Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 72 of 143
Found at i:23433407 original size:27 final size:27
Alignment explanation
Indices: 23433377--23433441 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
23433367 TTCGACACAG
* **
23433377 TGGTGCTGCCTATTTACAAGGCACATT
1 TGGTGCCGCCTATCAACAAGGCACATT
*
23433404 TGGTGCCGCCTATCAATAAGGCACATT
1 TGGTGCCGCCTATCAACAAGGCACATT
*
23433431 TAGTGCCGCCT
1 TGGTGCCGCCT
23433442 TTAGTGATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGTGCCGCCTATCAACAAGGCACATT
Found at i:23438810 original size:35 final size:35
Alignment explanation
Indices: 23438742--23438807 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
23438732 GTGTTTGATA
* * *
23438742 TTATTGTTAAAAATTATGTTATAAAATTAAAATAT
1 TTATTGTTAAAAATGATGTTAGAAAATAAAAATAT
*
23438777 TTATT-TTAAACATGATGTTAGAAAATAAAAA
1 TTATTGTTAAAAATGATGTTAGAAAATAAAAA
23438808 ATAATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (35 bp):
TTATTGTTAAAAATGATGTTAGAAAATAAAAATAT
Found at i:23438859 original size:33 final size:34
Alignment explanation
Indices: 23438822--23438893 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
23438812 TAATTTAGAT
23438822 AATATTTAAATAA-TTTAATATAATAATACATAA
1 AATATTTAAATAATTTTAATATAATAATACATAA
* *
23438855 AATATTTAAATAATTTTGATATAATAGTACATAA
1 AATATTTAAATAATTTTAATATAATAATACATAA
23438889 AATAT
1 AATAT
23438894 AAATTAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 13 0.36
34 23 0.64
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (34 bp):
AATATTTAAATAATTTTAATATAATAATACATAA
Found at i:23448111 original size:2 final size:2
Alignment explanation
Indices: 23448104--23448134 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23448094 ATAAGTCAAT
23448104 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 T
23448135 CAAATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23448821 original size:19 final size:19
Alignment explanation
Indices: 23448743--23448822 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
23448733 TATTACTTTT
*
23448743 TTAAAATATGTAATTATATAA
1 TTAAAA-ATATAATTAT-TAA
*
23448764 -TAAAAATATATTTA-T-A
1 TTAAAAATATAATTATTAA
* *
23448780 TATAAATAAAAGAATTATTAA
1 T-TAAA-AATATAATTATTAA
23448801 TTAAAAATATAATTATTAA
1 TTAAAAATATAATTATTAA
23448820 TTA
1 TTA
23448823 TTAATTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
16 1 0.02
17 1 0.02
18 4 0.09
19 29 0.62
20 10 0.21
21 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
TTAAAAATATAATTATTAA
Found at i:23452537 original size:5 final size:5
Alignment explanation
Indices: 23452527--23452560 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
23452517 ATCGAAGAGA
23452527 GAGTG GAGTG GAGTG GAGTG GAGTG GAGTG GAGT
1 GAGTG GAGTG GAGTG GAGTG GAGTG GAGTG GAGT
23452561 ATGAGGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.59, T:0.21
Consensus pattern (5 bp):
GAGTG
Found at i:23453009 original size:24 final size:25
Alignment explanation
Indices: 23452968--23453015 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
23452958 TTGTAATTAC
*
23452968 AAAATTATATAATTTTAA-ATTTTA
1 AAAAATATATAATTTTAAGATTTTA
23452992 AAAAATAT-TAATTATTAAGATTTT
1 AAAAATATATAATT-TTAAGATTTT
23453016 TTTAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
AAAAATATATAATTTTAAGATTTTA
Found at i:23453933 original size:71 final size:71
Alignment explanation
Indices: 23453844--23453978 Score: 252
Period size: 71 Copynumber: 1.9 Consensus size: 71
23453834 CATATTATAC
* *
23453844 TTTCGATTTCAAGTACTTATACTATCAATTCCACATTCATTAGAAAACCTTATCATAGCTCACAT
1 TTTCGATTTCAAGCACTTATACTATCAATTCCACATTCATTAGAAAACCCTATCATAGCTCACAT
23453909 TTGTAT
66 TTGTAT
23453915 TTTCGATTTCAAGCACTTATACTATCAATTCCACATTCATTAGAAAACCCTATCATAGCTCACA
1 TTTCGATTTCAAGCACTTATACTATCAATTCCACATTCATTAGAAAACCCTATCATAGCTCACA
23453979 CTTACACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (71 bp):
TTTCGATTTCAAGCACTTATACTATCAATTCCACATTCATTAGAAAACCCTATCATAGCTCACAT
TTGTAT
Found at i:23454391 original size:24 final size:24
Alignment explanation
Indices: 23454364--23454414 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23454354 GATGGCATCC
*
23454364 AATGGCAATTGTTTAAAACATCTT
1 AATGCCAATTGTTTAAAACATCTT
* *
23454388 AATGCCAATTGTTTCAAACATTTT
1 AATGCCAATTGTTTAAAACATCTT
23454412 AAT
1 AAT
23454415 TTTTAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (24 bp):
AATGCCAATTGTTTAAAACATCTT
Found at i:23454443 original size:75 final size:75
Alignment explanation
Indices: 23454322--23454466 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 75
23454312 TAATGGTAAA
** *
23454322 TGTTTCAAACAATTTAATTGTTAAAATGGAAGGATGGCATCCAATGGCAATTGTTTAAAACATCT
1 TGTTTCAAACAATTTAATTGTTAAAACAGAACGATGGCATCCAATGGCAATTGTTTAAAACATCT
23454387 TAATGCCAAT
66 TAATGCCAAT
* * * * * *
23454397 TGTTTCAAACATTTTAATTTTTAAAACAGAACGATGGTATCTAATGGCAATTGTTTCAAACATTT
1 TGTTTCAAACAATTTAATTGTTAAAACAGAACGATGGCATCCAATGGCAATTGTTTAAAACATCT
23454462 TAATG
66 TAATG
23454467 TTAAACTGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (75 bp):
TGTTTCAAACAATTTAATTGTTAAAACAGAACGATGGCATCCAATGGCAATTGTTTAAAACATCT
TAATGCCAAT
Found at i:23456690 original size:18 final size:18
Alignment explanation
Indices: 23456667--23456715 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
23456657 AAAAGAAACA
23456667 AGTAAGCTTATAAGGCTT
1 AGTAAGCTTATAAGGCTT
23456685 AGTAAGCTTATAAGGCTT
1 AGTAAGCTTATAAGGCTT
*
23456703 AGTAAGCTCATAA
1 AGTAAGCTTATAA
23456716 TAATAACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (18 bp):
AGTAAGCTTATAAGGCTT
Found at i:23456693 original size:9 final size:9
Alignment explanation
Indices: 23456667--23456710 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
23456657 AAAAGAAACA
23456667 AGTAAGCTT
1 AGTAAGCTT
23456676 A-TAAGGCTT
1 AGTAA-GCTT
23456685 AGTAAGCTT
1 AGTAAGCTT
23456694 A-TAAGGCTT
1 AGTAA-GCTT
23456703 AGTAAGCT
1 AGTAAGCT
23456711 CATAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.19
9 19 0.61
10 6 0.19
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (9 bp):
AGTAAGCTT
Found at i:23457108 original size:20 final size:20
Alignment explanation
Indices: 23457083--23457139 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
23457073 ATACATAACA
23457083 GGGCATCGAAGTGCAAAAAG
1 GGGCATCGAAGTGCAAAAAG
* * *
23457103 GGGCATTGAAGTGTAAACAG
1 GGGCATCGAAGTGCAAAAAG
* *
23457123 GGGCACCAAAGTGCAAA
1 GGGCATCGAAGTGCAAA
23457140 CAGGAGCATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.33, T:0.12
Consensus pattern (20 bp):
GGGCATCGAAGTGCAAAAAG
Found at i:23460858 original size:21 final size:21
Alignment explanation
Indices: 23460834--23460883 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
23460824 AGTGTAGACA
23460834 TCTACCGATACAAGTGACTAT
1 TCTACCGATACAAGTGACTAT
** *
23460855 TCTACTAATACAAGTGACTCT
1 TCTACCGATACAAGTGACTAT
23460876 TCTACCGA
1 TCTACCGA
23460884 AACATGTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (21 bp):
TCTACCGATACAAGTGACTAT
Found at i:23461654 original size:52 final size:52
Alignment explanation
Indices: 23461579--23461713 Score: 218
Period size: 52 Copynumber: 2.6 Consensus size: 52
23461569 TGCATATTGG
* * *
23461579 ATACTCACGATGACACAGAGTCATCGGACCT-TTAATCCGTAATGAGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAG-GAATCAT
*
23461631 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
23461683 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
23461714 ATTTCATTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 67 0.86
53 11 0.14
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
Found at i:23468767 original size:52 final size:52
Alignment explanation
Indices: 23468699--23468885 Score: 178
Period size: 52 Copynumber: 3.6 Consensus size: 52
23468689 TGCATATTTG
* * * * * *
23468699 ATACTCACGATTACACAGAGTCATTAGACCT-TTAATTTATAATAAGAATCAT
1 ATACTCACAATGACACATAGTCATCAGACCTCATAATCTATAA-AAGAATCAT
* * * * *
23468751 ATACTCATAATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACAATGACACATAGTCATCAGACCTCATAATCTATAAAAGAATCAT
* ** * *
23468803 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACAATGACACATAGTCATCAGACCTCATAATCTATAAAAGAATCAT
* * * *
23468855 ATACTCACGATGACACTTAGTTATCGGACCT
1 ATACTCACAATGACACATAGTCATCAGACCT
23468886 GTTTCATTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
52 110 0.93
53 8 0.07
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (52 bp):
ATACTCACAATGACACATAGTCATCAGACCTCATAATCTATAAAAGAATCAT
Found at i:23470121 original size:16 final size:15
Alignment explanation
Indices: 23470091--23470130 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
23470081 TATCACCTGT
*
23470091 AAAAAGCAAAAAAAA
1 AAAAAGAAAAAAAAA
23470106 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAA-AAAA
*
23470122 AGAAAGAAA
1 AAAAAGAAA
23470131 TGATTGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAA
Found at i:23471414 original size:9 final size:10
Alignment explanation
Indices: 23471395--23471426 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
23471385 AATTTAATCC
23471395 TTTTTATTTA
1 TTTTTATTTA
23471405 TTTTTA-TTA
1 TTTTTATTTA
23471414 -TTTTATTTA
1 TTTTTATTTA
23471423 TTTT
1 TTTT
23471427 GATATTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.25
9 6 0.30
10 9 0.45
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:23471472 original size:23 final size:21
Alignment explanation
Indices: 23471397--23471475 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 21
23471387 TTTAATCCTT
*
23471397 TTTATTTATTTTTATTATTT-TA
1 TTTATTTATTTTCA--ATTTGTA
*
23471419 TTTATTTTGATATTCAATTTGTA
1 TTTA-TTT-ATTTTCAATTTGTA
23471442 TTTATTTATTTTCAAGTTGTGTA
1 TTTATTTATTTTCAA-TT-TGTA
23471465 TTTATTTATTT
1 TTTATTTATTT
23471476 ATTATTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.14
22 13 0.27
23 24 0.49
24 5 0.10
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (21 bp):
TTTATTTATTTTCAATTTGTA
Found at i:23475005 original size:52 final size:52
Alignment explanation
Indices: 23474942--23475180 Score: 363
Period size: 52 Copynumber: 4.6 Consensus size: 52
23474932 TAAACAAAAA
*
23474942 AGGTCCGATGACTATGTGTCATCATGAGTATATAAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* *
23474994 AGGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
*
23475046 AGGTCCAATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
* ** * * *
