Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 118 of 343
Found at i:39709336 original size:40 final size:41
Alignment explanation
Indices: 39709150--39709341 Score: 151
Period size: 43 Copynumber: 4.6 Consensus size: 41
39709140 TGGGCTTCGG
***
39709150 GCCTAGCAGGCTATAATGCCGGTGAGATAATATT-GGGCTTTGG
1 GCCTAGCAGGCTA-AATGCCGGT--GATAATATTCGGGCTTAAA
* *
39709193 GCCTAGCAGGCTATAATGCCGATGA-AATGATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTGATAAT-AT-TCGGGCTTAAA
* * *
39709236 GCCTAGCAGGCGAAATGCCGGTG--AATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGATAAT-A-TTCGGGCTTAAA
* *** *
39709277 GTCTAGCAGGCTTCGTGCCGGTGATAA-ATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGATAATATTCGGGCTTAAA
*
39709317 ACCTAGCAGGCTAAATGCCGGTGAT
1 GCCTAGCAGGCTAAATGCCGGTGAT
39709342 TTGATAAAAG
Statistics
Matches: 121, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
40 32 0.26
41 36 0.30
42 11 0.09
43 42 0.35
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGATAATATTCGGGCTTAAA
Found at i:39713944 original size:29 final size:28
Alignment explanation
Indices: 39713899--39713960 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
39713889 TGATTTTTAA
*
39713899 TGAAA-GTGCAAATTAGGAGTTAAATTG
1 TGAAATGTGCAAATTAGGAGTTAAAATG
*
39713926 TGAAATGTGTAAATTTAGGAGTTAAAATG
1 TGAAATGTGCAAA-TTAGGAGTTAAAATG
39713955 TGAAAT
1 TGAAAT
39713961 AAATGAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 5 0.16
28 6 0.19
29 20 0.65
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.32
Consensus pattern (28 bp):
TGAAATGTGCAAATTAGGAGTTAAAATG
Found at i:39717309 original size:30 final size:30
Alignment explanation
Indices: 39717275--39717335 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39717265 TCCTTAACTC
39717275 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
39717305 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
39717335 A
1 A
39717336 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:39721725 original size:30 final size:30
Alignment explanation
Indices: 39721691--39721751 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39721681 TCCTTAACTC
39721691 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
39721721 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
39721751 A
1 A
39721752 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:39724386 original size:46 final size:45
Alignment explanation
Indices: 39724319--39724492 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
39724309 TGTAACCCGC
*
39724319 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGGGCGTTTGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTTGTAT
* *
39724365 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTTGTAT
* *** * * *
39724411 ACATCTTTCGAACTC-GACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTTGTAT
*
39724457 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
39724493 ATGCCCAAAC
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 8 0.08
46 86 0.81
47 9 0.08
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTGTAT
Found at i:39724439 original size:92 final size:93
Alignment explanation
Indices: 39724327--39724497 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
39724317 GCCCATAAGT
* * *
39724327 GAACTCTGACTCAACTCAACGAGCTCGGGCGTTTGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCTGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
39724392 CGAGCTCGGATGCCTAGTTACATCTTTC
66 CGAGCTCGGATGCCTAGTTACATCTTTC
*
39724420 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCTGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
*
39724484 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
39724498 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 67 0.92
93 6 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCTGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTTC
Found at i:39739528 original size:21 final size:21
Alignment explanation
Indices: 39739502--39739546 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
39739492 TCATGCAAAG
39739502 TTAGCCAATCCATACCCAGAA
1 TTAGCCAATCCATACCCAGAA
39739523 TTAGCCAATCCATACCCAGAA
1 TTAGCCAATCCATACCCAGAA
39739544 TTA
1 TTA
39739547 TATCAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (21 bp):
TTAGCCAATCCATACCCAGAA
Found at i:39742681 original size:21 final size:21
Alignment explanation
Indices: 39742655--39742696 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
39742645 ATAACACATG
39742655 TTATAAAACTAGGTCCCTATA
1 TTATAAAACTAGGTCCCTATA
39742676 TTATAAAACTAGGTCCCTATA
1 TTATAAAACTAGGTCCCTATA
39742697 CATGCCACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
TTATAAAACTAGGTCCCTATA
Found at i:39743773 original size:49 final size:49
Alignment explanation
Indices: 39743714--39743958 Score: 240
Period size: 49 Copynumber: 4.9 Consensus size: 49
39743704 TAGCCAAAGC
* * * *
39743714 TATCTAGTACACATAGTAGCCTGCACTTAGTAATACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
39743763 TATCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* ** * * **
39743813 CATCTAATACACGTAGAAGCCTGCACTTAGTACTACACACGTGATTGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * ** * *
39743864 TATC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGGCGAAT
1 TATCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
39743913 TATCTGGTAAACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
39743959 TCACAATAGA
Statistics
Matches: 156, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
49 76 0.49
50 47 0.30
51 33 0.21
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:39743902 original size:99 final size:98
Alignment explanation
Indices: 39743715--39743958 Score: 260
Period size: 99 Copynumber: 2.5 Consensus size: 98
39743705 AGCCAAAGCT
* * * * *
39743715 ATCTAGTACACATAGTAGCCTGCACTTAGTAATACACATGCGACCAATTATCTGGTACACGTAGT
1 ATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATAGT
*
39743780 AGCCTGCACATAGTACTACACACGTGAC-CTAACC
66 AGCCTGCACATAGTACTA-ACACGTG-CGCGAACC
* * ** *
39743814 ATCTAATACACGTAGAAGCCTGCACTTAGTACTACACACGTGATTGAAGTTATC-GAGTACGCAT
1 ATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTG-GTACACAT
* **
39743878 AGTAGCCTGCACTTAGTACT-ACACGTGCGGCGAATT
63 AGTAGCCTGCACATAGTACTAACACGTGC-GCGAACC
* * *
39743914 ATCTGGTAAACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 ATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
39743959 TCACAATAGA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
98 1 0.01
99 44 0.37
100 44 0.37
101 30 0.25
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (98 bp):
ATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATAGT
AGCCTGCACATAGTACTAACACGTGCGCGAACC
Found at i:39748764 original size:40 final size:40
Alignment explanation
Indices: 39748707--39748884 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
39748697 TGGATGATAA
39748707 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39748747 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39748787 CCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39748827 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
39748867 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39748885 TACTTGGCTT
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 17 0.13
40 110 0.87
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39750424 original size:49 final size:49
Alignment explanation
Indices: 39750361--39750521 Score: 141
Period size: 49 Copynumber: 3.3 Consensus size: 49
39750351 TCCATCAAGT
39750361 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGC
1 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGC
* ** * * * *
39750410 TGATGCCATGTCCCATACATGGTCTT-TCACTCAC-ACCTCTATA-CG-TGC
1 TGATGCCATGTCCCAGATGTGGTCTTAT-ACTGACTA--TCGAAATCGAGGC
* * * *
39750458 TGATTCCATGTCCTAGATGTGGTCTTATATTGACTATCGTAATCGAGGC
1 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGC
** *
39750507 CAACGCCATGTCCCA
1 TGATGCCATGTCCCA
39750522 TACATGGTCT
Statistics
Matches: 82, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
47 3 0.04
48 31 0.38
49 44 0.54
50 4 0.05
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGC
Found at i:39750483 original size:97 final size:97
Alignment explanation
Indices: 39750361--39750588 Score: 348
Period size: 97 Copynumber: 2.4 Consensus size: 97
39750351 TCCATCAAGT
* ** *
39750361 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCTGATGCCATGTCCCAT
1 TGATTCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAT
*
39750426 ACATGGTCTTTCACTCACACCTCTATACGTGC
66 ACATGGTCTTACACTCACACCTCTATACGTGC
* * *
39750458 TGATTCCATGTCCTAGATGTGGTCTTATATTGACTATCGTAATCGAGGCCAACGCCATGTCCCAT
1 TGATTCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAT
39750523 ACATGGTCTTACACTCACACCTCTATACGTGC
66 ACATGGTCTTACACTCACACCTCTATACGTGC
* ** *
39750555 TGATTCCTTGTCCCAGACATGGTCTTACACTGAC
