTAATTACCGACATAAGTAAACAGTAC
* *
904953 TATCGCAACACGAT-TTACAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACAT
130 TATCGCAACACGATCTT-CAAATTCGCAACGAGATTTTCAAATTCGCAAAGCTAAATACCGACAT
905017 AGGTAAACAGTACTATCG
194 AGGTAAACAGTACTATCG
*
905035 CAACGCAATTTTCAAATTCGCAACG-AGAT-TTTCAAATTCGCAACGCTAATTACCGACATAGGT
1 CAACGCAATTTTCAAATTCGCAACGCAGATATGT-AAA-TCGCAACGCTAATTACCGACATAGGT
* * * * * *
905098 AAACAATACTATTGCAAAGCGAATTTCCAATTCGCAACGCTAATTACCGATATAAGTAAACAGTA
64 AAACAAAACTATCGCAAAGAGAATTTCAAATTCGCAAAGCTAATTACCGACATAAGTAAACAGTA
* * * **
905163 CTATCGCAACGCGATCTTCAAATTCGCAATGCGATTTTCAAATTCGCAAAGCTAAATATTGACAT
129 CTATCGCAACACGATCTTCAAATTCGCAACGAGATTTTCAAATTCGCAAAGCTAAATACCGACAT
905228 AGGTAAACAGTACTATCG
194 AGGTAAACAGTACTATCG
905246 CAACG-AGATTTTCAAATTCGCAAC
1 CAACGCA-ATTTTCAAATTCGCAAC
905270 ACTAATTACC
Statistics
Matches: 206, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
209 2 0.01
210 7 0.03
211 184 0.89
212 13 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (211 bp):
CAACGCAATTTTCAAATTCGCAACGCAGATATGTAAATCGCAACGCTAATTACCGACATAGGTAA
ACAAAACTATCGCAAAGAGAATTTCAAATTCGCAAAGCTAATTACCGACATAAGTAAACAGTACT
ATCGCAACACGATCTTCAAATTCGCAACGAGATTTTCAAATTCGCAAAGCTAAATACCGACATAG
GTAAACAGTACTATCG
Found at i:905157 original size:57 final size:56
Alignment explanation
Indices: 905064--905191 Score: 184
Period size: 57 Copynumber: 2.2 Consensus size: 56
905054 GCAACGAGAT
* *
905064 TTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAATACTATTGCAAAGCGAA
1 TTTCAAATTCGCAACGCTAATTACCGACATAAGTAAACAATACTATCGCAAAGCG-A
* * * *
905121 TTTCCAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACTATCGCAACGCGA
1 TTTCAAATTCGCAACGCTAATTACCGACATAAGTAAACAATACTATCGCAAAGCGA
905177 TCTTCAAATTCGCAA
1 T-TTCAAATTCGCAA
905192 TGCGATTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
56 2 0.03
57 61 0.97
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (56 bp):
TTTCAAATTCGCAACGCTAATTACCGACATAAGTAAACAATACTATCGCAAAGCGA
Found at i:905191 original size:20 final size:20
Alignment explanation
Indices: 905166--905211 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
905156 AACAGTACTA
905166 TCGCAACGCGATCTTCAAAT
1 TCGCAACGCGATCTTCAAAT
* *
905186 TCGCAATGCGATTTTCAAAT
1 TCGCAACGCGATCTTCAAAT
905206 TCGCAA
1 TCGCAA
905212 AGCTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATCTTCAAAT
Found at i:905260 original size:77 final size:77
Alignment explanation
Indices: 905111--905268 Score: 217
Period size: 77 Copynumber: 2.1 Consensus size: 77
905101 CAATACTATT
* * * * *
905111 GCAAAGCGAATTTCCAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACTATCGCAACGCG
1 GCAAAGCGAATTTCAAATTCGCAAAGCTAAATACCGACATAAGTAAACAGTACTATCGCAACGAG
905176 ATCTTCAAATTC
66 ATCTTCAAATTC
* * ** *
905188 GCAATGCGATTTTCAAATTCGCAAAGCTAAATATTGACATAGGTAAACAGTACTATCGCAACGAG
1 GCAAAGCGAATTTCAAATTCGCAAAGCTAAATACCGACATAAGTAAACAGTACTATCGCAACGAG
*
905253 ATTTTCAAATTC
66 ATCTTCAAATTC
905265 GCAA
1 GCAA
905269 CACTAATTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (77 bp):
GCAAAGCGAATTTCAAATTCGCAAAGCTAAATACCGACATAAGTAAACAGTACTATCGCAACGAG
ATCTTCAAATTC
Found at i:905438 original size:20 final size:20
Alignment explanation
Indices: 905413--905466 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
905403 AAACAGTGTT
905413 ATCGCAACG-TGAATATGTAA
1 ATCGCAACGAT-AATATGTAA
905433 ATCGCAACGATAATATGTAA
1 ATCGCAACGATAATATGTAA
*
905453 ATCGCAACGCTAAT
1 ATCGCAACGATAAT
905467 TACAAATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGATAATATGTAA
Found at i:905439 original size:191 final size:190
Alignment explanation
Indices: 904978--905518 Score: 587
Period size: 191 Copynumber: 2.8 Consensus size: 190
904968 TACAAATTCG
* * * *
904978 CAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAACG-CA
1 CAACGCGATTTTCAAATTCGCAACGCTAATTACCGAAATAGGTAAACAGTAATATCGCAACGTAA
* *
905042 AT-TTTCAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAATA
66 ATATGT-AAA-TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTA
* * * * *
905106 CTATTGCAAAGCGAATTTCCAATTCGCAACGCTAATTACCGATATAAGTAAACAGTACTATCG
129 CTATCGCAACGCG-ATTTCAAATTCGCAACGCTAATTACCGACATAAGTAAACAGTACTATCA
* * * ** ** * * *
905169 CAACGCGATCTTCAAATTCGCAATGC-GATTTTC-AAATTCG-CAA-AGCTAAATATTGACATAG
1 CAACGCGATTTTCAAATTCGCAACGCTAATTACCGAAATAGGTAAACAG-T-AATATCG-CA-AC
* * * *
905230 GTAAACA-GTACTATCGCAACGAGATTTTCAAATTCGCAACACTAATTACCGACATAGGTAAATA
62 GTAAATATGTA-AATCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACA
*
905294 GTACTATCGCAACGCGATTTACAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATC
126 GTACTATCGCAACGCGATTT-CAAATTCGCAACGCTAATTACCGACATAAGTAAACAGTACTATC
905359 A
190 A
* ** *
905360 CAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACGTGA
1 CAACGCGATTTTCAAATTCGCAACGCTAATTACCGAAATAGGTAAACAGTAATATCGCAACGTAA
* * ** **
905425 ATATGTAAATCGCAACGATAATATGT-AAA-TCGCAACGCTAATTACAAATGTAGGTAAACAGTA
66 ATATGTAAATCGCAACGA-GAT-TTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTA
905488 CTATCGCAACGCGATTTTCAAATTCGCAACG
129 CTATCGCAACGCGA-TTTCAAATTCGCAACG
905519 AGATTTTCAA
Statistics
Matches: 284, Mismatches: 50, Indels: 32
0.78 0.14 0.09
Matches are distributed among these distances:
187 2 0.01
188 3 0.01
189 9 0.03
190 10 0.04
191 224 0.79
192 21 0.07
193 10 0.04
194 3 0.01
195 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (190 bp):
CAACGCGATTTTCAAATTCGCAACGCTAATTACCGAAATAGGTAAACAGTAATATCGCAACGTAA
ATATGTAAATCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACT
ATCGCAACGCGATTTCAAATTCGCAACGCTAATTACCGACATAAGTAAACAGTACTATCA
Found at i:905441 original size:57 final size:57
Alignment explanation
Indices: 905186--905421 Score: 355
Period size: 57 Copynumber: 4.1 Consensus size: 57
905176 ATCTTCAAAT
* * * **