23475098 AGCTCCGATTTCTATGTGTCATCGTGAATATATGAATCCTTTAC-GATTTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGA-TTATG
*
23475150 AGGTCTGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
23475181 TTAATAAAAA
Statistics
Matches: 168, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
51 2 0.01
52 166 0.99
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
Found at i:23477626 original size:15 final size:16
Alignment explanation
Indices: 23477606--23477638 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23477596 AAATTGAAAT
*
23477606 AAATTT-ATTTAATTG
1 AAATTTAATATAATTG
23477621 AAATTTAATATAATTG
1 AAATTTAATATAATTG
23477637 AA
1 AA
23477639 GGACCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
AAATTTAATATAATTG
Found at i:23479488 original size:52 final size:52
Alignment explanation
Indices: 23479410--23479700 Score: 397
Period size: 52 Copynumber: 5.6 Consensus size: 52
23479400 TAAATGAAAA
*
23479410 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
23479462 AGGTCAGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
23479514 AGGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCTTTTACGGATGATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * **
23479566 AGGTCCAATGGCTATGTGTCATCGTGAGTATATGGATCCTTTACAGATTAAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
23479618 AGGTTCGATGACTATGTGTTATCGTGAGCATAT-AGATCCTTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA-ATCC-TTTACGGATTATG
* *
23479670 AGGTCCGATAACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
23479701 TAAATGGGAA
Statistics
Matches: 211, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
52 202 0.96
53 9 0.04
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:23485934 original size:52 final size:50
Alignment explanation
Indices: 23485851--23486093 Score: 319
Period size: 52 Copynumber: 4.7 Consensus size: 50
23485841 AAACAAAAAG
* *
23485851 GGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTA-GG-TTAAGA
*
23485903 GGCCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATA-A
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTA-GG-TTA-AGA
*
23485955 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTGCAGGTTAAGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTT--AGGTTAAGA
* *
23486007 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCATTACAGGTTAAGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCC-TT-TAGGTTAAGA
**
23486059 GGTTTGATGACTATGTGTCATCGTGAGTAT-TAAAT
1 GGTCCGATGACTATGTGTCATCGTGAGTATATAAAT
23486094 GAAAATGAAT
Statistics
Matches: 175, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
51 5 0.03
52 165 0.94
53 4 0.02
54 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (50 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTAGGTTAAGA
Found at i:23486036 original size:104 final size:104
Alignment explanation
Indices: 23485851--23486093 Score: 352
Period size: 104 Copynumber: 2.3 Consensus size: 104
23485841 AAACAAAAAG
*
23485851 GGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTATGAGGCCCGATGACTA
1 GGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTAAGAGGCCCGATGACTA
*
23485916 TGTGTCATCGTGAGTATATAAATCCTTTAC-GGATTATA-A
66 TGTGTCATCGTGAGTATATAAATCCATTACAGG-TTA-AGA
* * *
23485955 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTGCA-GG-TTAAGAGGTCCGATGAC
1 GGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTT--ATGGATTAAGAGGCCCGATGAC
*
23486018 TATGTGTCATCGTGAGTATATGAATCCATTACAGGTTAAGA
64 TATGTGTCATCGTGAGTATATAAATCCATTACAGGTTAAGA
*
23486059 GGTTTGATGACTATGTGTCATCGTGAGTAT-TAAAT
1 GGTCTGATGACTATGTGTCATCGTGAGTATATAAAT
23486094 GAAAATGAAT
Statistics
Matches: 126, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
103 5 0.04
104 116 0.92
105 4 0.03
106 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (104 bp):
GGTCTGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTAAGAGGCCCGATGACTA
TGTGTCATCGTGAGTATATAAATCCATTACAGGTTAAGA
Found at i:23489913 original size:42 final size:42
Alignment explanation
Indices: 23489854--23489946 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
23489844 TAAACTGTAG
*
23489854 ATAAACATTAATATTATACTTTTTAAAATTATAGAGTAGAACT
1 ATAAAC-TTAAAATTATACTTTTTAAAATTATAGAGTAGAACT
23489897 ATAAACTTAAAATTATACTTTTTAAAATTATAGAGTAGAACT
1 ATAAACTTAAAATTATACTTTTTAAAATTATAGAGTAGAACT
23489939 ATAAACTT
1 ATAAACTT
23489947 TAGACTGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 43 0.88
43 6 0.12
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (42 bp):
ATAAACTTAAAATTATACTTTTTAAAATTATAGAGTAGAACT
Found at i:23492063 original size:52 final size:52
Alignment explanation
Indices: 23491953--23492243 Score: 377
Period size: 52 Copynumber: 5.6 Consensus size: 52
23491943 TTCCCATTTA
* * * * * *
23491953 ATACTCACGATGACATAAAGTCATCGGAACTTA-AATCTGTAATAGGATCCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAA-AGGATTCAT
* * * *
23492005 ATACTCACGATGACACATAGTCATTGGACCTTATAATCCATAATGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
23492057 AAACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAAGATTCAA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
23492109 ATACTCATGATGACACATAGTCATCGGATCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* **
23492161 ATACTCACGATGACACATGGTCATCGGACCTCATAATCTATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
23492213 ATACTCAAGATGACACATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
23492244 TTTTTTTCAT
Statistics
Matches: 208, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
52 201 0.97
53 7 0.03
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:23492236 original size:156 final size:156
Alignment explanation
Indices: 23491952--23492243 Score: 433
Period size: 156 Copynumber: 1.9 Consensus size: 156
23491942 TTTCCCATTT
* * *
23491952 AATACTCACGATGACATAAAGTCATCGGAACTTAAATCTGTAATAGGATCCATATACTCACGATG
1 AATACTCACGATGACACAAAGTCATCGGAACTCAAATCCGTAATAGGATCCATATACTCACGATG
* * * *
23492017 ACACATAGTCATTGGACCTTATAATCCATAATGGATTCATAAACTCACGATGACACATAGTCATC
66 ACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAAACTCAAGATGACACATAGTCATC
*
23492082 GGACCTCATAATTCGTAAAAGATTCA
131 AGACCTCATAATTCGTAAAAGATTCA
* * * *
23492108 AATACTCATGATGACACATAGTCATCGGATCTCATAATCCGTAA-AGGATTCATATACTCACGAT
1 AATACTCACGATGACACAAAGTCATCGGAACTCA-AATCCGTAATAGGATCCATATACTCACGAT
* * *
23492172 GACACATGGTCATCGGACCTCATAATCTATAAAGGATTCATATACTCAAGATGACACATAGTCAT
65 GACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAAACTCAAGATGACACATAGTCAT
23492237 CAGACCT
130 CAGACCT
23492244 TTTTTTTCAT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
156 112 0.93
157 8 0.07
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (156 bp):
AATACTCACGATGACACAAAGTCATCGGAACTCAAATCCGTAATAGGATCCATATACTCACGATG
ACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAAACTCAAGATGACACATAGTCATC
AGACCTCATAATTCGTAAAAGATTCA
Found at i:23507918 original size:14 final size:14
Alignment explanation
Indices: 23507895--23507932 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
23507885 CATTTCTTCA
23507895 TTTCCTTTTATCT-
1 TTTCCTTTTATCTG
*
23507908 TTTCACTTTTATTTG
1 TTTC-CTTTTATCTG
23507923 TTTCCTTTTA
1 TTTCCTTTTA
23507933 AATTCTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATCTG
Found at i:23513505 original size:7 final size:7
Alignment explanation
Indices: 23513493--23513522 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
23513483 TTTGAGTCAT
23513493 CCCACTA
1 CCCACTA
23513500 CCCACTA
1 CCCACTA
23513507 CCCACTA
1 CCCACTA
23513514 CCCACTA
1 CCCACTA
23513521 CC
1 CC
23513523 TCAAGTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.60, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCACTA
Found at i:23515670 original size:41 final size:41
Alignment explanation
Indices: 23515579--23515722 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 41
23515569 GAATCACTTG
* * **
23515579 ATGTATAAATGGAAGACTCACGTCTC-AGGATGAGCGTGAGGGT
1 ATGT-TAAA-GGAAGACTCATGTCTCGA-GATGAGCATGAGACT
* * *
23515622 ATATTAAAGGAAGACTCATGTCTCGAGATGAGCATAAGATT
1 ATGTTAAAGGAAGACTCATGTCTCGAGATGAGCATGAGACT
* * *
23515663 ATGTTAAAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGACT
1 ATGTT--AAAGGAAGACTCATGTCTCGAGATGAGCATGAGACT
*
23515706 ATGTTTTAAGGAAGACT
1 ATG-TTAAAGGAAGACT
23515723 TGTGACTTGG
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
41 30 0.36
42 15 0.18
43 37 0.44
44 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (41 bp):
ATGTTAAAGGAAGACTCATGTCTCGAGATGAGCATGAGACT
Found at i:23515690 original size:43 final size:43
Alignment explanation
Indices: 23515627--23515816 Score: 190
Period size: 43 Copynumber: 4.5 Consensus size: 43
23515617 AGGGTATATT
* * * * *
23515627 AAAGGAAGACTCATGTCTCGAGATGAGCATAAGATTATGTTAA
1 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTATGTTTA
*
23515670 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGACTATGTTT-
1 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTATGTTTA
* * * * * *
23515712 TAAGGAAGACTTGTGACTTG-GAAAGAGCTTGAGGTTATGTTTT
1 AAAGGAAGACTCGTGACTCGAG-AAGAGCATGAGATTATGTTTA
* *
23515755 AAAGGAAGACTCGTGACTCGGGATGAGCATGAGATT-TCGTTTA
1 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTAT-GTTTA
**
23515798 AAA-GAAGACTTATGACTCG
1 AAAGGAAGACTCGTGACTCG
23515817 GTTGTTTTAT
Statistics
Matches: 122, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 49 0.40
43 71 0.58
44 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.26
Consensus pattern (43 bp):
AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTATGTTTA
Found at i:23515738 original size:42 final size:41
Alignment explanation
Indices: 23515671--23515807 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 41
23515661 TTATGTTAAA
*
23515671 AAGGAAGACTCGTGAC-TCGAGAAGAGCATGAGACTATGTTTT
1 AAGGAAGACTCGTGACTTGGA-AAGAGCATGAGA-TATGTTTT
* * *
23515713 AAGGAAGACTTGTGACTTGGAAAGAGCTTGAGGTTATGTTTT
1 AAGGAAGACTCGTGACTTGGAAAGAGCATGA-GATATGTTTT
* * * * *
23515755 AAAGGAAGACTCGTGACTCGGGATGAGCATGAGATTTCGTTTA
1 -AAGGAAGACTCGTGACTTGGAAAGAGCATGAGATAT-GTTTT
*
23515798 AAAGAAGACT
1 AAGGAAGACT
23515808 TATGACTCGG
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 44 0.56
43 34 0.44
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (41 bp):
AAGGAAGACTCGTGACTTGGAAAGAGCATGAGATATGTTTT
Found at i:23522795 original size:43 final size:43
Alignment explanation