1 TGATTCCATGTCCCAGATGTGGTCTTATACTGAC
39750589 ACATCTCGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 117 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (97 bp):
TGATTCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAT
ACATGGTCTTACACTCACACCTCTATACGTGC
Found at i:39750575 original size:48 final size:48
Alignment explanation
Indices: 39750408--39750590 Score: 156
Period size: 48 Copynumber: 3.8 Consensus size: 48
39750398 CGAAATCGAG
* *
39750408 GCTGATGCCATGTCCCATACATGGTCTTTCACTCACACCTCTATACGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCACACCTCTATACGT
* * ** * * * *
39750456 GCTGATTCCATGTCCTAGATGTGGTCTTATATTGACTA--TCGTA-ATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCAC-ACCTC-TATA-CG-T
** * *
39750505 GCCAACGCCATGTCCCATACATGGTCTTACACTCACACCTCTATACGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCACACCTCTATACGT
* * *
39750553 GCTGATTCCTTGTCCCAGACATGGTCTTACACTGACAC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCACAC
39750591 ATCTCGTAGC
Statistics
Matches: 99, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
47 3 0.03
48 63 0.64
49 30 0.30
50 3 0.03
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTCACACCTCTATACGT
Found at i:39750654 original size:46 final size:46
Alignment explanation
Indices: 39750563--39750862 Score: 263
Period size: 46 Copynumber: 6.5 Consensus size: 46
39750553 GCTGATTCCT
* * *
39750563 TGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGCCGATGCA
* * *
39750608 TTTCCCAGACATGTCTTACACTGGCT-TACATCGCGAGGTCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATGCA
* * * ** *
39750654 TGTCCTAGACATGTCTTACACTAGCTCTCATCTCAATACTGATGACA
1 TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-CA
*
39750701 TGTCCCAGACATGTCTTACACTGGCT-TACAT-TGTGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTCT-CATCT-CGAGGCCGATGCA
* * * * *
39750747 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-CA
* * *
39750794 TGTCCCAGACATGGTTTTACACTGGCTCTCATAAT-GTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATGCA
* *
39750841 TTTCCTAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
39750863 AGCACACAAA
Statistics
Matches: 203, Mismatches: 39, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
44 10 0.05
45 13 0.06
46 93 0.46
47 64 0.32
48 22 0.11
49 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGCA
Found at i:39750718 original size:93 final size:93
Alignment explanation
Indices: 39750610--39750865 Score: 379
Period size: 93 Copynumber: 2.7 Consensus size: 93
39750600 CCAATGCATT
* * *
39750610 TCCCAGACATGTCTTACACTGGCTTACATCGCGAGGTCGATGCATGTCCTAGACATGTCTTACAC
1 TCCCAGACATGTCTTACACTGGCTTACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
39750675 TAGCTCTCATCTCAATACTGATGACATG
66 TAGCTCTCATCTCAATACTGATGACATG
* *
39750703 TCCCAGACATGTCTTACACTGGCTTACATTGTGAGGCCGATGCATGTCCCAGACATGTCTTACAC
1 TCCCAGACATGTCTTACACTGGCTTACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
* * *
39750768 TAGCTCTCGTCTCAATGCTGATGCCATG
66 TAGCTCTCATCTCAATACTGATGACATG
* * * *
39750796 TCCCAGACATGGTTTTACACTGGCTCT-CATAATGTGGCCGATGCATTTCCTAGACATGTCTTAC
1 TCCCAGACAT-GTCTTACACTGGCT-TACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTAC
39750860 ACTAGC
64 ACTAGC
39750866 ACACAAATAA
Statistics
Matches: 148, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
93 96 0.65
94 51 0.34
95 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
TCCCAGACATGTCTTACACTGGCTTACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
TAGCTCTCATCTCAATACTGATGACATG
Found at i:39750791 original size:139 final size:140
Alignment explanation
Indices: 39750563--39750825 Score: 324
Period size: 139 Copynumber: 1.9 Consensus size: 140
39750553 GCTGATTCCT
*
39750563 TGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATTTCCCAGACATGTCTTACA
1 TGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACA
* * * *
39750628 CTGGCTTACATCGCGAGGTCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCATCTCAAT
66 CTAGCTTACATCGCAAGCTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT
39750691 ACTGATGACA
131 ACTGATGACA
* *
39750701 TGTCCCAGACAT-GTCTTACACTGGCTTACAT-T-GTGAGGCCGATGCATGTCCCAGACATGTCT
1 TGTCCCAGACATGGTCTTACACTGAC--ACATCTCGT-A-GCCAATGCATGTCCCAGACATGTCT
* * * *
39750763 TACACTAGCTCT-CGTCTCAATGCT-GATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCAT
62 TACACTAGCT-TACATCGCAA-GCTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
39750826 AATGTGGCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
137 14 0.13
138 14 0.13
139 45 0.42
140 16 0.15
141 17 0.16
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
TGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACA
CTAGCTTACATCGCAAGCTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT
ACTGATGACA
Found at i:39752815 original size:39 final size:40
Alignment explanation
Indices: 39752770--39752937 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
39752760 CGGGGTTTAG
* * *
39752770 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
39752809 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
39752849 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
39752889 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
39752930 CCGGATAT
1 CCGGATAT
39752938 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:39752920 original size:41 final size:40
Alignment explanation
Indices: 39752793--39752937 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
39752783 CTCGCACAAG
* * * * *
39752793 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
39752833 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
39752873 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
39752914 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
39752938 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:39760841 original size:40 final size:40
Alignment explanation
Indices: 39760768--39760884 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
39760758 CTCGCACAAG
* * * * *
39760768 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGAGACTTAGCCCGGATATAGTCGCTAGCATAAAT
* *
39760808 GCCTTCGAGACTTAGCCCGAATATAGTCGCTAGCACAAAT
1 GCCTTCGAGACTTAGCCCGGATATAGTCGCTAGCATAAAT
* *
39760848 GCCTTC-AGATCTTAGTCCGGATGTAGTCGCTTAGCAT
1 GCCTTCGAGA-CTTAGCCCGGATATAGTCGC-TAGCAT
39760885 GGAAACATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.05
40 56 0.88
41 5 0.08
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGAGACTTAGCCCGGATATAGTCGCTAGCATAAAT
Found at i:39761608 original size:18 final size:18
Alignment explanation
Indices: 39761581--39761618 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
39761571 GGAGCAAAAG
39761581 AAACGAG-AAACGGGCCA
1 AAACGAGAAAACGGGCCA
*
39761598 AAACAGAGAAAATGGGCCA
1 AAAC-GAGAAAACGGGCCA
39761617 AA
1 AA
39761619 GTACGAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 3 0.17
19 11 0.61
ACGTcount: A:0.53, C:0.18, G:0.26, T:0.03
Consensus pattern (18 bp):
AAACGAGAAAACGGGCCA
Found at i:39776176 original size:29 final size:29
Alignment explanation
Indices: 39776139--39776233 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
39776129 GGTCGAATCT
* *
39776139 CATTTATATGGCGCATCAGGCCCAATTCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
* * *
39776168 CATTCATATGGCCCATTAGGTCCAAATCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
* *
39776197 CCTTTATATGGCCCGTTAGGCCCAATTCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
39776226 C-TTTATAT
1 CATTTATAT
39776234 ACATGCTCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 7 0.12
29 49 0.88
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (29 bp):
CATTTATATGGCCCATTAGGCCCAATTCA
Found at i:39776218 original size:58 final size:57
Alignment explanation
Indices: 39776110--39776226 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
39776100 ACCCCTACAT
* * *
39776110 ACATGCATATGGCCCACTTGGTCGAATCTCATTTATATGGCGCATCAGGCCCAATTC
1 ACATGCATATGGCCCACTTGGTCAAATCACATTTATATGGCCCATCAGGCCCAATTC
* * * *
39776167 ACATTCATATGGCCCA-TTAGGTCCAAATCACCTTTATATGGCCCGTTAGGCCCAATTC
1 ACATGCATATGGCCCACTT-GGT-CAAATCACATTTATATGGCCCATCAGGCCCAATTC
39776225 AC
1 AC
39776227 TTTATATACA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.04
57 18 0.35
58 31 0.61
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (57 bp):
ACATGCATATGGCCCACTTGGTCAAATCACATTTATATGGCCCATCAGGCCCAATTC
Found at i:39777682 original size:17 final size:16
Alignment explanation
Indices: 39777649--39777680 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39777639 AAATTCAAGA
39777649 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
39777665 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
39777681 GTGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:39783896 original size:28 final size:28
Alignment explanation