905186 TCGCAATGCGATTTTCAAATTCGCAAAGCTAAATATTGACATAGGTAAACAGTACTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTA
* * *
905243 TCGCAACGAGATTTTCAAATTCGCAACACTAATTACCGACATAGGTAAATAGTACTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTA
*
905300 TCGCAACGCGATTTACAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTA
* * **
905357 TCACAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTGTTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTA
905414 TCGCAACG
1 TCGCAACG
905422 TGAATATGTA
Statistics
Matches: 161, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 161 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (57 bp):
TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTA
Found at i:905516 original size:20 final size:20
Alignment explanation
Indices: 905491--905532 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
905481 AACAGTACTA
*
905491 TCGCAACGCGATTTTCAAAT
1 TCGCAACGAGATTTTCAAAT
905511 TCGCAACGAGATTTTCAAAT
1 TCGCAACGAGATTTTCAAAT
905531 TC
1 TC
905533 ACAATGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (20 bp):
TCGCAACGAGATTTTCAAAT
Found at i:905592 original size:154 final size:154
Alignment explanation
Indices: 905360--905659 Score: 428
Period size: 154 Copynumber: 1.9 Consensus size: 154
905350 AGTACTATCA
* * **
905360 CAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACGTGA
1 CAACGAGATTTTCAAATTCACAACGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACACGA
* *
905425 ATATGTAAATCGCAACGATAATATGT-AAA-TCGCAACGCTAATTACAAATGTAGGTAAACAGTA
66 ATATGTAAATCGCAACG-CAAT-TGTCAAATTCGCAACGCTAATTACAAATATAGGTAAACAGTA
905488 CTATCGCAACGCGATTTTCAAATTCG
129 CTATCGCAACGCGATTTTCAAATTCG
*
905514 CAACGAGATTTTCAAATTCACAATGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACACG-
1 CAACGAGATTTTCAAATTCACAACGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACACGA
* * * *
905578 AT-TTTCAAATTCGCAACGCGATTTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGTA
66 ATATGT-AAA-TCGCAACGCAATTGTCAAATTCGCAACGCTAATTACAAATATAGGTAAACAGTA
*
905642 GTATCGCAACGCGATTTT
129 CTATCGCAACGCGATTTT
905660 GAAAACTGTG
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
152 4 0.03
153 10 0.08
154 116 0.89
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (154 bp):
CAACGAGATTTTCAAATTCACAACGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACACGA
ATATGTAAATCGCAACGCAATTGTCAAATTCGCAACGCTAATTACAAATATAGGTAAACAGTACT
ATCGCAACGCGATTTTCAAATTCG
Found at i:905607 original size:134 final size:133
Alignment explanation
Indices: 904882--905608 Score: 445
Period size: 134 Copynumber: 5.4 Consensus size: 133
904872 ATTATCGATG
** * * * ** *
904882 TAGGTAAACAAAACTATCGCAACGAGATTTTCAAATTCGCAAAGCTAATTACCGACA-TAGGTAA
1 TAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGC-GATTTTC-AAATTAGGTAA
* *
904946 ATAGTACTATCGCAACACGATTTACAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATTAC
64 ACAGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATTAC
905011 CGACA
129 CGACA
* * * *
905016 TAGGTAAACAGTACTATCGCAACGCAATTTTCAAATTCGCAACGAGATTTTCAAATT-CG-CAAC
1 TAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATTAGGTAAAC
* * ** * * * * *
905079 -GCTAATTACCGACATA-G-G-TAAACAATACTATTGCAAAGCGAATTTCCAATTCGCAACGCTA
66 AG-T-ACTATCG-CA-ACGCGATTTACAA-A-T-TCGCAACGAGATTTTCAAATTCGCAACGCTA
*
905140 ATTACCGATA
124 ATTACCGACA
* * * * *
905150 TAAGTAAACAGTACTATCGCAACGCGATCTTCAAATTCGCAATGCGATTTTCAAATT-CG-CAA-
1 TAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATTAGGTAAAC
* * ** * *
905212 AGCTAAATATTGACATA-G-G-TAAACAGTACTATCGCAACGAGATTTTCAAATTCGCAACACTA
66 AG-T-ACTATCG-CA-ACGCGATTTACA--AAT-TCGCAACGAGATTTTCAAATTCGCAACGCTA
905274 ATTACCGACA
124 ATTACCGACA
* * * ** *
905284 TAGGTAAATAGTACTATCGCAACGCGATTTACAAATTCGCAACGCTAATTACCGACA-TAGGTAA
1 TAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGC-GATTTTC-AAATTAGGTAA
* * ** * ** *
905348 ACAGTACTATCACAACGCGATTTTCAAATTCGCAACGCTA-ATTACCGATATAGGTAAACAG-T-
64 ACAGTACTATCGCAACGCGATTTACAAATTCGCAACG--AGATTTTC-AAATTCG-CAAC-GCTA
* *
905410 GTTATCG-CA
124 ATTACCGACA
* * * * ** * * * *
905419 -ACGTGAATATGTA-AATCGCAACGATAATATGT-AAA-TCGCAACGCTAATTACAAATGTAGGT
1 TAGGTAAACA-GTACTATCGCAACG-CGAT-TTTCAAATTCGCAACGCGATTTTCAAAT-TAGGT
* * *
905480 AAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGAGATTTTCAAATTCACAATGCTAATT
62 AAACAGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATT
*
905545 ACCGATA
127 ACCGACA
** *
905552 TAGGTAAACAGTGTTATCGCAACACGATTTTCAAATTCGCAACGCGATTTTCAAATT
1 TAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATT
905609 CGCAACGCTA
Statistics
Matches: 453, Mismatches: 103, Indels: 75
0.72 0.16 0.12
Matches are distributed among these distances:
130 2 0.00
131 11 0.02
132 23 0.05
133 24 0.05
134 337 0.74
135 24 0.05
136 20 0.04
137 10 0.02
138 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (133 bp):
TAGGTAAACAGTACTATCGCAACGCGATTTTCAAATTCGCAACGCGATTTTCAAATTAGGTAAAC
AGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCG
ACA
Found at i:905615 original size:20 final size:20
Alignment explanation
Indices: 905568--905616 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
905558 AACAGTGTTA
*
905568 TCGCAACACGATTTTCAAAT
1 TCGCAACGCGATTTTCAAAT
905588 TCGCAACGCGATTTTCAAAT
1 TCGCAACGCGATTTTCAAAT
905608 TCGCAACGC
1 TCGCAACGC
905617 TAATTACAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTTTCAAAT
Found at i:905688 original size:77 final size:77
Alignment explanation
Indices: 905360--905659 Score: 385
Period size: 77 Copynumber: 3.9 Consensus size: 77
905350 AGTACTATCA
* * *
905360 CAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACGTGA
1 CAACGAGATTTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGTGTTATCGCAACGCG-
*
905425 ATATGT-AAA-TCG
65 AT-TTTCAAATTCG