Indices: 23522743--23522842 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
23522733 CTCATATCTT
* *
23522743 GGGATGAGCATTAGATTATGTTAAAAAGGAAGACTCGTGACTC
1 GGGAAGAGCATGAGATTATGTTAAAAAGGAAGACTCGTGACTC
** *
23522786 GGGAAGAGCATGAGATTATGTTTTAAAGGAAGACTCGTGACTT
1 GGGAAGAGCATGAGATTATGTTAAAAAGGAAGACTCGTGACTC
* *
23522829 GAGATGAGCATGAG
1 GGGAAGAGCATGAG
23522843 GTTTCGTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (43 bp):
GGGAAGAGCATGAGATTATGTTAAAAAGGAAGACTCGTGACTC
Found at i:23526638 original size:18 final size:18
Alignment explanation
Indices: 23526594--23526646 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
23526584 CGATCACATG
*
23526594 ACCAGATGCGTTCACAAA
1 ACCAGATGCATTCACAAA
* * * *
23526612 ATCAAATGCATTCATATA
1 ACCAGATGCATTCACAAA
*
23526630 ACCAGATGCAGTCACAA
1 ACCAGATGCATTCACAA
23526647 GCTTGAATTC
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.21
Consensus pattern (18 bp):
ACCAGATGCATTCACAAA
Found at i:23532780 original size:18 final size:18
Alignment explanation
Indices: 23532734--23532786 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
23532724 GGAGAAACCT
23532734 GAGGAGAAGAAGGAAATTGAA
1 GAGGAGAAGAAGG-AA--GAA
23532755 GA--AG-AGAAGGAAGAA
1 GAGGAGAAGAAGGAAGAA
23532770 GAGGAGAAGAAGGAAGA
1 GAGGAGAAGAAGGAAGA
23532787 TGCCCCGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.17
17 4 0.14
18 16 0.55
19 2 0.07
21 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.04
Consensus pattern (18 bp):
GAGGAGAAGAAGGAAGAA
Found at i:23533104 original size:20 final size:19
Alignment explanation
Indices: 23533061--23533109 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
23533051 GAGGAAAGAC
*
23533061 AAGAAAAAGAGGCGCAAAG
1 AAGAAAAAGAGGCCCAAAG
* *
23533080 CAGAAAAGGAGGACCCAAAG
1 AAGAAAAAGAGG-CCCAAAG
*
23533100 AAGAAGAAGA
1 AAGAAAAAGA
23533110 AAGCCAAGGC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.57, C:0.12, G:0.31, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAGGCCCAAAG
Found at i:23533212 original size:18 final size:17
Alignment explanation
Indices: 23533186--23533229 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
23533176 ATGCATATCA
* *
23533186 TTTAGTTGTCATTACATT
1 TTTATTTGTCACTACA-T
*
23533204 TTTATTTGTCACTGCAT
1 TTTATTTGTCACTACAT
23533221 TTTATTTGT
1 TTTATTTGT
23533230 TGGTACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.59
Consensus pattern (17 bp):
TTTATTTGTCACTACAT
Found at i:23545377 original size:3 final size:3
Alignment explanation
Indices: 23545369--23545406 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23545359 TAAATAGAAT
23545369 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23545407 TAGTATAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23554960 original size:31 final size:34
Alignment explanation
Indices: 23554904--23554973 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 34
23554894 CCAAAGGCCC
*
23554904 GCCCGAAAAATGAGAGGATTTGGTAAAAATAT-AG
1 GCCCGAAAAAT-AGAGGATTTGGTAAAAAAATAAG
*
23554938 GCCCGAAAAAT-G-GGTTTTGGTAAAAAAATAAG
1 GCCCGAAAAATAGAGGATTTGGTAAAAAAATAAG
23554970 GCCC
1 GCCC
23554974 ATTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 15 0.45
32 7 0.21
34 11 0.33
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (34 bp):
GCCCGAAAAATAGAGGATTTGGTAAAAAAATAAG
Found at i:23556246 original size:58 final size:59
Alignment explanation
Indices: 23556184--23556556 Score: 630
Period size: 58 Copynumber: 6.4 Consensus size: 59
23556174 TTTGGATACC
* * *
23556184 CGGGGGCAAAATGGTAA-TTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
23556242 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
23556300 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
*
23556359 CGGGGGTAAAATGGTAA-TTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* *
23556417 -TGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * *
23556475 CGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
23556534 C-GGGGTAAAATGGTAATTTTTGG
1 CGGGGGTAAAATGGTAATTTTTGG
23556557 AAGTTTCGAG
Statistics
Matches: 299, Mismatches: 12, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
57 15 0.05
58 173 0.58
59 111 0.37
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:23556574 original size:116 final size:117
Alignment explanation
Indices: 23556186--23556556 Score: 640
Period size: 117 Copynumber: 3.2 Consensus size: 117
23556176 TGGATACCCG
* * *
23556186 GGGGCAAAATGGTAA-TTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCGGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
*
23556250 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTTC
66 AAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
23556301 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 -GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
*
23556366 AAAATGGTAA-TTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
65 AAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
* *
23556418 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
*
23556483 AAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
66 AAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
23556535 GGGGTAAAATGGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
23556557 AAGTTTCGAG
Statistics
Matches: 243, Mismatches: 9, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
116 120 0.49
117 123 0.51
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTA
AAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:23556579 original size:29 final size:29
Alignment explanation
Indices: 23556191--23556581 Score: 136
Period size: 29 Copynumber: 13.4 Consensus size: 29
23556181 ACCCGGGGGC
* *
23556191 AAAATGGTAA-TTTTGGTAAA-ATCGAGGTT
1 AAAATGATAATTTTTGG-AAAGTTCGAGG-T
*
23556220 AAAAATGA-AA-TTTTGGAAAGTTCGGGGGT
1 -AAAATGATAATTTTTGGAAAGTTC-GAGGT
*
23556249 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGATAATTTTT-G-GAAAGTTCGAGG-T
* *
23556279 AAAAATG-GAA-TTTTGG-AAGTTCGGGGGT
1 -AAAATGATAATTTTTGGAAAGTTC-GAGGT
*
23556307 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGATAATTTTT-G-GAAAGTTCGAGG-T
* *
23556337 AAAAATG-GAA-TTTTGGAAAGTTCGGGGGT
1 -AAAATGATAATTTTTGGAAAGTTC-GAGGT
*
23556366 AAAATGGTAA-TTTTGATGAAA--TCGAGGTT
1 AAAATGATAATTTTTG--GAAAGTTCGAGG-T
* * *
23556395 AAAAATG-GAA-TTTTGGAAAGTTTGGGGT
1 -AAAATGATAATTTTTGGAAAGTTCGAGGT
* *
23556423 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGATAATTTTT-G-GAAAGTTCGAGG-T
*
23556453 AAAAATG-GAA-TTTTGGAAAGTTCGAGGGT
1 -AAAATGATAATTTTTGGAAAGTTCGA-GGT
* *
23556482 AAAATGGTAATTTTTGATGAAA--TCGGGGTT
1 AAAATGATAATTTTTG--GAAAGTTCGAGG-T
* *
23556512 AAAAATG-GAA-TTTTGGAAAGTTCGGGGT
1 -AAAATGATAATTTTTGGAAAGTTCGAGGT
*
23556540 AAAATGGTAATTTTTGG-AAGTTTCGAGGT
1 AAAATGATAATTTTTGGAAAG-TTCGAGGT
23556569 CAAAAT-ATAATTT
1 -AAAATGATAATTT
23556582 CCTGAAATTT
Statistics
Matches: 286, Mismatches: 26, Indels: 99
0.70 0.06 0.24
Matches are distributed among these distances:
26 2 0.01
27 35 0.12
28 41 0.14
29 109 0.38
30 55 0.19
31 34 0.12
32 10 0.03
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGATAATTTTTGGAAAGTTCGAGGT
Found at i:23556879 original size:95 final size:97
Alignment explanation
Indices: 23556755--23556980 Score: 397
Period size: 97 Copynumber: 2.4 Consensus size: 97
23556745 AAGTATATCT
23556755 AAGGATTAAA-TTAAAACAAATTAAAAATATCAGGGACTAAATG-ATAAATAAGC-AAAAAAGAC
1 AAGGATTAAATTTAAAACAAATTAAAAATATCAGGGACTAAATGCATAAATAAGCAAAAAAAGAC
23556817 ACGTGGCAGCCTCTGGTGCAGTCAAACAGTCA
66 ACGTGGCAGCCTCTGGTGCAGTCAAACAGTCA
23556849 AAGGATTAAATTTAAAACAAATTAAAAATATCAGGGACTAAATGCATAAATAAGCAAAAAAAGAC
1 AAGGATTAAATTTAAAACAAATTAAAAATATCAGGGACTAAATGCATAAATAAGCAAAAAAAGAC
23556914 ACGTGGCAGCCTCTGGTGCAGTCAAACAGTCA
66 ACGTGGCAGCCTCTGGTGCAGTCAAACAGTCA
* * *
23556946 AAGGATTAAATTGAAAACTAATTAAAATTA-CAGGG
1 AAGGATTAAATTTAAAACAAATTAAAAATATCAGGG
23556981 CAAAATTGCA
Statistics
Matches: 126, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
94 10 0.08
95 33 0.26
96 15 0.12
97 68 0.54
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (97 bp):
AAGGATTAAATTTAAAACAAATTAAAAATATCAGGGACTAAATGCATAAATAAGCAAAAAAAGAC
ACGTGGCAGCCTCTGGTGCAGTCAAACAGTCA
Found at i:23558550 original size:6 final size:6
Alignment explanation
Indices: 23558541--23558613 Score: 80
Period size: 6 Copynumber: 12.2 Consensus size: 6
23558531 GGACTTTAGT
* *
23558541 ATTTTA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA ATTTAA
23558590 ATTTAA GA--TAA ATTTAA ATTTAA A
1 ATTTAA -ATTTAA ATTTAA ATTTAA A
23558614 AAAAATTCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
4 1 0.02
5 7 0.12
6 43 0.74
7 1 0.02
8 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:23558570 original size:11 final size:11
Alignment explanation
Indices: 23558546--23558607 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
23558536 TTAGTATTTT
*
23558546 AATTTAAATTTA
1 AATTTAAA-GTA
23558558 AATTTAAAGTA
1 AATTTAAAGTA
23558569 AATTTAAA-T-
1 AATTTAAAGTA
*
23558578 AA-TTAAATTTA
1 AATTTAAA-GTA
23558589 AATTT-AAGATA
1 AATTTAAAG-TA
23558600 AATTTAAA
1 AATTTAAA
23558608 TTTAAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 2 0.05
11 21 0.50
12 12 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AATTTAAAGTA
Found at i:23558584 original size:31 final size:31
Alignment explanation
Indices: 23558549--23558608 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
23558539 GTATTTTAAT
23558549 TTAAATTTAAATTTAA-AGTAAATTTAAATAA
1 TTAAATTTAAATTTAAGA-TAAATTTAAATAA
23558580 TTAAATTTAAATTTAAGATAAATTTAAAT
1 TTAAATTTAAATTTAAGATAAATTTAAAT
23558609 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
TTAAATTTAAATTTAAGATAAATTTAAATAA
Found at i:23558619 original size:17 final size:17
Alignment explanation
Indices: 23558550--23558620 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 17
23558540 TATTTTAATT
*
23558550 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAA
*
23558567 TAAATTTAAA--T-AAT
1 TAAATTTAAATTTAAAA
*
23558581 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAAA
23558598 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
23558615 AAAATT
1 TAAATT
23558621 CAAAATCAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
14 12 0.26
15 1 0.02
16 1 0.02
17 32 0.70
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:23558925 original size:30 final size:30
Alignment explanation
Indices: 23558891--23558952 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
