Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 151 of 310
Found at i:49553469 original size:24 final size:23
Alignment explanation
Indices: 49553441--49553600 Score: 115
Period size: 24 Copynumber: 6.6 Consensus size: 23
49553431 AATCGATTTT
*
49553441 GCACACAAAGTGCTATTCAAATCC
1 GCACACATAGTGC-ATTCAAATCC
* * * *
49553465 GCACACTTAGTGCCATGCTAACCC
1 GCACACATAGTG-CATTCAAATCC
*
49553489 GCACACATAGTGCCTT-AGATATCC
1 GCACACATAGTGCATTCA-A-ATCC
* * * *
49553513 ACACACTCGTATTGACATTCAAATCA
1 GCACA--CATAGTG-CATTCAAATCC
*
49553539 GCACACATAGTGCTATTCAATTCC
1 GCACACATAGTGC-ATTCAAATCC
49553563 GCACACATAGTGCCATTCAAAATCC
1 GCACACATAGTG-CATTC-AAATCC
*
49553588 GCACACTTAGTGC
1 GCACACATAGTGC
49553601 CAATGTCATT
Statistics
Matches: 104, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
23 4 0.04
24 65 0.62
25 18 0.17
26 12 0.12
27 4 0.04
28 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
GCACACATAGTGCATTCAAATCC
Found at i:49553568 original size:50 final size:48
Alignment explanation
Indices: 49553441--49553600 Score: 119
Period size: 50 Copynumber: 3.3 Consensus size: 48
49553431 AATCGATTTT
* * * * *
49553441 GCACACAAAGTGCTATTCAAATCCGCACACTTAGTGCCATGCTAACCC
1 GCACACATAGTGCTATTCAATTCCGCACACTTAGTGACATGCAAACCA
* * * * *
49553489 GCACACATAGTGC-CTT-AGATATCCACACACTCGTATTGACATTCAAATCA
1 GCACACATAGTGCTATTCA-AT-TCCGCACACT--TAGTGACATGCAAACCA
* * *
49553539 GCACACATAGTGCTATTCAATTCCGCACACATAGTGCCATTCAAAATCC-
1 GCACACATAGTGCTATTCAATTCCGCACACTTAGTGACATGC-AAA-CCA
*
49553588 GCACACTTAGTGC
1 GCACACATAGTGC
49553601 CAATGTCATT
Statistics
Matches: 87, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 30 0.34
49 15 0.17
50 33 0.38
51 4 0.05
52 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (48 bp):
GCACACATAGTGCTATTCAATTCCGCACACTTAGTGACATGCAAACCA
Found at i:49555579 original size:40 final size:40
Alignment explanation
Indices: 49555535--49555796 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
49555525 GCTCCTCGTT
* *
49555535 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
49555575 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49555615 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49555654 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49555693 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
49555732 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
49555773 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49555797 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:49561698 original size:23 final size:23
Alignment explanation
Indices: 49561671--49561715 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
49561661 TTTAGGCACG
49561671 CATCGGGTGTACAAGATAGCTCT
1 CATCGGGTGTACAAGATAGCTCT
49561694 CATCGGGTGTACAAGATAGCTC
1 CATCGGGTGTACAAGATAGCTC
49561716 ATCGAGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (23 bp):
CATCGGGTGTACAAGATAGCTCT
Found at i:49562864 original size:53 final size:53
Alignment explanation
Indices: 49562806--49562907 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
49562796 ATTTAATTCC
* * *
49562806 ATTCCTACTATTTTTAGAGATTTTTCACATCCACATCGCTGCTGCTGTCAGCA
1 ATTCCTACTATTTTTAGAGATTTTCCAAATCCACATCACTGCTGCTGTCAGCA
* * *
49562859 ATTCCTGCTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTC
1 ATTCCTACTATTTTTAGAGATTTTCCAAATCCACATCACTGCTGCTGTC
49562908 GGCATCTGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (53 bp):
ATTCCTACTATTTTTAGAGATTTTCCAAATCCACATCACTGCTGCTGTCAGCA
Found at i:49563842 original size:119 final size:120
Alignment explanation
Indices: 49563636--49563858 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
49563626 TCCTCGTTCA
* *
49563636 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* * * *
49563701 TTAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAATAGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACC
* * **
49563756 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
49563818 ATATGGTCACTTAGCACAA-AGCCTTCGGGACATAGCCCGGA
64 ATATAGTAAC-TAGCACAATAGCCTTCGGGACATAACCCGGA
49563859 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.74
120 19 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAATAGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACC
Found at i:49563858 original size:40 final size:40
Alignment explanation
Indices: 49563634--49563858 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
49563624 GCTCCTCGTT
* *
49563634 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49563674 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
49563714 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49563754 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
49563793 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
49563834 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49563859 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49565781 original size:79 final size:80
Alignment explanation
Indices: 49565680--49565826 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
49565670 TCCTCGTTCA
* * * *
49565680 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGAAT
49565744 TTAACAACTCGCATG
66 TTAACAACTCGCATG
* * *
49565759 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGAAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGAAT
49565824 TTA
66 TTA
49565827 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 34 0.57
80 26 0.43
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGAAT
TTAACAACTCGCATG
Found at i:49565837 original size:40 final size:40
Alignment explanation
Indices: 49565680--49565849 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
49565670 TCCTCGTTCA
* * * *
49565680 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
49565719 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCATG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
49565759 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
49565799 AATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
49565839 AAGGCCTTCGG
1 AATGCCTTCGG
49565850 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:49565862 original size:80 final size:79
Alignment explanation
Indices: 49565678--49565900 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
49565668 GCTCCTCGTT
* * * * * * * *
49565678 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGAA
49565743 TTTAACAACTCGCA
66 TTTAACAACTCGCA
** *
49565757 TGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGA
** *
49565822 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * * * * * *
49565837 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
49565901 GACAGCATTC
Statistics
Matches: 118, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 37 0.31
80 76 0.64
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGAA
TTTAACAACTCGCA
Found at i:49565911 original size:41 final size:41
Alignment explanation
Indices: 49565834--49565911 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
49565824 TTAGTATCTC
* * *
49565834 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
49565875 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
49565912 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:49573513 original size:9 final size:9
Alignment explanation
Indices: 49573495--49573523 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
49573485 TTCAGACTAC
49573495 TTTTTA-TT
1 TTTTTATTT
49573503 TTTTTATTT
1 TTTTTATTT
49573512 TTTTTATTT
1 TTTTTATTT
49573521 TTT
1 TTT
49573524 AACAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:49580443 original size:43 final size:43
Alignment explanation
Indices: 49580326--49580479 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
49580316 TCGTACAATT
* * * *
49580326 CCAATGTCCTAGACATGGTCTTACATGT-AATCAAATATCAATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCAAGTAT-GATG
* * * * *
49580369 CCACTATCCTAGACAGGGTCTTACAC-AAAATCAAGTATGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCAAGTATGATG
* *
49580411 CCAATGTCCCAGACATGGACTTACACGTAAATCATAAGT-CGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATC--AAGTATGATG
* * *
49580455 CCAACGTCCCAGACGTGGTCATACA
1 CCAATGTCCCAGACATGGTCTTACA
49580480 TGAAAACATA
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 24 0.27
43 36 0.40
44 25 0.28
45 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAAATCAAGTATGATG
Found at i:49593154 original size:46 final size:46
Alignment explanation
Indices: 49593104--49593277 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
49593094 GTTGAGCATT
49593104 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * *
49593150 CGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* *
49593197 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
49593243 CGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49593278 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:49593267 original size:93 final size:93
Alignment explanation
Indices: 49593099--49593270 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
49593089 GGATGGTTGA
* * * *
49593099 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49593164 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49593192 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
49593257 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
49593271 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49597740 original size:59 final size:59
Alignment explanation
Indices: 49597645--49597762 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
49597635 AGCGTGAAAA
* * * * *
49597645 TGCTTACCCCTCTCTTTTTCCCTATCTTACAAAGCTCAAGGACTCATAAGGATCGGAAG
1 TGCTTACCCCTCTCCTTTTCCCTATCTCACAAAGCTCAAGGAATAATAAAGATCGGAAG
* *
49597704 TGCTTACCCCTCTCCTTTTCCCTGTCTCACAGAGCTCAAGGAATAATAAAGATCGGAAG
1 TGCTTACCCCTCTCCTTTTCCCTATCTCACAAAGCTCAAGGAATAATAAAGATCGGAAG
49597763 ATAATTGGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (59 bp):
TGCTTACCCCTCTCCTTTTCCCTATCTCACAAAGCTCAAGGAATAATAAAGATCGGAAG
Found at i:49600525 original size:26 final size:27
Alignment explanation
Indices: 49600485--49600544 Score: 104
Period size: 26 Copynumber: 2.2 Consensus size: 27
49600475 AAATAAGTGA
49600485 AAAGTTAGGATAAAATGGTAATTTTACC