* * * * **
905437 CAACGATAATATGT-AAA-TCGCAACGCTAATTACAAATGTAGGTAAACAGTACTATCGCAACGC
1 CAACGA-GAT-TTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGTGTTATCGCAACGC
905500 GATTTTCAAATTCG
64 GATTTTCAAATTCG
* * * *
905514 CAACGAGATTTTCAAATTCACAATGCTAATTACCGATATAGGTAAACAGTGTTATCGCAACACGA
1 CAACGAGATTTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGTGTTATCGCAACGCGA
905579 TTTTCAAATTCG
66 TTTTCAAATTCG
*
905591 CAACGCGATTTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGTAG-TATCGCAACGCG
1 CAACGAGATTTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGT-GTTATCGCAACGCG
905655 ATTTT
65 ATTTT
905660 GAAAACTGTG
Statistics
Matches: 191, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
75 4 0.02
76 10 0.05
77 169 0.88
78 6 0.03
79 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (77 bp):
CAACGAGATTTTCAAATTCGCAACGCTAATTACAGATATAGGTAAACAGTGTTATCGCAACGCGA
TTTTCAAATTCG
Found at i:905712 original size:20 final size:20
Alignment explanation
Indices: 905652--905735 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
905642 GTATCGCAAC
*
905652 GCGATTTTGAAAACTGTGTT
1 GCGATTTTGGAAACTGTGTT
* ** * *
905672 GCTA-TTTACAAATTCGCGTT
1 GCGATTTTGGAAACT-GTGTT
905692 GCGATTTTGGAAACTGTGTT
1 GCGATTTTGGAAACTGTGTT
*
905712 GCGATTTTGGAATCTGTGTT
1 GCGATTTTGGAAACTGTGTT
905732 GCGA
1 GCGA
905736 AATTAGAGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 7 0.14
20 37 0.73
21 7 0.14
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.39
Consensus pattern (20 bp):
GCGATTTTGGAAACTGTGTT
Found at i:909357 original size:56 final size:57
Alignment explanation
Indices: 909284--909397 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
909274 TAGAACCATA
* *
909284 CAACCCCGTCACGAACAGTAAGG-CCTGAGCACAAAGCCGAGGAACTTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCGAAGAACCTGCAAGTATT
* *
909340 CAACCCCTTCACTAACAGTAAGGCCCTGAGCACAAAGCCGAAGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCGAAGAACCTGCAAGTATT
909397 C
1 C
909398 TTCCTCCAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 21 0.40
57 32 0.60
ACGTcount: A:0.34, C:0.31, G:0.20, T:0.15
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCGAAGAACCTGCAAGTATT
Found at i:909540 original size:24 final size:24
Alignment explanation
Indices: 909470--909533 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
909460 AAACATAATT
909470 CAGGTCAAGTATCATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
*
909494 CAGGTCATGTATCATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
*
909518 CAGGTCAGGTATCATA
1 CAGGTCAAGTATCATA
909534 GTAGAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:913299 original size:20 final size:22
Alignment explanation
Indices: 913260--913299 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
913250 TAACCAAAAA
913260 GATCATGTTAATATAGTTTAAT
1 GATCATGTTAATATAGTTTAAT
*
913282 GATCAT-TT-ATATATTTTA
1 GATCATGTTAATATAGTTTA
913300 TCATATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (22 bp):
GATCATGTTAATATAGTTTAAT
Found at i:914484 original size:27 final size:25
Alignment explanation
Indices: 914431--914533 Score: 86
Period size: 29 Copynumber: 3.8 Consensus size: 25
914421 AACAATTATA
914431 TATATATATATATA-TTTCATATGTAAAC
1 TATATATATATA-AGTTT-ATA--TAAAC
914459 TATATAGTATATACAGTTTATATAAAC
1 TATATA-TATATA-AGTTTATATAAAC
914486 TATATATACTATATAGTTTACATATGAAA-
1 TATATATA-TATA-AGTTT--ATAT-AAAC
914515 TATATATATATAA-TTTATA
1 TATATATATATAAGTTTATA
914534 CTGTACAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
24 3 0.04
26 5 0.07
27 21 0.31
28 10 0.15
29 22 0.33
30 6 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (25 bp):
TATATATATATAAGTTTATATAAAC
Found at i:914593 original size:2 final size:2
Alignment explanation
Indices: 914586--914816 Score: 63
Period size: 2 Copynumber: 113.0 Consensus size: 2
914576 ATTTATAAAC
* *
914586 TA TA TA TA TA TA T- TA TA T- TA TA TA AA CTA TA GTT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA
* * *
914628 AA T- TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA -A AA TA TA
1 TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA TA
** * *
914669 TA TA GG T- TA CA TA TGA -A T- TA TA TA TA TA GTT TA T- TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
914709 TA CTA TA TA TA TA TA AA CTA TA TA AA CTA TA GTT TA TA TT TA TA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA TA TA TA
* * * *
914753 TA T- TA TA TA CTA -A GTT TA TA TT TA TA TA CCA TA TA T- TA TG
1 TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
914793 TA TA TA AA CTA TA TA TA CTA TA TA
1 TA TA TA TA -TA TA TA TA -TA TA TA
914817 GTTTACATAT
Statistics
Matches: 166, Mismatches: 34, Indels: 58
0.64 0.13 0.22
Matches are distributed among these distances:
1 12 0.07
2 133 0.80
3 21 0.13
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:914609 original size:27 final size:28
Alignment explanation
Indices: 914579--914672 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 28
914569 TACACTAATT
914579 TATAAACTATA-TATATATATTATATTA
1 TATAAACTATAGTATATATATTATATTA
* *
914606 TATAAACTATAGTTTATATA-TAAATTA
1 TATAAACTATAGTATATATATTATATTA
914633 TAT--ACTATAGT-TGATAT-TTATA-TA
1 TATAAACTATAGTAT-ATATATTATATTA
*
914657 CTATAAAATATA-TATA
1 -TATAAACTATAGTATA
914673 GGTTACATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
24 3 0.05
25 18 0.32
26 2 0.04
27 26 0.46
28 7 0.12
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (28 bp):
TATAAACTATAGTATATATATTATATTA
Found at i:914717 original size:27 final size:26
Alignment explanation
Indices: 914592--914967 Score: 91
Period size: 27 Copynumber: 14.4 Consensus size: 26
914582 AAACTATATA
* *
914592 TATATATTATATTATATAAACTATAGTT
1 TATATA-TATACTATATATA-TATAGTT
*
914620 TATATATA-AAT-TATATACTATAGTT