Indices: 39783865--39783931 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
39783855 TTGTGTCCAT
*
39783865 TGCCCGTGTCTCTCACACGGCCATGACA
1 TGCCCGTGTCTCTCAAACGGCCATGACA
39783893 TGCCCGTGTCTCTCAAACGGCCATGACA
1 TGCCCGTGTCTCTCAAACGGCCATGACA
* *
39783921 CGCCTGTGTCT
1 TGCCCGTGTCT
39783932 TAGCCCATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.24
Consensus pattern (28 bp):
TGCCCGTGTCTCTCAAACGGCCATGACA
Found at i:39792029 original size:49 final size:49
Alignment explanation
Indices: 39791954--39792686 Score: 1188
Period size: 49 Copynumber: 15.2 Consensus size: 49
39791944 CTCGTAGTGA
*
39791954 ATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792003 ATATGGGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792052 ATATGTGATAAGGCATAATGACCGATGTGATGAATGTGAAAGTG--TAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792099 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
39792148 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAG
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792195 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792244 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792293 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792342 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792389 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792438 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792487 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792534 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTG--TAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
39792581 ATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
39792628 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792676 A-ATGTGATAAG
1 ATATGTGATAAG
39792687 TCCCGAAGGG
Statistics
Matches: 642, Mismatches: 34, Indels: 18
0.93 0.05 0.03
Matches are distributed among these distances:
47 270 0.42
48 1 0.00
49 371 0.58
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:39792128 original size:145 final size:145
Alignment explanation
Indices: 39791954--39792686 Score: 1217
Period size: 145 Copynumber: 5.1 Consensus size: 145
39791944 CTCGTAGTGA
* *
39791954 ATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
* * *
39792019 AATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCATAATGACCGATGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
39792084 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
39792099 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
* * *
39792164 AATGGCCGATGTGATGAATGTGAAAGTG--TAGATATGTGATAAGGCCGAATGGCCAATGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
39792227 AATGTGAAAGTGTATAT
131 AATGTGAAAGTG--TAT
39792244 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
39792309 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
39792374 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
* *
39792389 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
39792454 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
39792519 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
* * *
39792534 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTG--TATATATGTGATGAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
* * * * * *
39792597 AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39792660 GATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
*
39792675 AAATGTGATAAG
1 ATATGTGATAAG
39792687 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
141 54 0.10
143 88 0.16
145 372 0.67
147 44 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (145 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTAT
Found at i:39792141 original size:96 final size:96
Alignment explanation
Indices: 39791954--39792686 Score: 1195
Period size: 96 Copynumber: 7.6 Consensus size: 96
39791944 CTCGTAGTGA
* *
39791954 ATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
*
39792019 AATGGTCGATGTGATGAATGTGAAAGTGTATAT
64 AATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792052 ATATGTGATAAGGCATAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
39792117 TGGCCGATGTGATGAATGTGAAAGTGTATAT
66 TGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
39792148 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGATATGTGATAAGGCCGAA
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
39792213 TGGCCAATGTGATGAATGTGAAAGTGTATAT
66 TGGCCGATGTGATGAATGTGAAAGTGTATAT
39792244 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
39792309 AATGGCCGATGTGATGAATGTGAAAGTGTATAT
64 AATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
39792342 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
39792407 TGGCCAATGTGATGAATGTGAAAGTGTATAT
66 TGGCCGATGTGATGAATGTGAAAGTGTATAT
39792438 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
39792503 AATGGCCGATGTGATGAATGTGAAAGTG--TAT
64 AATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
39792534 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATTTGAAAGTGTATATATGTGATGAGGCCTAA
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
39792599 TGGCCGATGTGATGAATGTGAAAGTG--TAT
66 TGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * * *
39792628 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39792687 TCCCGAAGGG
Statistics
Matches: 600, Mismatches: 31, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
94 97 0.16
96 324 0.54
98 179 0.30
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:39806387 original size:42 final size:42
Alignment explanation
Indices: 39806277--39806391 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
39806267 TTACCATACT
* * ** * *
39806277 AATGCCATATCCCAGATATGGTCTTCCATGGGATCTCATATC
1 AATGCCATATCCCAGATATGGTCTTACACGAAACCTCACATC
* *
39806319 AATGCCAATAGCCCAGCTATGGTCTTACACGAAACCTCACATC
1 AATGCC-ATATCCCAGATATGGTCTTACACGAAACCTCACATC
* *
39806362 GATGCCATATCCCAAATATGGTCTTACACG
1 AATGCCATATCCCAGATATGGTCTTACACG
39806392 TAATATCATC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
AATGCCATATCCCAGATATGGTCTTACACGAAACCTCACATC
Found at i:39810481 original size:19 final size:20
Alignment explanation
Indices: 39810457--39810494 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
39810447 GGTACCACCA
39810457 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
39810476 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
39810495 ACGACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:39810786 original size:46 final size:46
Alignment explanation
Indices: 39810719--39810887 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 46
39810709 AACCCGCCCC
* *
39810719 TAAGTGAACTCGGACTCAACTCAACGAGATCGGGCCTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCCTTTGCATCCA
*
39810765 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCCT--TTGCATCCA
* * * *
39810813 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCCTTTGCATCCA
*
39810858 TAAGTGAACACGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
39810888 TGGATGCTCA
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 56 0.53
47 28 0.27
48 6 0.06
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCCTTTGCATCCA
Found at i:39810837 original size:93 final size:93
Alignment explanation
Indices: 39810724--39810894 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
39810714 GCCCCTAAGT
* * *
39810724 GAACTCGGACTCAACTCAACGAGATCGGGCCTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACACGGACTCAACTCAA
39810789 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
39810817 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACACGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACACGGACTCAACTCAA
*
39810882 CGAGTTTGGATGC
66 CGAGTTCGGATGC
39810895 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:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACACGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39815577 original size:31 final size:33
Alignment explanation
Indices: 39815517--39815581 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
39815507 AAAGAGAAAA
39815517 TGTACCGGTAATCACATCGGGTGAGGAAGCATC
1 TGTACCGGTAATCACATCGGGTGAGGAAGCATC
39815550 TGTACCGGTAATCACATC-GG-GAGGAAGCATC
1 TGTACCGGTAATCACATCGGGTGAGGAAGCATC
39815581 T
1 T
39815582 TCACGCGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 12 0.38
32 2 0.06
33 18 0.56
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (33 bp):
TGTACCGGTAATCACATCGGGTGAGGAAGCATC
Found at i:39818409 original size:93 final size:93
Alignment explanation
Indices: 39818301--39818471 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
39818291 GCCCCTAAGT
* * *
39818301 GAACTCAGACTCAACTCAACGAGCACGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACACGGACTCAACTCAA
39818366 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
39818394 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACACGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACACGGACTCAACTCAA
39818459 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39818472 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACACGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39818468 original size:46 final size:46
Alignment explanation
Indices: 39818296--39818468 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
39818286 AACCCGCCCC
* ** * * *
39818296 TAAGTGAACTCAGACTCAACTCAACGAGCACGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
39818342 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
39818390 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
39818435 TAAGTGAACACGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39818469 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:39818487 original size:46 final size:45
Alignment explanation
Indices: 39818344--39818487 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
39818334 CGCATCCATA
39818344 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
39818391 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
39818437 AGTGAACACGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
39818483 AGTGA
1 AGTGA
39818488 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.41
47 31 0.40
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:39818925 original size:30 final size:30
Alignment explanation
Indices: 39818891--39818950 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
39818881 ATTTAATACG
39818891 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
39818921 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
39818951 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:39826646 original size:49 final size:49
Alignment explanation
Indices: 39826593--39826824 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
39826583 CTAGTACGCA
* *
39826593 TAGTAGCCTGCACTTAGTAATACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
* ** **
39826642 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACG
** * * *
39826692 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTG-GTACACG
**
39826743 TAGTAGCCTGCACTTAGTACTACACGTGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
*
39826792 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
39826825 TCACAATAGA
Statistics
Matches: 153, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
49 70 0.46
50 48 0.31
51 35 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:39826760 original size:101 final size:98
Alignment explanation
Indices: 39826593--39826818 Score: 283
Period size: 100 Copynumber: 2.3 Consensus size: 98
39826583 CTAGTACGCA
* ** *
39826593 TAGTAGCCTGCACTTAGTAATACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
*
39826658 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACC-AACCATCTAATACACG
* * *
39826692 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATC-GAGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCTG-GTACACATAGTAGCCTGCAC
** ** **
39826756 TTAGTACTACACGTGCGACCAATTATCTGGTACACG
63 TTAGTACTACACACGCGACCAACCATCTAATACACG
39826792 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
39826819 GTGACCTCAC
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 27 0.25
100 43 0.39
101 40 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTAATACACG
Found at i:39830013 original size:49 final size:49
Alignment explanation
Indices: 39829941--39830113 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
39829931 TCCATCAAGT
**
39829941 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGC
1 TGATGCCATGTCCCAGACATGGTCTTATACTGACTATCGAAATCGAGGC
* * * * *
39829990 TGATGCCATGTCCCATACATGGTCTT-TCACTCAC-ACCTCTATA-CG-TGC
1 TGATGCCATGTCCCAGACATGGTCTTAT-ACTGACTA--TCGAAATCGAGGC
* ** *
39830038 TGATGCCATGTCCTAGATGTGGTCTTATACTGACTATCGTAATCGAGGC
1 TGATGCCATGTCCCAGACATGGTCTTATACTGACTATCGAAATCGAGGC
* * *
39830087 CGACGCCATGTCCCATACATGGTCTTA
1 TGATGCCATGTCCCAGACATGGTCTTA
39830114 CACTCACACC
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
47 3 0.03
48 33 0.35
49 55 0.58
50 4 0.04
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
TGATGCCATGTCCCAGACATGGTCTTATACTGACTATCGAAATCGAGGC
Found at i:39830048 original size:97 final size:97
Alignment explanation
Indices: 39829941--39830168 Score: 366
Period size: 97 Copynumber: 2.4 Consensus size: 97
39829931 TCCATCAAGT
* *
39829941 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCTGATGCCATGTCCCAT
1 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCGACGCCATGTCCCAT
*
39830006 ACATGGTCTTTCACTCACACCTCTATACGTGC
66 ACATGGTCTTACACTCACACCTCTATACGTGC
* *
39830038 TGATGCCATGTCCTAGATGTGGTCTTATACTGACTATCGTAATCGAGGCCGACGCCATGTCCCAT
1 TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCGACGCCATGTCCCAT
39830103 ACATGGTCTTACACTCACACCTCTATACGTGC
66 ACATGGTCTTACACTCACACCTCTATACGTGC
* * ** *
39830135 TGATTCCTTGTCCCAGACATGGTCTTACACTGAC
1 TGATGCCATGTCCCAGATGTGGTCTTATACTGAC
39830169 ACATCTCGTA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 120 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (97 bp):
TGATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCGACGCCATGTCCCAT
ACATGGTCTTACACTCACACCTCTATACGTGC
Found at i:39830155 original size:48 final size:48
Alignment explanation
Indices: 39829988--39830170 Score: 183
Period size: 48 Copynumber: 3.8 Consensus size: 48
39829978 CGAAATCGAG
* *
39829988 GCTGATGCCATGTCCCATACATGGTCTTTCACTCACACCTCTATACGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCACACCTCTATACGT
* ** * * *
39830036 GCTGATGCCATGTCCTAGATGTGGTCTTATACTGACTA--TCGTA-ATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCAC-ACCTC-TATA-CG-T
* * *
39830085 GCCGACGCCATGTCCCATACATGGTCTTACACTCACACCTCTATACGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCACACCTCTATACGT
* * *
39830133 GCTGATTCCTTGTCCCAGACATGGTCTTACACTGACAC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTCACAC
39830171 ATCTCGTAGC
Statistics
Matches: 105, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
47 3 0.03
48 66 0.63
49 33 0.31
50 3 0.03
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.30
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTCACACCTCTATACGT
Found at i:39830234 original size:46 final size:45
Alignment explanation
Indices: 39830143--39830395 Score: 197
Period size: 46 Copynumber: 5.5 Consensus size: 45
39830133 GCTGATTCCT
* * *
39830143 TGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATGCA
* *
39830188 TTTCCCAGACATGTCTTACACTGGCTTACATCGCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATGCA
* * * * ** *
39830234 TGTCCTAGACATGTCTTACACTAGCCTCATCTCAATACTGATGACA
1 TGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG-CA
* * ** * *
39830280 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGCTGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCT-TCATCTCGAGGCCGATG-CA
* * *
39830327 TGTCCCAGACATGGTTTTACACTGGCTCTCATAAT-GTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATGCA
* *
39830374 TTTCCTAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
39830396 AGCATACAAA
Statistics
Matches: 170, Mismatches: 31, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
44 12 0.07
45 23 0.14
46 72 0.42
47 40 0.24
48 22 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATGCA
Found at i:39831781 original size:29 final size:29
Alignment explanation
Indices: 39831715--39831826 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
39831705 TACATACAGG
*
39831715 CATATGGCCCACTT-GGCCCAA-TCTCATT
1 CATATGGCCCA-TTAGGCCCAATTCACATT
*
39831743 TATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCACATT
* * *
39831772 CATATGGCCCATCAAGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCACATT
* * *
39831801 TATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCATTAGGCCCAATTCAC
39831827 CTTATATACG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 17 0.24
29 52 0.73
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCACATT
Found at i:39844493 original size:20 final size:20
Alignment explanation
Indices: 39844460--39844501 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
39844450 CCAAATCTAT
*
39844460 AAAACAGAGGAACTAGGCCA
1 AAAACAGAGAAACTAGGCCA
*
39844480 AAAACGGAGAAACTAGGCCA
1 AAAACAGAGAAACTAGGCCA
39844500 AA
1 AA
39844502 GTACAAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.24, T:0.05
Consensus pattern (20 bp):
AAAACAGAGAAACTAGGCCA
Found at i:39846559 original size:27 final size:27
Alignment explanation
Indices: 39846529--39846706 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39846519 ATATTGAGTC
* * * *
39846529 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39846556 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39846583 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39846611 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39846638 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39846665 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39846692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39846707 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39846668 original size:82 final size:81