23558881 ACTTATCTTA
*
23558891 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTACTATTTTAGAGGCAT
23558921 TTGTTAATTTTGTTACTATTTTAGAGGCAT
1 TTGTTAATTTTGTTACTATTTTAGAGGCAT
23558951 TT
1 TT
23558953 CATTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTACTATTTTAGAGGCAT
Found at i:23570310 original size:87 final size:87
Alignment explanation
Indices: 23570164--23570338 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
23570154 TCGACCTTAG
23570164 CCACGACCAATTGTAAGTCTAGCACTCCTACATGATGGCATACTATCTATCAGCATAAGTAATAA
1 CCACGACCAATTGTAAGTCTAGCACTCCTACATGATGGCATACTATCTATCAGCATAAGTAATAA
23570229 GTACTAAAGTAAGAATTGGTAC
66 GTACTAAAGTAAGAATTGGTAC
*
23570251 CCACGACCAATTGTAAGTCTAGCACTCCTACATGGTGGCATACTATCTATCAGCATAAGTAATAA
1 CCACGACCAATTGTAAGTCTAGCACTCCTACATGATGGCATACTATCTATCAGCATAAGTAATAA
23570316 GTACTAAAGTAAGAATTGGTAC
66 GTACTAAAGTAAGAATTGGTAC
23570338 C
1 C
23570339 GGAGATTTAG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (87 bp):
CCACGACCAATTGTAAGTCTAGCACTCCTACATGATGGCATACTATCTATCAGCATAAGTAATAA
GTACTAAAGTAAGAATTGGTAC
Found at i:23570743 original size:5 final size:5
Alignment explanation
Indices: 23570733--23570767 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
23570723 TGAAAACCCA
23570733 AAAAT AAAAT AAAAT AAAAGAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAA-AT AAAAT AAAAT AAA
23570768 TCTATAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.71
6 6 0.21
7 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:23570758 original size:17 final size:16
Alignment explanation
Indices: 23570732--23570767 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
23570722 ATGAAAACCC
23570732 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
23570748 AAAAGATAAAATAAAAT
1 AAAA-ATAAAATAAAAT
23570765 AAA
1 AAA
23570768 TCTATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:23573288 original size:12 final size:12
Alignment explanation
Indices: 23573271--23573307 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
23573261 TTAAAATTTG
23573271 AAAACTTAAATT
1 AAAACTTAAATT
23573283 AAAACTTAAAATT
1 AAAACTT-AAATT
23573296 AAAACTTAAATT
1 AAAACTTAAATT
23573308 TATTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAACTTAAATT
Found at i:23573293 original size:7 final size:7
Alignment explanation
Indices: 23573261--23573305 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
23573251 CCTAATGAAA
*
23573261 TTAAAAT
1 TTAAAAC
23573268 TTGAAAAC
1 TT-AAAAC
23573276 TT-AAA-
1 TTAAAAC
23573281 TTAAAAC
1 TTAAAAC
23573288 TTAAAA-
1 TTAAAAC
23573294 TTAAAAC
1 TTAAAAC
23573301 TTAAA
1 TTAAA
23573306 TTTATTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
5 2 0.06
6 12 0.36
7 13 0.39
8 6 0.18
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (7 bp):
TTAAAAC
Found at i:23573296 original size:13 final size:13
Alignment explanation
Indices: 23573261--23573305 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
23573251 CCTAATGAAA
23573261 TTAAAATTTGAAAAC
1 TTAAAA-TT-AAAAC
23573276 TT-AAATTAAAAC
1 TTAAAATTAAAAC
23573288 TTAAAATTAAAAC
1 TTAAAATTAAAAC
23573301 TTAAA
1 TTAAA
23573306 TTTATTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.24
13 17 0.59
14 3 0.10
15 2 0.07
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (13 bp):
TTAAAATTAAAAC
Found at i:23573305 original size:20 final size:19
Alignment explanation
Indices: 23573258--23573298 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
23573248 TGTCCTAATG
*
23573258 AAATTAAAATTTGAAAACTT
1 AAATTAAAACTTGAAAA-TT
23573278 AAATTAAAACTT-AAAATT
1 AAATTAAAACTTGAAAATT
23573296 AAA
1 AAA
23573299 ACTTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 4 0.20
20 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATTAAAACTTGAAAATT
Found at i:23573566 original size:22 final size:22
Alignment explanation
Indices: 23573541--23573603 Score: 101
Period size: 21 Copynumber: 2.9 Consensus size: 22
23573531 AAGAGAATAT
23573541 TGCTAGAGAATCTCACTATTCA
1 TGCTAGAGAATCTCACTATTCA
* *
23573563 TGCTAGAGAATATTAC-ATTCA
1 TGCTAGAGAATCTCACTATTCA
23573584 TGCTAGAGAATCTCACTATT
1 TGCTAGAGAATCTCACTATT
23573604 TGTTTTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (22 bp):
TGCTAGAGAATCTCACTATTCA
Found at i:23573993 original size:50 final size:50
Alignment explanation
Indices: 23573929--23574036 Score: 164
Period size: 50 Copynumber: 2.2 Consensus size: 50
23573919 ATGGTATCAC
* *
23573929 GATGGTTTTCAAATGATATTTTTGTTAATAATAATATTATAATAAGTAAT
1 GATGATTTTCAAATGATATTTTTATTAATAATAATATTATAATAAGTAAT
* *
23573979 GATGATTTTTAAATGATATTTTTATTATTAATAATATTATAATAAGTAAT
1 GATGATTTTCAAATGATATTTTTATTAATAATAATATTATAATAAGTAAT
*
23574029 AAT-ATTTT
1 GATGATTTT
23574037 ATTAATTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 5 0.09
50 48 0.91
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (50 bp):
GATGATTTTCAAATGATATTTTTATTAATAATAATATTATAATAAGTAAT
Found at i:23574046 original size:18 final size:18
Alignment explanation
Indices: 23573998--23574047 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
23573988 TAAATGATAT
23573998 TTTTATT-ATTAATAATA
1 TTTTATTAATTAATAATA
* * *
23574015 TTATAATAAGTAATAATA
1 TTTTATTAATTAATAATA
23574033 TTTTATTAATTAATA
1 TTTTATTAATTAATA
23574048 TTAAAGAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTATTAATTAATAATA
Found at i:23578343 original size:9 final size:9
Alignment explanation
Indices: 23578303--23578437 Score: 60
Period size: 9 Copynumber: 14.4 Consensus size: 9
23578293 GACTATAAAA
23578303 TTTTATAAT
1 TTTTATAAT
*
23578312 TTTTCTATAT
1 TTTTATA-AT
*
23578322 TTCTAT-AT
1 TTTTATAAT
23578330 ATTTTATAAT
1 -TTTTATAAT
*
23578340 TTTTTTAAT
1 TTTTATAAT
23578349 TTTTAATAAAAT
1 TTTT-AT--AAT
** *
23578361 TTAAATATT
1 TTTTATAAT
*
23578370 TTTTATAGTT
1 TTTTATA-AT
*
23578380 TTTTATTAAAA
1 TTTTA-T-AAT
*
23578391 TTTAATAAT
1 TTTTATAAT
*
23578400 TTTTATAAC
1 TTTTATAAT
**
23578409 TTTTATTGT
1 TTTTATAAT
23578418 TTTT-T-AT
1 TTTTATAAT
*
23578425 TTTTATCAT
1 TTTTATAAT
23578434 TTTT
1 TTTT
23578438 TCCCAGATAT
Statistics
Matches: 94, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
7 5 0.05
8 4 0.04
9 55 0.59
10 17 0.18
11 7 0.07
12 6 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:23578373 original size:30 final size:29
Alignment explanation
Indices: 23578297--23578413 Score: 103
Period size: 30 Copynumber: 4.0 Consensus size: 29
23578287 TCTTACGACT
* * *
23578297 ATAAAATTTTATAATTTTTCTATATTTCT-
1 ATAAAATTTAATAATTTTTATA-ATTTTTA
* * *
23578326 AT-ATATTTTATAATTTTTTTAATTTTTA
1 ATAAAATTTAATAATTTTTATAATTTTTA
* *
23578354 ATAAAATTTAAATATTTTTTATAGTTTTTTA
1 ATAAAATTT-AATAATTTTTATA-ATTTTTA
* *
23578385 TTAAAATTTAATAATTTTTATAACTTTTA
1 ATAAAATTTAATAATTTTTATAATTTTTA
23578414 TTGTTTTTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
27 5 0.07
28 19 0.26
29 12 0.17
30 22 0.31
31 14 0.19
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (29 bp):
ATAAAATTTAATAATTTTTATAATTTTTA
Found at i:23578666 original size:91 final size:89
Alignment explanation
Indices: 23578499--23578754 Score: 316
Period size: 91 Copynumber: 2.8 Consensus size: 89
23578489 ATTAGGTATG
*
23578499 GTTCAAGTACCCAATTGAGTGTAAAAAAATAT-CAGGGGCTTAATTGCTTTTTTTTGAATAAGTT
1 GTTCAAGTACCCAATTGAGTG-AAAAAAA-ATGCAGGGGCTTAATTGC-TTTTTTTGAAAAAGTT
*
23578563 TGAGGGCCTTTTTGATGCATTTTGAAA
63 TGAGGGCTTTTTTGATGCATTTTGAAA
* * * * *
23578590 TTTTAAGTACCCAATTGAGTGCAAAAAAAATGTAGGGGTTTAATTGCTTTTTTTGAAAAAATTTG
1 GTTCAAGTACCCAATTGAGTG-AAAAAAAATGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTG
* * **
23578655 AGGGTCTTTTTTTATGTATTTTGGTA
65 AGGG-CTTTTTTGATGCATTTTGAAA
* * * * *
23578681 GTTCGAGTACCCAATTGACTGAAAAAAATTGCATGGGCTTAATTGTTTTTTTTGAAAAAGTTTGA
1 GTTCAAGTACCCAATTGAGTGAAAAAAAATGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGA
23578746 GGGCTTTTT
66 GGGCTTTTT
23578755 ACACCCTTAA
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
89 6 0.04
90 63 0.45
91 72 0.51
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (89 bp):
GTTCAAGTACCCAATTGAGTGAAAAAAAATGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGA
GGGCTTTTTTGATGCATTTTGAAA
Found at i:23579219 original size:31 final size:31
Alignment explanation
Indices: 23579184--23579249 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
23579174 TTACTATATG
23579184 GTCACTAAACTATTCAAAAGTTTTCATTTAA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
* * * *
23579215 GTCACTAAATTATTTAAAAGTTTTTATTTTA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
23579246 GTCA
1 GTCA
23579250 TTAGGTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTTTCATTTAA
Found at i:23579589 original size:30 final size:30
Alignment explanation
Indices: 23579528--23579591 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
23579518 ATAACATCAA
*
23579528 TTTTAATAGTCCAATGACTTAATTGAAAAC
1 TTTTAATAGTCCAATGACTAAATTGAAAAC
* * *
23579558 TTTTAAATAGTTCAGTGACTAAATTG-TAAC
1 TTTT-AATAGTCCAATGACTAAATTGAAAAC
23579588 TTTT
1 TTTT
23579592 TTAATTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (30 bp):
TTTTAATAGTCCAATGACTAAATTGAAAAC
Found at i:23580616 original size:28 final size:29
Alignment explanation
Indices: 23580563--23580664 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
23580553 ATTGTTCTGG
* *
23580563 GAAAAAATAATTTTGACGAGATGGATTCT
1 GAAAAAATAAATTTGATGAGATGGATTCT
* *
23580592 GAAAAAATAATTTTGATGAGA-GGATTTT
1 GAAAAAATAAATTTGATGAGATGGATTCT
*
23580620 GAAAAAATAAATTTGATGTGATGTG-TTCT
1 GAAAAAATAAATTTGATGAGATG-GATTCT
*
23580649 GAAAAAAAAAATTTGA
1 GAAAAAATAAATTTGA
23580665 CGAGCTGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
28 25 0.38
29 39 0.60
30 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (29 bp):
GAAAAAATAAATTTGATGAGATGGATTCT
Found at i:23587637 original size:18 final size:18
Alignment explanation
Indices: 23587614--23587660 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
23587604 CCAACAAAAT
23587614 TGTCGATGCAATCATCGA
1 TGTCGATGCAATCATCGA
23587632 TGTCGATGCAATCATCGA
1 TGTCGATGCAATCATCGA
23587650 TGTCGATGCAA
1 TGTCGATGCAA
23587661 CCGATTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (18 bp):
TGTCGATGCAATCATCGA
Found at i:23609862 original size:20 final size:20
Alignment explanation
Indices: 23609839--23609876 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23609829 TTTTAACAAT
*
23609839 AATTCTGAAAATTTATTAAA