1 TATATATATACTATATATA-TATAGTT
* *
914645 GATATTTATATACTATAAAATATATATAGGT
1 --TATATATATACTAT---ATATATATAGTT
*
914676 TACATATGA-A-T-TATATATATAGTT
1 TATATAT-ATACTATATATATATAGTT
***
914700 TATTATATATACTATATATATATAAAC
1 TA-TATATATACTATATATATATAGTT
914727 TATATA-A-ACTATAGT-T-TATA--T
1 TATATATATACTATA-TATATATAGTT
*
914748 T-TATATAT--TATATA-CTA-AGTT
1 TATATATATACTATATATATATAGTT
*
914769 TATATTTATATACCATATAT-TAT-G--
1 TATA--TATATACTATATATATATAGTT
*
914793 TATATAAACTA-TATATACTATATAGTT
1 TATATATA-TACTATATA-TATATAGTT
* * * * *
914820 TACATATGA-GCTATATATAAAAACTAT
1 TATATAT-ATACTATATATATATAGT-T
*
914847 ATATATATATTTAAACTATATAAATTATAGTT
1 -TATATATA--T--ACTATATATA-TATAGTT
* * *
914879 TATACATACACTATATA-GTATAGTT
1 TATATATATACTATATATATATAGTT
* * *
914904 GATATTTATA-TATTATATACAATAGTT
1 TATATATATACTA-TATATA-TATAGTT
* *
914931 GATCTTTATATACTATATA-ATATAGTT
1 --TATATATATACTATATATATATAGTT
*
914958 TATATTTATA
1 TATATATATA
914968 TAATTTATAC
Statistics
Matches: 255, Mismatches: 45, Indels: 99
0.64 0.11 0.25
Matches are distributed among these distances:
19 2 0.01
20 10 0.04
21 4 0.02
22 10 0.04
23 7 0.03
24 35 0.14
25 45 0.18
26 20 0.08
27 55 0.22
28 17 0.07
29 17 0.07
30 3 0.01
31 13 0.05
32 14 0.05
33 3 0.01
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (26 bp):
TATATATATACTATATATATATAGTT
Found at i:914855 original size:19 final size:19
Alignment explanation
Indices: 914831--914868 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
914821 ACATATGAGC
914831 TATATATAAAAACTATATA
1 TATATATAAAAACTATATA
**
914850 TATATATTTAAACTATATA
1 TATATATAAAAACTATATA
914869 AATTATAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATATAAAAACTATATA
Found at i:914968 original size:27 final size:27
Alignment explanation
Indices: 914714--914969 Score: 133
Period size: 27 Copynumber: 9.4 Consensus size: 27
914704 ATATATACTA
* *
914714 TATATATATAAACTATATAAACTATAGTT
1 TATATTTATATACTATAT-AA-TATAGTT
* *
914743 TATATTTATATATTATATACTA-AGTT
1 TATATTTATATACTATATAATATAGTT
* *
914769 TATATTTATATACCATAT-AT-TA-TG
1 TATATTTATATACTATATAATATAGTT
**
914793 TATATAAACTATA-TATACT-ATATAGTT
1 TATATTTA-TATACTATA-TAATATAGTT
* * *
914820 TACATATGAGCTATA-TATAAAAACTATA-TAT
1 TATAT-TTA--TATACTAT-ATAA-TATAGT-T
914851 ATATATTTA-A-ACTATATAAATTATAGTT
1 -TATATTTATATACTATAT-AA-TATAGTT
* * *
914879 TATA--CATACACTATATAGTATAGTT
1 TATATTTATATACTATATAATATAGTT
* *
914904 GATATTTATATATTATATACA-ATAGTT
1 TATATTTATATACTATATA-ATATAGTT
* *
914931 GATCTTTATATACTATATAATATAGTT
1 TATATTTATATACTATATAATATAGTT
914958 TATATTTATATA
1 TATATTTATATA
914970 ATTTATACTA
Statistics
Matches: 175, Mismatches: 31, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
24 10 0.06
25 20 0.11
26 25 0.14
27 69 0.39
28 13 0.07
29 24 0.14
30 3 0.02
31 7 0.04
32 4 0.02
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (27 bp):
TATATTTATATACTATATAATATAGTT
Found at i:914976 original size:27 final size:27
Alignment explanation
Indices: 914892--914981 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
914882 ACATACACTA
*
914892 TATAGTATAGTTGATATTTATAT-ATT
1 TATAATATAGTTGATATTTATATAATT
* * *
914918 ATATACA-ATAGTTGATCTTTATATACTA
1 -TATA-ATATAGTTGATATTTATATAATT
*
914946 TATAATATAGTTTATATTTATATAATT
1 TATAATATAGTTGATATTTATATAATT
*
914973 TATACTATA
1 TATAATATA
914982 TAAATTCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (27 bp):
TATAATATAGTTGATATTTATATAATT
Found at i:915858 original size:30 final size:32
Alignment explanation
Indices: 915815--915945 Score: 83
Period size: 30 Copynumber: 4.1 Consensus size: 32
915805 AACAATTATA
*
915815 ATATATATATATA-TATATAAAGTATATAGTTT
1 ATATATATATATATTA-ATAAAATATATAGTTT
*
915847 ATATA-AT-TATATTAATAAAATATATAGTTC
1 ATATATATATATATTAATAAAATATATAGTTT
* * * * *
915877 ATTAGTTTATATAAACTATATATACTATATAGTTT
1 A-TA-TATATATATATTA-ATAAAATATATAGTTT
* * *
915912 ACATATGAAATATA-T-ATATATATATATAGTTT
1 ATATAT-ATATATATTAATA-AAATATATAGTTT
915944 AT
1 AT
915946 TAATAAATTA
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
30 19 0.25
31 9 0.12
32 17 0.23
33 5 0.07
34 11 0.15
35 14 0.19
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (32 bp):
ATATATATATATATTAATAAAATATATAGTTT
Found at i:915950 original size:27 final size:27
Alignment explanation
Indices: 915893--916022 Score: 70
Period size: 27 Copynumber: 4.5 Consensus size: 27
915883 TTATATAAAC
915893 TATATATACTATATAGTTTACATATGAAATATA
1 TATATATA-TATATAGTTT--AT-T--AATATA
*
915926 TATATATATATATAGTTTATTAATAAA
1 TATATATATATATAGTTTATTAATATA
* * *
915953 T-TATATAAACTATGGTTTA-T-ATTTA
1 TATATATATA-TATAGTTTATTAATATA
*
915978 TATACTATATATTATAGTTGATATTTATATA
1 TATA-TATATA-TATAGTT--TATTAATATA
*
916009 -ATTTATACTATATA
1 TATATATA-TATATA
916023 AATTCAAAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
25 4 0.05
26 10 0.13
27 25 0.32
29 11 0.14
30 7 0.09
31 4 0.05
32 10 0.13
33 8 0.10
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (27 bp):
TATATATATATATAGTTTATTAATATA
Found at i:915958 original size:30 final size:28
Alignment explanation
Indices: 915808--915959 Score: 95
Period size: 28 Copynumber: 5.3 Consensus size: 28
915798 AACTTAAAAC
*
915808 AATTATA-ATA-TATATA-TATATATATA
1 AATTATATATATTATATAGTTTATA-ATA
* *
915834 AAGTATATAGT-TTATATAATTATATTAATA
1 AATTATATA-TATTATATAGTT-TA-TAATA
915864 AA--ATATATAGTTCAT-TAGTTTAT-ATA
1 AATTATATATA-TT-ATATAGTTTATAATA
* * *
915890 AACTATATATACTATATAGTTTACATATGA
1 AATTATATATATTATATAGTTTATA-AT-A
915920 AATATATATATATATATATAGTTTATTAATA
1 AAT-TATATATAT-TATATAGTTTA-TAATA
915951 AATTATATA
1 AATTATATA
915960 AACTATGGTT
Statistics
Matches: 100, Mismatches: 8, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
26 13 0.13
27 11 0.11
28 21 0.21
29 9 0.09
30 18 0.18
31 14 0.14
32 13 0.13