Alignment explanation
Indices: 39846550--39846705 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39846540 TGCTATATAA
* *
39846550 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39846615 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39846632 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39846696 CACTTAGTGC
65 CACTTAGTGC
39846706 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39850447 original size:79 final size:81
Alignment explanation
Indices: 39850345--39850529 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
39850335 GCTCCTCGTT
* *
39850345 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39850408 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
39850425 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
39850489 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
39850505 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39850530 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:39850529 original size:40 final size:40
Alignment explanation
Indices: 39850345--39850529 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
39850335 GCTCCTCGTT
* *
39850345 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39850385 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
39850425 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
39850464 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
39850505 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39850530 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39860141 original size:27 final size:28
Alignment explanation
Indices: 39860111--39860165 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
39860101 CTGTGTCCAT
*
39860111 TGCCCGTGTCT-TCACACGGCCATGACA
1 TGCCCGTGTCTCTCAAACGGCCATGACA
*
39860138 TGCCCGTGTCTCTCAAATGGCCATGACA
1 TGCCCGTGTCTCTCAAACGGCCATGACA
39860166 CGCCTATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.24
Consensus pattern (28 bp):
TGCCCGTGTCTCTCAAACGGCCATGACA
Found at i:39865386 original size:40 final size:40
Alignment explanation
Indices: 39865330--39865544 Score: 287
Period size: 40 Copynumber: 5.4 Consensus size: 40
39865320 GATGATAACG
* * *
39865330 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
39865370 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
39865410 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
39865450 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
39865489 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
39865529 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
39865545 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 48 0.30
40 110 0.68
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:39872623 original size:49 final size:49
Alignment explanation
Indices: 39872566--39872666 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
39872556 GGGATTACTA
** * *
39872566 ATTGTAGCTCGTGGGAGCTTACCA-AATCTCAGCTCGTATGATCTTACCG
1 ATTGTAGCTCGTGAAAGCTTA-CAGAATCTCAGCTCATATGAGCTTACCG
*
39872615 ATTGTAGCTCGTGAAAGCTTACAGATTCTCAGCTCATATGAGCTTACCG
1 ATTGTAGCTCGTGAAAGCTTACAGAATCTCAGCTCATATGAGCTTACCG
39872664 ATT
1 ATT
39872667 TACAGGTCGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 2 0.04
49 44 0.96
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (49 bp):
ATTGTAGCTCGTGAAAGCTTACAGAATCTCAGCTCATATGAGCTTACCG
Found at i:39872698 original size:50 final size:49
Alignment explanation
Indices: 39872595--39872707 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 49
39872585 TACCAAATCT
* * * *
39872595 CAGCTCGTATGATCTTACCGATTGTAGCTCGTGAAAGCTTACAGATTCT
1 CAGCTCATATGAGCTTACCGATTGTAGCTCGTGAAAGCTCACAGATTCA
* * *
39872644 CAGCTCATATGAGCTTACCGATT-TACAGGTCGTGAGAGCTCACTGATTCA
1 CAGCTCATATGAGCTTACCGATTGT--AGCTCGTGAAAGCTCACAGATTCA
39872694 CAGCT-AGTATGAGC
1 CAGCTCA-TATGAGC
39872708 ATACATATGC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 1 0.02
49 22 0.41
50 31 0.57
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (49 bp):
CAGCTCATATGAGCTTACCGATTGTAGCTCGTGAAAGCTCACAGATTCA
Found at i:39889768 original size:23 final size:23
Alignment explanation
Indices: 39889664--39889771 Score: 128
Period size: 23 Copynumber: 4.7 Consensus size: 23
39889654 TAGGAATCTA
* *
39889664 TCGGCTACAATATAGTGGTAGCT
1 TCGGCTACATTACAGTGGTAGCT
*
39889687 TCAGCTACATCT-CAGTGGTAGCT
1 TCGGCTACAT-TACAGTGGTAGCT
* *
39889710 TCGGCTACAATACTGTGGTAGCT
1 TCGGCTACATTACAGTGGTAGCT
* *
39889733 TCGGCTACGTTACAGTGATAGCT
1 TCGGCTACATTACAGTGGTAGCT
*
39889756 TCGGCTATATTACAGT
1 TCGGCTACATTACAGT
39889772 TTGGCACTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
22 1 0.01
23 69 0.97
24 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (23 bp):
TCGGCTACATTACAGTGGTAGCT
Found at i:39894382 original size:40 final size:40
Alignment explanation
Indices: 39894317--39894433 Score: 139
Period size: 40 Copynumber: 2.9 Consensus size: 40
39894307 ACTCTGTTTG
*
39894317 GCACTTAGTGTGCGTATC-GAGATAGCTTCGGCTAT-ATAAA
1 GCACTTAGTGTGCGAATCAGA-ATAGCTTCGGCTATGA-AAA
* *
39894357 GCACTTAGTGTACGAATCAGAATAGCTTCGGCTATGAAAG
1 GCACTTAGTGTGCGAATCAGAATAGCTTCGGCTATGAAAA
* * *
39894397 GCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATG
1 GCACTTAGTGTGCGA-ATCAGAATAGCTTCGGCTATG
39894434 CTTTGGCACT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 46 0.69
41 21 0.31
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCAGAATAGCTTCGGCTATGAAAA
Found at i:39894452 original size:42 final size:41
Alignment explanation
Indices: 39894316--39894456 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 41
39894306 GACTCTGTTT
* *
39894316 GGCACTTAGTGTGCG-TATC-GAGATAGCTTCGGCTAT-ATAA
1 GGCACTTAGTGTGCGAGATCAGA-ATAGCTTCAGCTATGA-AA
* * *
39894356 AGCACTTAGTGTACGA-ATCAGAATAGCTTCGGCTATGAAA
1 GGCACTTAGTGTGCGAGATCAGAATAGCTTCAGCTATGAAA
* * ***
39894396 GGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTATGCTTT
1 GGCACTTAGTGTGCGAGATCAGAATAGCTTCAGCTATG-AAA
39894438 GGCACTTAGTGTGCGAGAT
1 GGCACTTAGTGTGCGAGAT
39894457 ATCGAGTATT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
40 46 0.53
41 21 0.24
42 19 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (41 bp):
GGCACTTAGTGTGCGAGATCAGAATAGCTTCAGCTATGAAA
Found at i:39899277 original size:46 final size:46
Alignment explanation
Indices: 39899164--39899339 Score: 136
Period size: 46 Copynumber: 3.8 Consensus size: 46
39899154 AAGCTGACAC
* * * **** *
39899164 CATGTCCCAGACAGGTCTTACACTAGCTTGTCTATCTCGGGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTC-ATATCAACACCGATG
* * * * ***
39899212 CATGTCCTAGACATCTCTTACACTAGCTCTCGTCTCAACGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACACCGATG
* ***
39899258 CATGTCCCAGACATGTCTTACACTGGCTCTCATATTGTCACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACACCGATG
* * *
39899304 CATGTCACAGACATGTCTTACACTAGCACACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATC
39899340 TCCCAATATC
Statistics
Matches: 101, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
46 74 0.73
47 3 0.03
48 24 0.24
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAACACCGATG
Found at i:39902660 original size:31 final size:31
Alignment explanation
Indices: 39902612--39902726 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
39902602 TTAGTCTTGA
* *
39902612 CATAT-ACTGGGCTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
39902642 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
39902673 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
39902704 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
39902727 ACTGTAAATG
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:39902797 original size:42 final size:42
Alignment explanation
Indices: 39902750--39902841 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
39902740 TGGCCCTTAG
* *
39902750 GCCCATTTCAATGTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
39902792 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
39902834 GCCCATTT
1 GCCCATTT
39902842 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:39903026 original size:25 final size:23
Alignment explanation
Indices: 39902962--39903059 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 23
39902952 ACTTTATCAT
**
39902962 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
39902987 ATAACTGGGGCAAAGCCCTTTCTA
1 ATAACTGGGGCAAAGCCCTTT-TA
* *
39903011 ATAAATTGGGGCAAAGCCCTTTTCG
1 AT-AACTGGGGCAAAGCCCTTTT-A
* *
39903036 GTAAACTGGGGCAGAGCCCTTTTA
1 AT-AACTGGGGCAAAGCCCTTTTA
39903060 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
23 4 0.06
24 12 0.19
25 46 0.74
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:39903897 original size:27 final size:27
