Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 63 of 332
Found at i:18877986 original size:3 final size:3
Alignment explanation
Indices: 18877978--18878004 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18877968 TTGTAAAATT
18877978 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
18878005 TATCACAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18879773 original size:21 final size:21
Alignment explanation
Indices: 18879747--18879789 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18879737 TGGTTGTTAT
18879747 ACACCTATAACAACACTTGAG
1 ACACCTATAACAACACTTGAG
* *
18879768 ACACCTATAATAACATTTGAG
1 ACACCTATAACAACACTTGAG
18879789 A
1 A
18879790 TTTAGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.23
Consensus pattern (21 bp):
ACACCTATAACAACACTTGAG
Found at i:18880590 original size:20 final size:19
Alignment explanation
Indices: 18880562--18880620 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 19
18880552 GCATTTAATT
18880562 AATTTAAAAAAATATTAAA
1 AATTTAAAAAAATATTAAA
18880581 AATTT-AAAAAATATATAAA
1 AATTTAAAAAAATAT-TAAA
* *
18880600 AGTTTTTAAAAAATAATTAAA
1 A-ATTTAAAAAAAT-ATTAAA
18880621 TGCTGATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 3 0.09
21 11 0.31
22 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AATTTAAAAAAATATTAAA
Found at i:18882732 original size:196 final size:196
Alignment explanation
Indices: 18882398--18882798 Score: 685
Period size: 196 Copynumber: 2.0 Consensus size: 196
18882388 GAAGATACCC
* * *
18882398 CACAATTCTGTTAATACTGCAAATTTCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGT
1 CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGC
18882463 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
66 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
* *
18882528 AACTTAAACCAATCATATGGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTATCAT
131 AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
18882593 A
196 A
* * *
18882594 CACAATTCCGTTAATACTGTAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGC
1 CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGC
*
18882659 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCATCAACATTC
66 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
* *
18882724 AACTTAAACCAATCCTGTAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
131 AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
18882789 A
196 A
*
18882790 AACTAATTC
1 CAC-AATTC
18882799 GTACAAAATT
Statistics
Matches: 192, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
196 187 0.97
197 5 0.03
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (196 bp):
CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGC
AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
A
Found at i:18884581 original size:13 final size:14
Alignment explanation
Indices: 18884543--18884579 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
18884533 TAAAAGTGAG
*
18884543 AAAACAAAAATTCA
1 AAAAGAAAAATTCA
18884557 AAAAGAAAAATTCA
1 AAAAGAAAAATTCA
18884571 AAAAGAAAA
1 AAAAGAAAA
18884580 TTAAAAGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.76, C:0.08, G:0.05, T:0.11
Consensus pattern (14 bp):
AAAAGAAAAATTCA
Found at i:18887868 original size:53 final size:53
Alignment explanation
Indices: 18887743--18887894 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
18887733 GACGGTTAAG
*
18887743 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT-C-ATAAGGCAAA
* * * *
18887798 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAA
* * *
18887851 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCA
18887895 AAAAAAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 47 0.55
54 1 0.01
55 37 0.44
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAA
Found at i:18891742 original size:19 final size:19
Alignment explanation
Indices: 18891707--18891757 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
18891697 GAAATGACAA
18891707 AGATGAGAAAT-AAATATG
1 AGATGAGAAATGAAATATG
18891725 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
18891744 A-ATTGATGAAATGA
1 AGA-TGA-GAAATGA
18891758 TATGTGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.40
19 11 0.37
20 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:18892736 original size:50 final size:51
Alignment explanation
Indices: 18892682--18892792 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 51
18892672 CTGTGTGACC
*
18892682 CAAGTTAATGAATT-GGGCAAAGACAC-GAGCTGGGACATGATCGTGTGTCT
1 CAAGTTAATGAATTAGGGCAAAGACACAG-GCTGGGACACGATCGTGTGTCT
* * * *
18892732 CAAGTTAGTGAGTTACACGGGTAGAGACACAGGCTGGGACACGATCGTGTGTCT
1 CAAGTTAATGAATT--A-GGGCAAAGACACAGGCTGGGACACGATCGTGTGTCT
18892786 CAAGTTA
1 CAAGTTA
18892793 GTGAGTTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
50 12 0.24
54 38 0.75
55 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (51 bp):
CAAGTTAATGAATTAGGGCAAAGACACAGGCTGGGACACGATCGTGTGTCT
Found at i:18892812 original size:54 final size:54
Alignment explanation
Indices: 18892702--18892814 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
18892692 AATTGGGCAA
* ** *
18892702 AGACACGAGCTGGGACATGATCGTGTGTCTCAAGTTAGTGAGTTACACGGGTAG
1 AGACACGAGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
18892756 AGACAC-AGGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
1 AGACACGA-GCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
18892810 AGACA
1 AGACA
18892815 TGGGCTAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (54 bp):
AGACACGAGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
Found at i:18892826 original size:54 final size:54
Alignment explanation
Indices: 18892714--18892827 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
18892704 ACACGAGCTG
* ** * *
18892714 GGACATGATCGTGTGTCTCAAGTTAGTGAGTTACACGGGTAGAGACACAGGCTG
1 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
**
18892768 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACATGGGCTA
1 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
18892822 GGACAC
1 GGACAC
18892828 AGCCCTGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (54 bp):
GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
Found at i:18894645 original size:2 final size:2
Alignment explanation
Indices: 18894638--18894668 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18894628 ACAAGCAAAA
18894638 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18894669 AAAAGCTCTC
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18895031 original size:19 final size:19
Alignment explanation
Indices: 18895007--18895045 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18894997 TAAAATTAAT
18895007 TTTTCTAAAAATATT-TTTA
1 TTTTCT-AAAATATTATTTA
*
18895026 TTTTCTAGAATATTATTTA
1 TTTTCTAAAATATTATTTA
18895045 T
1 T
18895046 CGATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:18901521 original size:46 final size:46
Alignment explanation
Indices: 18901469--18901697 Score: 289
Period size: 46 Copynumber: 5.0 Consensus size: 46
18901459 AGTGTGCTCT
*
18901469 CTGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
18901515 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCCTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
18901561 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** * *
18901607 ATGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGACAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
18901654 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18901698 TCATGTCAAA
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 125 0.76
47 39 0.24
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18901677 original size:93 final size:92
Alignment explanation
Indices: 18901474--18901702 Score: 280
Period size: 93 Copynumber: 2.5 Consensus size: 92
18901464 GCTCTCTGAT
* * * * ** *
18901474 ATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGAACAT
* * * *
18901539 GGTTGAAAGATACCCTGGCAACCTGAT
66 GGTTGAAAGATACCATGACAACATGAC
*
18901566 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGAACA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAATAAGAACA
18901631 TGGTTGAAAGATACCATGACAACATGAC
65 TGGTTGAAAGATACCATGACAACATGAC
* * * * *
18901659 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
18901703 TCAAAGATAA
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
92 45 0.38
93 73 0.62
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGAACAT
GGTTGAAAGATACCATGACAACATGAC
Found at i:18902002 original size:16 final size:17
Alignment explanation
Indices: 18901983--18902015 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18901973 ATGATGGAGT
18901983 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
18901999 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
18902016 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:18902940 original size:35 final size:35
Alignment explanation
Indices: 18902894--18902970 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
18902884 ATTAGATGCG
18902894 GAAGG-TTAGCTAAATCCATTATTGGAGATTGCCA
1 GAAGGTTTAGCTAAATCCATTATTGGAGATTGCCA
*
18902928 GAAGGTTTAGCTAAATCCATTATTGGAGATTTCCA
1 GAAGGTTTAGCTAAATCCATTATTGGAGATTGCCA
18902963 GAAGGTTT
1 GAAGGTTT
18902971 TGTTCTTCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 5 0.12
35 36 0.88
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (35 bp):
GAAGGTTTAGCTAAATCCATTATTGGAGATTGCCA
Found at i:18905126 original size:21 final size:21
Alignment explanation
Indices: 18905102--18905141 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18905092 TAAAAGTTAA
*
18905102 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
18905123 AAGTTAAAAGGCAAAACCA
1 AAGTTAAAAGGCAAAACCA
18905142 AATAATCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.17
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:18907132 original size:18 final size:18
Alignment explanation
Indices: 18907086--18907126 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18907076 TAAAGATCAA
18907086 AACTAAAATTTCTAATTG
1 AACTAAAATTTCTAATTG
*
18907104 AGCTAAAATTTCTAATTG
1 AACTAAAATTTCTAATTG
18907122 AACTA
1 AACTA
18907127 CGATTTTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