33 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (28 bp):
AATTATATATATTATATAGTTTATAATA
Found at i:916942 original size:16 final size:16
Alignment explanation
Indices: 916923--916972 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
916913 AATATATAGT
916923 ATATACTAACTATATA
1 ATATACTAACTATATA
*
916939 ATATA--AACTATGTA
1 ATATACTAACTATATA
* *
916953 ATATACTAATTATTTA
1 ATATACTAACTATATA
916969 ATAT
1 ATAT
916973 CATATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 13 0.45
16 16 0.55
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (16 bp):
ATATACTAACTATATA
Found at i:917001 original size:15 final size:15
Alignment explanation
Indices: 916981--917025 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
916971 ATCATATATA
916981 TATTTGATATGCAAT
1 TATTTGATATGCAAT
* * *
916996 TATTTGATTTGAAAC
1 TATTTGATATGCAAT
*
917011 TATATGATATGCAAT
1 TATTTGATATGCAAT
917026 AGAACTATTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (15 bp):
TATTTGATATGCAAT
Found at i:917353 original size:12 final size:12
Alignment explanation
Indices: 917324--917358 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
917314 ATTGTAATAA
917324 ATCAAATGTTAT
1 ATCAAATGTTAT
*
917336 -TCAAATTTTAT
1 ATCAAATGTTAT
917347 ATCAAATGTTAT
1 ATCAAATGTTAT
917359 TTACATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (12 bp):
ATCAAATGTTAT
Found at i:917689 original size:20 final size:21
Alignment explanation
Indices: 917641--917694 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
917631 TATAATAAAT
* *
917641 ATATTTATTAATTTAATTATC
1 ATATTTAATAATTTAATTATA
* *
917662 ATAATTAAT-ATTTTATTATA
1 ATATTTAATAATTTAATTATA
*
917682 ATATTTAAAAATT
1 ATATTTAATAATT
917695 AATCATATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTAATAATTTAATTATA
Found at i:918354 original size:16 final size:18
Alignment explanation
Indices: 918335--918367 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
918325 TATATTTTAT
918335 TTTAA-CTTTTT-TTTCG
1 TTTAATCTTTTTGTTTCG
918351 TTTAATCTTTTTGTTTC
1 TTTAATCTTTTTGTTTC
918368 CAAAACTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.70
Consensus pattern (18 bp):
TTTAATCTTTTTGTTTCG
Found at i:936272 original size:117 final size:119
Alignment explanation
Indices: 936075--936295 Score: 304
Period size: 117 Copynumber: 1.9 Consensus size: 119
936065 GATTAATATC
* * * *
936075 ATGTTTTTATTTTAATCACGTCATTGCCCCTCACCAAACAAGAGTCAATTATATATTTAATAATC
1 ATGTTTTGATTTTAATAACG-CATTGCCCCTCACCAAACAAGAGTAAATTATATATTTAACAATC
*
936140 TATATATTATTACAGTTTCGTTTTGATCATTTAACTATAGATCATACTTAATGTT
65 TATATATTATAACAGTTTCGTTTTGATCATTTAACTATAGATCATACTTAATGTT
* *
936195 ATGTTTTGATTTTAATAAC-CATTGCCCC-CACCGAACAA-AGGTAAATTATGTATTTAACAATC
1 ATGTTTTGATTTTAATAACGCATTGCCCCTCACCAAACAAGA-GTAAATTATATATTTAACAATC
* * * *
936257 TATCTATTCTAACAGTTTCGTTTTGGTTATTTAACTATA
65 TATATATTATAACAGTTTCGTTTTGATCATTTAACTATA
936296 TTTAAAAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
116 1 0.01
117 62 0.70
118 9 0.10
120 17 0.19
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (119 bp):
ATGTTTTGATTTTAATAACGCATTGCCCCTCACCAAACAAGAGTAAATTATATATTTAACAATCT
ATATATTATAACAGTTTCGTTTTGATCATTTAACTATAGATCATACTTAATGTT
Found at i:938268 original size:24 final size:25
Alignment explanation
Indices: 938215--938271 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
938205 GACCCACTCG
*
938215 CTGTTTCAGCCAACCTAATTGTAAT
1 CTGTTTAAGCCAACCTAATTGTAAT
938240 CTGTTTAAGCCAACCTAATT-TAAT
1 CTGTTTAAGCCAACCTAATTGTAAT
938264 CTGTTTAA
1 CTGTTTAA
938272 AATAGATAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (25 bp):
CTGTTTAAGCCAACCTAATTGTAAT
Found at i:943920 original size:14 final size:15
Alignment explanation
Indices: 943895--943923 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
943885 TTATAAATAT
943895 AATAATATTTTAAAA
1 AATAATATTTTAAAA
943910 AATAA-ATTTTAAAA
1 AATAATATTTTAAAA
943924 TTACGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATTTTAAAA
Found at i:948851 original size:2 final size:2
Alignment explanation
Indices: 948844--948872 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
948834 TCAAAACGGC
948844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
948873 AACTATTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:961922 original size:12 final size:12
Alignment explanation
Indices: 961900--961946 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
961890 AACATGTTTG
961900 TGAACAT-TAAA
1 TGAACATATAAA
*
961911 TGAGCATATAAA
1 TGAACATATAAA
**
961923 TGAACATATTTA
1 TGAACATATAAA
961935 TGAACA-ATAAA
1 TGAACATATAAA
961946 T
1 T
961947 AAACGAACAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (12 bp):
TGAACATATAAA
Found at i:972506 original size:13 final size:13
Alignment explanation
Indices: 972488--972515 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
972478 ATTAAAGGGC
972488 TAGTAAAGTAATG
1 TAGTAAAGTAATG
972501 TAGTAAAGTAATG
1 TAGTAAAGTAATG
972514 TA
1 TA
972516 ATGTGGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.32
Consensus pattern (13 bp):
TAGTAAAGTAATG
Found at i:974505 original size:23 final size:23
Alignment explanation
Indices: 974477--974524 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
974467 AATTATCTTT
*
974477 TAAATTTTATAAAAAATTATATA
1 TAAATTTTATAAAAAAGTATATA
*
974500 TAAATTTTATTAAAAAGTATATA
1 TAAATTTTATAAAAAAGTATATA
974523 TA
1 TA
974525 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATTTTATAAAAAAGTATATA
Found at i:981319 original size:50 final size:50
Alignment explanation
Indices: 981202--981325 Score: 144
Period size: 48 Copynumber: 2.5 Consensus size: 50
981192 GTAGCAGTAA
* * * * * *
981202 AGCGCACCCCCTGAACCGCGCTATATGTTGATTTGGTGCCATGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
** *
981252 A--GCGCCCCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