1 AATTATGAAAATTTATTAAA
23609859 AATTATGAAAATTTATTA
1 AATTATGAAAATTTATTA
23609877 TTTATTTATA
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:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
AATTATGAAAATTTATTAAA
Found at i:23611169 original size:9 final size:9
Alignment explanation
Indices: 23611157--23611272 Score: 51
Period size: 9 Copynumber: 12.4 Consensus size: 9
23611147 TTTTTATGCA
23611157 TTTTATAATT
1 TTTTATAA-T
*
23611167 TTTTTTCAAT
1 TTTTAT-AAT
* *
23611177 TATTATAAAA
1 TTTTAT-AAT
23611187 TTTTATAAT
1 TTTTATAAT
*
23611196 TTCTA-ATAT
1 TTTTATA-AT
23611205 TTTTAT-AT
1 TTTTATAAT
*
23611213 TTTCTATTAAAA
1 TTT-TA-T-AAT
*
23611225 TTTAATAAT
1 TTTTATAAT
*
23611234 TTTTATAAA
1 TTTTATAAT
*
23611243 TTTTATTGA-
1 TTTTA-TAAT
23611252 TTTT-TAAT
1 TTTTATAAT
*
23611260 TTTTATTAT
1 TTTTATAAT
23611269 TTTT
1 TTTT
23611273 TACCACATGT
Statistics
Matches: 79, Mismatches: 17, Indels: 21
0.68 0.15 0.18
Matches are distributed among these distances:
7 2 0.03
8 10 0.13
9 39 0.49
10 21 0.27
11 3 0.04
12 4 0.05
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:23611273 original size:17 final size:18
Alignment explanation
Indices: 23611232--23611274 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23611222 AAATTTAATA
23611232 ATTTTTATAAATTTTATTG
1 ATTTTT-TAAATTTTATTG
*
23611251 A-TTTTTAATTTTTATT-
1 ATTTTTTAAATTTTATTG
23611267 ATTTTTTA
1 ATTTTTTA
23611275 CCACATGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 16 0.73
18 4 0.18
19 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTTAAATTTTATTG
Found at i:23614771 original size:24 final size:25
Alignment explanation
Indices: 23614754--23614800 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
23614744 TAATTTAATT
23614754 CTTT-ATTCTTTTTTTAATTTTAAC
1 CTTTAATTCTTTTTTTAATTTTAAC
*
23614778 CTTTAATTC-TTTTTTAGTTTTAA
1 CTTTAATTCTTTTTTTAATTTTAA
23614801 TTAAGTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (25 bp):
CTTTAATTCTTTTTTTAATTTTAAC
Found at i:23614910 original size:6 final size:6
Alignment explanation
Indices: 23614892--23614975 Score: 66
Period size: 6 Copynumber: 13.5 Consensus size: 6
23614882 ACTTAGTCCC
*
23614892 TTTATT GTTTATT TTTATT GTTTATT TGTT-TT TTTATT CATTATTAT
1 TTTATT -TTTATT TTTATT -TTTATT T-TTATT TTTATT -TTTA-T-T
* *
23614939 TTTATG TTTA-T TTT-TT TATATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
23614976 GTAATTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.13
6 32 0.51
7 18 0.29
8 4 0.06
9 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:23614929 original size:12 final size:13
Alignment explanation
Indices: 23614892--23614972 Score: 57
Period size: 13 Copynumber: 6.5 Consensus size: 13
23614882 ACTTAGTCCC
23614892 TTTATTGTTTATT
1 TTTATTGTTTATT
23614905 TTTATTGTTTATT
1 TTTATTGTTTATT
23614918 TGTT-TT-TTTATT
1 T-TTATTGTTTATT
* * *
23614930 CATTATTATTTTATG
1 -TTTATT-GTTTATT
23614945 TTTA-T-TTT-TT
1 TTTATTGTTTATT
*
23614955 TATATT-TTTATT
1 TTTATTGTTTATT
23614967 TTTATT
1 TTTATT
23614973 TTTGTAATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.07
11 7 0.13
12 15 0.27
13 19 0.35
14 5 0.09
15 5 0.09
ACGTcount: A:0.17, C:0.01, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTGTTTATT
Found at i:23615119 original size:20 final size:20
Alignment explanation
Indices: 23615090--23615131 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
23615080 TTTTTTTTAC
23615090 TTATTGTTATTATATTATTT
1 TTATTGTTATTATATTATTT
* *
23615110 TTATTTTTATTATTTTATTT
1 TTATTGTTATTATATTATTT
23615130 TT
1 TT
23615132 GTTTAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTATTGTTATTATATTATTT
Found at i:23615126 original size:14 final size:14
Alignment explanation
Indices: 23615078--23615131 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
23615068 TTATGATTGA
23615078 ATTTT-TTTTTACTT
1 ATTTTATTTTTA-TT
*
23615092 ATTGTTA-TTATATT
1 ATT-TTATTTTTATT
23615106 ATTTTTATTTTTATT
1 A-TTTTATTTTTATT
23615121 ATTTTATTTTT
1 ATTTTATTTTT
23615132 GTTTAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 19 0.56
15 15 0.44
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTTATTTTTATT
Found at i:23618311 original size:2 final size:2
Alignment explanation
Indices: 23618299--23618352 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
23618289 TATTCATACT
* * *
23618299 TA TA TA AA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
23618341 TA TA CA TA TA TA
1 TA TA TA TA TA TA
23618353 CATACATTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:23618322 original size:20 final size:20
Alignment explanation
Indices: 23618299--23618352 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
23618289 TATTCATACT
* *
23618299 TATATAAATATATATATATA
1 TATATACATATATATATAAA
23618319 TATATACATATATATATAAA
1 TATATACATATATATATAAA
23618339 TATATACATATATA
1 TATATACATATATA
23618353 CATACATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATACATATATATATAAA
Found at i:23618353 original size:8 final size:8
Alignment explanation
Indices: 23618294--23618356 Score: 63
Period size: 8 Copynumber: 7.9 Consensus size: 8
23618284 AGGTATATTC
*
23618294 ATACTTAT
1 ATACATAT
*
23618302 ATAAATAT
1 ATACATAT
*
23618310 ATATATAT
1 ATACATAT
* *
23618318 ATATATAC
1 ATACATAT
*
23618326 ATATATAT
1 ATACATAT
*
23618334 ATAAATAT
1 ATACATAT
23618342 ATACATAT
1 ATACATAT
23618350 ATACATA
1 ATACATA
23618357 CATTATTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 48 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.41
Consensus pattern (8 bp):
ATACATAT
Found at i:23618357 original size:12 final size:12
Alignment explanation
Indices: 23618306--23618359 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
23618296 ACTTATATAA
*
23618306 ATATATATATAT
1 ATATATACATAT
23618318 ATATATACATAT
1 ATATATACATAT
23618330 ATATAT--A-A-
1 ATATATACATAT
23618338 ATATATACATAT
1 ATATATACATAT
*
23618350 ATACATACAT
1 ATATATACAT
23618360 TATTTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 6 0.17
9 1 0.03
10 2 0.06
11 1 0.03
12 26 0.72
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATACATAT
Found at i:23619326 original size:30 final size:30
Alignment explanation
Indices: 23619288--23619528 Score: 233
Period size: 30 Copynumber: 8.1 Consensus size: 30
23619278 CTCATAAGGT
* *
23619288 CCCC-AAACTTCTCAAAAATCACATTTTCA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* *
23619317 CCCCTAAACTT-TGCAAAAATTATATTTTGA
1 CCCCTAAACTTCT-CAAAAATTACATTTTAA
* **
23619347 CCCCCAAACTTGGCAAAAATTACATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
*
23619377 -CCCTCAAACTTCTCAAAAATCACATTTTAA
1 CCCCT-AAACTTCTCAAAAATTACATTTTAA
* * * *
23619407 TCCTTAAACTTCTCAAAAATCATATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
*
23619437 CCCTTATAA-TT-TACAAAAATTACATTTTAA
1 CCCCTA-AACTTCT-CAAAAATTACATTTTAA
* * *
23619467 -CCCTCAAATTTCTTAAAAATAACATTTTAA
1 CCCCT-AAACTTCTCAAAAATTACATTTTAA
* *
23619497 CCCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
23619527 CC
1 CC
23619529 TTGAATTTTT
Statistics
Matches: 177, Mismatches: 24, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
29 14 0.08
30 153 0.86
31 10 0.06
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (30 bp):
CCCCTAAACTTCTCAAAAATTACATTTTAA
Found at i:23619386 original size:60 final size:59
Alignment explanation
Indices: 23619288--23619528 Score: 261
Period size: 60 Copynumber: 4.0 Consensus size: 59
23619278 CTCATAAGGT
* * *
23619288 CCCCAAACTTCTCAAAAATCACATTTTCACCCCTAAACTTTGCAAAAATTATATTTTGAC
1 CCCCAAACTTCTCAAAAATCACATTTTAACCCCTAAACTTT-CAAAAATTACATTTTAAC
** * * *
23619348 CCCCAAACTTGGCAAAAATTACATTTTAA-CCCTCAAACTTCTCAAAAATCACATTTTAAT
1 CCCCAAACTTCTCAAAAATCACATTTTAACCCCT-AAACTT-TCAAAAATTACATTTTAAC
** * *
23619408 CCTTAAACTTCTCAAAAATCATATTTTAACCCTTATAA-TTTACAAAAATTACATTTTAAC
1 CCCCAAACTTCTCAAAAATCACATTTTAACCCCTA-AACTTT-CAAAAATTACATTTTAAC
* * * * *
23619468 CCTCAAATTTCTTAAAAATAACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAAC
1 CCCCAAACTTCTCAAAAATCACATTTTAACCCCTAAAC-TTTCAAAAATTACATTTTAAC
23619528 C
1 C
23619529 TTGAATTTTT
Statistics
Matches: 150, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
59 7 0.05
60 134 0.89
61 9 0.06
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (59 bp):
CCCCAAACTTCTCAAAAATCACATTTTAACCCCTAAACTTTCAAAAATTACATTTTAAC
Found at i:23619454 original size:90 final size:89
Alignment explanation
Indices: 23619291--23619528 Score: 307
Period size: 90 Copynumber: 2.6 Consensus size: 89
23619281 ATAAGGTCCC
* *
23619291 CAAACTTCTCAAAAATCACATTTTCACCCCTAAACTTTGCAAAAATTATATTTTGACCCCCAAAC
1 CAAACTTCTCAAAAATCACATTTTAACCCCTAAACTTT-CAAAAATTATATTTTAACCCCCAAAC
*
23619356 TTGGCAAAAATTACATTTTAACCCT
65 TTGACAAAAATTACATTTTAACCCT
* * * **
23619381 CAAACTTCTCAAAAATCACATTTTAATCCTTAAACTTCTCAAAAATCATATTTTAACCCTTATAA
1 CAAACTTCTCAAAAATCACATTTTAACCCCTAAACTT-TCAAAAATTATATTTTAACCCCCA-AA
*
23619446 -TTTACAAAAATTACATTTTAACCCT
64 CTTGACAAAAATTACATTTTAACCCT
* * * * *
23619471 CAAATTTCTTAAAAATAACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACC
1 CAAACTTCTCAAAAATCACATTTTAACCCCTAAAC-TTTCAAAAATTATATTTTAACC
23619529 TTGAATTTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
90 123 0.96
91 5 0.04
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (89 bp):
CAAACTTCTCAAAAATCACATTTTAACCCCTAAACTTTCAAAAATTATATTTTAACCCCCAAACT
TGACAAAAATTACATTTTAACCCT
Found at i:23628871 original size:39 final size:39
Alignment explanation
Indices: 23628816--23629541 Score: 464
Period size: 39 Copynumber: 18.6 Consensus size: 39
23628806 TTCTGTTCTC
* *
23628816 TTACCCCGATCATGGGGCAGATCACAGTCATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGATCACAGTCATCCGATCTT
* * *
23628855 TTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCAATCTC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCATCCGATCTT
* * *
23628894 TTACCCCGAGCCTGGGGCAAATTGA-AGCCATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGA-TCACAGTCATCCGATCTT
* * * *
23628933 TTACCCCGAGCTTAGGGCAAATTGA-AG-CTATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGA-TCACAGTC-ATCCGATCTT
* * * *
23628972 TTACCCCGAGCCTGGGGCAGATTACCA-TCAACCAATCTC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCATCCGATCTT
* * * *** * *
23629011 TTACCTCGAGCTTGAGGCAGATTGTAGCCATCTGATCTT
1 TTACCCCGAGCCTGGGGCAGATCACAGTCATCCGATCTT
** * * *
23629050 TTACCTTGAGCATGGGGCAGATCACCA-TCAGCC-AGTCTC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCATCCGA-TCTT