AACTAAAATTTCTAATTG
Found at i:18907686 original size:18 final size:18
Alignment explanation
Indices: 18907663--18907700 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18907653 AAACATTAAA
18907663 TTATATATTATCATCAAT
1 TTATATATTATCATCAAT
18907681 TTATATATTATCATCAAT
1 TTATATATTATCATCAAT
18907699 TT
1 TT
18907701 TGCAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATATATTATCATCAAT
Found at i:18912405 original size:23 final size:23
Alignment explanation
Indices: 18912362--18912405 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18912352 TAAAGCTCTC
*
18912362 ATCTTTAGTGTTCTTGTTTTTTT
1 ATCTTTAGTGTTCTTGCTTTTTT
*
18912385 ATCTTT-GTGTTAGTTGCTTTT
1 ATCTTTAGTGTT-CTTGCTTTT
18912406 CATTTAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.09, C:0.09, G:0.16, T:0.66
Consensus pattern (23 bp):
ATCTTTAGTGTTCTTGCTTTTTT
Found at i:18917693 original size:19 final size:19
Alignment explanation
Indices: 18917665--18917707 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18917655 GTGCATCATT
*
18917665 ATACTGGCACAC-ATAGTGC
1 ATACTAGCACACGA-AGTGC
18917684 ATACTAGCACACGAAGTGC
1 ATACTAGCACACGAAGTGC
18917703 ATACT
1 ATACT
18917708 GCTATATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
ATACTAGCACACGAAGTGC
Found at i:18918402 original size:16 final size:16
Alignment explanation
Indices: 18918343--18918417 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 16
18918333 TATATTACAT
* * *
18918343 TAAATCATAAAAGAGA
1 TAAATAATAAAATAAA
* *
18918359 TAAAT-ATCAAA-AAC
1 TAAATAATAAAATAAA
18918373 TAAATAATTAAAATAAA
1 TAAATAA-TAAAATAAA
18918390 TAAATAATAAAATAAA
1 TAAATAATAAAATAAA
*
18918406 CAAATAACTAAA
1 TAAATAA-TAAA
18918418 CTAGTTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
14 6 0.12
15 6 0.12
16 24 0.49
17 13 0.27
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAATAATAAAATAAA
Found at i:18925756 original size:18 final size:20
Alignment explanation
Indices: 18925728--18925772 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
18925718 TTTATTCTCA
18925728 TTTTA-TTTTATTT-TA-CT
1 TTTTAGTTTTATTTCTATCT
18925745 TTTTAGTTTTATTTCTATCT
1 TTTTAGTTTTATTTCTATCT
18925765 TTTT-GTTT
1 TTTTAGTTT
18925773 ATTATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 6 0.24
20 6 0.24
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTAGTTTTATTTCTATCT
Found at i:18926686 original size:51 final size:51
Alignment explanation
Indices: 18926622--18926847 Score: 269
Period size: 51 Copynumber: 4.7 Consensus size: 51
18926612 TGGAAACATG
* *
18926622 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* *
18926673 ATCTTATAAGATATTATATTATAATCTTAGAGATCCTAGATATGATAT-G-
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
18926722 -----AT---AT-T-ATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
18926763 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * * *
18926814 ATATTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATATTATAATCTTAGAGAT
18926848 TTGATTTGTA
Statistics
Matches: 152, Mismatches: 11, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
39 32 0.21
40 2 0.01
41 2 0.01
44 2 0.01
46 2 0.01
49 2 0.01
50 2 0.01
51 108 0.71
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:18926728 original size:39 final size:39
Alignment explanation
Indices: 18926682--18926760 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
18926672 AATCTTATAA
18926682 GATATTATATTATAATCTTAGAGATCCTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCCTAGATATGATAT
*
18926721 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATCCTAGATATGATAT
18926760 G
1 G
18926761 GAATCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (39 bp):
GATATTATATTATAATCTTAGAGATCCTAGATATGATAT
Found at i:18926777 original size:90 final size:90
Alignment explanation
Indices: 18926631--18926811 Score: 326
Period size: 90 Copynumber: 2.0 Consensus size: 90
18926621 GATCTTAAAA
*
18926631 GATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
18926696 ATCTTAGAGATCCTAGATATGATAT
66 ATCTTAGAGATCCTAGATATGATAT
*
18926721 GATATTATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
* *
18926786 TTCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAGATCCTAGATATGATAT
18926811 G
1 G
18926812 TAATATTAGA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (90 bp):
GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
ATCTTAGAGATCCTAGATATGATAT
Found at i:18928669 original size:96 final size:96
Alignment explanation
Indices: 18928503--18928696 Score: 273
Period size: 96 Copynumber: 2.0 Consensus size: 96
18928493 GTGTCCAAGG
* * * * * * *
18928503 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAGGAAGCTTGGTTCGAGCAAGAG
1 AAGTCTGTCATCAAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGAG
*
18928568 AAAAGCCAAAGCCAAGAGGGC-AAAGAGGAGC
66 AAAAGCCAAAACCAAGAGGGCTAAA-AGGAGC
* *
18928599 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGAG
*
18928664 TAAAGCCAAAACCAAGAGGGCTAAAAGGAGC
66 AAAAGCCAAAACCAAGAGGGCTAAAAGGAGC
18928695 AA
1 AA
18928697 AAAGAAGCGA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 83 0.97
97 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCAAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGAG
AAAAGCCAAAACCAAGAGGGCTAAAAGGAGC
Found at i:18929667 original size:51 final size:51
Alignment explanation
Indices: 18929603--18929828 Score: 278
Period size: 51 Copynumber: 4.7 Consensus size: 51
18929593 TGGGAACATG
* *
18929603 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
*
18929654 ATCTTATAAGATATTATATTATAATCTTAGAGATCTTAGATATG--AT---
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
18929700 A--TTAT---AT-T-ATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
18929744 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * * *
18929795 ATATTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATATTATAATCTTAGAGAT
18929829 TTGATTTGTA
Statistics
Matches: 154, Mismatches: 9, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
39 29 0.19
40 1 0.01
41 4 0.03
44 5 0.03
46 5 0.03
49 4 0.03
50 1 0.01
51 105 0.68
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:18929710 original size:39 final size:39
Alignment explanation
Indices: 18929664--18929740 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
18929654 ATCTTATAAG
18929664 ATATTATATTATAATCTTAGAGATCTTAGATATGATATT
1 ATATTATATTATAATCTTAGAGATCTTAGATATGATATT
18929703 ATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 ATATTATATTATAATCTTAGAGATCTTAGATATGATAT
18929741 GGAATCTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.45
Consensus pattern (39 bp):
ATATTATATTATAATCTTAGAGATCTTAGATATGATATT
Found at i:18929740 original size:29 final size:29
Alignment explanation
Indices: 18929611--18929705 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 29
18929601 TGATCTTAAA
*
18929611 AGATATGATTTTATAATCTTAGAGATCTT
1 AGATATGATATTATAATCTTAGAGATCTT
** *
18929640 AGATATGATA-TGGAATCTT----A--TA
1 AGATATGATATTATAATCTTAGAGATCTT
*
18929662 AGATATTATATTATAATCTTAGAGATCTT
1 AGATATGATATTATAATCTTAGAGATCTT
18929691 AGATATGATATTATA
1 AGATATGATATTATA
18929706 TTATATTATA
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
22 10 0.20
23 7 0.14
24 1 0.02
27 1 0.02
28 7 0.14
29 24 0.48
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (29 bp):
AGATATGATATTATAATCTTAGAGATCTT
Found at i:18929758 original size:90 final size:92
Alignment explanation
Indices: 18929621--18929800 Score: 337
Period size: 90 Copynumber: 2.0 Consensus size: 92
18929611 AGATATGATT
18929621 TTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATAATCTTAGAG
1 TTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATAATCTTAGAG
18929686 ATCTTAGATATGATAT-T-ATATTATA
66 ATCTTAGATATGATATGTAATATTATA
*
18929711 TTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATATTCTTAGAG
1 TTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATAATCTTAGAG
18929776 ATCTTAGATATGATATGTAATATTA
66 ATCTTAGATATGATATGTAATATTA
18929801 GAAGATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
90 80 0.92
91 1 0.01
92 6 0.07
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (92 bp):
TTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATAATCTTAGAG
ATCTTAGATATGATATGTAATATTATA
Found at i:18932237 original size:43 final size:44
Alignment explanation
Indices: 18932171--18932300 Score: 133
Period size: 45 Copynumber: 3.0 Consensus size: 44
18932161 TTTTCTCAAA
* *
18932171 TCACCGGCATT-TCGCCTGGTAGGCTC-AAGGCCCGATATAAT-T
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA-ATAATCT
* * *
18932213 TCACCGGCTTTATAGCCTGCTAGGCTCGAAGGCCCAAATAGTATCT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA--ATCT
* * *
18932259 T-ACCGACATTATAGTCTGCTAAGCTCAAAGGCCCGAATAATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATC
18932301 AAATCAACAA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
42 10 0.14
43 19 0.26
44 8 0.11
45 34 0.47
46 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATCT
Found at i:18932677 original size:43 final size:43
Alignment explanation
Indices: 18932629--18932740 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
18932619 CCAGCATTAC
*
18932629 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
18932672 GCCTGCTAGGCATGAAAGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18932715 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
18932741 TAATACCAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:18932803 original size:38 final size:38
Alignment explanation
Indices: 18932733--18932856 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
18932723 GGCACGAAGG
* * * * *
18932733 CCCGAATATAATACCAGCACTAGGCTTACGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
* *
18932771 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
** *
18932809 CCCGGATATTTTACCAGCACGAAGCCTACGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGG-ATTTAA
18932848 GCCCGGATA
1 -CCCGGATA
18932857 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:18937973 original size:12 final size:12
Alignment explanation
Indices: 18937956--18937985 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18937946 CGCAACGTTC
*
18937956 TATCTTTTCATT
1 TATCTTTCCATT
18937968 TATCTTTCCATT