1 AAAG-TAGGATAAAATGGTAATTTTACC
49600513 AAAGTAGG-TAAAATGGTAATTTTACC
1 AAAGTAGGATAAAATGGTAATTTTACC
49600539 AAAGTA
1 AAAGTA
49600545 TGTGTTATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 24 0.75
27 4 0.12
28 4 0.12
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (27 bp):
AAAGTAGGATAAAATGGTAATTTTACC
Found at i:49601027 original size:45 final size:45
Alignment explanation
Indices: 49600971--49601057 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
49600961 GAACTATGTG
*
49600971 ATCTGAACTCATTGTGTTGTGGTCTGAGTTAATGATATATGTAAC
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTAATGATATATGTAAC
* * * *
49601016 ATCTGATCTCATTGAGTTGTGGTTTGAGTTCATGATGTATGT
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTAATGATATATGT
49601058 GACACATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.43
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTGAGTTAATGATATATGTAAC
Found at i:49604563 original size:45 final size:45
Alignment explanation
Indices: 49604499--49604619 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
49604489 GAATTTAAGA
* *
49604499 ATCCAAACTCAATGAGTTGGTCCGGGTTCATGATATGTATGAGAC
1 ATCCAAGCTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGAC
* *
49604544 ATCCAAGCTCGTTGAGTTGGTCCGGGTTCGTGATATGTATGAGAC
1 ATCCAAGCTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGAC
** *
49604589 ATCTGAGCTCATTGAGTTGGTCCGAGTTCAT
1 ATCCAAGCTCATTGAGTTGGTCCGGGTTCAT
49604620 TATGGATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (45 bp):
ATCCAAGCTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGAC
Found at i:49607557 original size:108 final size:110
Alignment explanation
Indices: 49607413--49607613 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
49607403 ATCCTTTTGA
* *
49607413 AACTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCATTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGCCTGACATGGTATCATTGCCTTA-GAAACCTCACCAA
*
49607476 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
49607521 AACTTATCAATGCCATGTCTTGACATGGTCTGACATGGTGTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGCCTGACATGGTATCATTGCCTTAGAAACCTCACCAAT
49607586 TACCATGCCTTGGCATGGTCTTACATGG
66 TACCATGCCTTGGCATGGTCTTACATGG
49607614 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGCCTGACATGGTATCATTGCCTTAGAAACCTCACCAAT
TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:49607614 original size:55 final size:54
Alignment explanation
Indices: 49607366--49607620 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
49607356 ACACGGATAC
* **
49607366 CTTACC-ATTGCCATGACTTCTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
49607415 CTTACC-ATTGCCATGTCTCGACATGGCCTTACATGGTATCATTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
49607468 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
49607523 CTTATCAA-TGCCATGTCTTGACATGGTCTGACATGGTGTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
49607576 CCTTACCAATTACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
49607621 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 37 0.22
52 3 0.02
53 42 0.25
54 12 0.07
55 70 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:49617715 original size:18 final size:18
Alignment explanation
Indices: 49617659--49617721 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
49617649 CATTCTATAA
*
49617659 CAGTAGCAGTGGCAGTAAT
1 CAGT-GCAGTAGCAGTAAT
* *
49617678 CAGTGCAGTAACCA-TGAT
1 CAGTGCAGT-AGCAGTAAT
*
49617696 CAATGCAGTAGCAGTAAT
1 CAGTGCAGTAGCAGTAAT
49617714 CAGTGCAG
1 CAGTGCAG
49617722 AATACAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.09
18 26 0.74
19 6 0.17
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (18 bp):
CAGTGCAGTAGCAGTAAT
Found at i:49618022 original size:23 final size:23
Alignment explanation
Indices: 49617973--49618022 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
49617963 ACCCCATGCA
*
49617973 ATGCAACATAATATCATACATGG
1 ATGCAACACAATATCATACATGG
49617996 ATGCAACACACATAT-A-ACATGG
1 ATGCAACACA-ATATCATACATGG
49618018 CATGC
1 -ATGC
49618023 TCAAATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (23 bp):
ATGCAACACAATATCATACATGG
Found at i:49618107 original size:27 final size:26
Alignment explanation
Indices: 49618085--49618146 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
49618075 GATATTACAG
49618085 TCATTTTACCCTACAGGGGTATTCGA
1 TCATTTTACCCTACAGGGGTATTCGA
* **
49618111 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTACAGGGGTA-TTCGA
49618138 TCATTTTAC
1 TCATTTTAC
49618147 TCTATGAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGGTATTCGA
Found at i:49618151 original size:27 final size:27
Alignment explanation
Indices: 49618085--49618170 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
49618075 GATATTACAG
**
49618085 TCATTTTACCCTACAGGGGTA-TTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
49618111 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
49618138 TCATTTTACTCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
49618165 TAATTT
1 TCATTT
49618171 GATCACATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 18 0.35
27 34 0.65
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:49618183 original size:27 final size:27
Alignment explanation
Indices: 49618127--49618183 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
49618117 TACCCTATGG
* * * *
49618127 GGGTATTTCGATCATTTTACTCTATGA
1 GGGTATTTCGATAATTTGACTCCATAA
49618154 GGGTATTTCGATAATTTGA-TCACATAA
1 GGGTATTTCGATAATTTGACTC-CATAA
49618181 GGG
1 GGG
49618184 CAAAATTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTGACTCCATAA
Found at i:49618197 original size:27 final size:27
Alignment explanation
Indices: 49618167--49618286 Score: 143
Period size: 27 Copynumber: 4.4 Consensus size: 27
49618157 TATTTCGATA
* *
49618167 ATTTGATCACATAAGGGCAAAATTATC
1 ATTTTATCACATAAGGGCAAAATTGTC
* *
49618194 ATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATTGTC
* *
49618221 ATTTTATCACATAAGGACTAAA-TGATC
1 ATTTTATCACATAAGGGCAAAATTG-TC
* * *
49618248 ATTCTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATTGTC
49618275 ATTTTATCACAT
1 ATTTTATCACAT
49618287 GTCATTTTAT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATTGTC
Found at i:49618232 original size:54 final size:53
Alignment explanation
Indices: 49618167--49618603 Score: 545
Period size: 54 Copynumber: 8.3 Consensus size: 53
49618157 TATTTCGATA
* * *
49618167 ATTTGATCACATAAGGGCAAAATTATCATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAA-TCTCATTTTATCACATAAGGGCAAAATCGTC
* * * * *
49618221 ATTTTATCACATAAGGACTAAATGATCATTCTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAAT-CTCATTTTATCACATAAGGGCAAAATCGTC
*
49618275 ATTTTATCACAT----G-------TCATTTTATCACATAAGGGCAAAATCTTC
1 ATTTTATCACATAAGGGCAAAATCTCATTTTATCACATAAGGGCAAAATCGTC
*
49618317 ATTTTATCACATAAGGGCAAAATCTTCATTTTATCACATAAGGGCAAAATCTTC
1 ATTTTATCACATAAGGGCAAAATC-TCATTTTATCACATAAGGGCAAAATCGTC
*
49618371 ATTTTATCACATAAGGGCAAAATCTTCATTTTATCACATAAGGGCAAAATCTTC
1 ATTTTATCACATAAGGGCAAAATC-TCATTTTATCACATAAGGGCAAAATCGTC
* * * *
49618425 ATTTTATCACATAAGGGCAAAATCGTCATTTTATTATATAAGGGTAAAATAGTC
1 ATTTTATCACATAAGGGCAAAATC-TCATTTTATCACATAAGGGCAAAATCGTC
* * *
49618479 ATTTTATCACATAAGGGCGAAATCGTCATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATC-TCATTTTATCACATAAGGGCAAAATCGTC
* *
49618533 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGAGAAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATC-TCATTTTATCACATAAGGGCAAAATCGTC
*
49618587 ATTTTATCACATGAGGG
1 ATTTTATCACATAAGGG
49618604 TTCAGGTATG
Statistics
Matches: 345, Mismatches: 25, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
42 38 0.11
46 1 0.00
53 1 0.00
54 305 0.88
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (53 bp):
ATTTTATCACATAAGGGCAAAATCTCATTTTATCACATAAGGGCAAAATCGTC
Found at i:49618270 original size:81 final size:81
Alignment explanation
Indices: 49618167--49618603 Score: 558
Period size: 81 Copynumber: 5.5 Consensus size: 81
49618157 TATTTCGATA
* ** *
49618167 ATTTGATCACATAAGGGCAAAATTATCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
* * *
49618232 TAAGGACTAAATGATC
66 TAAGGGCAAAATCATC
* *
49618248 ATTCTATCACATAAGGGTAAAATCGTCATTTTAT--C---A---C---AT-GTCATTTTATCACA
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
*
49618301 TAAGGGCAAAATCTTC
66 TAAGGGCAAAATCATC
* *
49618317 ATTTTATCACATAAGGGCAAAATCTTCATTTTATCACATAAGGGCAAAATCTTCATTTTATCACA
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
*
49618382 TAAGGGCAAAATCTTC
66 TAAGGGCAAAATCATC
* * *
49618398 ATTTTATCACATAAGGGCAAAATCTTCATTTTATCACATAAGGGCAAAATCGTCATTTTATTATA
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
*
49618463 TAAGGGTAAAAT-AGTC
66 TAAGGGCAAAATCA-TC
* * *
49618479 ATTTTATCACATAAGGGCGAAATCGTCATTTTATCACATAAGGGTAAAATTGTCATTTTATCACA
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
*
49618544 TAAGGGCAAAATCGTC
66 TAAGGGCAAAATCATC
* * *
49618560 ATTTTATCACATAAGAGAAAAATCGTCATTTTATCACATGAGGG
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGG
49618604 TTCAGGTATG
Statistics
Matches: 312, Mismatches: 30, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
69 57 0.18
70 2 0.01
71 1 0.00
73 1 0.00
74 1 0.00
76 1 0.00
77 1 0.00
79 1 0.00
80 2 0.01
81 245 0.79
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (81 bp):
ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
TAAGGGCAAAATCATC
Found at i:49618292 original size:15 final size:15
Alignment explanation
Indices: 49618272--49618301 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49618262 GGGTAAAATC
49618272 GTCATTTTATCACAT
1 GTCATTTTATCACAT
49618287 GTCATTTTATCACAT
1 GTCATTTTATCACAT
49618302 AAGGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
GTCATTTTATCACAT
Found at i:49618305 original size:42 final size:42
Alignment explanation
Indices: 49618246--49618328 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
49618236 GACTAAATGA
*
49618246 TCATTCTATCACATAAGGGTAAAATCGTCATTTTATCACATG
1 TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATG
* *
49618288 TCATTTTATCACATAAGGGCAAAATCTTCATTTTATCACAT
1 TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACAT
49618329 AAGGGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (42 bp):
TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATG
Found at i:49618326 original size:27 final size:27
Alignment explanation
Indices: 49618288--49618603 Score: 490
Period size: 27 Copynumber: 11.7 Consensus size: 27
49618278 TTATCACATG
49618288 TCATTTTATCACATAAGGGCAAAATCT
1 TCATTTTATCACATAAGGGCAAAATCT
49618315 TCATTTTATCACATAAGGGCAAAATCT
1 TCATTTTATCACATAAGGGCAAAATCT
49618342 TCATTTTATCACATAAGGGCAAAATCT
1 TCATTTTATCACATAAGGGCAAAATCT
49618369 TCATTTTATCACATAAGGGCAAAATCT
1 TCATTTTATCACATAAGGGCAAAATCT
49618396 TCATTTTATCACATAAGGGCAAAATCT
1 TCATTTTATCACATAAGGGCAAAATCT
*
49618423 TCATTTTATCACATAAGGGCAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCT
* * * **
49618450 TCATTTTATTATATAAGGGTAAAATAG
1 TCATTTTATCACATAAGGGCAAAATCT
* *
49618477 TCATTTTATCACATAAGGGCGAAATCG
1 TCATTTTATCACATAAGGGCAAAATCT
*
49618504 TCATTTTATCACATAAGGGTAAAAT-T
1 TCATTTTATCACATAAGGGCAAAATCT
*
49618530 GTCATTTTATCACATAAGGGCAAAATCG
1 -TCATTTTATCACATAAGGGCAAAATCT
* * *
49618558 TCATTTTATCACATAAGAGAAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCT
*
49618585 TCATTTTATCACATGAGGG
1 TCATTTTATCACATAAGGG
49618604 TTCAGGTATG
Statistics
Matches: 268, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
27 268 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
TCATTTTATCACATAAGGGCAAAATCT
Found at i:49621599 original size:37 final size:37
Alignment explanation
Indices: 49621535--49621621 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
49621525 ACATTGATAT
*
49621535 TCCAACCGA-AACACACTAGATACTCATAAGAGCTAA
1 TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
* ** * *
49621571 TCCACCCGATAACACGCTAGATGTTCATAAGAGTTAG
1 TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
*
49621608 TCCACCTGATAACA
1 TCCACCCGATAACA
49621622 TACCAATGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 8 0.19
37 35 0.81
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (37 bp):
TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
Found at i:49623053 original size:21 final size:20
Alignment explanation
Indices: 49623021--49623061 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
49623011 ATACATCAAT
49623021 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
49623041 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
49623062 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:49629108 original size:43 final size:43
Alignment explanation
Indices: 49629047--49629240 Score: 300
Period size: 43 Copynumber: 4.5 Consensus size: 43
49629037 CCGGCATTAC
*
49629047 GCCTGCTAGGCACGAAGGCCTGAATACACATCACAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
49629090 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCA-GCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-CAGGCACGAA
* * * *
49629133 GCCTGCTAGGCACAAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
* *
49629176 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
*
49629219 ACCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCG
49629241 TATATAATAC
Statistics
Matches: 141, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.01
43 138 0.98
44 2 0.01
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
Found at i:49629288 original size:129 final size:129
Alignment explanation
Indices: 49629034--49629265 Score: 351
Period size: 129 Copynumber: 1.8 Consensus size: 129
49629024 ACATATCATT
* * * *
49629034 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCTGAATACACATCACAGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAACCTGCTAG
*
49629099 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACAAAGGCCCAAATACACA
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACAAAGGCACAAATACACA
* *
49629163 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAACCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAACCTGCTAG
* * * *
49629228 GCACGAAGGCCCGTATATA-AT-ACCAGCACTACGCCTGC
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
49629266 GGGATTTATC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
127 15 0.16
128 2 0.02
129 76 0.82
ACGTcount: A:0.31, C:0.34, G:0.22, T:0.13
Consensus pattern (129 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAACCTGCTAG
GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACAAAGGCACAAATACACA
Found at i:49647585 original size:21 final size:20
Alignment explanation
Indices: 49647546--49647586 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
49647536 ATACATCAGT
49647546 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
* *
49647566 ATTTTGAATTTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
49647587 TTATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:49654623 original size:55 final size:55
Alignment explanation
Indices: 49654564--49654668 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
49654554 ACTTTAGGGT
* *
49654564 ACGGCCATGACGCACGCCCGTATGGCCTACCCGTGGACAATACTGACTTATAGAC
1 ACGGCCATGACACACGCCCGTATGGCCTACCCATGGACAATACTGACTTATAGAC
* * * * *
49654619 ACGGCTATGGCACACGCCCTTGTGGCCTATCCATGGACAATACTGACTTA
1 ACGGCCATGACACACGCCCGTATGGCCTACCCATGGACAATACTGACTTA
49654669 AAAGTTTAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (55 bp):
ACGGCCATGACACACGCCCGTATGGCCTACCCATGGACAATACTGACTTATAGAC
Found at i:49655507 original size:44 final size:44
Alignment explanation
Indices: 49655451--49655622 Score: 177
Period size: 44 Copynumber: 3.8 Consensus size: 44
49655441 GTGTATAACT
49655451 GCTGATGCATGTCCCAGACATGTCTTACACTAGCATGAAGCT-TA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCATGAA-CTCTA
* * * *
49655495 GCTGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCA-TGAACTCTA
* * * * *
49655540 CGCCGATGCCATCTCCCAGACATAGTCTTACATTGGCTATCGTAA-TGTA
1 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-AT-G-AACTCTA
49655589 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
49655623 CCTCGTCTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
44 35 0.33
45 4 0.04
46 17 0.16
47 25 0.24
48 19 0.18
49 4 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCATGAACTCTA
Found at i:49655604 original size:94 final size:94
Alignment explanation
Indices: 49655409--49655667 Score: 278
Period size: 94 Copynumber: 2.8 Consensus size: 94
49655399 TTACCGGTGC
* * * * * * *
49655409 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATAACTGCTGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACA-CGTCTTACACTAGCACTCATCT-CAAC-GCCGATGCCATCTCCCAGACATA
* *
49655472 GTCTTACACTAGC-AT-G-AA-GCTTAGCTGATG
63 GTCTTACATTGGCTATCGTAATG--TAGCTGATG
* *
49655502 CATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACGCCGATGCCATCTCCCAGACATAGTC
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCAGACATAGTC
49655567 TTACATTGGCTATCGTAATGTAGCTGATG
66 TTACATTGGCTATCGTAATGTAGCTGATG
* * * * * *
49655596 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCAGACATAGTC
49655661 TTACATT
66 TTACATT
49655668 AGCTCTCACA
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
90 6 0.04
91 15 0.11
92 28 0.20
93 15 0.11
94 74 0.52
95 2 0.01
96 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCAGACATAGTC
TTACATTGGCTATCGTAATGTAGCTGATG
Found at i:49664155 original size:22 final size:23
Alignment explanation
Indices: 49664130--49664175 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
49664120 CAACCAAATC
49664130 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
49664152 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
49664175 A
1 A
49664176 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:49664181 original size:23 final size:23
Alignment explanation
Indices: 49664137--49664181 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49664127 ATCAATTCAA
*
49664137 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
49664160 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
49664182 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:49669762 original size:13 final size:13
Alignment explanation
Indices: 49669744--49669768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49669734 TAACCTACAA
49669744 AATTAAATAACAT
1 AATTAAATAACAT
49669757 AATTAAATAACA
1 AATTAAATAACA
49669769 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:49670026 original size:10 final size:10
Alignment explanation
Indices: 49669993--49670041 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
49669983 AAAAAGGAAT
*
49669993 GAGCTGAAAC
1 GAGCTCAAAC
49670003 GAGCT-AAATTC
1 GAGCTCAAA--C
49670014 GAGCTCAAAC
1 GAGCTCAAAC
*
49670024 GAGCTAAAAC
1 GAGCTCAAAC
49670034 GAGCTCAA
1 GAGCTCAA
49670042 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:49670048 original size:20 final size:21
Alignment explanation
Indices: 49669993--49670041 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
49669983 AAAAAGGAAT
* *
49669993 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
49670014 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
49670034 GAGCTCAA
1 GAGCTCAA
49670042 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:49672163 original size:42 final size:41
Alignment explanation
Indices: 49672093--49672173 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 41
49672083 TTCTCTTTAA
* ** * *
49672093 TCTCTTTTTCAATTTCTTTTTCACTCTCAAATTTCTTTTCGT
1 TCTCTTTTTCAATCTCAATCTCAATCTC-AATTTCTTTTCGT
*
49672135 TCTCTTTTTCAATCTCAATCTCAATCTCATTTTCTTTTC
1 TCTCTTTTTCAATCTCAATCTCAATCTCAATTTCTTTTC
49672174 TTTGTTTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 10 0.30
42 23 0.70
ACGTcount: A:0.16, C:0.26, G:0.01, T:0.57
Consensus pattern (41 bp):
TCTCTTTTTCAATCTCAATCTCAATCTCAATTTCTTTTCGT
Found at i:49672191 original size:19 final size:20
Alignment explanation
Indices: 49672167--49672207 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
49672157 AATCTCATTT
49672167 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
49672186 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
49672206 TC
1 TC
49672208 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:49674389 original size:13 final size:13
Alignment explanation
Indices: 49674371--49674395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49674361 TAACCTACAA