Alignment explanation
Indices: 39903867--39903931 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
39903857 GGGCATATTC
*
39903867 GTCATTTTACCATCCAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
39903894 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
39903921 GTCTTTTTACC
1 GTCATTTTACC
39903932 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:39904015 original size:27 final size:27
Alignment explanation
Indices: 39903962--39904198 Score: 149
Period size: 27 Copynumber: 8.7 Consensus size: 27
39903952 TTTCATCCTA
* * * *
39903962 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
39903989 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
39904016 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
39904045 CAAGGGTATTTCT-GTACTTTTGTAAA-
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
39904071 TAAGGGGTATTTTGGTAATTTTAAAAAT
1 CAA-GGGTATTTTGGTAATTTTATAAAC
** * * *
39904099 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
39904126 C-AGTGGTATTTCGATAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* *
39904153 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
39904180 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
39904199 CTATCCTACA
Statistics
Matches: 169, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.03
27 132 0.78
28 18 0.11
29 14 0.08
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:39904134 original size:54 final size:54
Alignment explanation
Indices: 39904073--39904231 Score: 160
Period size: 54 Copynumber: 2.9 Consensus size: 54
39904063 TTTGTAAATA
*
39904073 AGGGGTATTTTGGTAATTTTAAAAA-TTGAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTTGGTAATTTTAAAAACTAG-GGGTATTTCGGTAATTTCACAAACC
* * * * * * * *
39904127 AGTGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTCGGTAATTTCACAAACC
* *** *
39904181 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-AAAACTAGGGGTATTTCGGTAATTTCACAA
39904232 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
54 79 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTAAAAACTAGGGGTATTTCGGTAATTTCACAAACC
Found at i:39904215 original size:81 final size:81
Alignment explanation
Indices: 39904073--39904231 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 81
39904063 TTTGTAAATA
* *
39904073 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTAAAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
*
39904138 -GATAATTTTACAAACT
66 AG-TAATTTCACAAACT
* * **
39904154 AGGGGTATTTTGGTAATTTTATAAACTAG-GGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTAT
1 AGGGGTATTTTGGTAATTTTA-AAAATAGAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTAT
39904216 TTCAGTAATTTCACAA
63 TTCAGTAATTTCACAA
39904232 TCGAGGGTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
80 3 0.04
81 56 0.84
82 8 0.12
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTAAAAATAGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
AGTAATTTCACAAACT
Found at i:39904238 original size:27 final size:27
Alignment explanation
Indices: 39904073--39904231 Score: 135
Period size: 27 Copynumber: 5.9 Consensus size: 27
39904063 TTTGTAAATA
* * *
39904073 AGGGGTATTTTGGTAATTTTA-AAAAT
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
39904099 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTCGGTAATTTCACAAACT
* * *
39904127 AGTGGTATTTCGATAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* * *
39904154 AGGGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* **
39904181 AGGGGTATTTTGGTAA-TTCTATCCTAC-
1 AGGGGTATTTCGGTAATTTC-A-CAAACT
*
39904208 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
39904232 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.04
27 93 0.88
28 9 0.08
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAACT
Found at i:39904260 original size:27 final size:27
Alignment explanation
Indices: 39904230--39904346 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
39904220 GTAATTTCAC
*
39904230 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
39904257 AATCGAGCGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
39904284 AATCGAAGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
39904311 AATCGAGGGAAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
39904338 AATCGAGGG
1 AATCGAGGG
39904347 CATTTCAGTA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:39912314 original size:67 final size:69
Alignment explanation
Indices: 39912213--39912403 Score: 214
Period size: 67 Copynumber: 2.7 Consensus size: 69
39912203 GCTACTCGTT
*
39912213 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCC-CGG-A-C-TTTAGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTCGGTAGCGTTTAGTA
39912273 ACTCG
65 ACTCG
*
39912278 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAGTCGG
1 --CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCC-TCGG---TAG-C-G
39912343 ATTTAGTAACTCG
58 -TTTAGTAACTCG
* *
39912356 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCT
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCT
39912404 TCGGATCTTA
Statistics
Matches: 107, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
67 43 0.40
68 2 0.02
69 3 0.03
73 1 0.01
74 1 0.01
75 31 0.29
76 14 0.13
78 12 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (69 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTCGGTAGCGTTTAGTAA
CTCG
Found at i:39912315 original size:40 final size:40
Alignment explanation
Indices: 39912258--39912460 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
39912248 TCGCACAAAT
39912258 GCCCGGACTTTAGTAACTCGCACAAATGCCTTCGGGACTTA
1 GCCCGGA-TTTAGTAACTCGCACAAATGCCTTCGGGACTTA
*
39912299 ACCCGGATTTAGTAACTCGCACAAATGCCTTC-GGACTTA
1 GCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA
*
39912338 G-TCGGATTTAGTAACTCG--CAAATGCCTTCGGG-CTTA
1 GCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA
* *
39912374 GCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTA
1 GCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTA
* * * * *
39912414 GTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 GCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTA
39912454 GCCCGGA
1 GCCCGGA
39912461 CATCATTCAA
Statistics
Matches: 140, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
36 16 0.11
37 16 0.11
38 18 0.13
39 18 0.13
40 55 0.39
41 17 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA
Found at i:39912393 original size:75 final size:78
Alignment explanation
Indices: 39912260--39912460 Score: 264
Period size: 75 Copynumber: 2.6 Consensus size: 78
39912250 GCACAAATGC
* *
39912260 CCGGACTTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAT
1 CCGGA-TTTAGTAACTCG--CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
39912325 GCCTTCGGA-CTTAGT
63 GCCTTCGGATCTTAGT
*
39912340 -CGGATTTAGTAACTCGCAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCC
1 CCGGATTTAGTAACTCGCAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCC
39912403 TTCGGATCTTAGT
66 TTCGGATCTTAGT
* * * * *
39912416 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCGGATTTAGTAAC-TCGCA-AATGCCTTCGGGACTTAGCCCGGA
39912461 CATCATTCAA
Statistics
Matches: 108, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
75 36 0.33
76 20 0.19
77 10 0.09
78 16 0.15
79 15 0.14
80 11 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CCGGATTTAGTAACTCGCAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCC
TTCGGATCTTAGT
Found at i:39921318 original size:48 final size:48
Alignment explanation
Indices: 39921206--39921417 Score: 202
Period size: 46 Copynumber: 4.5 Consensus size: 48
39921196 TACGTATGCC
* * *
39921206 AGTGGAAGATATGTCTGGGACATGCATCGGCC---ACAT-TACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATAC-A-AGCT
* * * *
39921252 AGTGTAAGACATATCTGGGACATGAATCGGCCTTGAGATATACTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
* * * ** *
39921300 AGTGTAAGACATGTCTGGGACATGCATCGACTTTCAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
** **
39921346 AGTGTAAGACATGTCTCAGACATGCATTAGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
*
39921394 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
39921418 GCGTCAGCTT
Statistics
Matches: 131, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
46 62 0.47
47 2 0.02
48 61 0.47
49 3 0.02
50 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCT
Found at i:39921359 original size:46 final size:45
Alignment explanation
Indices: 39921206--39921417 Score: 154
Period size: 48 Copynumber: 4.5 Consensus size: 45
39921196 TACGTATGCC
* * ** *
39921206 AGTGGAAGATATGTCTGGGACATGCATCGGCCACATTACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCA-GACGAGAGCT
* * * ** * *
39921252 AGTGTAAGACATATCTGGGACATGAATCGGCCTTGAGATATACTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTTCAGA-CGA-GAGCT
*