1 TATCTTTCCATT
18937980 TATCTT
1 TATCTT
18937986 CTTTATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:18945139 original size:47 final size:46
Alignment explanation
Indices: 18944944--18945254 Score: 161
Period size: 47 Copynumber: 6.6 Consensus size: 46
18944934 TTGCCAATGC
* * * *
18944944 CATGTCCCAAACATGGTCTTACATTGGCTAGCATCATCGAGGCCGATG
1 CATGTCCCAGACA-GGTCTTACACTGGC-ATCATCATCAAGGCCGATG
* * *
18944992 CCATGTCCCAGACATGGTCTTATACTAGC-TC-TCTTAT-ATACGTGCTGATG
1 -CATGTCCCAGACA-GGTCTTACACTGGCATCATC--ATCA-A-G-GCCGATG
* * * * * **
18945042 CATGTCCCAAACATGTCTTACACTAGCA-CAAC-TCTTA-TTCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCATCATCATC-AAGGCCGATG
** *
18945086 TGTGTCCCAGACACGTCTTACACTGGCTATCATCATCAAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGGC-ATCATCATCAAGGCCGATG
* * * *
18945133 CATGTCCCAGACATGTCTTACACTGGCATTCATC-TCTACGCCAATG
1 CATGTCCCAGACAGGTCTTACACTGGCA-TCATCATCAAGGCCGATG
* * * * ** *
18945179 TCATGTCCCAGATATGGTCTTATACTGGCACTGATAAT-GTGGCCAATG
1 -CATGTCCCAGACA-GGTCTTACACTGGCA-TCATCATCAAGGCCGATG
* *
18945227 CATGTCACAGACATGTCTTACACTGGCA
1 CATGTCCCAGACAGGTCTTACACTGGCA
18945255 CACAAGAAAT
Statistics
Matches: 202, Mismatches: 43, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
44 26 0.13
45 1 0.00
46 30 0.15
47 61 0.30
48 39 0.19
49 39 0.19
50 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACAGGTCTTACACTGGCATCATCATCAAGGCCGATG
Found at i:18947774 original size:46 final size:48
Alignment explanation
Indices: 18947572--18947795 Score: 190
Period size: 46 Copynumber: 4.8 Consensus size: 48
18947562 AAGCTGACGC
* * ** * *
18947572 CATGTCCCAGATAGGTCTTACACTAGCT-TGTGTATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATATCTCAAGGCCGATG
* * * * * ** *
18947620 TATGTTCTAGACATGTCTTACACTAGCTCTC--GTCTCAATGTAGACG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCTCAAGGCCGATG
* * *
18947666 CATGTCCCAGACATTTCTTACACTGGCT-TAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATATCTCAAGGCCGATG
* ** *
18947714 CATGCCCCAGACATGTCTTACACTAGCTCTCATA-CT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCTCAAGGCCGATG
*
18947760 CATGTCCCAGACATGTCTTACACTAGCTCACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATC
18947796 ACCCATTATC
Statistics
Matches: 137, Mismatches: 33, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.51
47 3 0.02
48 61 0.45
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATATCTCAAGGCCGATG
Found at i:18947795 original size:94 final size:93
Alignment explanation
Indices: 18947567--18947787 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 93
18947557 ACTACAAGCT
* * *** * * ** *
18947567 GACGCCATGTCCCAGATAGGTCTTACACTAGCTTGTGTATCGCGAGGCCGATGTATGTTCTAGAC
1 GACG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCGATGCATGCCCCAGAC
*
18947632 ATGTCTTACACTAGCTCTCGTCTCAATGTA
65 ATGTCTTACACTAGCTCTCATCT-AATGTA
* * *
18947662 GACGCATGTCCCAGACATTTCTTACACTGGCTTAAATATCTCAAGGCCGATGCATGCCCCAGACA
1 GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCGATGCATGCCCCAGACA
*
18947727 TGTCTTACACTAGCTCTCATACT-GTGGCT-
66 TGTCTTACACTAGCTCTCAT-CTAAT-G-TA
*
18947756 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 GACGCATGTCCCAGACATGTCTTACACTAGCT
18947788 CACATATCAC
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 97 0.92
95 7 0.07
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCAAGGCCGATGCATGCCCCAGACA
TGTCTTACACTAGCTCTCATCTAATGTA
Found at i:18955794 original size:21 final size:21
Alignment explanation
Indices: 18955768--18955808 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18955758 ATCTGCTCAA
* *
18955768 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18955789 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18955809 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18971812 original size:30 final size:30
Alignment explanation
Indices: 18971778--18971843 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
18971768 TTCAAATACT
* *
18971778 AAATTGGGTACCCAACTAA-AAATAAGTATC
1 AAATTGGATACCAAACTAAGAAA-AAGTATC
*
18971808 AAATTTGGATACCAAATTAAGAAAAAGTATC
1 AAA-TTGGATACCAAACTAAGAAAAAGTATC
18971839 AAATT
1 AAATT
18971844 CAAGTACCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 23 0.74
32 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (30 bp):
AAATTGGATACCAAACTAAGAAAAAGTATC
Found at i:18978774 original size:4 final size:4
Alignment explanation
Indices: 18978765--18978817 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
18978755 TTTTCCTTTG
* * * * * *
18978765 TATT TATT TATC TATT TATA TATT TATA CATT TATC TATT TATT TCTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
18978813 TATT T
1 TATT T
18978818 CTTTTTGTGT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (4 bp):
TATT
Found at i:18979029 original size:3 final size:3
Alignment explanation
Indices: 18979023--18979056 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
18979013 TTTATGTGCA
18979023 TAT TAT TAT TAT TAT TATT TAT T-T TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
18979057 TTTTCCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:18979049 original size:15 final size:16
Alignment explanation
Indices: 18979025--18979057 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
18979015 TATGTGCATA
18979025 TTATTATTATTATTAT
1 TTATTATTATTATTAT
18979041 TTATT-TTATTATTAT
1 TTATTATTATTATTAT
18979056 TT
1 TT
18979058 TTTCCTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:18984065 original size:46 final size:46
Alignment explanation
Indices: 18983973--18984096 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 46
18983963 ATAATCTCAC
* * *
18983973 CCATAATGAACTCGGAACACAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACACAAATCAACGAGCTCAGATGTTCGCAT
* *
18984019 CCATAATGAACTCGGAGCACAAATCAACGAGTTCAGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAAATCAACGAGCTCAGATG-TTCGCAT
* * * *
18984065 CTATAGGTAAACTCGGAA-AGCAACTCAACGAG
1 CCATA-ATGAACTCGGAACA-CAAATCAACGAG
18984097 TTCGAATGCC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 43 0.66
47 22 0.34
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAAATCAACGAGCTCAGATGTTCGCAT
Found at i:18990269 original size:21 final size:21
Alignment explanation
Indices: 18990243--18990286 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
18990233 AAGTCAATTC
*
18990243 CATGTCCCAAACATGGTCTTA
1 CATGTCCCAAACATGGTATTA
*
18990264 CATGTCCCAGACATGGTATTA
1 CATGTCCCAAACATGGTATTA
18990285 CA
1 CA
18990287 CTGACTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
CATGTCCCAAACATGGTATTA
Found at i:18990500 original size:46 final size:46
Alignment explanation
Indices: 18990264--18990529 Score: 177
Period size: 46 Copynumber: 5.6 Consensus size: 46
18990254 CATGGTCTTA
* * * * *
18990264 CATGTCCCAGACATGGTATTACACT-GACTATCGTCATCGAGGCCGACGC
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATC-TC-ATGCCGATGC
* * *
18990313 CATGTCCCAGACATGGTATTACACTAGCTCTCACATATCCGTGCCGATGC
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT--CATCT-CATGCCGATGC
** * *
18990363 CATGTCCCAGACATGGTCTTACAC--GGACACATCTCGTAGCCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAT-GCCGATGC
* * * * *
18990408 CATGTCCCAGATATGTCTTATACTGGCT-T-ATGTCTCGAGGCTGATG-
1 CATGTCCCAGACATGTCTTACACTAGCTCTCA--TCTC-ATGCCGATGC
*
18990454 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGCCGATGC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATGCCGATGC
*
18990501 CATGTCCTAGACATGATCTTACACTAGCT
1 CATGTCCCAGACATG-TCTTACACTAGCT
18990530 TATAATAACC
Statistics
Matches: 175, Mismatches: 28, Indels: 29
0.75 0.12 0.12
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 57 0.33
47 14 0.08
48 16 0.09
49 28 0.16
50 32 0.18
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATGCCGATGC
Found at i:18990521 original size:138 final size:143
Alignment explanation
Indices: 18990264--18990524 Score: 345
Period size: 138 Copynumber: 1.9 Consensus size: 143
18990254 CATGGTCTTA
*
18990264 CATGTCCCAGACATGGTATTACACTGACTATCGTCATCGAGGCCGACGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTATTACACTGACTATCGTCATCGAGGCCGACGCCATGTCCCAAACATGG
** *
18990329 TATTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCCCAGACATGGTCTTACACGGACACA
66 TATTACACTAGCTCT-ACATATCAATGCCGATGCCATGTCCCAGACATGATCTTACACGGACACA
18990394 TCTCGTAGCCGATG
130 TCTCGTAGCCGATG
* * * * * *
18990408 CATGTCCCAGATAT-GTCTTATACTGGCTTAT-GTC-TCGAGGCTGATG-CATGTCCCAAACAT-
1 CATGTCCCAGACATGGTATTACACTGAC-TATCGTCATCGAGGCCGACGCCATGTCCCAAACATG
* * *
18990468 GTCTTACACTAGCTCT-CATCTCAATGCCGATGCCATGTCCTAGACATGATCTTACAC
65 GTATTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACATGATCTTACAC
18990525 TAGCTTATAA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
138 36 0.35
140 15 0.15
141 13 0.13
142 10 0.10
143 13 0.13
144 16 0.16
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
CATGTCCCAGACATGGTATTACACTGACTATCGTCATCGAGGCCGACGCCATGTCCCAAACATGG
TATTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACATGATCTTACACGGACACAT
CTCGTAGCCGATG
Found at i:18993437 original size:44 final size:44
Alignment explanation
Indices: 18993374--18994186 Score: 342
Period size: 44 Copynumber: 17.9 Consensus size: 44
18993364 CATTATGGCG
*
18993374 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * *
18993418 AATCTTATCTTCCTAAAGTTGCGGTGGAGCAGATTAAAGCAACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * *
18993462 AATCCTATAC-CCCTGAAGTTGCAGTGG-G-ATGGATTGAAATCATCATGGCG
1 AATCTTAT-CTCCCTAAAGTTGCAGTGGAGCA--GATTG-AAGC--CA---CT
* * * *
18993512 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * *** *
18993556 AATCTTATCTCCTTAAAGTTGTAGTGGAGCATATTGAAGATGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * * * ** *
18993600 ACA-CTTGTTTCCCTAAAGTTGCAATGGAACAAATTAAAATTTCAAGTTACA
1 A-ATCTTATCTCCCTAAAGTTGCAGTGGAGC------AGA-TTGAAGCCACT
* * * * ** *
18993651 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** *
18993695 AATCTTATCTCCCTGAAGCTGTAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* * * * * ** *
18993740 AATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGATATCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* * * * * ** *