49674371 AATTAAATAACAT
1 AATTAAATAACAT
49674384 AATTAAATAACA
1 AATTAAATAACA
49674396 CACAACTATT
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:49678163 original size:22 final size:23
Alignment explanation
Indices: 49678138--49678183 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
49678128 CAACCAAATC
49678138 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
49678160 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
49678183 A
1 A
49678184 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:49678189 original size:23 final size:23
Alignment explanation
Indices: 49678145--49678189 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49678135 ATCAATTCAA
*
49678145 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
49678168 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
49678190 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:49682041 original size:13 final size:13
Alignment explanation
Indices: 49682019--49682082 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
49682009 TTTGGCAATA
*
49682019 CTTTTAAAAAGTG
1 CTTTTGAAAAGTG
49682032 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
49682045 -TTGTGGAGAAGTG
1 CTT-TTGAAAAGTG
* *
49682058 CTTTTTAGAAGTG
1 CTTTTGAAAAGTG
49682071 CTTTTGAAAAGT
1 CTTTTGAAAAGT
49682083 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:49687850 original size:27 final size:26
Alignment explanation
Indices: 49687810--49687895 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
49687800 AGCATGGCTG
* * *
49687810 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
49687836 CCAGATACAGATATTCTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
49687863 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
49687890 CCAGAA
1 CCAGAA
49687896 TACTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:49690179 original size:43 final size:43
Alignment explanation
Indices: 49690123--49690301 Score: 137
Period size: 43 Copynumber: 4.2 Consensus size: 43
49690113 CTTACATTTT
* * **
49690123 ATCACATATCGATGCCATTTTCCCAGACAGGGTCTTACACGAA
1 ATCACATAACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
* * * *
49690166 ATCATATAACGATGTCAATGCCCCAGACATGGTCTTACACGTA
1 ATCACATAACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
* * * * * * *
49690209 ATCACA-ATACAATGCCAATGTCCCAAACATGGTATTACATGTA
1 ATCACATA-ACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
* * * * * *
49690252 ATCACA-ATACAATGCCAATGTCCCAAACATGGTCTTACATGTA
1 ATCACATA-ACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
49690295 ATCACAT
1 ATCACAT
49690302 CTTGGTAACA
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 117 0.99
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
Found at i:49690233 original size:86 final size:87
Alignment explanation
Indices: 49690103--49690300 Score: 213
Period size: 86 Copynumber: 2.3 Consensus size: 87
49690093 TGCCGTATCT
* * * * * * * *
49690103 CAGATATGGTCTTACATTTTATCAC-ATATCGATGCCATTTTCCCAGACAGGGTCTTACACGAAA
1 CAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAACAGGGTATTACACGAAA
* * *
49690167 TCA-TATAACGATGTCAATGCCC
66 TCACAAT-ACAATGCCAATGCCC
* * * *
49690189 CAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAAACATGGTATTACATGTAA
1 CAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAACAGGGTATTACACGAAA
*
49690253 TCACAATACAATGCCAATGTCC
66 TCACAATACAATGCCAATGCCC
*
49690275 CAAACATGGTCTTACATGTAATCACA
1 CAGACATGGTCTTACATGTAATCACA
49690301 TCTTGGTAAC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
86 87 0.95
87 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (87 bp):
CAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAACAGGGTATTACACGAAA
TCACAATACAATGCCAATGCCC
Found at i:49697959 original size:43 final size:43
Alignment explanation
Indices: 49697935--49698101 Score: 271
Period size: 43 Copynumber: 3.9 Consensus size: 43
49697925 TCATATAATG
*
49697935 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
*
49697978 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
* *
49698021 ATTCCAATGTCCCAGACATAGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
* * *
49698064 ATGCCAATGTCCCAAAAATGGTCTTACATGAAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
49698102 TCTCGGTAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
Found at i:49702302 original size:19 final size:20
Alignment explanation
Indices: 49702278--49702323 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
49702268 CATCCAAACA
49702278 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
*
49702297 CCAGAAAAGTAAATTATTTT
1 CCAGAAAAGTAAATCATTTT
49702317 CCAGAAA
1 CCAGAAA
49702324 TCATTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:49702670 original size:43 final size:43
Alignment explanation
Indices: 49702609--49702770 Score: 209
Period size: 43 Copynumber: 3.8 Consensus size: 43
49702599 CTACAATTCC
* * * *
49702609 ATGTCACAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * * *
49702652 ATGTCCCAAACATGGTCTTACACGAAATCATATAACGATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* *
49702695 ATTTCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATAT-CGATGCCA
*
49702738 ATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGTCCCAGACATGGTCTTACACGTAATCACAT
49702771 CTTAATAATC
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 100 0.99
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
Found at i:49719735 original size:40 final size:40
Alignment explanation
Indices: 49719661--49719881 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
49719651 AACCCAAGTA
* * *
49719661 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
49719700 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
49719740 CCTTCGGGACTTAGCTCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
49719780 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAACA-G
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA-ATG
*
49719820 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49719859 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
49719882 CATCCGAATA
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 37 0.23
40 119 0.74
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:49719793 original size:80 final size:79
Alignment explanation
Indices: 49719661--49719881 Score: 320
Period size: 80 Copynumber: 2.8 Consensus size: 79
49719651 AACCCAAGTA
* * *
49719661 CCTTCGGGATTTAGCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
49719726 CACTAGCACAAAAG
66 CAATAGCACAAAAG
* *
49719740 CCTTCGGGACTTAGCTCGGATATAGCAACTCGCACAAACGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAGC-CGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
49719805 TCAATAGCACAACAG
65 TCAATAGCACAAAAG
* *
49719820 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
49719882 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 38 0.30
80 88 0.69
81 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAAAG
Found at i:49724556 original size:15 final size:15
Alignment explanation
Indices: 49724527--49724576 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
49724517 CAAAGATAAC
*
49724527 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
49724541 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
49724556 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
49724571 AAGAAA
1 AAGAAA
49724577 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49724585 original size:15 final size:15
Alignment explanation
Indices: 49724538--49724585 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
49724528 AGAAAACCGA
49724538 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
49724552 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
49724568 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
49724583 ATA
1 ATA
49724586 CGATACAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49739218 original size:46 final size:46
Alignment explanation
Indices: 49739143--49739271 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
49739133 TGTAACCTGC
* * * *
49739143 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACAT
* *
49739189 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
49739235 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49739272 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 2 0.03
46 72 0.97
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:49741648 original size:51 final size:51
Alignment explanation
Indices: 49741593--49741740 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
49741583 TGAACCTTAG
49741593 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
49741644 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
49741695 GAATAAAATAGCTTT-GGCTACAAGGGTGGTATTGTGTGAAGGCCAC
1 GAATAAAATAGCTTTGGGC-ACAAGTGTGGTACTATGTGAAGGCCAC
49741741 CATGTATCCG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 2 0.02
51 86 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:49753231 original size:61 final size:61
Alignment explanation
Indices: 49753089--49753275 Score: 174
Period size: 60 Copynumber: 3.1 Consensus size: 61
49753079 TCAAGCTTTA
* ** * *
49753089 CTGGGCC-TAAGCCCTATTAAAAAATCAGAGT-TAACTGGGCCTCAGCCCATAGCAATATTAAT
1 CTGGGCCGT-AGCCCTATTACAGTATCAGAGTAT-ACTGGGCCT-AGCCCATATCAATATCAAT
*
49753151 CTGGGCCGTAGCCC-CTTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAGA-ATCAAT
1 CTGGGCCGTAGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCA-ATATCAAT
* * ** *
49753211 CTGGGCCGTAGCCCTATTACAAGT-TGAGA-TATATTGGGCCTTCCCCATATCAACA-CAAT
1 CTGGGCCGTAGCCCTATTAC-AGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
49753270 -TGGGCC
1 CTGGGCC
49753276 CATTTCAATA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
58 6 0.06
59 5 0.05
60 50 0.46
61 30 0.28
62 16 0.15
63 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (61 bp):
CTGGGCCGTAGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:49754319 original size:45 final size:45
Alignment explanation
Indices: 49754241--49754369 Score: 133
Period size: 46 Copynumber: 2.9 Consensus size: 45
49754231 CTTTCATTCA
* * * *
49754241 TTCACTGGCATT-TTGCCTACTAGGCTCG--AGGCCCAACATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAA-ATAATG