*
981300 AGCGCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
981326 CTAGGTATCT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
48 39 0.65
50 21 0.35
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.22
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
Found at i:983042 original size:29 final size:29
Alignment explanation
Indices: 983000--983067 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
982990 CGTCGAATCT
*
983000 CATCTTCCTAAAGATATTAAGTGCCCCCA
1 CATCTTCTTAAAGATATTAAGTGCCCCCA
983029 CATCTTCTTAAAGATATTAAGTGCCCCCA
1 CATCTTCTTAAAGATATTAAGTGCCCCCA
983058 CATCTTCTTA
1 CATCTTCTTA
983068 TTAACATTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (29 bp):
CATCTTCTTAAAGATATTAAGTGCCCCCA
Found at i:983250 original size:20 final size:21
Alignment explanation
Indices: 983225--983296 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 21
983215 GACCAACAAA
983225 TTCGCAACGCGA-ATTCCAAT
1 TTCGCAACGCGAGATTCCAAT
* *
983245 TTCGCAACTC-AGTTTCCAAT
1 TTCGCAACGCGAGATTCCAAT
* * * * *
983265 TTCGAAACACGATAGT-CAAA
1 TTCGCAACGCGAGATTCCAAT
983285 TTCGCAACGCGA
1 TTCGCAACGCGA
983297 AAGTCAAATG
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.03
20 37 0.93
21 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCGCAACGCGAGATTCCAAT
Found at i:983692 original size:13 final size:13
Alignment explanation
Indices: 983670--983700 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
983660 AGTATTTGTC
983670 TTTG-TTTGTCTT
1 TTTGTTTTGTCTT
983682 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
983695 TTTGTT
1 TTTGTT
983701 GAAGAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.77
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:983748 original size:14 final size:15
Alignment explanation
Indices: 983725--983757 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
983715 TCACAACACC
*
983725 AAATTCGCAACGCGA
1 AAATTCGCAACGCAA
983740 AAATT-GCAACGCAA
1 AAATTCGCAACGCAA
983754 AAAT
1 AAAT
983758 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (15 bp):
AAATTCGCAACGCAA
Found at i:985907 original size:21 final size:20
Alignment explanation
Indices: 985881--985936 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
985871 GAAGCCCGAT
985881 GCACCTATCATCATTCAAGAG
1 GCACCT-TCATCATTCAAGAG
* *
985902 GCACCTCCTATCGTTCAAGAG
1 GCACCTTC-ATCATTCAAGAG
*
985923 GCCCCTCTCATCAT
1 GCACCT-TCATCAT
985937 CGAAGAAGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (20 bp):
GCACCTTCATCATTCAAGAG
Found at i:985968 original size:21 final size:21
Alignment explanation
Indices: 985889--985986 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
985879 ATGCACCTAT
*
985889 CATCATTCAAGAGGCAC-CTCC
1 CATCGTTCAAGAGGC-CTCTCC
* * *
985910 TATCGTTCAAGAGGCCCCTCT
1 CATCGTTCAAGAGGCCTCTCC
* *
985931 CATC-ATCGAAGAAGCCTCTCC
1 CATCGTTC-AAGAGGCCTCTCC
* *
985952 CACCGTTCAAGAGGCCTC-CGT
1 CATCGTTCAAGAGGCCTCTC-C
*
985973 CATTGTTCAAGAGG
1 CATCGTTCAAGAGG
985987 TCCCGCCCGC
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.07
21 53 0.90
22 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCTCTCC
Found at i:987422 original size:14 final size:14
Alignment explanation
Indices: 987403--987439 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
987393 TTTTGATTAA
*
987403 TTGATTTGTAAAAG
1 TTGATTTGTAAAAC
*
987417 TTGATTTATAAAAC
1 TTGATTTGTAAAAC
987431 TTGATTTGT
1 TTGATTTGT
987440 TTAATTTGAT
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:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAC
Found at i:987591 original size:20 final size:20
Alignment explanation
Indices: 987566--987603 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
987556 GTTGAAGGTA
987566 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
987586 CAAATTTGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
987604 TAAGCGTTGC
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:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:987667 original size:20 final size:20
Alignment explanation
Indices: 987644--987697 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
987634 GATTTTCGGT
987644 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
* * *
987664 TTGCAAATTTAACTTTCGTG
1 TTGCGAATTTGACTTTCGCG
*
987684 ATGCGAATTTGACT
1 TTGCGAATTTGACT
987698 ATCACAACGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:987971 original size:39 final size:39
Alignment explanation
Indices: 987917--988002 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
987907 CAAGTTGTAG
987917 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
987956 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
987995 ATTTTGAT
1 ATTTTGAT
988003 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:988328 original size:24 final size:24
Alignment explanation
Indices: 988301--988364 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
988291 AGTGGAGCCA
988301 AAATTTATATTGAAATTCAAACTC
1 AAATTTATATTGAAATTCAAACTC
* * * *
988325 AAATTGAAATTTATATTCAAACTC
1 AAATTTATATTGAAATTCAAACTC
*
988349 CAA-TTATATATGAAAT
1 AAATTTATAT-TGAAAT
988365 GAATTTGAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (24 bp):
AAATTTATATTGAAATTCAAACTC
Found at i:988766 original size:25 final size:25
Alignment explanation
Indices: 988732--988781 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
988722 ATTATTTTTC
*
988732 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
988757 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
988782 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:988883 original size:20 final size:20
Alignment explanation
Indices: 988842--988883 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
988832 AGACCTGTTG
* *
988842 AAGGTTAATTCGCAACATGA