18993785 AATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * ** *
18993829 AATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTGAAGATATCA
1 AATCTTATCTCCCTAAAGTTGCAG-TGGAGCAGATTGAAGCCA-CT
* * * * ** *
18993874 AATCTTATCTCACTGAAGTTACAATGGAGCAGATTGAAGATATCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
** * * * ** *
18993919 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** *
18993963 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* ** ** *
18994008 AATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGATAACG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-CCACT
* * * *
18994053 AATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTT
1 AATCTTA-TCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC--C-A-CT
* * * * *** *
18994101 ACAACTCTTATCTCCATGAAGTTGTAGTGAAGCAGATTGAAGATGCG
1 --AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * *
18994148 AATCTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
18994187 TGAAAAATCC
Statistics
Matches: 610, Mismatches: 123, Indels: 72
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.00
43 2 0.00
44 274 0.45
45 231 0.38
46 2 0.00
47 3 0.00
49 4 0.01
50 35 0.06
51 57 0.09
52 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
Found at i:18993619 original size:138 final size:139
Alignment explanation
Indices: 18993324--18993740 Score: 425
Period size: 138 Copynumber: 3.0 Consensus size: 139
18993314 AGAAACCATA
* * *
18993324 AATCTTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATTATGGCGAATCTTATCTCCCTA
1 AATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCTG
* * * **
18993389 AAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTAAAGTTGCGGTGGAGCAGATT-
66 AAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATC-TCCTAAAGTTGTAGTGGAGCAGATTG
18993453 AA-A-GCAAC
130 AAGATGCAAC
*
18993461 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAATCATCATGGCGAATCTTATCTCCCT
1 -AATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* *
18993526 GAAGTTGCAATGGAGCAGATTGAAGCTAATAATCTTATCTCCTTAAAGTTGTAGTGGAGCATATT
65 GAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATCTCC-TAAAGTTGTAGTGGAGCAGATT
*
18993591 GAAGATGCGAC
129 GAAGATGCAAC
* * ** * * * *** * ** * *
18993602 -A-CTTGTTTCCCTAAAGTTGCAATGGAACAAATTAAAAT-TTCAAGTTACAAATCTTATCTCTC
1 AATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATC-A-TGGCGAATCTTATCTCCC
* * * * *
18993664 TGAAGTTGCAGTAGAGCAGATTAAAGTTACA-AATCTTATCTCCCTGAAGCTGTAGTGGAGCAGA
64 TGAAGTTGCAGTGGAGCAGATTGAAGCTA-ATAATCTTATCT-CCTAAAGTTGTAGTGGAGCAGA
18993728 TTGAAGATAGCAA
127 TTGAAGAT-GCAA
18993741 ATCTTATCTC
Statistics
Matches: 234, Mismatches: 36, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
137 5 0.02
138 141 0.60
139 77 0.33
140 7 0.03
141 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (139 bp):
AATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATCTCCTAAAGTTGTAGTGGAGCAGATTGA
AGATGCAAC
Found at i:18993759 original size:89 final size:90
Alignment explanation
Indices: 18993649--18994216 Score: 492
Period size: 89 Copynumber: 6.3 Consensus size: 90
18993639 TTTCAAGTTA
*
18993649 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTA-CAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATATCAAATCTTATCTCCCTGAAG
* * *
18993713 CTGTAGTGGAGCAGATTGAAGATAG
66 TTGCAGTAGAGCAGATTGAAGATAG
* * * * **
18993738 CAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGATATCAAATCTTATCTCTCAAAAG
1 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATATCAAATCTTATCTCCCTGAAG
* * *
18993803 TTGTAGTAGAGTAGATTGAAGTTA-
66 TTGCAGTAGAGCAGATTGAAGATAG
* * * *
18993827 CAAATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTGAAGATATCAAATCTTATCTCACTGAA
1 CAAATCTTATCTCTCTGAAGTTGCAG-TAGAGCAGATTAAAGATATCAAATCTTATCTCCCTGAA
* * * *
18993891 GTTACAATGGAGCAGATTGAAGATAT
65 GTTGCAGTAGAGCAGATTGAAGATAG
* * * *
18993917 CAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTA-CAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATATCAAATCTTATCTCCCTGAAG
*
18993981 TTGCAGTAGAGTAGATTGAAGATAG
66 TTGCAGTAGAGCAGATTGAAGATAG
* * * * ** * * * **
18994006 CAAATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGATAACGAATCTTAGT-TCCCCAAA
1 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATATCAAATCTTA-TCTCCCTGAA
* * * *
18994070 GTTGCAGTGGAACAGATTAAAGCTACAAG
65 GTTGCAGTAGAGCAGATTGAAG--A-TAG
* * * * * *
18994099 TTACAACTCTTATCTC-CATGAAGTTGTAGT-GAAGCAGATTGAAGAT-GCGAATCTTATTTCCC
1 ---CAAATCTTATCTCTC-TGAAGTTGCAGTAG-AGCAGATTAAAGATATCAAATCTTATCTCCC
* *
18994161 TGAAGTTGCAGTGGAGTAGATTGAAG-T-G
61 TGAAGTTGCAGTAGAGCAGATTGAAGATAG
* *
18994189 AAAAATCCTATAC-CTCTGAAGTTGCAGT
1 -CAAATCTTAT-CTCTCTGAAGTTGCAGT
18994217 GGGTTAGAAT
Statistics
Matches: 392, Mismatches: 70, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
88 21 0.05
89 189 0.48
90 107 0.27
91 2 0.01
92 1 0.00
93 2 0.01
94 1 0.00
95 36 0.09
96 33 0.08
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (90 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGATATCAAATCTTATCTCCCTGAAG
TTGCAGTAGAGCAGATTGAAGATAG
Found at i:18993780 original size:45 final size:44
Alignment explanation
Indices: 18993647--18994216 Score: 486
Period size: 45 Copynumber: 12.7 Consensus size: 44
18993637 AATTTCAAGT
* *
18993647 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGT
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* * * *
18993691 TACAAATCTTATCTCCCTGAAGCTGTAGTGGAGCAGATTGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* * * *
18993735 TAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
** * * *
18993780 TATCAAATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGT
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* *
18993825 TACAAATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAG-TAGAGCAGATTGAAGA
* * * *
18993869 TATCAAATCTTATCTCACTGAAGTTACAATGGAGCAGATTGAAGA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* * *
18993914 TATCAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGT
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* *
18993959 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* * * * **
18994003 TAGCAAATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* * ** * * *
18994048 TAACGAATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGT
1 T-ACAAATCTTA-TCTCTCTGAAGTTGCAGTAGAGCAGATT---G----AAGA
* *
18994100 TACAACTCTTATCTC-CATGAAGTTGTAGT-GAAGCAGATTGAAGA
1 TACAAATCTTATCTCTC-TGAAGTTGCAGTAG-AGCAGATTGAAGA
* * * * * *
18994144 TGCGAATCTTATTTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
* *
18994187 TGAAAAATCCTATAC-CTCTGAAGTTGCAGT
1 T-ACAAATCTTAT-CTCTCTGAAGTTGCAGT
18994217 GGGTTAGAAT
Statistics
Matches: 435, Mismatches: 70, Indels: 42
0.80 0.13 0.08
Matches are distributed among these distances:
43 2 0.00
44 173 0.40
45 223 0.51
46 2 0.00
48 2 0.00
50 3 0.01
51 26 0.06
52 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (44 bp):
TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGA
Found at i:18993826 original size:134 final size:133
Alignment explanation
Indices: 18993512--18994170 Score: 583
Period size: 134 Copynumber: 4.8 Consensus size: 133
18993502 CATCATGGCG
* * * * * * *
18993512 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTA-ATAATCTTATCTCCTTAAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACA-AATCTTATCTCCCTGAAGTT
* * * * * * * *
18993576 GTAGTGGAGCATATTGAAGAT-GCGACA-CTTGTTTCCCTAAAGTTGCAATGGAACAAATTAAA-
65 G-AGTGGAGCAGATTGAAGATAGC-AAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAG
18993638 ATTTCAAGTTACA
128 A--T--A--T-CA
* * *
18993651 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGCTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * *
18993716 TAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGAT
66 -AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGAT
18993781 ATCA
130 ATCA
** * *
18993785 AATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGTTACAAATCTTATCTCACTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * * * *
18993850 CGATGGAGCAGATTGAAGATATCAAATCTTATCTCACTGAAGTTACAATGGAGCAGATTGAAGAT
66 AG-TGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGAT
18993915 ATCA
130 ATCA
*
18993919 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * * ** *
18993984 CAGTAGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGAT
66 -AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGAT
* *
18994049 AACG
130 ATCA
* ** * ** * *
18994053 AATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAACTCTTATCTCCA
1 AATCTTA-TCTCTCTGAAGTTGCAGTAGAGTAGATT---G----AAGTTACAAATCTTATCTCCC
* * * * *
18994117 TGAAGTTGTAGTGAAGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAGTTGCA
58 TGAAGTTG-AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCA
18994171 GTGGAGTAGA
Statistics
Matches: 438, Mismatches: 68, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
133 1 0.00
134 259 0.59
135 3 0.01
137 2 0.00
139 77 0.18
140 52 0.12
141 44 0.10
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGATA
TCA
Found at i:18995813 original size:3 final size:3
Alignment explanation
Indices: 18995805--18995853 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
18995795 TCTTTCTCAC
*
18995805 TAT TAT TAT TAT TAT T-T TAT CTAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
18995850 TAT T
1 TAT T
18995854 TATGTATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:19001528 original size:7 final size:7
Alignment explanation
Indices: 19001516--19001543 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
19001506 CTCATGTCTA
19001516 TATAGAT
1 TATAGAT
19001523 TATAGAT
1 TATAGAT
19001530 TATAGAT
1 TATAGAT
19001537 TATAGAT
1 TATAGAT
19001544 AGATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TATAGAT
Found at i:19009961 original size:75 final size:76
Alignment explanation
Indices: 19009838--19010064 Score: 253
Period size: 75 Copynumber: 3.0 Consensus size: 76
19009828 TGGTTTCGAC
* ** * * * * *
19009838 AATTATAATCATCGGTATATCCGACTAGCACTAGGTGCAACTTCTGTCAATTTATTTGACTAGTG
1 AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCGCAACTTTTGTCAGTTTGTCTGACTAGTG
*
19009903 TTGGGCACA-T
66 CTGGGCACACT
* *