*
49754283 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATAATG
* **
49754328 TCTCACCGGCATAATAGTTTGCTAGGCTC-AAAGGCCCAAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATA
49754370 TAATACCATC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 4 0.05
45 20 0.27
46 24 0.33
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATAATG
Found at i:49754427 original size:38 final size:38
Alignment explanation
Indices: 49754367--49754680 Score: 385
Period size: 38 Copynumber: 8.1 Consensus size: 38
49754357 AAAGGCCCAA
* * * * *
49754367 ATATAATACCATCACTAGGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
49754405 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
49754443 ATATATTACCAGTACGAAGCCTACGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
49754481 ATATATTACTAACACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
49754519 ATATATTACCAGCACGAAGCCTACGGAATCTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * **
49754557 ATACATTACTAGCACGAAGCCTGCGGGATCGGGATTTAATCCAA
1 ATATATTACCAGCACGAAGCCT----G--CGGGATTTAACCCGG
*
49754601 ATATATTACCAGCACGAAGCTTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
49754639 ATATATTACCAGCATGAAGCCTGCGAGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
49754677 ATAT
1 ATAT
49754681 CATATTTCGA
Statistics
Matches: 237, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
38 207 0.87
40 1 0.00
44 29 0.12
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:49757370 original size:25 final size:25
Alignment explanation
Indices: 49757341--49757388 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49757331 TTATAATATG
* *
49757341 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
49757366 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49757389 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:49757515 original size:20 final size:20
Alignment explanation
Indices: 49757425--49757507 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
49757415 ATTTTGATAA
49757425 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49757445 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
49757465 AGATGACATGTAT-AGTATGC
1 ACATGATATGTATGA-TATGC
49757485 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49757505 ACA
1 ACA
49757508 CGAGATGTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49757618 original size:23 final size:24
Alignment explanation
Indices: 49757560--49757679 Score: 147
Period size: 24 Copynumber: 5.0 Consensus size: 24
49757550 GAGGAAGTGC
*
49757560 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49757584 AAAAGGGATTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49757608 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49757631 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
49757656 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49757680 ATGATAAAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
23 27 0.32
24 28 0.33
25 20 0.24
26 9 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49757630 original size:47 final size:47
Alignment explanation
Indices: 49757561--49757658 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
49757551 AGGAAGTGCA
49757561 AAAGGGCTTATGCCCCAATTATT-AAAAGGGATTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATTAAAAAGGGATT-TGCCCCAGTTATT
* * *
49757608 AAAGGGCTTATGCCCTAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATT-AAAAAGGGATTTGCCCCAGTTATT
49757656 AAA
1 AAA
49757659 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 21 0.46
48 16 0.35
49 9 0.20
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAATTATTAAAAAGGGATTTGCCCCAGTTATT
Found at i:49757910 original size:31 final size:31
Alignment explanation
Indices: 49757872--49757935 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49757862 CGTTTACCGT
49757872 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
49757903 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49757934 AA
1 AA
49757936 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49760025 original size:48 final size:48
Alignment explanation
Indices: 49759969--49760063 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
49759959 AACTATGGTC
* *
49759969 TTATACTAGCTCTGCTCT-GCCCGTGCTGATGCCTATTCCCA-ATAGGTT
1 TTATACTAGCACT-CACTAGCCCGTGCTGATGCCTA-TCCCAGATAGGTT
* *
49760017 TTATACTAGCACTCACTAGGCTGTGCTGATGCCTATCCCAGATAGGT
1 TTATACTAGCACTCACTAGCCCGTGCTGATGCCTATCCCAGATAGGT
49760064 CTTACGCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 8 0.20
48 33 0.80
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (48 bp):
TTATACTAGCACTCACTAGCCCGTGCTGATGCCTATCCCAGATAGGTT
Found at i:49761527 original size:38 final size:38
Alignment explanation
Indices: 49761450--49761679 Score: 264
Period size: 38 Copynumber: 6.1 Consensus size: 38
49761440 AAGGCCCGAT
* * * * *
49761450 TATAATACCAGTACTAGGCCTGTGGG-TTTAAGCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* *
49761487 TATAATACCAGCATGAAGCCTGCGGGATTTAACCTGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* * * *
49761525 TATATTATCAGCACGAAGCCTGCAGTATTTAACCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* *
49761563 TATAATACCAGCACGAAGCCTACAGGATTTAACCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* * * *
49761601 TATATTACCAGCACGAAGCCTACGGAATCTAACCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* * * *
49761639 TACATTACTAGCACGAAGCCTGCGGGATTTAACTCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
49761677 TAT
1 TAT
49761680 CATATTTCGA
Statistics
Matches: 164, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
37 21 0.13
38 143 0.87
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (38 bp):
TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
Found at i:49767322 original size:15 final size:15
Alignment explanation
Indices: 49767281--49767343 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
49767271 GAAAACCAGA
*
49767281 ATAAAGAAGTCCAAG
1 ATAAAGAAATCCAAG
* * *
49767296 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
49767311 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
49767326 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
49767341 ATA
1 ATA
49767344 CCATATCATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:49783804 original size:40 final size:40
Alignment explanation
Indices: 49783721--49783906 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
49783711 TCGAATGATG
* * * *
49783721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49783761 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49783801 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49783841 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49783882 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49783907 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49783913 original size:80 final size:79
Alignment explanation
Indices: 49783774--49783939 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
49783764 GGACTAAGAT
* **
49783774 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
49783838 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
49783854 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
49783918 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
49783933 CCGAAGG
1 CCGAAGG
49783940 TATGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:49785935 original size:38 final size:38
Alignment explanation
Indices: 49785871--49785945 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
49785861 AATCCGAGTT
*
49785871 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
49785909 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
49785946 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:49786060 original size:40 final size:40
Alignment explanation
Indices: 49785999--49786282 Score: 417
Period size: 40 Copynumber: 7.1 Consensus size: 40
49785989 AGGTCTCGAC
*
49785999 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
49786038 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
49786078 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
49786118 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
49786158 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
49786198 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
49786238 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
49786278 GATGT
1 GATGT
49786283 GTATTCGGGC
Statistics
Matches: 220, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.02
40 216 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:49791389 original size:43 final size:42
Alignment explanation
Indices: 49791329--49791442 Score: 110
Period size: 41 Copynumber: 2.7 Consensus size: 42
49791319 ATATCAAACA
* * * *
49791329 ATGCCAAC-GTCCCAGACATGGTCTTACATTCTATCTCATAT-CG
1 ATGCCAACTGTCCTAGACATGGTCTTACA--CGA-ATCAAATGCG
*
49791372 ATGCC-ACTGTCCTAGACAGGGTCTTACACGAATCAAATGCG
1 ATGCCAACTGTCCTAGACATGGTCTTACACGAATCAAATGCG
* *
49791413 AAGCCGA-TGTCCTAGACATGGTCTTACACG
1 ATGCCAACTGTCCTAGACATGGTCTTACACG
49791443 TAACCATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
40 5 0.08
41 30 0.49
42 3 0.05
43 23 0.38
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACTGTCCTAGACATGGTCTTACACGAATCAAATGCG
Found at i:49794133 original size:12 final size:12
Alignment explanation
Indices: 49794116--49794141 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49794106 CATTCCGAAG
49794116 TATATATATACA
1 TATATATATACA
49794128 TATATATATACA
1 TATATATATACA
49794140 TA
1 TA
49794142 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:49794653 original size:27 final size:27
Alignment explanation
Indices: 49794622--49794799 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
49794612 TAAATTGTAC
49794622 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49794649 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49794675 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49794703 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* **