39921300 AGTGTAAGACATGTCTGGGACATGCATCGACTTTCAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-TTCAGACGAGAGCT
** * * * ** *
39921346 AGTGTAAGACATGTCTCAGACATGCATTAGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCA-TCGGCTTCAGA-CGA-GAGCT
*
39921394 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
39921418 GCGTCAGCTT
Statistics
Matches: 128, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
46 59 0.46
47 9 0.07
48 60 0.47
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTCAGACGAGAGCT
Found at i:39921368 original size:94 final size:94
Alignment explanation
Indices: 39921203--39921417 Score: 279
Period size: 94 Copynumber: 2.3 Consensus size: 94
39921193 TGATACGTAT
* * * *
39921203 GCCAGTGGAAGATATGTCTGGGACATGCATCGGCCACATTACGAGAGCTAGTGTAAGACATATCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATGACGAGAGCTAGTGTAAGACATATCT
** * *
39921268 GGGACATGAATCGGCCTTGAGATATACTA
66 CAGACATGAATCAGCCTTGAGATATACAA
** *
39921297 GCCAGTGTAAGACATGTCTGGGACATGCATCGACTTTCA-GACGAGAGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-CACATGACGAGAGCTAGTGTAAGACATATC
* *
39921361 TCAGACATGCATTAGCCTTGAGATATACAA
65 TCAGACATGAATCAGCCTTGAGATATACAA
* *
39921391 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
39921418 GCGTCAGCTT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 103 0.98
95 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATGACGAGAGCTAGTGTAAGACATATCT
CAGACATGAATCAGCCTTGAGATATACAA
Found at i:39923888 original size:40 final size:40
Alignment explanation
Indices: 39923844--39923919 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
39923834 TACATAGCTG
*
39923844 AAGCTAT-CTAAAACCGCACGCTAAGTGCCAAATTTAGCCA
1 AAGCTATAC-AAAACCGCACACTAAGTGCCAAATTTAGCCA
** *
39923884 AAGCTATACCGAACCGCACACTAAGTGCCATATTTA
1 AAGCTATACAAAACCGCACACTAAGTGCCAAATTTA
39923920 TTCCATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (40 bp):
AAGCTATACAAAACCGCACACTAAGTGCCAAATTTAGCCA
Found at i:39926463 original size:15 final size:15
Alignment explanation
Indices: 39926443--39926496 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
39926433 AGACACACAG
39926443 GTGTGTGTCTAGGCC
1 GTGTGTGTCTAGGCC
39926458 GTGTGTGTGTCTAGGCC
1 --GTGTGTGTCTAGGCC
39926475 GTGTGTGTCTAGGCC
1 GTGTGTGTCTAGGCC
*
39926490 ATGTGTG
1 GTGTGTG
39926497 ATTCACGACC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
15 21 0.58
17 15 0.42
ACGTcount: A:0.07, C:0.17, G:0.41, T:0.35
Consensus pattern (15 bp):
GTGTGTGTCTAGGCC
Found at i:39926465 original size:17 final size:16
Alignment explanation
Indices: 39926443--39926496 Score: 83
Period size: 17 Copynumber: 3.3 Consensus size: 16
39926433 AGACACACAG
39926443 GTGTGTGTCTAGGCCGT
1 GTGTGTGTCTAGGCC-T
39926460 GTGTGTGTCTAGGCC-
1 GTGTGTGTCTAGGCCT
39926475 GTGTGTGTCTAGGCCAT
1 GTGTGTGTCTAGGCC-T
39926492 GTGTG
1 GTGTG
39926497 ATTCACGACC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.43
17 20 0.57
ACGTcount: A:0.07, C:0.17, G:0.41, T:0.35
Consensus pattern (16 bp):
GTGTGTGTCTAGGCCT
Found at i:39941098 original size:19 final size:20
Alignment explanation
Indices: 39941061--39941104 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
39941051 ATAATTCATT
* *
39941061 CATTTTAACACCAATTTACA
1 CATTTTAACACAAAATTACA
39941081 CATTTT-ACACAAAATTACA
1 CATTTTAACACAAAATTACA
39941100 C-TTTT
1 CATTTT
39941105 CCCCTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 12 0.55
20 6 0.27
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (20 bp):
CATTTTAACACAAAATTACA
Found at i:39954041 original size:40 final size:40
Alignment explanation
Indices: 39954004--39954268 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
39953994 GCTACTCGTT
*
39954004 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
39954044 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
39954084 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
39954124 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
39954164 CAAGTGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
39954203 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
39954244 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39954269 CATCATTCAA
Statistics
Matches: 199, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 35 0.18
40 148 0.74
41 14 0.07
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39958646 original size:48 final size:48
Alignment explanation
Indices: 39958583--39958914 Score: 335
Period size: 48 Copynumber: 6.9 Consensus size: 48
39958573 GATACGAGGG
* * * *
39958583 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGGATTT
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCT
* * * * * *
39958631 ATATGAGAGCTAGTGTAAGACAATGTCTGGGACATAGCATCGGCCTCG
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCT
* * *
39958679 ATAT-ATGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGGCATTT
1 ATATGA-GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCT
* ** * * **
39958727 ATATGAGAGCCAGAGTAAGACCATGACTGGGACATGGCATCAGCCTAA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCT
* * * * *
39958775 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCT
* * * ***
39958823 ATATGTAG-GCTAGTGTAACACCATGTTTGGAACATGGCATCAGTGCCGAT
1 ATATG-AGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-G-GCATCT
39958873 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
39958915 CCTGTAACAC
Statistics
Matches: 233, Mismatches: 45, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
47 1 0.00
48 188 0.81
49 6 0.03
50 38 0.16
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCT
Found at i:39958746 original size:96 final size:96
Alignment explanation
Indices: 39958582--39958914 Score: 402
Period size: 96 Copynumber: 3.4 Consensus size: 96
39958572 TGATACGAGG
* *
39958582 GATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGGATTTATATGAGAGCTAGTGT
1 GATATATGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGT
* *
39958647 AAGACAATGTCTGGGACATAGCATCGGCCTC
66 AAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
39958678 GATATATGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCCAGAGT
1 GATATATGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGT
* * *
39958743 AAGACCATGACTGGGACATGGCATCAGCCTA
66 AAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * * **
39958774 AATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTAG-GCTAGTG
1 GATATATGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATG-AGAGCTAGTG
* * *
39958838 TAACACCATGTTTGGAACATGGCATCAGTG-C-C
65 TAAGACCATGTCTGGGACATGGCATC-G-GCCTC
*
39958870 GATATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GATATAT--GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
39958915 CCTGTAACAC
Statistics
Matches: 201, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
96 163 0.81
97 3 0.01
98 35 0.17
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (96 bp):
GATATATGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGT
AAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:39958846 original size:144 final size:145
Alignment explanation
Indices: 39958583--39958917 Score: 460
Period size: 144 Copynumber: 2.3 Consensus size: 145
39958573 GATACGAGGG
* * ** **
39958583 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGGATTTATATGAGAGCTAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-GCCTAAATATGAGAGCTAGTGTA
39958648 AGACAATGTCTGGGACATAGCATCGGCCTCGATATATGAGCCAGTGTAAAACCATGTTTGGAACA
65 AGACAATGTCTGGGACATAGCATCGGCCTCGATATATGAGCCAGTGTAAAACCATGTTTGGAACA
**
39958713 TGGCATC-G-GCATTT
130 TGGCATCAGTGCAGAT
* ** *
39958727 ATATGAGAGCCAGAGTAAGACCATGACTGGGACATGGCATCAGCCTAAATATGTGAGCTAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-GCCTAAATATGAGAGCTAGTGTA
* * * * *
39958792 AGACCATGTCTGGGACATGGCATCGGCCTCGATATGT-AGGCTAGTGTAACACCATGTTTGGAAC
65 AGACAATGTCTGGGACATAGCATCGGCCTCGATATATGA-GCCAGTGTAAAACCATGTTTGGAAC
*
39958856 ATGGCATCAGTGCCGAT
129 ATGGCATCAGTGCAGAT
39958873 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGCCT
1 ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGCCT
39958918 GTAACACCCC
Statistics
Matches: 166, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
143 1 0.01
144 119 0.72
145 5 0.03
146 41 0.25
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (145 bp):
ATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGCCTAAATATGAGAGCTAGTGTAA
GACAATGTCTGGGACATAGCATCGGCCTCGATATATGAGCCAGTGTAAAACCATGTTTGGAACAT
GGCATCAGTGCAGAT
Found at i:39960312 original size:36 final size:35
Alignment explanation
Indices: 39960261--39960356 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
39960251 ATACTTACCT
* *
39960261 ATATGACCGGATATACCAAGTTCATTATATCATCAC
1 ATATGGCCGAATATA-CAAGTTCATTATATCATCAC
* * *
39960297 CTATGGCCGAATATACAAATTCAATATATCATCAC
1 ATATGGCCGAATATACAAGTTCATTATATCATCAC
*
39960332 ATATGGCCGATTATACAAGGTTCAT
1 ATATGGCCGAATATACAA-GTTCAT