19009913 AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTAACTAGTG
1 AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCGCAACTTTTGTCAGTTTGTCTGACTAGTG
*
19009978 CTAGGCACACT
66 CTGGGCACACT
* * * * * *
19009989 -CTCTATATTTGTCAGT-TCATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAG
1 AAT-TATAATCGTCGGTAT-ATCCGACTAGTGCTAGGCGCAACTTTTGTCAGTTTGTCTGACTAG
19010052 TGCTGGGCACACT
64 TGCTGGGCACACT
19010065 CTCTATATTT
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
75 64 0.50
76 64 0.50
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (76 bp):
AATTATAATCGTCGGTATATCCGACTAGTGCTAGGCGCAACTTTTGTCAGTTTGTCTGACTAGTG
CTGGGCACACT
Found at i:19009982 original size:35 final size:35
Alignment explanation
Indices: 19009936--19010062 Score: 128
Period size: 35 Copynumber: 3.5 Consensus size: 35
19009926 GGTATATCCG
19009936 ACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTA
1 ACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTA
* ** *
19009971 ACTAGTGCTAGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTAGGCACA---AC--T-TTTGTCAGTTTGTCTA
* * *
19010012 ACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTG
1 ACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTA
*
19010047 ACTAGTGCTGGGCACA
1 ACTAGTGCTAGGCACA
19010063 CTCTCTATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 43 0.58
36 1 0.01
38 2 0.03
40 1 0.01
41 27 0.36
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (35 bp):
ACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTA
Found at i:19010015 original size:41 final size:41
Alignment explanation
Indices: 19009955--19010103 Score: 148
Period size: 41 Copynumber: 3.8 Consensus size: 41
19009945 AGGCACAACT
** * *
19009955 TTTGTCAGTTTGTCTAACTAGTGCTAGGCACACTCTCTATA
1 TTTGTCAGTTCATCCAACTAGTGCTGGGCACACTCTCTATA
* *
19009996 TTTGTCAGTTCATCCAACTAGTGCTGGGCGCA---AC--T-
1 TTTGTCAGTTCATCCAACTAGTGCTGGGCACACTCTCTATA
** **
19010031 TTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
1 TTTGTCAGTTCATCCAACTAGTGCTGGGCACACTCTCTATA
* *
19010072 TTTATCAGTTCATCCAACTAGCGCTGGGCACA
1 TTTGTCAGTTCATCCAACTAGTGCTGGGCACA
19010104 AAGTTTAGTT
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
35 27 0.32
36 1 0.01
38 2 0.02
40 1 0.01
41 53 0.63
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTGTCAGTTCATCCAACTAGTGCTGGGCACACTCTCTATA
Found at i:19010034 original size:76 final size:76
Alignment explanation
Indices: 19009931--19010104 Score: 285
Period size: 76 Copynumber: 2.3 Consensus size: 76
19009921 TCGTCGGTAT
* *
19009931 ATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTAACTAGTGCTAGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTAACTAGTGCTAGGCACACTCTCTATA
*
19009996 TTTGTCAGTTC
66 TTTATCAGTTC
* * *
19010007 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTAACTAGTGCTAGGCACACTCTCTATA
19010072 TTTATCAGTTC
66 TTTATCAGTTC
*
19010083 ATCCAACTAGCGCTGGGCACAA
1 ATCCAACTAGTGCTGGGCACAA
19010105 AGTTTAGTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 90 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (76 bp):
ATCCAACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCTAACTAGTGCTAGGCACACTCTCTATA
TTTATCAGTTC
Found at i:19012723 original size:34 final size:34
Alignment explanation
Indices: 19012647--19012728 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
19012637 CCCATCTCAG
* * *
19012647 TACAGTATCAAATATGCAGTAGGGCTTTAGCCTAT
1 TACAGTATC-AGTATGCAGTAGGGATTTAGCCCAT
* * *
19012682 AATAGTATCAGTATGCATTAGGGATTTAGCCCAT
1 TACAGTATCAGTATGCAGTAGGGATTTAGCCCAT
*
19012716 TACAGTATTAGTA
1 TACAGTATCAGTA
19012729 GCAATCATGC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
34 31 0.82
35 7 0.18
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (34 bp):
TACAGTATCAGTATGCAGTAGGGATTTAGCCCAT
Found at i:19016454 original size:25 final size:25
Alignment explanation
Indices: 19016404--19016454 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
19016394 CTATTAAAAA
* *
19016404 TTAGCTTTTTAAATTTATTGATTGT
1 TTAGATTTTTAAATTTATTGAATGT
*
19016429 TTAGATTTTTAAAATTT-TTTAATGT
1 TTAGATTTTT-AAATTTATTGAATGT
19016454 T
1 T
19016455 ATTATAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
TTAGATTTTTAAATTTATTGAATGT
Found at i:19023566 original size:13 final size:13
Alignment explanation
Indices: 19023548--19023595 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
19023538 TTTTCATTGT
19023548 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* *
19023561 TTTTGAGAAGTAC
1 TTTTGAAAAGTGC
*
19023574 TTTTGAGAAGTG-
1 TTTTGAAAAGTGC
19023586 TTTTGGAAAA
1 TTTT-GAAAA
19023596 ATTTAAGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 4 0.13
13 26 0.87
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:19034003 original size:38 final size:38
Alignment explanation
Indices: 19033961--19034169 Score: 226
Period size: 38 Copynumber: 5.5 Consensus size: 38
19033951 GCAGGCTATA
*
19033961 TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCG
** * *
19033999 TGCTGGTAA-TATATTTGGGTTAAATCCTGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGTAGGCTTCG
* * * *
19034037 TGCTGGTATTATATCCGGGATAAA-CCTCGCAGGTTTCG
1 TGCTGGAATTATATCCGGGTTAAATCC-CGTAGGCTTCG
*
19034075 TGCTGGTAA-TATATTCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGTAGGCTTCG
* * * *
19034113 TGCTGGTATTATATCTGGGTTAAATCCCGTAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCG
* *
19034151 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
19034170 CCTTTGAGCC
Statistics
Matches: 142, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
37 4 0.03
38 133 0.94
39 5 0.04
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCG
Found at i:19034075 original size:76 final size:76
Alignment explanation
Indices: 19033948--19034169 Score: 295
Period size: 76 Copynumber: 2.9 Consensus size: 76
19033938 GGCTTAAAGA
* * *
19033948 CCTGCAGGCTAT-ATGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATA
1 CCTGCAGGCT-TCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATA
*
19034012 TTTGGGTTAAAT
65 TTCGGGTTAAAT
*
19034024 CCTGCAGGCTTCGTGCTGGTATTATATCCGGGATAAA-CCTCGCAGGTTTCGTGCTGGTAATATA
1 CCTGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCC-CGCAGGCTTCGTGCTGGTAATATA
19034088 TTCGGGTTAAAT
65 TTCGGGTTAAAT
* * * * * * * *
19034100 CCCGTAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGTAGGCCTAGTGCTGGTATTATAT
1 CCTGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
19034165 TCGGG
66 TCGGG
19034170 CCTTTGAGCC
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
75 3 0.02
76 124 0.96
77 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (76 bp):
CCTGCAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATAT
TCGGGTTAAAT
Found at i:19034154 original size:114 final size:114
Alignment explanation
Indices: 19033961--19034169 Score: 321
Period size: 114 Copynumber: 1.8 Consensus size: 114
19033951 GCAGGCTATA
*
19033961 TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATATTTGGGTTAAATCC
1 TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCC
* * *
19034026 TGCAGGCTTCGTGCTGGTATTATATCCGGGATAAACCTCGCAGGTTTCG
66 CGCAGGCCTAGTGCTGGTATTATATCCGGGATAAACCTCGCAGGTTTCG
* * *
19034075 TGCTGGTAA-TATATTCGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
1 TGCTGG-AATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATATCTGGGTTAAATC
* *
19034139 CCGTAGGCCTAGTGCTGGTATTATATTCGGG
65 CCGCAGGCCTAGTGCTGGTATTATATCCGGG
19034170 CCTTTGAGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 83 0.98
115 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (114 bp):
TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATATCTGGGTTAAATCC
CGCAGGCCTAGTGCTGGTATTATATCCGGGATAAACCTCGCAGGTTTCG
Found at i:19040610 original size:47 final size:46
Alignment explanation
Indices: 19040542--19040848 Score: 182
Period size: 47 Copynumber: 6.6 Consensus size: 46
19040532 TGATTTGTAC
19040542 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * * *
19040588 GCCAGTGTAA-ATCCATGTCTGGGACATGGCATCGG-CATCCA-GACGAGG
1 GCCAGTGTAAGA--CATGTCTGGGACAT-GCTTCGGCCA--CATTATGAGA
* * * * *
19040636 GCTAGTGTAAGACATGTCTGGGACATGCTCCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * * * * *
19040682 GCTAGAGTAAAACATATCTGGGACATGCATT-GGCCTCGA-CA-GAGGTA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCAC-ATTATGA-G-A
* * ** * * * *
19040729 GCCAGTGTAAGACGTGTCTGGGACACGCAGCGGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATG-AGA
* * * *
19040773 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCGCGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGC-CACAT-TATGAGA
*
19040821 GCCAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
19040849 ACATTGACAA
Statistics
Matches: 195, Mismatches: 46, Indels: 37
0.70 0.17 0.13
Matches are distributed among these distances:
44 29 0.15
45 8 0.04
46 49 0.25
47 59 0.30
48 32 0.16
49 18 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
Found at i:19043154 original size:16 final size:16
Alignment explanation
Indices: 19043135--19043174 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
19043125 TTCTAGTGAG
*
19043135 ATTGAATTCGAATCGA
1 ATTGAATCCGAATCGA
*
19043151 ATTGAATCCGAATTGA
1 ATTGAATCCGAATCGA
19043167 ATTGAATC
1 ATTGAATC
19043175 AAATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (16 bp):
ATTGAATCCGAATCGA
Found at i:19043533 original size:18 final size:19
Alignment explanation
Indices: 19043487--19043536 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
19043477 TGACGTGATC
19043487 AATAATTCAATTAATAGAATA
1 AATAATTCAA-T-ATAGAATA
*
19043508 AA-AATTCAATAT-GATTA
1 AATAATTCAATATAGAATA
19043525 AATAATTCAATA
1 AATAATTCAATA
19043537 ATATAAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 11 0.41
19 1 0.04
20 7 0.26
21 2 0.07
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (19 bp):
AATAATTCAATATAGAATA
Found at i:19051118 original size:6 final size:6
Alignment explanation
Indices: 19051109--19051170 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
19051099 ACATAAAAGG
* * *
19051109 AAAAAT AAAAAT -AAAAT AAAAGAT AAAAAT AAAGAT AAAGAT AAACAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT
*
19051157 AAACAT AAAAAT AA
1 AAAAAT AAAAAT AA
19051171 TCGGACTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.10