49794731 AGCACTAAGTGTGCGATTTGATTACAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49794758 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49794785 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49794800 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49794736 original size:82 final size:81
Alignment explanation
Indices: 49794623--49794778 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49794613 AAATTGTACA
* *
49794623 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATA-CATAGCACTAAGTG
49794687 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49794704 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACATAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACATAGCACTAAGTG
*
49794769 TGCGAGTTGA
65 TGCGAATTGA
49794779 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49794790 original size:82 final size:81
Alignment explanation
Indices: 49794619--49794799 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49794609 GATTAAATTG
* *
49794619 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCATGCACTAA
49794684 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49794700 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCAT-GCACT
* **
49794764 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49794782 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49794800 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 19 0.23
82 65 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATCATGCACTAA
GTGTGCGAATTGACCA
Found at i:49794810 original size:27 final size:27
Alignment explanation
Indices: 49794704--49794810 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
49794694 TGACCATGCG
* * * *
49794704 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * *
49794732 GCACTAAGTGTGCGATTTGATTACATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
49794759 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
49794786 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
49794811 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:49794827 original size:20 final size:20
Alignment explanation
Indices: 49794802--49794842 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
49794792 AGTGTGCGGG
49794802 CTCAATATACATTCGTGAAA
1 CTCAATATACATTCGTGAAA
*
49794822 CTCAATATGCATTCGTGAAA
1 CTCAATATACATTCGTGAAA
49794842 C
1 C
49794843 ATTATGGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (20 bp):
CTCAATATACATTCGTGAAA
Found at i:49806426 original size:85 final size:84
Alignment explanation
Indices: 49806307--49806514 Score: 299
Period size: 85 Copynumber: 2.4 Consensus size: 84
49806297 GAATTATAGT
* * *
49806307 TTACATGTAAGACCACATCTGGGACGTTGACATTGTACTTGATTTCGTGTAAGACCCTGTCTAGG
1 TTACATGTAAGACCACGTCT-GGACGTTGGCATTGTACTTGATTTCGTGTAAAACCCTGTCTAGG
49806372 ACACTGGCATCAATATTTGA
65 ACACTGGCATCAATATTTGA
* ** *
49806392 TTACATGTAAGAACACGTCTAGGACGTTGGCATTGTACTTGATTTCGTGTAAAACTGTGTCTGGG
1 TTACATGTAAGACCACGTCT-GGACGTTGGCATTGTACTTGATTTCGTGTAAAACCCTGTCTAGG
* * *
49806457 ATAGTGGCATCGATATTTGA
65 ACACTGGCATCAATATTTGA
49806477 TTACATGTAAGACCACGTCTGGCACGTTGGCATTGTAC
1 TTACATGTAAGACCACGTCTGG-ACGTTGGCATTGTAC
49806515 AAGCTTTCTG
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
84 2 0.02
85 108 0.98
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
TTACATGTAAGACCACGTCTGGACGTTGGCATTGTACTTGATTTCGTGTAAAACCCTGTCTAGGA
CACTGGCATCAATATTTGA
Found at i:49806497 original size:43 final size:43
Alignment explanation
Indices: 49806268--49806509 Score: 197
Period size: 43 Copynumber: 5.7 Consensus size: 43
49806258 TGTATTTTCG
* *
49806268 TGTAAGACCACATCTGGGACGTTGGCATCGA-ATTATAGTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-T-GATTACA
* * * * * *
49806312 TGTAAGACCACATCTGGGACGTTGACATTG-TACTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* ** *
49806354 TGTAAGACC-CTGTCTAGGACACTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATCGATATTTGATTACA
* * * * * *
49806397 TGTAAGAACACGTCTAGGACGTTGGCATTG-TACTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* *** *
49806439 TGTAAAACTGTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATCGATATTTGATTACA
*
49806482 TGTAAGACCACGTCTGGCACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
49806510 TGTACAAGCT
Statistics
Matches: 150, Mismatches: 41, Indels: 15
0.73 0.20 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.37
43 63 0.42
44 31 0.21
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:49807350 original size:12 final size:12
Alignment explanation
Indices: 49807333--49807358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49807323 GGTGGCAAGT
49807333 TGGCCTTGTAAA
1 TGGCCTTGTAAA
49807345 TGGCCTTGTAAA
1 TGGCCTTGTAAA
49807357 TG
1 TG
49807359 ACATGGGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (12 bp):
TGGCCTTGTAAA
Found at i:49811910 original size:47 final size:46
Alignment explanation
Indices: 49811842--49812016 Score: 178
Period size: 47 Copynumber: 3.7 Consensus size: 46
49811832 ACAACTCTTA
* * *
49811842 GCCGATGCGTGTCCCGGACATGTCTTACATTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACTCATC-TCG-G
* * *
49811889 GCCGGTGCATGTCCCAGACATGTCTTACACTGG-TACTCGTCTCTGT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACTCATCTC-GG
* * *
49811935 GCCGATGCCATGTCCCAAACATGGTCTTATACTGGC-ACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACTCAT-CTCG-G
49811983 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
49812017 ACACAAGAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 22 0.21
47 61 0.57
48 23 0.21
49 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACTCATCTCGG
Found at i:49821193 original size:13 final size:13
Alignment explanation
Indices: 49821177--49821201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49821167 GGCCTACACA
49821177 CATGCCCGTGTGC
1 CATGCCCGTGTGC
49821190 CATGCCCGTGTG
1 CATGCCCGTGTG
49821202 GAAAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
CATGCCCGTGTGC
Found at i:49821968 original size:44 final size:46
Alignment explanation
Indices: 49821911--49822032 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 46
49821901 GTATATACGT
*
49821911 GCTGATGCATGTCCCAGACATGTCTTACACTAG-TA-CAAC-TCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCAACGTC-GA
* * *
49821955 GCTGATGCGTGTCCCAGACACGTCTTACACTAGCTATCATCGTCGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCAACGTCGA
* *
49822001 GGTCGATGCATGTCCCCGACATGTCTTACACT
1 GCT-GATGCATGTCCCAGACATGTCTTACACT
49822033 GGCACTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 31 0.47
45 2 0.03
46 6 0.09
47 27 0.41
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCAACGTCGA
Found at i:49829262 original size:40 final size:40
Alignment explanation
Indices: 49829207--49829381 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
49829197 TATGTGCATA
49829207 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
* *
49829247 GCATTCGTGGGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
49829287 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
* *
49829327 GCATTCGTGGGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
*
49829367 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
49829382 GTTACATCCG
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAG
Found at i:49829340 original size:80 final size:80
Alignment explanation
Indices: 49829207--49829381 Score: 341
Period size: 80 Copynumber: 2.2 Consensus size: 80
49829197 TATGTGCATA
49829207 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGGGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGGGGGTTATTATAACCG
49829272 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
49829287 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGGGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGGGGGTTATTATAACCG
49829352 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
*
49829367 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
49829382 GTTACATCCG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 94 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGGGGGTTATTATAACCG
GGTTAAGTCCCGAAG
Found at i:49837408 original size:40 final size:40
Alignment explanation
Indices: 49837353--49837527 Score: 341
Period size: 40 Copynumber: 4.4 Consensus size: 40
49837343 TATGTGCATA
49837353 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
49837393 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
49837433 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
49837473 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
49837513 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
49837528 GTTACATCCG
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:49837551 original size:80 final size:80
Alignment explanation
Indices: 49837353--49837551 Score: 272
Period size: 80 Copynumber: 2.5 Consensus size: 80
49837343 TATGTGCATA
* * ** *
49837353 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTATTATAACCG
49837418 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
* * ** *
49837433 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTATTATAACCG
49837498 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
* * * *
49837513 GCATTCGTGCTGGTTGTTACATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAA
49837552 AGTATTTATG
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 110 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTATTATAACCG
GGTTAAGTCCCGAAG
Found at i:49845566 original size:41 final size:40
Alignment explanation
Indices: 49845502--49845597 Score: 165
Period size: 41 Copynumber: 2.4 Consensus size: 40
49845492 TATGTGCATA
49845502 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
49845542 GCATTCGTGCGGGGTTTTTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGC-GGGTTATTATAACCGGGTTAAGTCCCGAAG
*
49845583 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
49845598 GTTACATCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 14 0.26
41 39 0.74
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:49851976 original size:90 final size:90
Alignment explanation
Indices: 49851816--49851986 Score: 236
Period size: 90 Copynumber: 1.9 Consensus size: 90
49851806 ACACCAAGTA
*
49851816 TGGTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAACCACACATCGATGCCATATCCCAAA
1 TGGTGCCAAAGCCATGTCCCAGACATGGTCTTACACGGAACCACACATCGATGCCATATCCCAAA