* * * *
23629089 TTACCCCGAGCCTAGGGCAGATTAAAGCCATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGATCACAGTCATCCGATCTT
* * *
23629128 TTACCCCGAGCTTGGGGCAGATCACCA-TCAGT-CAATCTC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCA-TCCGATCTT
** * * * *
23629167 TTACCCTAAGCCTGGGGTAGATTGA-AGCCATCTGATCTT
1 TTACCCCGAGCCTGGGGCAGA-TCACAGTCATCCGATCTT
* * * *
23629206 TTACCACGAGCCTGGGGCAGATCACCA-TCAGCCAATCTC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCATCCGATCTT
* *
23629245 TTACCCCGAGCTTGGGGCAGATTGA-AGTCATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGA-TCACAGTCATCCGATCTT
* * * *
23629284 TTA-CCCGAGCCTGGGGCAGATCATCA-TCAGCCAATATC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCATCCGATCTT
* * *
23629322 TTACCCCGAGCCTGGGGTAGATTAAAGTCATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGATCACAGTCATCCGATCTT
* * *
23629361 TTACCCCGAGCCTGGGGCTA-ATCACCA-TCAGCCAATCTC
1 TTACCCCGAGCCTGGGGC-AGATCA-CAGTCATCCGATCTT
* * * * *
23629400 TTACCCCGAGCCTAGGGCAGATTGA-AGCCAACCAATCTT
1 TTACCCCGAGCCTGGGGCAGA-TCACAGTCATCCGATCTT
** * * * * * *
23629439 TTACCCTAAGCTTGGGGCGGATCACCA-TTAGCCAATCTC
1 TTACCCCGAGCCTGGGGCAGATCA-CAGTCATCCGATCTT
* * *
23629478 TTACCCTGAGCTTGGGGCAGATTGA-AGTCATCCGATCTT
1 TTACCCCGAGCCTGGGGCAGA-TCACAGTCATCCGATCTT
** *
23629517 TTACCCTAAGCCTGGGGCAAATCAC
1 TTACCCCGAGCCTGGGGCAGATCAC
23629542 CATCAGCTAA
Statistics
Matches: 526, Mismatches: 126, Indels: 70
0.73 0.17 0.10
Matches are distributed among these distances:
37 2 0.00
38 47 0.09
39 455 0.87
40 22 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (39 bp):
TTACCCCGAGCCTGGGGCAGATCACAGTCATCCGATCTT
Found at i:23629562 original size:78 final size:78
Alignment explanation
Indices: 23628816--23629561 Score: 826
Period size: 78 Copynumber: 9.6 Consensus size: 78
23628806 TTCTGTTCTC
* * * * * *
23628816 TTACCCCGATCATGGGGCAGATCA-CAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAGA-T-C
1 TTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGA
* *
23628878 A-CCATCAGCCAATCTC
65 AGCCAT---CCGATCTT
* * * * * * *
23628894 TTACCCCGAGCCTGGGGCAAATTGAAGCCAT---CCGATCTTTTACCCCGAGCTTAGGGCAAATT
1 TTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATT
*
23628956 GAAGCTATCCGATCTT
63 GAAGCCATCCGATCTT
* * * * * *
23628972 TTACCCCGAGCCTGGGGCAGATTACCATCAACCAATCTCTTACCTCGAGCTTGAGGCAGATTGTA
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
*
23629037 GCCATCTGATCTT
66 GCCATCCGATCTT
** * * * *
23629050 TTACCTTGAGCATGGGGCAGATCACCATCAGCCAGTCTCTTACCCCGAGCCTAGGGCAGATTAAA
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
23629115 GCCATCCGATCTT
66 GCCATCCGATCTT
* * ** *
23629128 TTACCCCGAGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCTAAGCCTGGGGTAGATTGAA
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
*
23629193 GCCATCTGATCTT
66 GCCATCCGATCTT
* *
23629206 TTACCACGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGAA
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
*
23629271 GTCATCCGATCTT
66 GCCATCCGATCTT
* * * *
23629284 TTA-CCCGAGCCTGGGGCAGATCATCATCAGCCAATATCTTACCCCGAGCCTGGGGTAGATTAAA
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
*
23629348 GTCATCCGATCTT
66 GCCATCCGATCTT
*
23629361 TTACCCCGAGCCTGGGGCTA-ATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGA
1 TTACCCCGAGCCTGGGGC-AGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGA
* *
23629425 AGCCAACCAATCTT
65 AGCCATCCGATCTT
** * * * * *
23629439 TTACCCTAAGCTTGGGGCGGATCACCATTAGCCAATCTCTTACCCTGAGCTTGGGGCAGATTGAA
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
*
23629504 GTCATCCGATCTT
66 GCCATCCGATCTT
** * * *
23629517 TTACCCTAAGCCTGGGGCAAATCACCATCAGCTAATCTTTTACCC
1 TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
23629562 TCAAGTCATG
Statistics
Matches: 569, Mismatches: 86, Indels: 26
0.84 0.13 0.04
Matches are distributed among these distances:
75 4 0.01
76 1 0.00
77 72 0.13
78 481 0.85
79 3 0.01
80 2 0.00
81 4 0.01
82 2 0.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (78 bp):
TTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCAGATTGAA
GCCATCCGATCTT
Found at i:23631535 original size:59 final size:59
Alignment explanation
Indices: 23631445--23631701 Score: 207
Period size: 59 Copynumber: 4.3 Consensus size: 59
23631435 CTCAGAAAGT
* * * **
23631445 CCCC-AAACTTCTCAAAAATCATATTTTGACCCTCGAACTTTGCAAAAATTATATTTTGT
1 CCCCTAAACTTCACAAAAATTAAATTTTGACCCTCGAACTTT-CAAAAATTATATTTTAA
** * * *
23631504 CCCCTAAACTT-TGAAAAGTTACATTTTGACCC-CTGAACTTCACAAAAATTATATTTTAA
1 CCCCTAAACTTCACAAAAATTAAATTTTGACCCTC-GAACTT-TCAAAAATTATATTTTAA
* * *
23631563 CCCCTAAACTTCACAAAAATTAAATTTTGACCCTCAAACTTCTCAAAAATCACATTTTAA
1 CCCCTAAACTTCACAAAAATTAAATTTTGACCCTCGAACTT-TCAAAAATTATATTTTAA
* * * * * * ** * *
23631623 -CCTTGAACTTCTCAAAAATCATATTTTAACCCTTAAACTTCACAAAAATTAAATTTTAA
1 CCCCTAAACTTCACAAAAATTAAATTTTGACCCTCGAACTT-TCAAAAATTATATTTTAA
* * *
23631682 CCCTTAAATTTCTCAAAAAT
1 CCCCTAAACTTCACAAAAAT
23631702 CACAATTTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
58 1 0.01
59 102 0.62
60 61 0.37
61 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (59 bp):
CCCCTAAACTTCACAAAAATTAAATTTTGACCCTCGAACTTTCAAAAATTATATTTTAA
Found at i:23631602 original size:89 final size:90
Alignment explanation
Indices: 23631450--23631743 Score: 328
Period size: 89 Copynumber: 3.3 Consensus size: 90
23631440 AAAGTCCCCA
* * ** * *
23631450 AACTTCTCAAAAATCATATTTTGA-CCCTCGAACTTTGCAAAAATTATATTTTGTCCC-CTAAAC
1 AACTTCTCAAAAATCATATTTTAACCCCT-AAACTTCACAAAAATTAAATTTTGACCCTCTAAAC
* * * *
23631513 TT-TGAAAAGTTACATTTTGACCCCTG
65 TTCTCAAAAATCACATTTT-AACCCTG
* *
23631539 AACTTCACAAAAATTATATTTTAACCCCTAAACTTCACAAAAATTAAATTTTGACCCTC-AAACT
1 AACTTCTCAAAAATCATATTTTAACCCCTAAACTTCACAAAAATTAAATTTTGACCCTCTAAACT
*
23631603 TCTCAAAAATCACATTTTAACCTTG
66 TCTCAAAAATCACATTTTAACCCTG
* * *
23631628 AACTTCTCAAAAATCATATTTTAACCCTTAAACTTCACAAAAATTAAATTTTAACCCT-TAAATT
1 AACTTCTCAAAAATCATATTTTAACCCCTAAACTTCACAAAAATTAAATTTTGACCCTCTAAACT
* *
23631692 TCTCAAAAATCACAATTTAACCCCTA
66 TCTCAAAAATCACATTTTAA-CCCTG
* * * *
23631718 AACTTTTCTAAAATTACATTTTAACC
1 AACTTCTCAAAAATCATATTTTAACC
23631744 TTGAACTTTT
Statistics
Matches: 175, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
89 132 0.75
90 43 0.25
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (90 bp):
AACTTCTCAAAAATCATATTTTAACCCCTAAACTTCACAAAAATTAAATTTTGACCCTCTAAACT
TCTCAAAAATCACATTTTAACCCTG
Found at i:23631741 original size:30 final size:30
Alignment explanation
Indices: 23631445--23631743 Score: 259
Period size: 30 Copynumber: 10.1 Consensus size: 30
23631435 CTCAGAAAGT
* * *
23631445 CCCC-AAACTTCTCAAAAATCATATTTTGA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* * **
23631474 -CCCTCGAACTT-TGCAAAAATTATATTTTGT
1 CCCCT-AAACTTCT-CAAAAATTACATTTTAA
* * *
23631504 CCCCTAAACTT-TGAAAAGTTACATTTTGA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* * *
23631533 CCCCTGAACTTCACAAAAATTATATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* * *
23631563 CCCCTAAACTTCACAAAAATTAAATTTTGA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
*
23631593 -CCCTCAAACTTCTCAAAAATCACATTTTAA
1 CCCCT-AAACTTCTCAAAAATTACATTTTAA
* * * *
23631623 -CCTTGAACTTCTCAAAAATCATATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* * *
23631652 CCCTTAAACTTCACAAAAATTAAATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* * * *
23631682 CCCTTAAATTTCTCAAAAATCACAATTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
* *
23631712 CCCCTAAACTTTTCTAAAATTACATTTTAA
1 CCCCTAAACTTCTCAAAAATTACATTTTAA
23631742 CC
1 CC
23631744 TTGAACTTTT
Statistics
Matches: 224, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.01
29 51 0.23
30 166 0.74
31 4 0.02
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (30 bp):
CCCCTAAACTTCTCAAAAATTACATTTTAA
Found at i:23631786 original size:27 final size:26
Alignment explanation
Indices: 23631753--23631822 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
23631743 CTTGAACTTT
* * *
23631753 TCCAAAATTATCATTCTACCCCGAATA
1 TCCAAAATCACCATT-TACCCCAAATA
*
23631780 TCCAAAAATCACCATTTACCCCAAATT
1 TCC-AAAATCACCATTTACCCCAAATA
23631807 TCCAAAAGTCA-CATTT
1 TCCAAAA-TCACCATTT
23631823 TCGACCTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.24
27 18 0.49
28 10 0.27
ACGTcount: A:0.39, C:0.30, G:0.03, T:0.29
Consensus pattern (26 bp):
TCCAAAATCACCATTTACCCCAAATA
Found at i:23631862 original size:29 final size:30
Alignment explanation
Indices: 23631830--23631894 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
23631820 TTTTCGACCT
* * *
23631830 CAAATTTTC-CAAAAGTTTGATTTTAATCC
1 CAAATTTTCTAAAAAGTTTAATTTTAACCC
*
23631859 CAAATTTTCTAAAAATTTTAATTTTAACCC
1 CAAATTTTCTAAAAAGTTTAATTTTAACCC
23631889 CAAATT
1 CAAATT
23631895 CCTCAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (30 bp):
CAAATTTTCTAAAAAGTTTAATTTTAACCC
Found at i:23631885 original size:30 final size:29
Alignment explanation
Indices: 23631830--23631903 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
23631820 TTTTCGACCT
* * *
23631830 CAAATTTTCCAAAAGTTTGATTTTAATCC
1 CAAATTTTCAAAAAGTTTAATTTTAACCC
*
23631859 CAAATTTTCTAAAAATTTTAATTTTAACCC
1 CAAATTTTC-AAAAAGTTTAATTTTAACCC
*
23631889 CAAATTCCTCAAAAA
1 CAAATT-TTCAAAAA
23631904 TTACGTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 9 0.24
30 27 0.71
31 2 0.05
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (29 bp):
CAAATTTTCAAAAAGTTTAATTTTAACCC
Found at i:23635558 original size:23 final size:23
Alignment explanation
Indices: 23635491--23635560 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
23635481 AAAAAAAGAG
*
23635491 AGGTCAAAATGAAAACCCGTAAA
1 AGGTCAAAATGAAAACTCGTAAA
* ** ***
23635514 TGGT-AATTTG-AAACTAAAAAA
1 AGGTCAAAATGAAAACTCGTAAA
23635535 AGGTCAAAATGAAAACTCGTAAA
1 AGGTCAAAATGAAAACTCGTAAA
23635558 AGG
1 AGG
23635561 CATTTCGAAA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
21 10 0.31
22 8 0.25
23 14 0.44
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (23 bp):
AGGTCAAAATGAAAACTCGTAAA
Found at i:23635864 original size:20 final size:20
Alignment explanation
Indices: 23635829--23635957 Score: 134
Period size: 20 Copynumber: 6.5 Consensus size: 20
23635819 TTAGTAGTTC
* *
23635829 TTGATCAATGTTTGCCATTT
1 TTGACCAATATTTGCCATTT
* *
23635849 TTTACCAACATTTGCCATTT
1 TTGACCAATATTTGCCATTT