6 40 0.78
7 6 0.12
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:19051122 original size:18 final size:18
Alignment explanation
Indices: 19051101--19051159 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
19051091 CAAAATAGAC
19051101 ATAAAAGGAAAA-ATAAAA
1 ATAAAA-GAAAAGATAAAA
*
19051119 ATAAAATAAAAGATAAAA
1 ATAAAAGAAAAGATAAAA
*
19051137 AT-AAAGATAAAGATAAAC
1 ATAAAAGA-AAAGATAAAA
19051155 ATAAA
1 ATAAA
19051160 CATAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.23
18 25 0.71
19 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (18 bp):
ATAAAAGAAAAGATAAAA
Found at i:19054075 original size:31 final size:31
Alignment explanation
Indices: 19054040--19054101 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
19054030 TGCAACACGA
*
19054040 GGGTCTACTTCATCTAACAGTACTTTGTCTC
1 GGGTCTACTTCATCTAACACTACTTTGTCTC
19054071 GGGTCTACTTCATCTAACACTACTTTGTCTC
1 GGGTCTACTTCATCTAACACTACTTTGTCTC
19054102 CAACCTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (31 bp):
GGGTCTACTTCATCTAACACTACTTTGTCTC
Found at i:19060677 original size:33 final size:35
Alignment explanation
Indices: 19060613--19060686 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 35
19060603 CATGTGGGAG
*
19060613 CTTGTACCAAATCCATTTGATCCTCGATTTAATTA
1 CTTGTACCAAAGCCATTTGATCCTCGATTTAATTA
*
19060648 CTTGTA-CAAAGCCATTTGAT-GTCGATTTAATTA
1 CTTGTACCAAAGCCATTTGATCCTCGATTTAATTA
19060681 CTTGTA
1 CTTGTA
19060687 AGTGGGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 18 0.49
34 13 0.35
35 6 0.16
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (35 bp):
CTTGTACCAAAGCCATTTGATCCTCGATTTAATTA
Found at i:19066735 original size:18 final size:18
Alignment explanation
Indices: 19066712--19066749 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19066702 TCGTGAAATT
19066712 ATTCGTAACAACATGAGC
1 ATTCGTAACAACATGAGC
19066730 ATTCGTAACAACATGAGC
1 ATTCGTAACAACATGAGC
19066748 AT
1 AT
19066750 GGGTTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (18 bp):
ATTCGTAACAACATGAGC
Found at i:19078658 original size:63 final size:62
Alignment explanation
Indices: 19078591--19078738 Score: 154
Period size: 63 Copynumber: 2.4 Consensus size: 62
19078581 GCTTGTTATG
* * *
19078591 GTGCTTGTGTAAAATAAACTAGTGCTAAATGTGTTGATGCAAGGAATG-GTTGTGCGTGCTGT
1 GTGCTTGTGTAAAATAAACTAGAGCTAAAGGTGTTGATGCAAGGAATGAG-TGTGCATGCTGT
* * * * **
19078653 AGTGCTTATGTAAAATAAATTGGAGCTGAAGGTGTTGATGTGAGGAATGAGTGTGCATGCTGT
1 -GTGCTTGTGTAAAATAAACTAGAGCTAAAGGTGTTGATGCAAGGAATGAGTGTGCATGCTGT
* * *
19078716 GATGTTTGTGTCATATAAACTAG
1 G-TGCTTGTGTAAAATAAACTAG
19078739 GTTAGAACCA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
62 1 0.01
63 66 0.97
64 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (62 bp):
GTGCTTGTGTAAAATAAACTAGAGCTAAAGGTGTTGATGCAAGGAATGAGTGTGCATGCTGT
Found at i:19094070 original size:27 final size:27
Alignment explanation
Indices: 19094023--19094077 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
19094013 ATACTTGAAT
*
19094023 TCATTTCAAGTTTCACATCTCATTTCA
1 TCATTTCAAGTTTCACATCTCATCTCA
* **
19094050 TCATTTCATGTTTCATTTCTCATCTCA
1 TCATTTCAAGTTTCACATCTCATCTCA
19094077 T
1 T
19094078 ATTCCTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (27 bp):
TCATTTCAAGTTTCACATCTCATCTCA
Found at i:19094115 original size:43 final size:42
Alignment explanation
Indices: 19094065--19094149 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
19094055 TCATGTTTCA
* *
19094065 TTTCTCATCTCATATTCCTTTCTCAA-CTTTTTCATTTCAATAT
1 TTTCTCATCTCATATTCATTTCT-AATCTTTTCCA-TTCAATAT
19094108 TTTCTCATCTCATATTCATTTCTAATCTTTTCCATTCAATAT
1 TTTCTCATCTCATATTCATTTCTAATCTTTTCCATTCAATAT
19094150 CAATCACATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 10 0.26
43 29 0.74
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (42 bp):
TTTCTCATCTCATATTCATTTCTAATCTTTTCCATTCAATAT
Found at i:19095302 original size:16 final size:18
Alignment explanation
Indices: 19095278--19095315 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
19095268 CCGTGCATTC
*
19095278 TTCTTTCTTTT-TTTT-T
1 TTCTCTCTTTTCTTTTCT
19095294 TTCTCTCTTTTCTTTTCT
1 TTCTCTCTTTTCTTTTCT
19095312 TTCT
1 TTCT
19095316 AGTTTGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCTCTCTTTTCTTTTCT
Found at i:19102322 original size:102 final size:103
Alignment explanation
Indices: 19102132--19102323 Score: 280
Period size: 102 Copynumber: 1.9 Consensus size: 103
19102122 AGCTTTCTTC
* *
19102132 TTCTTTCTTTTTAATGAATGTTTTTAACATATTAACTTCCTTAGTTAAATGATTAAATAATAATT
1 TTCTTTCTTTTTAATGAATGTTTTTAACATATTAAATTCCTTAGTTAAATGATTAAATAATAATA
* * ****
19102197 ATTTCACATTTATATTTTTATTTCATGTTGTTTTAAGT
66 ATTTCACATTGAGATCCCAATTTCATGTTGTTTTAAGT
*
19102235 TTCTTT-TTTTTAATGAATGTTTTTAACATATTAAATTCCTTAGTTAAATTATTAAATAATAATA
1 TTCTTTCTTTTTAATGAATGTTTTTAACATATTAAATTCCTTAGTTAAATGATTAAATAATAATA
19102299 ATTTCATCATTGAGA-CCCAATTTCA
66 ATTTCA-CATTGAGATCCCAATTTCA
19102324 ATTCCCCTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 67 0.85
103 12 0.15
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (103 bp):
TTCTTTCTTTTTAATGAATGTTTTTAACATATTAAATTCCTTAGTTAAATGATTAAATAATAATA
ATTTCACATTGAGATCCCAATTTCATGTTGTTTTAAGT
Found at i:19109596 original size:88 final size:90
Alignment explanation
Indices: 19109447--19109647 Score: 356
Period size: 88 Copynumber: 2.3 Consensus size: 90
19109437 GAGTCGAGTA
*
19109447 GAATCGAGTC-AAAAATTTTCGAGTTAGTCGAGTTGACAAATCCTATTTTAGCAACCGAACTCAA
1 GAATCGAGTCAAAAAATTTTCGAGTTAGTCAAGTTGACAAATCCTATTTTAGCAACCGAACTCAA
19109511 TTTG-AAATTTTTTCGAATCGAATC
66 TTTGAAAATTTTTTCGAATCGAATC
19109535 GAATCGAGTCAAAAAATTTT-GAGTTAGTCAAGTTGACAAATCCTATTTTAGCAACCGAACTCAA
1 GAATCGAGTCAAAAAATTTTCGAGTTAGTCAAGTTGACAAATCCTATTTTAGCAACCGAACTCAA
19109599 TTTGAAAATTTTTTCGAATCGAATC
66 TTTGAAAATTTTTTCGAATCGAATC
*
19109624 GAATCGAGTCAAAAAA-ATTCGAGT
1 GAATCGAGTCAAAAAATTTTCGAGT
19109648 CAAATCGAGT
Statistics
Matches: 108, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
88 59 0.55
89 49 0.45
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (90 bp):
GAATCGAGTCAAAAAATTTTCGAGTTAGTCAAGTTGACAAATCCTATTTTAGCAACCGAACTCAA
TTTGAAAATTTTTTCGAATCGAATC
Found at i:19111078 original size:100 final size:101
Alignment explanation
Indices: 19110959--19111163 Score: 403
Period size: 100 Copynumber: 2.0 Consensus size: 101
19110949 AATGTTATTG
19110959 TATACTCATTTTAATCATCCAACTTTAATAAGCTTTCATTTTGGTCACACAATTACTTTTTAAAA
1 TATACTCATTTTAATCATCCAACTTTAATAAGCTTTCATTTTGGTCACACAATTACTTTTTAAAA
19111024 ATTATTTTTCTTTTCTCG-AAAGGCGAACAAATTTT
66 ATTATTTTTCTTTTCTCGAAAAGGCGAACAAATTTT
19111059 TATACTCATTTTAATCATCCAACTTTAATAAGCTTTCATTTTGGTCACACAATTACTTTTTAAAA
1 TATACTCATTTTAATCATCCAACTTTAATAAGCTTTCATTTTGGTCACACAATTACTTTTTAAAA
19111124 ATTATTTTTCTTTTCTCGAAAAGGCGAACAAATTTT
66 ATTATTTTTCTTTTCTCGAAAAGGCGAACAAATTTT
19111160 TATA
1 TATA
19111164 GGAAATTGAG
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 83 0.80
101 21 0.20
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.44
Consensus pattern (101 bp):
TATACTCATTTTAATCATCCAACTTTAATAAGCTTTCATTTTGGTCACACAATTACTTTTTAAAA
ATTATTTTTCTTTTCTCGAAAAGGCGAACAAATTTT
Found at i:19111531 original size:19 final size:16
Alignment explanation
Indices: 19111522--19111552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19111512 AAATGACAAT
19111522 AAATTATTAAAATAAA
1 AAATTATTAAAATAAA
*
19111538 AATTTATTAAAATAA
1 AAATTATTAAAATAA
19111553 GTGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTATTAAAATAAA
Found at i:19112511 original size:22 final size:23
Alignment explanation
Indices: 19112467--19112537 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
19112457 CAAAATGTAA
* * *
19112467 AAAAATTGTAAAAAGAATATTTT
1 AAAAATTCTAAAAATATTATTTT
*
19112490 AAAAATT-TAAAAATATTTTTTT
1 AAAAATTCTAAAAATATTATTTT
*
19112512 ATAAAATTCTAAAATATATAATTTT
1 A-AAAATTCTAAAA-ATATTATTTT
19112537 A
1 A
19112538 TATATAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 13 0.32
23 13 0.32
24 5 0.12
25 9 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (23 bp):
AAAAATTCTAAAAATATTATTTT
Found at i:19112779 original size:13 final size:14
Alignment explanation
Indices: 19112757--19112789 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19112747 ATATTTAAAT
19112757 ATTTAATATTA-TA
1 ATTTAATATTATTA
*
19112770 ATTTATTATTATTA
1 ATTTAATATTATTA
19112784 ATTTAA
1 ATTTAA
19112790 ATTCAATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTAATATTATTA
Found at i:19113404 original size:11 final size:11
Alignment explanation
Indices: 19113384--19113412 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19113374 ATATGATGTC
19113384 AATT-TTTATT
1 AATTCTTTATT
19113394 AATTCTTTATT
1 AATTCTTTATT
19113405 AATTCTTT
1 AATTCTTT
19113413 CAAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTCTTTATT
Found at i:19114674 original size:30 final size:30
Alignment explanation
Indices: 19114638--19114699 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
19114628 ATATATATAA
19114638 ATTTTAAATACATTAAAGTTTTTGTAATGC
1 ATTTTAAATACATTAAAGTTTTTGTAATGC
19114668 ATTTTAAATACATTAAAGTTTTTGTAATGC
1 ATTTTAAATACATTAAAGTTTTTGTAATGC
19114698 AT
1 AT
19114700 CAATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (30 bp):
ATTTTAAATACATTAAAGTTTTTGTAATGC
Found at i:19115825 original size:16 final size:16
Alignment explanation
Indices: 19115804--19115839 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19115794 TTTGGTTCGC
19115804 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19115820 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19115836 TGTA
1 TGTA
19115840 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:19116093 original size:16 final size:16
Alignment explanation
Indices: 19116056--19116097 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19116046 TTAATCATAT
*
19116056 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
19116072 TT-AAATATATTATAA
1 TTAAAATATATTATAA
19116087 TTAAAATATAT
1 TTAAAATATAT
19116098 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:19116104 original size:14 final size:15
Alignment explanation
Indices: 19116065--19116106 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19116055 TTTAAACATA