*
49851881 TATGGTCTTATACGAAGTCTCAAAT
66 CATGGTCTTATACGAAGTCTCAAAT
* * * * * * * *
49851906 TGGTGCCGACGCCATGTCCCAGACATGTTCTTATACCGG-ACCTCATATCGATGCCATGTCCCAG
1 TGGTGCCAAAGCCATGTCCCAGACATGGTCTTACA-CGGAACCACACATCGATGCCATATCCCAA
49851970 ACATGGTCTTATACGAA
65 ACATGGTCTTATACGAA
49851987 ATCACTTGCC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
90 68 0.97
91 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (90 bp):
TGGTGCCAAAGCCATGTCCCAGACATGGTCTTACACGGAACCACACATCGATGCCATATCCCAAA
CATGGTCTTATACGAAGTCTCAAAT
Found at i:49852000 original size:42 final size:44
Alignment explanation
Indices: 49851909--49852001 Score: 106
Period size: 42 Copynumber: 2.2 Consensus size: 44
49851899 CTCAAATTGG
* * **
49851909 TGCCGACGCCATGTCCCAGACATGTTCTTATACCGGACCTCATA
1 TGCCGATGCCATGTCCCAGACATGGTCTTATACCGGAAATCATA
49851953 T--CGATGCCATGTCCCAGACATGGTCTTATA-C-GAAATCACT-
1 TGCCGATGCCATGTCCCAGACATGGTCTTATACCGGAAATCA-TA
49851993 TGCCGATGC
1 TGCCGATGC
49852002 TGAAGCCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
40 6 0.14
41 2 0.05
42 33 0.79
44 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (44 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTATACCGGAAATCATA
Found at i:49852572 original size:16 final size:16
Alignment explanation
Indices: 49852551--49852583 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49852541 TTTTTATCAC
49852551 TCAATTTAGACCTTTT
1 TCAATTTAGACCTTTT
*
49852567 TCAATTTAGTCCTTTT
1 TCAATTTAGACCTTTT
49852583 T
1 T
49852584 AGGTGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (16 bp):
TCAATTTAGACCTTTT
Found at i:49859402 original size:46 final size:46
Alignment explanation
Indices: 49859335--49859507 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
49859325 AACCCGCCCC
* * *
49859335 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
49859381 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCATCCA
* * *
49859429 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
49859474 TAAGTGAACTCGGACTCAACTCGACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49859508 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 58 0.55
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:49859448 original size:93 final size:93
Alignment explanation
Indices: 49859340--49859510 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
49859330 GCCCCTAAGT
* *
49859340 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49859405 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
49859433 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCGA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
49859498 CGAGTTCGGATGC
66 CGAGTTCAGATGC
49859511 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:49859957 original size:30 final size:30
Alignment explanation
Indices: 49859923--49859982 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
49859913 ATTTAATACG
49859923 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* *
49859953 AACTTTTGCAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
49859983 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:49874517 original size:53 final size:54
Alignment explanation
Indices: 49874434--49874656 Score: 204
Period size: 53 Copynumber: 4.2 Consensus size: 54
49874424 AGGATGCACG
** * *
49874434 GGTA-CCTTTCCTT-TTTAACTTACCATTGCCACGTCTTGACATGGTCTTACGT
1 GGTATCCTTTCCTTATAGAACTTACCATTGCCATGTCTTGACATGGTCTTACAT
* * *
49874486 GGTATCCTTTCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTACAT
1 GGTATCCTTTCCTTATAGAACTTACCATTGCCATGTCTTGACATGGTCTTACAT
* ** * *
49874539 GGGAT-CTTTGCCTTATAGTAGTTTATCATTGCCATGTCTTGACATGGCCTTACAT
1 GGTATCCTTT-CCTTATAG-AACTTACCATTGCCATGTCTTGACATGGTCTTACAT
* * * * * * * *
49874594 GATTTCCTTGCCTTGTCGAACTTACCAATGCCATG-CGTTGGCATGGTCTTACTT
1 GGTATCCTTTCCTTATAGAACTTACCATTGCCATGTC-TTGACATGGTCTTACAT
49874648 GGTATCCTT
1 GGTATCCTT
49874657 AAACCCTAAT
Statistics
Matches: 135, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
52 8 0.06
53 51 0.38
54 36 0.27
55 37 0.27
56 3 0.02
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (54 bp):
GGTATCCTTTCCTTATAGAACTTACCATTGCCATGTCTTGACATGGTCTTACAT
Found at i:49881283 original size:79 final size:82
Alignment explanation
Indices: 49881172--49881357 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
49881162 GCTACTCGTT
* *
49881172 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49881235 GGATTTAGTAAC-TCGCA
65 GGATGTAGTAACTTAGCA
* * **
49881252 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
**
49881315 GATGTAGTCGCTTAGCA
66 GATGTAGTAACTTAGCA
*
49881332 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49881358 TATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 46 0.51
80 30 0.33
81 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATGTAGTAACTTAGCA
Found at i:49881289 original size:39 final size:41
Alignment explanation
Indices: 49881172--49881357 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
49881162 GCTACTCGTT
* *
49881172 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
49881212 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
49881252 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * ** *
49881291 CAAATGCCTTC-GGATCTTAGTCCGG-ATGTAGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
49881332 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49881358 TATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 65 0.52
41 23 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:49882229 original size:150 final size:150
Alignment explanation
Indices: 49881938--49882244 Score: 562
Period size: 150 Copynumber: 2.0 Consensus size: 150
49881928 ATTTCGGTCA
49881938 AGGATGTTCAAGGATGAACACACATTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGGG
1 AGGATGTTCAAGGATGAACACACATTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGGG
49882003 GGGGCATGGATGAGACCATTTTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGATC
66 GGGGCATGGATGAGACCA-TTTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGATC
49882068 ATTATTTTATTGTTTCCTCCC
130 ATTATTTTATTGTTTCCTCCC
49882089 AGGATGTTCAAGGATGAACACACATTTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
1 AGGATGTTCAAGGATGAACACACA-TTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
* *
49882154 GGGGGCATGGATGAGACCA-TTTTTTTTCATCACTCCTCCCTTTCATTATTTAATTACCATGCTC
65 GGGGGCATGGATGAGACCATTTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGATC
49882218 ATTATTTTATTGTTTCCTCCC
130 ATTATTTTATTGTTTCCTCCC
*
49882239 ATGATG
1 AGGATG
49882245 CACCAACACA
Statistics
Matches: 152, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
150 69 0.45
151 24 0.16
152 59 0.39
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (150 bp):
AGGATGTTCAAGGATGAACACACATTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGGG
GGGGCATGGATGAGACCATTTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGATCA
TTATTTTATTGTTTCCTCCC
Found at i:49882929 original size:517 final size:515
Alignment explanation
Indices: 49882089--49883094 Score: 1949
Period size: 517 Copynumber: 1.9 Consensus size: 515
49882079 GTTTCCTCCC
49882089 AGGATGTTCAAGGATGAACACACATTTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
1 AGGATGTTCAAGGATGAACACACATTTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
*
49882154 GGGGGCATGGATGAGACCATTTTTTTTCATCACTCCTCCCTTTCATTATTTAATTACCATGCTCA
66 GGGGGCATGGATGAGACCATTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGCTCA
49882219 TTATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCAC
131 TTATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCAC
49882284 CCTTTGTCCATCCTAATGTCATGGCCGGCCACTACTAGATGCGGGGGGAAAATTGACATGCAAGT
196 CCTTTGTCCATCCTAATGTCATGGCCGGCCACTACTAGATGCGGGGGGAAAATTGACATGCAAGT
49882349 CCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCACATTTCAAAAATGTCA
261 CCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCACATTTCAAAAATGTCA
49882414 CACATAAGTCCTATTGACTAAATTCACATGCAACTTACTAAATAGAAGCTTCAAATTTTCACACA
326 CACATAAGTCCTATTGACTAAATTCACATGCAACTTACTAAATAGAAGCTTCAAATTTTCACACA
49882479 TTTATTTTAGACAATAAATATCATATTCAAACAATTTGGTGACTCGGTTTAGCAGTCCCGAAACC
391 TTTATTTTAGACAATAAATATCATATTCAAACAATTTGGTGACTCGGTTTAGCAGTCCCGAAACC
*
49882544 GCTTTCGTACTAGGGTCACTTTAGGGCTGTCACACTTTCTTTCCTTTTGAATTTCGGTCA
456 GCTTTCCTACTAGGGTCACTTTAGGGCTGTCACACTTTCTTTCCTTTTGAATTTCGGTCA
49882604 AGGATGTTCAAGGATGAACACACATTTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
1 AGGATGTTCAAGGATGAACACACATTTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
49882669 GGGGGCATGGATGAGACCATTTTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGCT
66 GGGGGCATGGATGAGACCA--TTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGCT
49882734 CATTATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATC
129 CATTATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATC
49882799 ACCCTTTGTCCATCCTAATGTCATGGCCGGCCACTACTAGATGCGGGGGGAAAATTGACATGCAA
194 ACCCTTTGTCCATCCTAATGTCATGGCCGGCCACTACTAGATGCGGGGGGAAAATTGACATGCAA
49882864 GTCCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCACATTTCAAAAATGT
259 GTCCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCACATTTCAAAAATGT
49882929 CACACATAAGTCCTATTGACTAAATTCACATGCAACTTACTAAATAGAAGCTTCAAATTTTCACA
324 CACACATAAGTCCTATTGACTAAATTCACATGCAACTTACTAAATAGAAGCTTCAAATTTTCACA
*
49882994 CATTTATTTTAGACAATAAATATCATATTCAAACAATTTGGTGACTCGGTTTAGCGGTCCCGAAA
389 CATTTATTTTAGACAATAAATATCATATTCAAACAATTTGGTGACTCGGTTTAGCAGTCCCGAAA
* *
49883059 CCGCTTTCCTACTAGTGTCACTTTAGGGTTGTCACA
454 CCGCTTTCCTACTAGGGTCACTTTAGGGCTGTCACA
49883095 TATCTGTTCT
Statistics
Matches: 484, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
515 84 0.17
517 400 0.83
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (515 bp):
AGGATGTTCAAGGATGAACACACATTTTTTTTTCTTTGTTTTCTTTCTTCCATTCACGGCAAAGG
GGGGGCATGGATGAGACCATTTTTTTTCATCACTCCTCCCCTTCATTATTTAATTACCATGCTCA
TTATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCAC
CCTTTGTCCATCCTAATGTCATGGCCGGCCACTACTAGATGCGGGGGGAAAATTGACATGCAAGT
CCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCACATTTCAAAAATGTCA
CACATAAGTCCTATTGACTAAATTCACATGCAACTTACTAAATAGAAGCTTCAAATTTTCACACA