*
23635869 TTGACCAATGTTTAG-CATTT
1 TTGACCAATATTT-GCCATTT
* *
23635889 TTGACAAATGTTTGCCATTT
1 TTGACCAATATTTGCCATTT
* *
23635909 TTGACCAATATTTGCAATTA
1 TTGACCAATATTTGCCATTT
* **
23635929 TTGACCAACATTTGGAATTT
1 TTGACCAATATTTGCCATTT
23635949 TTGACCAAT
1 TTGACCAAT
23635958 GTTAGCTATT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 1 0.01
20 89 0.98
21 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.43
Consensus pattern (20 bp):
TTGACCAATATTTGCCATTT
Found at i:23635878 original size:40 final size:40
Alignment explanation
Indices: 23635829--23635970 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
23635819 TTAGTAGTTC
* *
23635829 TTGATCAATGTTTGCCATTTTTTACCAACATTTGCCATTT
1 TTGACCAATGTTTGCCATTTTTGACCAACATTTGCCATTT
* **
23635869 TTGACCAATGTTTAG-CATTTTTGACAAATGTTTGCCATTT
1 TTGACCAATGTTT-GCCATTTTTGACCAACATTTGCCATTT
* * * **
23635909 TTGACCAATATTTGCAATTATTGACCAACATTTGGAATTT
1 TTGACCAATGTTTGCCATTTTTGACCAACATTTGCCATTT
* *
23635949 TTGACCAATGTTAGCTATTTTT
1 TTGACCAATGTTTGCCATTTTT
23635971 TTAATCTTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 81 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (40 bp):
TTGACCAATGTTTGCCATTTTTGACCAACATTTGCCATTT
Found at i:23635901 original size:60 final size:60
Alignment explanation
Indices: 23635835--23635971 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
23635825 GTTCTTGATC
* * ** *
23635835 AATGTTTGCCATTTTTTACCAACATTTGCCATTTTTGACCAATGTTTAGCATTTTTGACA
1 AATGTTTGCCATTTTTTACCAACATTTGCAATTATTGACCAACATTTAGAATTTTTGACA
* * * *
23635895 AATGTTTGCCATTTTTGACCAATATTTGCAATTATTGACCAACATTTGGAATTTTTGACC
1 AATGTTTGCCATTTTTTACCAACATTTGCAATTATTGACCAACATTTAGAATTTTTGACA
* *
23635955 AATGTTAGCTATTTTTT
1 AATGTTTGCCATTTTTT
23635972 TAATCTTTTC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (60 bp):
AATGTTTGCCATTTTTTACCAACATTTGCAATTATTGACCAACATTTAGAATTTTTGACA
Found at i:23636700 original size:102 final size:102
Alignment explanation
Indices: 23636562--23636924 Score: 341
Period size: 102 Copynumber: 3.6 Consensus size: 102
23636552 ACAATAGCTG
* ** * **
23636562 ATCTCAATCTTCCT-AATGTTACAGTGGAATGGAGTGAAGTTACAACACCAAATTATATATCCAT
1 ATCTCAATCTCCCTGAA-GTTGTAGTGGAATAGAGTGAAGTTACAACACCAAATCCTATATCCAT
23636626 AAAGTTGAAGTGGATCGGATTAAAACTAAAAGTAGCGA
65 AAAGTTGAAGTGGATCGGATTAAAACTAAAAGTAGCGA
* *
23636664 ATCTCAATCTCCCTGAAGTTGTAGTGGAATTGAGTGAAGTTACAACACCAAATCCTATATCCCTA
1 ATCTCAATCTCCCTGAAGTTGTAGTGGAATAGAGTGAAGTTACAACACCAAATCCTATATCCATA
*
23636729 AAGTT-ACAATGGATCGGATTAAAACTAACAACAGTA--G-
66 AAGTTGA-AGTGGATCGGATTAAAACT-A-AA-AGTAGCGA
** * *
23636766 ATCTCAATCTCTTTGAAGTTGTAGTGGAATAGACTGAAGTTACAA-ACCCAAATCCTATATCCTT
1 ATCTCAATCTCCCTGAAGTTGTAGTGGAATAGAGTGAAGTTACAACA-CCAAATCCTATATCCAT
* * * * * * *
23636830 GAAGTTGCAG-GGATCAGAATAAAGCT-ACAGTAGCAA
65 AAAGTTGAAGTGGATCGGATTAAAACTAAAAGTAGCGA
** * * * * *
23636866 ATCTTTATCTCTCTGTAGTTGTAGTAGAGGA-AGA-TGAAGCTACCACACCAAATCCTATA
1 ATCTCAATCTCCCTGAAGTTGTAGT-G-GAATAGAGTGAAGTTACAACACCAAATCCTATA
23636925 CCCTTGAAGT
Statistics
Matches: 220, Mismatches: 28, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
97 4 0.02
98 1 0.00
100 42 0.19
101 20 0.09
102 143 0.65
103 4 0.02
104 2 0.01
105 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (102 bp):
ATCTCAATCTCCCTGAAGTTGTAGTGGAATAGAGTGAAGTTACAACACCAAATCCTATATCCATA
AAGTTGAAGTGGATCGGATTAAAACTAAAAGTAGCGA
Found at i:23638873 original size:16 final size:17
Alignment explanation
Indices: 23638849--23638887 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
23638839 TAACCCAATT
*
23638849 ACCCTAAGCCAAAAT-A
1 ACCCAAAGCCAAAATCA
*
23638865 ACCCAAAGCCTAAATCA
1 ACCCAAAGCCAAAATCA
23638882 ACCCAA
1 ACCCAA
23638888 TTACCTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
ACCCAAAGCCAAAATCA
Found at i:23640169 original size:15 final size:15
Alignment explanation
Indices: 23640151--23640208 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
23640141 ATTTAGTCTT
23640151 TTTATTTTTTATTTA
1 TTTATTTTTTATTTA
**
23640166 TTTATTTTTTATCCA
1 TTTATTTTTTATTTA
* *
23640181 TTACTATTTTATGTTTA
1 TT--TATTTTTTATTTA
23640198 TTT-TTTTTTAT
1 TTTATTTTTTAT
23640209 ATTTTTAGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
14 6 0.18
15 16 0.48
17 11 0.33
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTATTTA
Found at i:23640173 original size:21 final size:21
Alignment explanation
Indices: 23640131--23640174 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23640121 TATTGTTTTC
*
23640131 TTATTTTTTAATTTAGTCTTT
1 TTATTTTTTAATTTAGTATTT
*
23640152 TTATTTTTT-ATTTATTTATTT
1 TTATTTTTTAATTTA-GTATTT
23640173 TT
1 TT
23640175 TATCCATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTATTTTTTAATTTAGTATTT
Found at i:23642084 original size:198 final size:198
Alignment explanation
Indices: 23641807--23642180 Score: 583
Period size: 198 Copynumber: 1.9 Consensus size: 198
23641797 AGTCAGTCTT
* *
23641807 GTTTCGTTTAGAACAAACGGAGATTGATTTCTATATTTAGTTTAAAAGATATGAATTTTTGAATA
1 GTTTCATTTAGAACAAACAGAGATTGATTTCTATATTTAGTTTAAAAGATATGAATTTTTGAATA
* ** *
23641872 TTGAAAGGTCATAAAAATCTAGCAGCAGAATTCTTATAAAACAGATTTAGCAGCAACTTTGAAAA
66 TTGAAAGATCATAAAAATCTAGCAAAAGAATTCTTATAAAACAGATTTAGCAGCAACATTGAAAA
*
23641937 ATCACAAAAAATTGCACAAGATAAAATAGGAAGTGAG-TCTTATATCCCTACAACATTATGGAAT
131 ATCACAAAAAATTGCACAAGATAAAATAGGAAATGAGCT-TTATATCCCTACAACATTATGGAAT
23642001 TCTA
195 TCTA
*
23642005 GTTTCATTTAGAACAAACAGAGATTGATTTCTATTTTTAGTTTAAAAGATATGAATTTTT-AAGT
1 GTTTCATTTAGAACAAACAGAGATTGATTTCTATATTTAGTTTAAAAGATATGAATTTTTGAA-T
* * **
23642069 GTT-AAACGATCATAAAAATCTGGCAAAAGAATTCTTATAAAACAGATTTAGCAGTGACATTGAA
65 ATTGAAA-GATCATAAAAATCTAGCAAAAGAATTCTTATAAAACAGATTTAGCAGCAACATTGAA
*
23642133 AAATCACCAAAAATTGCACAAGATAAAATAGGAAATGAGCTTTATATC
129 AAATCACAAAAAATTGCACAAGATAAAATAGGAAATGAGCTTTATATC
23642181 ACTATAACCA
Statistics
Matches: 160, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
197 5 0.03
198 154 0.96
199 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (198 bp):
GTTTCATTTAGAACAAACAGAGATTGATTTCTATATTTAGTTTAAAAGATATGAATTTTTGAATA
TTGAAAGATCATAAAAATCTAGCAAAAGAATTCTTATAAAACAGATTTAGCAGCAACATTGAAAA
ATCACAAAAAATTGCACAAGATAAAATAGGAAATGAGCTTTATATCCCTACAACATTATGGAATT
CTA
Found at i:23647526 original size:18 final size:18
Alignment explanation
Indices: 23647503--23647549 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
23647493 ATTTTAAATA
23647503 AAAAATATAAAAAT-TATG
1 AAAAATATAAAAATCT-TG
*
23647521 AAAAATA-AAAACTCTTG
1 AAAAATATAAAAATCTTG
23647538 AAAAA-ATAAAAA
1 AAAAATATAAAAA
23647550 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 16 0.64
18 8 0.32
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAAATATAAAAATCTTG
Found at i:23647531 original size:17 final size:18
Alignment explanation
Indices: 23647502--23647551 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
23647492 TATTTTAAAT
23647502 AAAAAATATAAAAAT-TATG
1 AAAAAATA-AAAAATCT-TG
*
23647521 -AAAAATAAAAACTCTTG
1 AAAAAATAAAAAATCTTG
23647538 AAAAAATAAAAAAT
1 AAAAAATAAAAAAT
23647552 AAAAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (18 bp):
AAAAAATAAAAAATCTTG
Found at i:23648506 original size:13 final size:13
Alignment explanation
Indices: 23648454--23648509 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
23648444 AAATAGCATG
*
23648454 AAATAAAAGTACTA
1 AAATAAAAGAAC-A
*
23648468 AAA-AAATGAACA
1 AAATAAAAGAACA
23648480 AAAT--AA-AA-A
1 AAATAAAAGAACA
23648489 AAATAAAAGAACA
1 AAATAAAAGAACA
23648502 AAATAAAA
1 AAATAAAA
23648510 ACAAACAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
9 5 0.15
10 2 0.06
11 3 0.09
12 6 0.18
13 15 0.44
14 3 0.09
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.12
Consensus pattern (13 bp):
AAATAAAAGAACA
Found at i:23648555 original size:24 final size:24
Alignment explanation
Indices: 23648528--23648573 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23648518 TAATAGGGAC
*
23648528 TAAATTGAAGAAAATAAA-AAAGTA
1 TAAATTGAA-AAAAGAAAGAAAGTA
23648552 TAAATTGAAAAAAGAAAGAAAG
1 TAAATTGAAAAAAGAAAGAAAG
23648574 AAAAGGGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.17
Consensus pattern (24 bp):
TAAATTGAAAAAAGAAAGAAAGTA
Found at i:23650447 original size:52 final size:52
Alignment explanation
Indices: 23650376--23650579 Score: 170
Period size: 52 Copynumber: 4.0 Consensus size: 52
23650366 CTTCAGGGGT
*
23650376 ATAGGATTTGATGTGATAGCTTCATCTTGCTCTACTGCAACTTCAGAGAGAA
1 ATAGGATTTGATGTCATAGCTTCATCTTGCTCTACTGCAACTTCAGAGAGAA
* * *
23650428 ATAGGATTTTATGTCATAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATA
1 ATAGGATTTGATGTCATAGCTTCATCTTGCTCTACTGCAACTTCAGAGAGA-A
* ** * * **
23650481 A-A-TATTTTCT-TCTATAGTTTCAAT-TCGAC-CTACTGCAACTTCA-AG-GGT
1 ATAGGATTTGATGTC-ATAGCTTC-ATCTTG-CTCTACTGCAACTTCAGAGAGAA
* * * ** *
23650529 ATAGTATTTGGTTTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGAGAGA
1 ATAGGATTTGATGTCATAGCTTCATCTTGCTCTACTGCAACTTCAGAGAGA
23650580 TAAAGATTTC
Statistics
Matches: 121, Mismatches: 20, Indels: 22
0.74 0.12 0.13
Matches are distributed among these distances:
48 1 0.01
49 5 0.04
50 30 0.25
51 31 0.26
52 52 0.43
53 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (52 bp):
ATAGGATTTGATGTCATAGCTTCATCTTGCTCTACTGCAACTTCAGAGAGAA
Found at i:23650566 original size:50 final size:50
Alignment explanation
Indices: 23650357--23650571 Score: 159
Period size: 50 Copynumber: 4.2 Consensus size: 50
23650347 CCAATCCGAC
* * * *
23650357 CTACTACAACTTCAGGGGTATAGGA-TTTGATGTGATAGCTTCATCTTGCT
1 CTACTGCAACTTCAAGGGTATAGGATTTTG-TTTTATAGCTTCATCTTGCT
** * * *
23650407 CTACTGCAACTTCAGAGAGAAATAGGATTTTATGTCATAGCTTCATCTTGCT
1 CTACTGCAACTTCA-AG-GGTATAGGATTTTGTTTTATAGCTTCATCTTGCT
* * ** * * * *
23650459 CCACTGCAACTTC-AGGGAGATAAATATTTTCTTCTATAGTTTCAAT-TCGAC-
1 CTACTGCAACTTCAAGGG-TAT-AGGATTTTGTTTTATAGCTTC-ATCTTG-CT
* * *
23650510 CTACTGCAACTTCAAGGGTATAGTATTTGGTTTTGTAGCTTCATCTTGCT
1 CTACTGCAACTTCAAGGGTATAGGATTTTGTTTTATAGCTTCATCTTGCT
23650560 CTACTGCAACTT
1 CTACTGCAACTT
23650572 TAGAGAGATA
Statistics
Matches: 129, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
49 4 0.03
50 46 0.36
51 31 0.24
52 45 0.35
53 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (50 bp):
CTACTGCAACTTCAAGGGTATAGGATTTTGTTTTATAGCTTCATCTTGCT
Found at i:23650697 original size:101 final size:101
Alignment explanation
Indices: 23650407--23650735 Score: 327