*
19116065 ATTATTATTAAATAT
1 ATTATAATTAAATAT
19116080 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
19116094 A-TATAATTTAATA
1 ATTATAATTAAATA
19116107 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:19116333 original size:24 final size:24
Alignment explanation
Indices: 19116282--19116334 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
19116272 TATATGATAC
* *
19116282 TATAAATATAATTAACATAATTAT
1 TATAAATATAATTAACAAAAATAT
*
19116306 TATAAATATAATTTAATAAAAATA-
1 TATAAATATAA-TTAACAAAAATAT
19116330 TATAA
1 TATAA
19116335 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TATAAATATAATTAACAAAAATAT
Found at i:19116352 original size:117 final size:118
Alignment explanation
Indices: 19116059--19116528 Score: 647
Period size: 117 Copynumber: 4.0 Consensus size: 118
19116049 ATCATATTTA
* *
19116059 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* * *
19116124 TATTCTTATATGAATTTACT-CAATCATAATATATGATACTATAAAATATTAAAT
66 TATTCTTATATGAATTTAATAAAATCATAATATATGATACTAT-AAATA-TAATT
* * * *
19116178 AACATAATTATTA-TAAATATATTATAATTAAAATATATAATTTAATAATATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* * *
19116242 TATTCTTATATGAATTTACTCAATTCATAATATATGATACTATAAATATAATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATGATACTATAAATATAATT
*
19116295 AACATAATTATTA-TAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATATTAA
1 AACATAATTATTATTAAATAT-ATTATAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
*
19116358 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTAT-AATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATGATACTATAAATATAA-TT
* * *
19116412 AAAATAA--ATTATTAAATATAATTTTAA-AAAAATATATAA-TTAATAAAATTCTTAATATTAA
1 AACATAATTATTATTAAATAT-ATTATAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
19116473 ATATTCTTATATGAATTTAATAAAATCAT-ATATAT-ATACTATATAATATAGATT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATGATACTATA-AATATA-ATT
19116527 AA
1 AA
19116529 TAATGTAGAT
Statistics
Matches: 328, Mismatches: 15, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
113 7 0.02
114 6 0.02
115 65 0.20
116 31 0.09
117 109 0.33
118 77 0.23
119 33 0.10
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (118 bp):
AACATAATTATTATTAAATATATTATAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATGATACTATAAATATAATT
Found at i:19116466 original size:28 final size:28
Alignment explanation
Indices: 19116412--19116466 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
19116402 AATATAATTT
* *
19116412 AAAATAAATTATTAAATATAATTTTAAA
1 AAAATAAATAATTAAATAAAATTTTAAA
*
19116440 AAAATATATAATT-AATAAAATTCTTAA
1 AAAATAAATAATTAAATAAAATT-TTAA
19116467 TATTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATAAATAATTAAATAAAATTTTAAA
Found at i:19120520 original size:20 final size:20
Alignment explanation
Indices: 19120491--19120546 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
19120481 TTTGTAGCAA
19120491 TAGA-ATATTGTTATATAAAT
1 TAGATATATTGTTATAT-AAT
*
19120511 T-GATATATTGTTATATATT
1 TAGATATATTGTTATATAAT
*
19120530 TAGATATTTTGTTATAT
1 TAGATATATTGTTATAT
19120547 GCTATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (20 bp):
TAGATATATTGTTATATAAT
Found at i:19121590 original size:31 final size:31
Alignment explanation
Indices: 19121555--19121618 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
19121545 AAGATCCCTC
19121555 TACTTGGATATTGGTTAAAATATAAACACTT
1 TACTTGGATATTGGTTAAAATATAAACACTT
*
19121586 TACTTGGATATTGGTTAAAATGTAAACACTT
1 TACTTGGATATTGGTTAAAATATAAACACTT
19121617 TA
1 TA
19121619 GTAAATTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (31 bp):
TACTTGGATATTGGTTAAAATATAAACACTT
Found at i:19122207 original size:26 final size:25
Alignment explanation
Indices: 19122162--19122211 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
19122152 TAACACTAGC
* *
19122162 TATGTTTTTAATGTAGTGTTTGTTAT
1 TATGATTTTAATGTAATG-TTGTTAT
*
19122188 TATGATTTTAATTTAATGTTGTTA
1 TATGATTTTAATGTAATGTTGTTA
19122212 GTGTTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (25 bp):
TATGATTTTAATGTAATGTTGTTAT
Found at i:19124410 original size:16 final size:16
Alignment explanation
Indices: 19124389--19124433 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
19124379 ATTTAAAACT
19124389 TATATTTAGATATAAA
1 TATATTTAGATATAAA
*
19124405 TATATTT--ATATGAA
1 TATATTTAGATATAAA
19124419 TATATCTTAGATATA
1 TATAT-TTAGATATA
19124434 TTTGCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 7 0.29
17 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (16 bp):
TATATTTAGATATAAA
Found at i:19124549 original size:63 final size:63
Alignment explanation
Indices: 19124477--19124601 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
19124467 ACCAAAATAA
* * * *
19124477 TATATAATTTATGAAGAAGCTAAAAATTAGATTATAAATAT-ATATGTGTAAAATATTTAAATG
1 TATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATAT-TGAAAAATATTTAAATG
*
19124540 TATATAATTTATCAATAAACTAAAAATTAGAGTATAAATATGCATATTGAAAAATATTTAAA
1 TATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATAT-CATATTGAAAAATATTTAAA
19124602 AAACAATGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 37 0.67
64 14 0.25
65 4 0.07
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (63 bp):
TATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATATTGAAAAATATTTAAATG
Found at i:19131050 original size:93 final size:92
Alignment explanation
Indices: 19130926--19131108 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 92
19130916 GATTAGGGAT
** *
19130926 ATGTCAAATTGAGTAATTGGGTGAGGTGCTTGAGTTGCCATCTAATTTCACATAAAAATATTTGA
1 ATGTCAAATTGAGTAACGGGGTGAGGTGCTTGAGTTGCCATCTAATTTCACATAAAAAGATTTGA
19130991 CTATGTCTCAAATTTGTTGAAAAAACC
66 CTATGTCTCAAATTTGTTGAAAAAACC
* * * * *
19131018 ATGTGAAATTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTTATTTCGCATAAAAAGATTTG
1 ATGTCAAATTGAGTAA-CGGGGTGAGGTGCTTGAGTTGCCATCTAATTTCACATAAAAAGATTTG
19131083 ACTATGTCTCAAATTTGTTGAAAAAA
65 ACTATGTCTCAAATTTGTTGAAAAAA
19131109 ATATATATGG
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 15 0.18
93 67 0.82
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (92 bp):
ATGTCAAATTGAGTAACGGGGTGAGGTGCTTGAGTTGCCATCTAATTTCACATAAAAAGATTTGA
CTATGTCTCAAATTTGTTGAAAAAACC
Found at i:19137848 original size:20 final size:21
Alignment explanation
Indices: 19137823--19137862 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19137813 TCTTAGAAAT
19137823 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
19137843 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
19137863 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:19147197 original size:21 final size:21
Alignment explanation
Indices: 19147167--19147221 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
19147157 ATCCTTGACA
* *
19147167 TCGCGACACCATTGAAGGATG
1 TCGCGACACCACTAAAGGATG
* *
19147188 TTGTGACACCACTAAAGGATG
1 TCGCGACACCACTAAAGGATG
19147209 TCGCGACACCACT
1 TCGCGACACCACT
19147222 GCGTAAACTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (21 bp):
TCGCGACACCACTAAAGGATG
Found at i:19147568 original size:33 final size:33
Alignment explanation
Indices: 19147526--19147592 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
19147516 GGAGAGTGAC
*
19147526 ATAGACAACTACTTGTAATAGCTACAACCTTAT
1 ATAGACAACTACTTGCAATAGCTACAACCTTAT
19147559 ATAGACAACTACTTGCAATAGCTACAACCTTAT
1 ATAGACAACTACTTGCAATAGCTACAACCTTAT
19147592 A
1 A
19147593 CTCTAATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (33 bp):
ATAGACAACTACTTGCAATAGCTACAACCTTAT
Found at i:19150907 original size:48 final size:48
Alignment explanation
Indices: 19150835--19151063 Score: 377
Period size: 48 Copynumber: 4.8 Consensus size: 48
19150825 CATTAGGGTT
* *
19150835 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATTG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
19150883 ATATATGATTCCATGTAAGACCATGTCTGGGACATGCCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
19150931 ATATGTGATCCCGTGTAAGACCATGTTTGGGACATGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
19150979 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
**
19151027 ATATGTGATTTCATGTAAGACCATGTCTGGGACATGG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGG
19151064 ACTCGATATG
Statistics
Matches: 167, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 167 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:19153869 original size:40 final size:40
Alignment explanation
Indices: 19153705--19153855 Score: 205
Period size: 40 Copynumber: 3.8 Consensus size: 40
19153695 TATTCGAATG
* * *
19153705 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
19153745 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
19153785 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
19153825 ATATCCGGGATAAGACCCGAAGGCATTTGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTG
19153856 TGAGTGGTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:19153869 original size:80 final size:80
Alignment explanation
Indices: 19153705--19153855 Score: 241
Period size: 80 Copynumber: 1.9 Consensus size: 80
19153695 TATTCGAATG
* * * *
19153705 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGGGATAAGACCCGAAGGCA
19153770 TTTGTGCTAGCGACT
66 TTTGTGCTAGCGACT
*
19153785 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACCATATCCGGGATAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTG-CCATATCCGGGATAAGACCCGAAGGC
19153849 ATTTGTG
65 ATTTGTG
19153856 TGAGTGGTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 2 0.03
80 63 0.97
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGGGATAAGACCCGAAGGCA
TTTGTGCTAGCGACT
Found at i:19161806 original size:40 final size:40
Alignment explanation
Indices: 19161642--19161792 Score: 205
Period size: 40 Copynumber: 3.8 Consensus size: 40
19161632 TATTCGAATG
* * *
19161642 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
19161682 ATATCCGGTCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
19161722 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
19161762 ATATCCGGGATAAGACCCGAAGGCATTTGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTG
19161793 TGAGTGGTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:19161806 original size:80 final size:80