TTTATTTTAGACAATAAATATCATATTCAAACAATTTGGTGACTCGGTTTAGCAGTCCCGAAACC
GCTTTCCTACTAGGGTCACTTTAGGGCTGTCACACTTTCTTTCCTTTTGAATTTCGGTCA
Found at i:49884705 original size:21 final size:21
Alignment explanation
Indices: 49884681--49884720 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
49884671 ATCCAAATTA
49884681 TTCAACGGGATGGTTTTGTTG
1 TTCAACGGGATGGTTTTGTTG
49884702 TTCAACGGGATGGTTTTGT
1 TTCAACGGGATGGTTTTGT
49884721 GGTGACATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.42
Consensus pattern (21 bp):
TTCAACGGGATGGTTTTGTTG
Found at i:49889385 original size:27 final size:26
Alignment explanation
Indices: 49889314--49889428 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
49889304 TGGAGGAAGC
49889314 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
49889341 ATTTCTGGTGGCTATGCCACAAATATCT
1 -GTTCTGGTGGCTATGCCAC-AATATCT
*
49889369 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
49889395 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
*
49889422 ATTCTGG
1 GTTCTGG
49889429 CAGCCATGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.17
27 40 0.50
28 26 0.32
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:49892393 original size:49 final size:49
Alignment explanation
Indices: 49891523--49892381 Score: 1684
Period size: 49 Copynumber: 17.5 Consensus size: 49
49891513 TGAGGTCACT
* *
49891523 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACC-GAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATTATTGGTCGCA
49891572 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891621 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891670 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891719 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891768 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891817 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891866 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891915 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49891964 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892013 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892062 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892111 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892160 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892209 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892258 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892307 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
49892356 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
49892382 TGCATACCAG
Statistics
Matches: 807, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
49 806 1.00
50 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
Found at i:49893418 original size:39 final size:39
Alignment explanation
Indices: 49893315--49893428 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
49893305 TTCAGTGATG
** * *
49893315 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
**
49893354 TATATCCGGACTTAAAGTCTACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * *
49893393 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
49893429 TATTATACCG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
38 6 0.10
39 56 0.90
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:49897973 original size:43 final size:43
Alignment explanation
Indices: 49897919--49898160 Score: 403
Period size: 43 Copynumber: 5.6 Consensus size: 43
49897909 GCTGGTATTA
* *
49897919 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
**
49897962 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
*
49898005 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
* * *
49898048 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCAAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
*
49898091 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
49898134 TATTCGGGCCTTCGTGCCTAGCAGGCT
1 TATTCGGGCCTTCGTGCCTAGCAGGCT
49898161 AATGCTGGTG
Statistics
Matches: 188, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 188 1.00
ACGTcount: A:0.12, C:0.23, G:0.33, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
Found at i:49898021 original size:86 final size:86
Alignment explanation
Indices: 49897900--49898171 Score: 433
Period size: 86 Copynumber: 3.2 Consensus size: 86
49897890 TAAATCCCGT
* * *
49897900 AGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCGGTGATGTGT
1 AGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGT
49897963 ATTCGGGCCTTCGTGCCTAGC
66 ATTCGGGCCTTCGTGCCTAGC
49897984 AGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGT
1 AGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGT
*
49898049 ATTCGGGCCTTTGTGCCTAGC
66 ATTCGGGCCTTCGTGCCTAGC
* ** * *
49898070 AGGCTTCGTGCAAGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGT
1 AGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGT
49898135 ATTCGGGCCTTCGTGCCTAGC
66 ATTCGGGCCTTCGTGCCTAGC
*
49898156 AGGC-TAATGCTGGTGA
1 AGGCTTAGTGCTGGTGA
49898172 AATGATATGT
Statistics
Matches: 172, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
84 14 0.08
85 10 0.06
86 148 0.86
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.32
Consensus pattern (86 bp):
AGGCTTAGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCAGTGATGTGT
ATTCGGGCCTTCGTGCCTAGC
Found at i:49898555 original size:45 final size:42
Alignment explanation
Indices: 49898486--49898595 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 42
49898476 TGTTGACTTG
* *
49898486 ATTATTCGGGCCTTTGAGCTTAGCAAACTATAATGCAGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCAGGTGA
** *
49898528 GATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 -AT--TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCAGGTGA
49898573 ATTGATATCGGGCC-TCGAGCCTA
1 ATT-AT-TCGGGCCTTCGAGCCTA
49898596 ACAGGCGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 1 0.02
43 13 0.22
44 9 0.16
45 35 0.60
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (42 bp):
ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCAGGTGA
Found at i:49898601 original size:43 final size:43
Alignment explanation
Indices: 49898536--49898619 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
49898526 GAGATACTAT
* *
49898536 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAATTGATA
1 TCGGGCCTTCGAGCCTAACAGGCGA-AATGCCGGTGAATTGATA
*
49898580 TCGGGCC-TCGAGCCTAACAGGCGAAATGCCGGTGATTTGA
1 TCGGGCCTTCGAGCCTAACAGGCGAAATGCCGGTGAATTGA
49898620 GAAAAGTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 15 0.41
43 15 0.41
44 7 0.19
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (43 bp):
TCGGGCCTTCGAGCCTAACAGGCGAAATGCCGGTGAATTGATA
Found at i:49901344 original size:15 final size:15
Alignment explanation
Indices: 49901324--49901368 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
49901314 TATCGTATCT
49901324 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
49901339 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
49901353 TAGGATTTCTTTATTC
1 T-GGGTTTCTTTATTC
49901369 AGTTTTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:49903975 original size:49 final size:50
Alignment explanation
Indices: 49903836--49903975 Score: 178
Period size: 49 Copynumber: 2.8 Consensus size: 50
49903826 TCTATTGTGA
49903836 GGTCGCATGTGTAGTACTAAGT-CAGGCTACTATGCGTACTCGAAAACTAT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CGAAAACTAT
* * * * * * *
49903886 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATAGT-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGA-AAACTAT
49903935 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
49903976 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
49 38 0.50
50 23 0.30
51 15 0.20
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGAAAACTAT
Found at i:49905200 original size:40 final size:40
Alignment explanation
Indices: 49904972--49905193 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
49904962 AATGATGTCT
* * * *
49904972 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * *
49905012 GGACTACGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
49905052 GGGCTAAG-CCCGAAGGCGTTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
49905091 GGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
49905131 AGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
49905171 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
49905194 AACGAGTAGC
Statistics
Matches: 154, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
39 33 0.21
40 111 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:49905200 original size:80 final size:77
Alignment explanation
Indices: 49904976--49905226 Score: 238
Period size: 79 Copynumber: 3.2 Consensus size: 77
49904966 ATGTCTGGGC
* * * * * *
49904976 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTACGAT-CCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCTTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCGA
* *
49905040 GATACTAATTCCGGGC
64 G-TACTAAATCC-GGT
* * *
49905056 TAAG-CCCGAAGGCGTTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCAAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
49905119 GTTACTAAATCCAGGT
64 G-TACTAAATCC-GGT
* **
49905135 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
49905200 TAGCTATATCCGGT
65 TA-CTAAATCCGGT
* *
49905214 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
49905227 TACGTGATTT
Statistics
Matches: 142, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.01
79 71 0.50
80 67 0.47
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
TAAGTCCCGAAGGCTTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
ACTAAATCCGGT
Found at i:49905994 original size:34 final size:35
Alignment explanation
Indices: 49905956--49906024 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
49905946 AGCAGCAGTG
49905956 ATGTAGATTT-GGAAAATCACTAAAAATAGCAGGA
1 ATGTAGATTTGGGAAAATCACTAAAAATAGCAGGA
*
49905990 ATGTAGATTTGGGAAAATCACTAAAAATAGTAGGA
1 ATGTAGATTTGGGAAAATCACTAAAAATAGCAGGA
49906025 TTGAAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 10 0.30
35 23 0.70
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (35 bp):
ATGTAGATTTGGGAAAATCACTAAAAATAGCAGGA
Done.