Period size: 101 Copynumber: 3.2 Consensus size: 101
23650397 TCATCTTGCT
* * * *
23650407 CTACTGCAACTTCAGAGAGAAATAGGATTTTATGTCATAGCTTCATCTTGCTCCACTGCAACTTC
1 CTACTGCAACTTCAG-G-GATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTT
* * * * * *
23650472 AGGGAGATAAATATTTTCTTCTATAGTTTCAATTCGAC
64 AGGGAGATAAAAATTTACTACTGTAGTTTCAATCCAAC
* * * * *
23650510 CTACTGCAACTTCAAGGG-TATAGTATTTGGTTTTGTAGCTTCATCTTGCTCTACTGCAACTTTA
1 CTACTGCAACTTC-AGGGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTTA
* * * *
23650574 GAGAGATAAAGATTTCCCACTGTAGTTTCAATCCAAC
65 GGGAGATAAAAATTTACTACTGTAGTTTCAATCCAAC
* * * * * * *
23650611 CCACTGCAACTTCAGGGGTATAGGATTTGATGACGTAACTTCATCTTGTTCCATTGCATCTTTAG
1 CTACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTTAG
* * ** *
23650676 GGGGATAAAAATTTACTACTGTAATTTTTGATCCAAT
66 GGAGATAAAAATTTACTACTGT-AGTTTCAATCCAAC
*
23650713 CTATTGCAACTTCAGGGATATAG
1 CTACTGCAACTTCAGGGATATAG
23650736 CATCTGATTT
Statistics
Matches: 183, Mismatches: 40, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
100 4 0.02
101 132 0.72
102 31 0.17
103 14 0.08
104 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (101 bp):
CTACTGCAACTTCAGGGATATAGGATTTGATGTCGTAGCTTCATCTTGCTCCACTGCAACTTTAG
GGAGATAAAAATTTACTACTGTAGTTTCAATCCAAC
Found at i:23651569 original size:26 final size:26
Alignment explanation
Indices: 23651477--23651572 Score: 129
Period size: 26 Copynumber: 3.7 Consensus size: 26
23651467 AGAATTATGC
*
23651477 CCAGAATTGTCGCTGCATGAACTTGT
1 CCAGAATTGTCGCTGCATGAACATGT
* * *
23651503 CCAGAATTATCGTTACATGAACATGT
1 CCAGAATTGTCGCTGCATGAACATGT
* * *
23651529 CCAGAGTTGTCGCTGCATGAGCATAT
1 CCAGAATTGTCGCTGCATGAACATGT
23651555 CCAGAATTGTCGCTGCAT
1 CCAGAATTGTCGCTGCAT
23651573 CTGACAGCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
CCAGAATTGTCGCTGCATGAACATGT
Found at i:23655344 original size:26 final size:26
Alignment explanation
Indices: 23655288--23655375 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
23655278 CCAAAATTGC
* *
23655288 ATCCACAATTATCGCTGCAGGAACT-T
1 ATCCAAAATTATCGCTGCATGAA-TAT
*
23655314 GTCCAAAATTATCGCTGCATGAATAT
1 ATCCAAAATTATCGCTGCATGAATAT
* * *
23655340 ATCCAGAGTTATCGCTACATGAGA-AT
1 ATCCAAAATTATCGCTGCATGA-ATAT
*
23655366 ATCCGAAATT
1 ATCCAAAATT
23655376 GTTGCCGTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.02
26 48 0.96
27 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (26 bp):
ATCCAAAATTATCGCTGCATGAATAT
Found at i:23656736 original size:8 final size:8
Alignment explanation
Indices: 23656713--23656761 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
23656703 TTGACCTCTC
23656713 CTTTTCTTT
1 CTTTT-TTT
*
23656722 ATTTTTTT
1 CTTTTTTT
23656730 CTTTTTTCTT
1 C-TTTTT-TT
23656740 CTTTTTTT
1 CTTTTTTT
*
23656748 CTTTTCTT
1 CTTTTTTT
23656756 CTTTTT
1 CTTTTT
23656762 GATGAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 17 0.50
9 14 0.41
10 3 0.09
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:23656736 original size:19 final size:19
Alignment explanation
Indices: 23656714--23656759 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
23656704 TGACCTCTCC
23656714 TTTTCTTTATTTTTTTCTT
1 TTTTCTTTATTTTTTTCTT
*
23656733 TTTTC-TTCTTTTTTTCTT
1 TTTTCTTTATTTTTTTCTT
23656751 TTCTTCTTT
1 TT-TTCTTT
23656760 TTGATGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 14 0.58
19 8 0.33
20 2 0.08
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCTTTATTTTTTTCTT
Found at i:23656752 original size:16 final size:16
Alignment explanation
Indices: 23656713--23656761 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
23656703 TTGACCTCTC
*
23656713 CTTTTCTTTATTTTTTT
1 CTTTTC-TTCTTTTTTT
23656730 CTTTTTTCTTCTTTTTTT
1 C--TTTTCTTCTTTTTTT
23656748 CTTTTCTTCTTTTT
1 CTTTTCTTCTTTTT
23656762 GATGAAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.45
17 1 0.03
18 10 0.34
19 5 0.17
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
CTTTTCTTCTTTTTTT
Found at i:23666104 original size:15 final size:16
Alignment explanation
Indices: 23666086--23666115 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23666076 TTAAATTTTT
23666086 TTATTT-ACTTTTCAG
1 TTATTTCACTTTTCAG
23666101 TTATTTCACTTTTCA
1 TTATTTCACTTTTCA
23666116 TCGTGTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (16 bp):
TTATTTCACTTTTCAG
Found at i:23676258 original size:22 final size:22
Alignment explanation
Indices: 23676218--23676260 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23676208 TTCCCAAGAG
*
23676218 GGGAAACTAGCAAGGAAATGAA
1 GGGAAACTAGCAAGCAAATGAA
23676240 GGGAAACTAG-AGAGCAAATGA
1 GGGAAACTAGCA-AGCAAATGA
23676261 GAGAATGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.49, C:0.09, G:0.33, T:0.09
Consensus pattern (22 bp):
GGGAAACTAGCAAGCAAATGAA
Found at i:23678840 original size:21 final size:21
Alignment explanation
Indices: 23678814--23678854 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23678804 TTATCACCGA
23678814 AAGATCTTCCTCTTCTTCTTG
1 AAGATCTTCCTCTTCTTCTTG
*
23678835 AAGATCTTCTTCTTCTTCTT
1 AAGATCTTCCTCTTCTTCTT
23678855 CAGCTTACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.07, T:0.51
Consensus pattern (21 bp):
AAGATCTTCCTCTTCTTCTTG
Found at i:23679521 original size:43 final size:42
Alignment explanation
Indices: 23679460--23679694 Score: 229
Period size: 43 Copynumber: 5.4 Consensus size: 42
23679450 GTGAGGAAAT
* * *
23679460 ACGCCGCTAAAGACCATGTTCTTTAGCGGTGCTTTCCCTACAA
1 ACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCC-ACAA
* * * *
23679503 ACGCCGCTAAAGACCATGTTCTTTAGCGACGCTTTTCTCACAA
1 ACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCACAA
*
23679546 ATC-CCGCTAAAGAACATGGTCTTTAGCGGCGCTGGCGCTTTTCCGACAA
1 A-CGCCGCTAAAGAACATGGTCTTTA-----GC-GGCGC-TTTCCCACAA
* * *
23679595 ATGCCACTAAAGAACATGGTCTTTAGCAGCGCTTTTCCCACAA
1 ACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTCCCACAA
* * * *
23679638 ACACCGCTAAAGAATATGGTCTTTAGTGGCGATTTCCCACAA
1 ACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCCACAA
23679680 ACGCCGCTAAAGAAC
1 ACGCCGCTAAAGAAC
23679695 CACTAACATT
Statistics
Matches: 162, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
42 23 0.14
43 94 0.58
44 8 0.05
48 2 0.01
49 35 0.22
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
ACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCCACAA
Found at i:23679595 original size:92 final size:92
Alignment explanation
Indices: 23679490--23679668 Score: 245
Period size: 92 Copynumber: 1.9 Consensus size: 92
23679480 CTTTAGCGGT
* * * * *
23679490 GCTTTCCCTACAAACGCCGCTAAAGACCATGTTCTTTAGC-GACGCTTTTCTCACAAATC-CCGC
1 GCTTTCCCGACAAACGCCACTAAAGAACATGGTCTTTAGCAG-CGCTTTTCCCACAAA-CACCGC
23679553 TAAAGAACATGGTCTTTAGCGGCGCTGGC
64 TAAAGAACATGGTCTTTAGCGGCGCTGGC
* *
23679582 GCTTTTCCGACAAATGCCACTAAAGAACATGGTCTTTAGCAGCGCTTTTCCCACAAACACCGCTA
1 GCTTTCCCGACAAACGCCACTAAAGAACATGGTCTTTAGCAGCGCTTTTCCCACAAACACCGCTA
* *
23679647 AAGAATATGGTCTTTAGTGGCG
66 AAGAACATGGTCTTTAGCGGCG
23679669 ATTTCCCACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
91 1 0.01
92 74 0.97
93 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (92 bp):
GCTTTCCCGACAAACGCCACTAAAGAACATGGTCTTTAGCAGCGCTTTTCCCACAAACACCGCTA
AAGAACATGGTCTTTAGCGGCGCTGGC
Found at i:23679605 original size:49 final size:49
Alignment explanation
Indices: 23679532--23679627 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
23679522 TCTTTAGCGA
* *
23679532 CGCTTTTCTCACAAATCCCGCTAAAGAACATGGTCTTTAGCGGCGCTGG
1 CGCTTTTCTCACAAATCCCACTAAAGAACATGGTCTTTAGCAGCGCTGG
*
23679581 CGCTTTTC-CGACAAATGCCACTAAAGAACATGGTCTTTAGCAGCGCT
1 CGCTTTTCTC-ACAAATCCCACTAAAGAACATGGTCTTTAGCAGCGCT
23679628 TTTCCCACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 42 0.98
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (49 bp):
CGCTTTTCTCACAAATCCCACTAAAGAACATGGTCTTTAGCAGCGCTGG
Found at i:23685034 original size:41 final size:40
Alignment explanation
Indices: 23684977--23685060 Score: 114
Period size: 41 Copynumber: 2.1 Consensus size: 40
23684967 AAAATCCACT
* *
23684977 TTTAGCGGCGCTTTCCCATAAGCGCCACTAATGCTCTGACC
1 TTTAGCGACGCTTTCCCATAAACGCCACTAATGCT-TGACC
* * *
23685018 TTTAGCGACGCTTTCCCATAAATGCCGCTAATGCTTTACC
1 TTTAGCGACGCTTTCCCATAAACGCCACTAATGCTTGACC
23685058 TTT
1 TTT
23685061 TGCGGTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 7 0.18
41 31 0.82
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (40 bp):
TTTAGCGACGCTTTCCCATAAACGCCACTAATGCTTGACC
Found at i:23686235 original size:28 final size:31
Alignment explanation
Indices: 23686185--23686244 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
23686175 GCTGTTTTAA
*
23686185 AATATTTACAGAAAAAAGACAA-CTAATTTT
1 AATATTTACAGAAAAAAGACAACCAAATTTT
*
23686215 AATATTTACA-AAAAGA-ACAACCAAATTTT
1 AATATTTACAGAAAAAAGACAACCAAATTTT
23686244 A
1 A
23686245 CAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 13 0.48
30 10 0.37
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (31 bp):
AATATTTACAGAAAAAAGACAACCAAATTTT
Found at i:23687587 original size:13 final size:13
Alignment explanation
Indices: 23687571--23687595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23687561 TCGTGAATGA
23687571 TATTAATCTAAAG
1 TATTAATCTAAAG
23687584 TATTAATCTAAA
1 TATTAATCTAAA
23687596 TTAAACTAAG
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TATTAATCTAAAG
Found at i:23710225 original size:26 final size:26
Alignment explanation
Indices: 23710189--23710242 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
23710179 ATTCTAGGCG
23710189 CAATTTTGGACACT-TTCATGCAGCGA
1 CAATTTTGGACA-TGTTCATGCAGCGA
*
23710215 CAATTTTGGACATGTTTATGCAGCGA
1 CAATTTTGGACATGTTCATGCAGCGA
23710241 CA
1 CA
23710243 TTCATAGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (26 bp):
CAATTTTGGACATGTTCATGCAGCGA
Found at i:23710271 original size:37 final size:38
Alignment explanation
Indices: 23710230--23710319 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
23710220 TTGGACATGT
*
23710230 TTATGCAGCGACA-TTCATAGGTGCAA-TTGAAGAATAC
1 TTATGCAGCGACAGTTC-TAGATGCAATTTGAAGAATAC
* * *
23710267 TTATGCAGCAATAGTTCTAGATGCAATTTGAAGAATAT
1 TTATGCAGCGACAGTTCTAGATGCAATTTGAAGAATAC
* *
23710305 TTACGCAGTGACAGT
1 TTATGCAGCGACAGT
23710320 CTTGGGTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
37 19 0.44
38 24 0.56
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (38 bp):
TTATGCAGCGACAGTTCTAGATGCAATTTGAAGAATAC
Done.