Alignment explanation
Indices: 19161642--19161792 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
19161632 TATTCGAATG
* * * **
19161642 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTGCTATATCCGGTCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGGGATAAGACCCGAAGGCA
19161707 TTTGTGCTAGCGACT
66 TTTGTGCTAGCGACT
*
19161722 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACCATATCCGGGATAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTG-CCATATCCGGGATAAGACCCGAAGGC
19161786 ATTTGTG
65 ATTTGTG
19161793 TGAGTGGTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.03
80 62 0.97
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCCATATCCGGGATAAGACCCGAAGGCA
TTTGTGCTAGCGACT
Found at i:19165506 original size:20 final size:20
Alignment explanation
Indices: 19165452--19165540 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
19165442 CGTATAAACT
*
19165452 GTAATTCATTCA-TATAATTA
1 GTAATTCATT-AGTATAATCA
* ** *
19165472 GTAGTTCATCCGTATAACCA
1 GTAATTCATTAGTATAATCA
19165492 GTAATTCATTAGTAT-ATCA
1 GTAATTCATTAGTATAATCA
* **
19165511 GTAATTTATCCGTATCAAT-A
1 GTAATTCATTAGTAT-AATCA
19165531 GTAATTCATT
1 GTAATTCATT
19165541 CATTTCAACA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
19 15 0.29
20 35 0.67
21 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
GTAATTCATTAGTATAATCA
Found at i:19165525 original size:19 final size:20
Alignment explanation
Indices: 19165442--19165539 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
19165432 CATTTTTATT
* * *
19165442 CGTATAAACTGTAATTCATT
1 CGTATAACCAGTAATTCATC
* ** *
19165462 CATATAATTAGTAGTTCATC
1 CGTATAACCAGTAATTCATC
*
19165482 CGTATAACCAGTAATTCATT
1 CGTATAACCAGTAATTCATC
* * *
19165502 AGTAT-ATCAGTAATTTATC
1 CGTATAACCAGTAATTCATC
*
19165521 CGTATCAA-TAGTAATTCAT
1 CGTAT-AACCAGTAATTCAT
19165540 TCATTTCAAC
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
19 15 0.26
20 42 0.72
21 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (20 bp):
CGTATAACCAGTAATTCATC
Found at i:19165534 original size:39 final size:40
Alignment explanation
Indices: 19165442--19165559 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 40
19165432 CATTTTTATT
* * * *
19165442 CGTATAAACTGTAATTCATTCATATAATTAGTAGTTCATC
1 CGTATAACCAGTAATTCATTCATATAATCAGTAATTCATC
*
19165482 CGTATAACCAGTAATTCATT-AGTAT-ATCAGTAATTTATC
1 CGTATAACCAGTAATTCATTCA-TATAATCAGTAATTCATC
* *
19165521 CGTATCAA-TAGTAATTCATTCATTTCAA-CAGTAATTCAT
1 CGTAT-AACCAGTAATTCATTCATAT-AATCAGTAATTCAT
19165560 TCATTTCAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 30 0.46
40 34 0.52
41 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (40 bp):
CGTATAACCAGTAATTCATTCATATAATCAGTAATTCATC
Found at i:19165548 original size:20 final size:20
Alignment explanation
Indices: 19165525--19165570 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
19165515 TTTATCCGTA
*
19165525 TCAATAGTAATTCATTCATT
1 TCAACAGTAATTCATTCATT
19165545 TCAACAGTAATTCATTCATT
1 TCAACAGTAATTCATTCATT
19165565 TCAACA
1 TCAACA
19165571 TAGCTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
TCAACAGTAATTCATTCATT
Found at i:19165794 original size:22 final size:23
Alignment explanation
Indices: 19165728--19165892 Score: 107
Period size: 23 Copynumber: 7.0 Consensus size: 23
19165718 AAGCTCCTCC
* *
19165728 TGAGCTGATAAACAATAAGCACTAT
1 TGAGCTG--AAACAATAAGCTCTTT
19165753 TGAGCTGAAACAATAAGCTCTTT
1 TGAGCTGAAACAATAAGCTCTTT
* * * *
19165776 TGAGCTG-AACAGTAGGCTCATA
1 TGAGCTGAAACAATAAGCTCTTT
* * * **
19165798 CGAGTTGAAACGATAAGCTCTAA
1 TGAGCTGAAACAATAAGCTCTTT
* *
19165821 TGAGTTGAAACAGTAAGCTCTTT
1 TGAGCTGAAACAATAAGCTCTTT
* * * **
19165844 CGAGATGATATATCAGTAAGCTCTAA
1 TGAGCTGA-A-A-CAATAAGCTCTTT
*
19165870 TGAGCTGAAACAGTAAGCTCTTT
1 TGAGCTGAAACAATAAGCTCTTT
19165893 CAAGTTGATA
Statistics
Matches: 110, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
22 16 0.15
23 66 0.60
24 2 0.02
25 9 0.08
26 17 0.15
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (23 bp):
TGAGCTGAAACAATAAGCTCTTT
Found at i:19165864 original size:26 final size:26
Alignment explanation
Indices: 19165831--19165915 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
19165821 TGAGTTGAAA
19165831 CAGTAAGCTCTTTCGAGATGATATAT
1 CAGTAAGCTCTTTCGAGATGATATAT
* *
19165857 CAGTAAGCTCTAAT-GAGCTGA-A-A-
1 CAGTAAGCTCT-TTCGAGATGATATAT
* *
19165880 CAGTAAGCTCTTTCAAGTTGATATAT
1 CAGTAAGCTCTTTCGAGATGATATAT
**
19165906 TGGTAAGCTC
1 CAGTAAGCTC
19165916 CAATGAGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.02
23 16 0.34
24 2 0.04
25 2 0.04
26 25 0.53
27 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (26 bp):
CAGTAAGCTCTTTCGAGATGATATAT
Found at i:19165866 original size:49 final size:49
Alignment explanation
Indices: 19165811--19165938 Score: 193
Period size: 49 Copynumber: 2.6 Consensus size: 49
19165801 GTTGAAACGA
* *
19165811 TAAGCTCTAATGAGTTGAAACAGTAAGCTCTTTCGAGATGATATATCAG
1 TAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCAAGATGATATATCAG
* **
19165860 TAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCAAGTTGATATATTGG
1 TAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCAAGATGATATATCAG
* *
19165909 TAAGCTCCAATGAGCTGAAATAGTAAGCTC
1 TAAGCTCTAATGAGCTGAAACAGTAAGCTC
19165939 GTACAAGCTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (49 bp):
TAAGCTCTAATGAGCTGAAACAGTAAGCTCTTTCAAGATGATATATCAG
Found at i:19172181 original size:6 final size:6
Alignment explanation
Indices: 19172170--19172230 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
19172160 AACAAAATAG
* *
19172170 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT A-AATAT TTATAT ATATAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAA-AT ATAAAT ATA-AAT
*
19172219 -GAAAT ATAAAT A
1 ATAAAT ATAAAT A
19172231 GATCAATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 5 0.11
6 37 0.82
7 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (6 bp):
ATAAAT
Found at i:19172243 original size:30 final size:30
Alignment explanation
Indices: 19172190--19172248 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
19172180 ATATAAATAT
*
19172190 AAATATAAATAAATATTTATATATATAATG
1 AAATATAAATAAATAATTATATATATAATG
* *
19172220 AAATATAAATAGATCAATT-TATATTTAAT
1 AAATATAAATAAAT-AATTATATATATAAT
19172249 TTGCGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATATAAATAAATAATTATATATATAATG
Found at i:19173189 original size:12 final size:11
Alignment explanation
Indices: 19173154--19173189 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
19173144 CAGTACATAT
19173154 GTGATTAGAGG
1 GTGATTAGAGG
19173165 GTGATTAGAGG
1 GTGATTAGAGG
19173176 GTGATTAGGAGG
1 GTGATTA-GAGG
19173188 GT
1 GT
19173190 TCAAGAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (11 bp):
GTGATTAGAGG
Found at i:19190448 original size:47 final size:47
Alignment explanation
Indices: 19190370--19190688 Score: 494
Period size: 47 Copynumber: 6.7 Consensus size: 47
19190360 CCCTTCGGGA
* * * * * *
19190370 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19190417 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19190464 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19190511 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19190558 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19190605 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19190654 CTTATCACATATATGCACATTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
19190689 AAAATCCTAA
Statistics
Matches: 252, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 208 0.83
49 44 0.17
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19190685 original size:25 final size:25
Alignment explanation
Indices: 19190615--19190689 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
19190605 CTTATCACAT
* *
19190615 ATATATACACTTTCACATTCATCAC
1 ATATATGCACATTCACATTCATCAC
* * *
19190640 AT-T-GGC-CATTCGGCCTT-ATCAC
1 ATATATGCACATTC-ACATTCATCAC
19190662 ATATATGCACATTCACATTCATCAC
1 ATATATGCACATTCACATTCATCAC
19190687 ATA
1 ATA
19190690 AAATCCTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
22 11 0.30
23 5 0.14
24 6 0.16
25 15 0.41
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATGCACATTCACATTCATCAC
Found at i:19192670 original size:13 final size:13
Alignment explanation
Indices: 19192652--19192676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19192642 TACTAAATTT
19192652 TCATGGATTCAAA
1 TCATGGATTCAAA
19192665 TCATGGATTCAA
1 TCATGGATTCAA
19192677 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:19197097 original size:28 final size:28
Alignment explanation
Indices: 19197018--19197097 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
19197008 GCATGAATAT
*
19197018 AAATGTGATTTGGGCCT-GATGGGCCATAT
1 AAATGTGA-TTGGGCCTAG-TGGGCCATAC
** *
19197047 AAATGCAAATTGGGCCTAATGGGCCATAC
1 AAATG-TGATTGGGCCTAGTGGGCCATAC
19197076 AAATGTGATTGGGCCTAGTGGG
1 AAATGTGATTGGGCCTAGTGGG
19197098 TTAGATACAG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 14 0.33
29 27 0.64
30 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
AAATGTGATTGGGCCTAGTGGGCCATAC
Found at i:19197492 original size:11 final size:11
Alignment explanation
Indices: 19197476--19197500 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19197466 TATGTATATC
19197476 TACTGCATACA
1 TACTGCATACA
19197487 TACTGCATACA
1 TACTGCATACA
19197498 TAC
1 TAC
19197501 GATATTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (11 bp):
TACTGCATACA
Found at i:19199030 original size:43 final size:42
Alignment explanation
Indices: 19198960--19199077 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
19198950 AAGCTCATAC
* *
19198960 ATGCCAAC-GTCCCAGACGTGGTATTACATGTAATCAAATATTG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGTAATCAAATA-TG
* * *
19199003 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAATTATG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCAAATATG
* * *
19199045 ATGCCAATGTTCCAGACATGGTCTTTCATGTAA
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAA
19199078 ATCATAAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 32 0.50
43 32 0.50
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAATCAAATATG
Done.