1 AAGGTCAATTCGCAACACGA
*
988862 AAGGTCAATTCGCAACGCGA
1 AAGGTCAATTCGCAACACGA
988882 AA
1 AA
988884 TAAGCGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
AAGGTCAATTCGCAACACGA
Found at i:988961 original size:20 final size:20
Alignment explanation
Indices: 988936--988985 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
988926 CGGTTTGCGA
*
988936 TTTCGCGTTGCGAATTTGTC
1 TTTCGCGTTGCGAATTTGAC
*
988956 TTTCGCGTTGTGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
988976 TTTCACGTTG
1 TTTCGCGTTG
988986 ATCGCAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:990882 original size:12 final size:12
Alignment explanation
Indices: 990861--990894 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
990851 TGTTGTGGGT
*
990861 TTTGAGATTGTG
1 TTTGATATTGTG
990873 TTTGATATTGTG
1 TTTGATATTGTG
*
990885 TTTGGTATTG
1 TTTGATATTG
990895 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:991676 original size:20 final size:20
Alignment explanation
Indices: 991640--991709 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 20
991630 ACTAAAACCT
*
991640 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
991659 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
**
991678 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
*
991698 GTTGAGAATTTG
1 GTTGCGAATTTG
991710 GAAAATCGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
19 26 0.60
20 17 0.40
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:997987 original size:30 final size:30
Alignment explanation
Indices: 997929--997993 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
997919 ATGCAGGCCC
* *
997929 TGCAAATGCTGCTCGTCAGATCACAGTTCT
1 TGCAAATGCGGCTCGTCAGATCACAGTTCA
* *
997959 TGCAAATGCGGCTCGTCTGA-CCCGAGTTCA
1 TGCAAATGCGGCTCGTCAGATCAC-AGTTCA
997989 TGCAA
1 TGCAA
997994 GTGCCGCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (30 bp):
TGCAAATGCGGCTCGTCAGATCACAGTTCA
Found at i:998020 original size:15 final size:15
Alignment explanation
Indices: 998002--998107 Score: 113
Period size: 15 Copynumber: 7.1 Consensus size: 15
997992 AAGTGCCGCC
998002 CATGTGACTGCAGTT
1 CATGTGACTGCAGTT
* * *
998017 CATGTAAATGCAGCT
1 CATGTGACTGCAGTT
998032 CATGTGACTGCAGTT
1 CATGTGACTGCAGTT
* * *
998047 CATGTAAATGCAGCT
1 CATGTGACTGCAGTT
998062 CATGTGACTGCAGTT
1 CATGTGACTGCAGTT
* * *
998077 CATGTAAATGCAGCT
1 CATGTGACTGCAGTT
* *
998092 CCTGCGACTGCAGTT
1 CATGTGACTGCAGTT
998107 C
1 C
998108 TTGTAAATGC
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (15 bp):
CATGTGACTGCAGTT
Found at i:998118 original size:15 final size:15
Alignment explanation
Indices: 998010--998119 Score: 112
Period size: 15 Copynumber: 7.3 Consensus size: 15
998000 CCCATGTGAC
998010 TGCAGTTCATGTAAA
1 TGCAGTTCATGTAAA
* * *
998025 TGCAGCTCATGTGAC
1 TGCAGTTCATGTAAA
998040 TGCAGTTCATGTAAA
1 TGCAGTTCATGTAAA
* * *
998055 TGCAGCTCATGTGAC
1 TGCAGTTCATGTAAA
998070 TGCAGTTCATGTAAA
1 TGCAGTTCATGTAAA
* * ** *
998085 TGCAGCTCCTGCGAC
1 TGCAGTTCATGTAAA
*
998100 TGCAGTTCTTGTAAA
1 TGCAGTTCATGTAAA
998115 TGCAG
1 TGCAG
998120 CAGCTCGTGC
Statistics
Matches: 73, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 73 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (15 bp):
TGCAGTTCATGTAAA
Found at i:998174 original size:30 final size:30
Alignment explanation
Indices: 997983--998164 Score: 231
Period size: 30 Copynumber: 6.0 Consensus size: 30
997973 GTCTGACCCG
* * * *
997983 AGTTCATGCAAGTGCCGCCCATGTGACTGC
1 AGTTCATGTAAATGCAGCTCATGTGACTGC
998013 AGTTCATGTAAATGCAGCTCATGTGACTGC
1 AGTTCATGTAAATGCAGCTCATGTGACTGC
998043 AGTTCATGTAAATGCAGCTCATGTGACTGC
1 AGTTCATGTAAATGCAGCTCATGTGACTGC
* *
998073 AGTTCATGTAAATGCAGCTCCTGCGACTGC
1 AGTTCATGTAAATGCAGCTCATGTGACTGC
* *
998103 AGTTCTTGTAAATGCAGCAGC-TCGTGCTACTGC
1 AGTTCATGTAAATGCAGC-TCAT-GTG--ACTGC
* *
998136 AGTTCATGTAAGTGCAGCTCGTGTGACTG
1 AGTTCATGTAAATGCAGCTCATGTGACTG
998165 TGGCTCATGT
Statistics
Matches: 135, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
30 106 0.79
31 3 0.02
32 4 0.03
33 22 0.16
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (30 bp):
AGTTCATGTAAATGCAGCTCATGTGACTGC
Found at i:998250 original size:63 final size:63
Alignment explanation
Indices: 998169--998332 Score: 238
Period size: 63 Copynumber: 2.6 Consensus size: 63
998159 TGACTGTGGC
**
998169 TCATGTTCAAGCTGCTGCACAATCCCAAAATGGCAATGCAAATGCAGTCCATGCGACTTTTGT
1 TCATGTTCAAGCTGCTGCACAATCCCAAAATGGCAATGCAAATGCAGTCCATGCGACTGCTGT
* * * * * *
998232 TCGTGTTTAAGCTGCTGCACAGTCCCAAAATGGCGATGCAAGTGCAGTTCATGCGACTGCTGT
1 TCATGTTCAAGCTGCTGCACAATCCCAAAATGGCAATGCAAATGCAGTCCATGCGACTGCTGT
* *
998295 TCATGTTCAAGCTGCTGCACAATCCCGAAATGCCAATG
1 TCATGTTCAAGCTGCTGCACAATCCCAAAATGGCAATG
998333 TTTCCCGTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 87 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (63 bp):
TCATGTTCAAGCTGCTGCACAATCCCAAAATGGCAATGCAAATGCAGTCCATGCGACTGCTGT
Found at i:1002455 original size:20 final size:20
Alignment explanation
Indices: 1002389--1002447 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
1002379 TTTTCCAAAT
*
1002389 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
*
1002409 TCGCAACACGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
1002429 TCGCAACGCGAATTTGTAA
1 TCGCAACGCGAATTTGTAA
1002448 TTTGCAACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:1002473 original size:40 final size:41
Alignment explanation
Indices: 1002384--1002474 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 41
1002374 CGCAATTTTC
**
1002384 CAAATTCGCAACGCGAATATGTAAATCGCAACACGAATTTGT
1 CAAATTCGCAACGCGAATATGTAAATCGCAACAC-AATAAGT
* * *
1002426 -AAA-TCGCAACGCGAATTTGTAATTTGCAACAC-ATAAGT
1 CAAATTCGCAACGCGAATATGTAAATCGCAACACAATAAGT
1002464 CAAATTCGCAA
1 CAAATTCGCAA
1002475 AGCGCGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
38 4 0.10
39 3 0.07
40 32 0.76
41 3 0.07
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (41 bp):
CAAATTCGCAACGCGAATATGTAAATCGCAACACAATAAGT
Found at i:1002627 original size:22 final size:22
Alignment explanation
Indices: 1002602--1002652 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1002592 TCACTCTCTA
*
1002602 CGGCGACATCCGTCCCCATCTC
1 CGGCGACATCCGTCCCCATATC
* *
1002624 CGGCGAAATCCGTCCCTATATC
1 CGGCGACATCCGTCCCCATATC
1002646 CGGCGAC
1 CGGCGAC
1002653 CCTCCTCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (22 bp):
CGGCGACATCCGTCCCCATATC
Found at i:1004519 original size:27 final size:27
Alignment explanation
Indices: 1004489--1004554 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
1004479 ATCACCTATT
1004489 CCATCACATCATCGAGCCTCTTCTCCA
1 CCATCACATCATCGAGCCTCTTCTCCA
1004516 CCATCACATCATCGAGCCTCTTCTCCA
1 CCATCACATCATCGAGCCTCTTCTCCA
* *
1004543 TCATCACCTCAT
1 CCATCACATCAT
1004555 GATAGGCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.44, G:0.06, T:0.27
Consensus pattern (27 bp):
CCATCACATCATCGAGCCTCTTCTCCA
Found at i:1004882 original size:12 final size:11
Alignment explanation
Indices: 1004856--1004896 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
1004846 TTTTTCGGCA
1004856 TTATTTATTAT
1 TTATTTATTAT
1004867 TTATTTATTGAT
1 TTATTTATT-AT
*
1004879 TTATGTATTAAT
1 TTATTTATT-AT
1004891 TTATTT
1 TTATTT
1004897 TAGCGGCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:1005067 original size:21 final size:21
Alignment explanation
Indices: 1005040--1005157 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
1005030 ATTCACCTGT
*
1005040 CATCGTTCAAGAGGCCCTTCC
1 CATCGTTCAAGAGGCCCCTCC
*
1005061 TATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * * *
1005082 CATCATTCAAGAGACCTCTCT
1 CATCGTTCAAGAGGCCCCTCC
* * *
1005103 CGTCGTTCAAGAAGCCCCTCT
1 CATCGTTCAAGAGGCCCCTCC
* * **
1005124 CATTGTTCAAGAAGTACCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
1005145 CACCGTTCAAGAG
1 CATCGTTCAAGAG
1005158 CCCGATTCAC
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.25
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:1006602 original size:29 final size:29
Alignment explanation
Indices: 1006560--1006615 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
1006550 AAATTCGTAA
1006560 TGCGAAAGTCAAATTCGCATTGCGATTGT
1 TGCGAAAGTCAAATTCGCATTGCGATTGT
*
1006589 TGCGAAAGTCAAATTCGCGTTGCGATT
1 TGCGAAAGTCAAATTCGCATTGCGATT
1006616 TTTACGTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (29 bp):
TGCGAAAGTCAAATTCGCATTGCGATTGT
Found at i:1009119 original size:24 final size:24
Alignment explanation
Indices: 1009085--1009138 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1009075 CTGAAACATA
1009085 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1009109 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1009133 ATCAAA
1 ATCAAA
1009139 TTTCGAATAC
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:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1009152 original size:24 final size:24
Alignment explanation
Indices: 1009085--1009152 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1009075 CTGAAACATA
* * *
1009085 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1009109 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1009133 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1009153 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1009285 original size:12 final size:12
Alignment explanation
Indices: 1009264--1009297 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1009254 TGTTGTGGGT
*
1009264 TTTGAGATTGTG
1 TTTGATATTGTG
1009276 TTTGATATTGTG
1 TTTGATATTGTG
*
1009288 TTTGGTATTG
1 TTTGATATTG
1009298 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1010161 original size:20 final size:20
Alignment explanation
Indices: 1010137--1010201 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
1010127 GTTACGATTT
1010137 AGAAAATCTTGTTGCGAAAA
1 AGAAAATCTTGTTGCGAAAA
* *
1010157 GGAAACT-TGTGTTGCGAAAA
1 AGAAAATCT-TGTTGCGAAAA
* **
1010177 AGAAATTCGCGTTGCGAAAA
1 AGAAAATCTTGTTGCGAAAA
1010197 AGAAA
1 AGAAA
1010202 TTGAGTTGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.22
Consensus pattern (20 bp):
AGAAAATCTTGTTGCGAAAA
Found at i:1010202 original size:20 final size:20
Alignment explanation
Indices: 1010147--1010273 Score: 100
Period size: 20 Copynumber: 6.4 Consensus size: 20
1010137 AGAAAATCTT
* *
1010147 GTTGCGAAAAGGAAACTT-GT
1 GTTGCGAAAAAGAAA-TTCGC
1010167 GTTGCGAAAAAGAAATTCGC
1 GTTGCGAAAAAGAAATTCGC
*
1010187 GTTGCGAAAAAGAAATT-GA
1 GTTGCGAAAAAGAAATTCGC
* ** *
1010206 GTTGC-TAATTGAAATTCCGT
1 GTTGCGAAAAAGAAATT-CGC
***
1010226 GTTGCGAATTTGGAAA-TCGC
1 GTTGCGAA-AAAGAAATTCGC
*
1010246 GTTGCGAGAAAGAAATTCGC
1 GTTGCGAAAAAGAAATTCGC
1010266 GTTGCGAA
1 GTTGCGAA
1010274 TTTGGAAACT
Statistics
Matches: 85, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
18 8 0.09
19 12 0.14
20 58 0.68
21 2 0.02
22 5 0.06
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (20 bp):
GTTGCGAAAAAGAAATTCGC
Found at i:1010250 original size:40 final size:40
Alignment explanation
Indices: 1010167--1010281 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
1010157 GGAAACTTGT
* *** * *
1010167 GTTGCGAAAAAGAAATTCGCGTTGCGAA-AAAGAAATTGA
1 GTTGCGAGAAAGAAATTCGCGTTGCGAATTTGGAAATCGC
* ** *
1010206 GTTGCTA-ATTGAAATTCCGTGTTGCGAATTTGGAAATCGC
1 GTTGCGAGAAAGAAATT-CGCGTTGCGAATTTGGAAATCGC
1010246 GTTGCGAGAAAGAAATTCGCGTTGCGAATTTGGAAA
1 GTTGCGAGAAAGAAATTCGCGTTGCGAATTTGGAAA
1010282 CTGAGTTACG
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
38 7 0.12
39 16 0.27
40 30 0.50
41 7 0.12
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (40 bp):
GTTGCGAGAAAGAAATTCGCGTTGCGAATTTGGAAATCGC
Done.