39960357 ATAGCTCGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 34 0.68
36 16 0.32
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (35 bp):
ATATGGCCGAATATACAAGTTCATTATATCATCAC
Found at i:39968073 original size:35 final size:35
Alignment explanation
Indices: 39967940--39968063 Score: 158
Period size: 35 Copynumber: 3.5 Consensus size: 35
39967930 ATACTTACCT
* * * * *
39967940 ATATGACCGGATATACCAAGTTCATTATATCCTCAC
1 ATATGGCCGAATATA-CAAATTCAATATATCATCAC
** *
39967976 ATATAACTGAATATACAAATTCAATATATCATCAC
1 ATATGGCCGAATATACAAATTCAATATATCATCAC
39968011 ATATGGCCGAATATACAAATTCAATATATCATCAC
1 ATATGGCCGAATATACAAATTCAATATATCATCAC
*
39968046 ATATGGCCGATTATACAA
1 ATATGGCCGAATATACAA
39968064 GGTTCATATA
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 66 0.85
36 12 0.15
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (35 bp):
ATATGGCCGAATATACAAATTCAATATATCATCAC
Found at i:39971204 original size:11 final size:10
Alignment explanation
Indices: 39971172--39971205 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
39971162 ATCACCTGAA
39971172 AAATGATTTT
1 AAATGATTTT
*
39971182 AAATGGTTTT
1 AAATGATTTT
39971192 AATATGATTTT
1 AA-ATGATTTT
39971203 AAA
1 AAA
39971206 GTCTCCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (10 bp):
AAATGATTTT
Found at i:39972466 original size:593 final size:588
Alignment explanation
Indices: 39971162--39973945 Score: 3048
Period size: 593 Copynumber: 4.7 Consensus size: 588
39971152 AACACCTACG
39971162 ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
1 ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
* * * *
39971227 TAGATCTATAATTTTATTTAGGTTATTTAAGTTCTAATTCTTAGCAAAACTTTTTTTTTGTCTCA
66 TATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATTTT-TCTCT
* * * *
39971292 ACTCGTATAACCCTGAGTTAAACAAAGGAGCTTTAAATACTCAGTATAACTTTTAG-T-AGCTAA
130 ACT-GTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
** *
39971355 AGAGTTTTAAATATTCACTTTATGATTTGATAATGTCCATAAAATGTTGT-GAAATAAATATTTT
194 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATT-TCGAAATAAATATTTT
** * * * *
39971419 TATAAAAGAAA-ATTTCATATTAAGTTTAAAAGTACTCTGATAACACCTTATAATGATACTGTAA
258 TATAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGT-A
* * * * * * ** *
39971483 GGTAAAAAGGAGTTAGTTGTTTTACAATTTCAAGATTCCACTACCAC-ATCCACTGTCATTATGC
322 GGTAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTATTCGCTGTCGCTATAC
* * *
39971547 CTCTACTGGACCAG-TTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGTAGCT
387 CTCTACTGGACCTGCTTTTTAACCTATCTTAGAATATTTGAAAATTTTTATCTCACGTGGCAGCT
* * ** * **
39971611 AAGGGTGCTTTGTCGCGACTCAAAATCTTTAAAAAAAAGGAACAAAAATAAATATCAATACCTAT
452 TAGGGTGCTTCGTAACGGCTCAAAATC-TTCCAAAAAA-GAACAAAAATAAATATCAATACCTAT
* * * * * *
39971676 CCCCTGGATAAAGCTCCTACGCTATTTTGGTTGTTTTGAGCTCACCGAAGTTCATACTCAACCTC
515 CCCCTGGACAAAGCTCATACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTT
39971741 AGA-CATCTCA
580 AGATC-TC-CA
* *
39971751 GATCACCT-AAAAATGTTTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGGTTCTATC
1 -ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATC
* * * * *
39971815 TTATTTCTATAATTCTATTTAGGTTATTTAAGTTTCAATTCTTAGCAAAACTTTTATCTTTCTTT
65 TTATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATTTTTCTCT
* * *
39971880 ACGTGTATAATCCTGAGTTAAATAAAGGAGCTTTAAATACTTTGTATAACTTTGAGTTAAAATAA
130 AC-TGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
* * * *
39971945 AAAGTTTTCAATATTTGTTTTATGATTTGATAATGTCCATAAAATATTTCAAAATAAATATTTTT
194 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTCGAAATAAATATTTTT
* * *
39972010 ATAAAGGAAATATTTTTTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGACACTGTAGG
259 ATAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGG
** * * *
39972075 TAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATGGCAGTACCCCTAGTTCGCTGCCGCTATACC
324 TAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTA-TTCGCTGTCGCTATACC
* * ****
39972140 TCTACTGG-GCTGCTTTTTAAACCTATCTCAGAATATTTGAAAAAAAAATATCTCACGTGGCAGC
388 TCTACTGGACCTGCTTTTT-AACCTATCTTAGAATATTTG-AAAATTTTTATCTCACGTGGCAGC
* * ** * * *
39972204 TTATGGTGCTTCGTAACGGCTGAAAAGATTCCAAGAAAGAACAAAAATTAATATCAATACATATC
451 TTAGGGTGCTTCGTAACGGCTCAAAATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATC
* *
39972269 CCCTAGACAAAGCTCATGCGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTA
516 CCCTGGACAAAGCTCATACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTA
39972334 GATTCTTCCA
581 GA-TC-TCCA
* * * * *
39972344 ATCACTTGAAAACTGATTTTAAATGGTTTTAATATGATTTTAAAGTAC-CTAAATTAATTCCATC
1 ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGT-CTCCAAATTGATTCTATC
* * * * *
39972408 TCATATCTATAATTTGATTTTGGTTATTTAAGTTTTAATTCTTAGCAAAACATTTATCTTTCTCT
65 TTATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATTTTTCTCT
* * * * * * *
39972473 ACTTGTATAACCTTGAGTTAAGTAAATGAGCTTCAAATACTTCGTATAACTTTGAGTTAAGTTGA
130 AC-TGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAA
* *
39972538 AGAGTTTTAAATATTCGTTTTATGATGTGATAATGTCCATAAAAAATTGT-GAAAATAAATATTT
194 AGAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATT-TCG-AAATAAATATTT
* *
39972602 TTATAAAAGAAA-ATTTTGGTCTTATGTTTAAATGTGCTCCGATAACACCTTGTAATGATACTGT
257 TTATAAAAGAAATATTTT-GTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGT
* * ** * * *
39972666 AGGT-AAAAAGAGTGAGGTGTTTTACAATTTCAAGATTTCACTATTGTTATTTTGCTGTCGGTAT
321 AGGTAAAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTA-TTCGCTGTCGCTAT
* * * * * *
39972730 ATCTCTACTGGACCATTACTTTTTTTTTACCTATTTTAGAATATTAGAAATTTTTTATCTCACGT
385 ACCTCTACTGGACC--TGC---TTTTTAACCTATCTTAGAATATTTGAAAATTTTTATCTCACGT
** ** * * *
39972795 GG-A-AATAAAGTACTTC-T-ATGTGTCTCAAAATCTTCCAAAAAAGAATAAAAATAAATAAATA
445 GGCAGCTTAGGGTGCTTCGTAACG-G-CTCAAAATCTTCCAAAAAAGAACAAAAATAAAT--AT-
* * * * * * *
39972856 ACAATACCTATCTCCTGGACAAAGCTCCTACATTGTTTTGGTTGTTTTTAGCTAGCTGAAATTCA
505 -CAATACCTATCCCCTGGACAAAGCTCATACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCA
* * *
39972921 TGCTCAACCTTAGACACCTACA
569 TACTCAACCTTAG--ATCTCCA
* * *
39972943 ATCACCTTAAAAATTATTTTAAATGGTCTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
1 ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
* * * * * * **
39973008 TAGATCTATAATTTTATTGAGGTTAATTAAGTTTTAGTTCTTAGTAGAACTTTTATTTTTCTAAA
66 TATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATTTTTCTCTA
* ** * * *
39973073 CTCATATAACCCTGAGTTAAGCAAAGGAACTTTAAATACTTAGTATAACTTTGAG-T-AGTTACA
131 CT-GTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAAA
*
39973136 GAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTTGAAATAAATATTTTTA
195 GAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTCGAAATAAATATTTTTA
* * **
39973201 T-AAA-AAATATTTTGTTTTAAGTTTAAAAGTAC-CCTGATAACACCTTGTAATGATACTAAAGG
260 TAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCC-GATAACACCTTGTAATGATACTGTAGG
* * * * **
39973263 T-AAAAAGAAGTGAGGTGTTTTACGATTTCAAGATTCCACTACCGTTATTCCACTGTCGCTATGT
324 TAAAAAAG-AGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTATT-CGCTGTCGCTATAC
* * * * *
39973327 CTCTACAGGACCAGCTTTTTAACCTATCTTAAAATATTGGAAAATTTTTATCTCACGTTGCAGCT
387 CTCTACTGGACCTGCTTTTTAACCTATCTTAGAATATTTGAAAATTTTTATCTCACGTGGCAGCT
*
39973392 TAGGGTGCTTCATCAA-GGCTCAAAATCTT-CAAAAATAGAACAAAAATAAATATCAATACCTAT
452 TAGGGTGCTTCGT-AACGGCTCAAAATCTTCCAAAAA-AGAACAAAAATAAATATCAATACCTAT
* * **
39973455 ---CT---TAAA----ATA-------TTGGTCGTTTTGAGCTCGCAAAAGTTCATACTCAA-CTT
515 CCCCTGGACAAAGCTCATACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTT
**
39973502 CAGACATCTCTG
580 -AG--ATCTCCA
* *
39973514 ATCACCTGAAAAATGTTTTTAAATGATTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
1 ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
* *
39973579 TATTTCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCATAACTTTTATTTTTCTCTA
66 TATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATTTTTCTCTA
* *** * *
39973644 CCTATATAATATTGAGTTAAATAAAGGAGCTTTGAATACTTCGTATAACTTTGAGTTAAGATAAA
131 -CTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAAA
* * *
39973709 GAGTTCTAAATATTTGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTTA
195 GAGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTCGAAATAAATATTTTTA
* * * * *
39973774 TAAAAGAAATATTTCGTCTTAAATTTAAAAGTGCTCTGATAACACCTTATAATGATACTGTAGTT
260 TAAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGT
* * * * * **
39973839 AAAAAATAATAAGGTGTTTTACAATTTCAAGATGT-TAGTATCGCTAGTTCGCTACCGCTATACC
325 AAAAAAGAGTAAGGTGTTTTACAATTTCAAGAT-TCCACTACCGCTA-TTCGCTGTCGCTATACC
* * *
39973903 TCTATTGGA-CTACCTTTTTAACCTACCTTAGAATATTTGAAAA
388 TCTACTGGACCT-GCTTTTTAACCTATCTTAGAATATTTGAAAA
39973946 AAATTATCTT
Statistics
Matches: 1845, Mismatches: 294, Indels: 125
0.81 0.13 0.06
Matches are distributed among these distances:
570 3 0.00
571 195 0.11
572 3 0.00
573 67 0.04
574 4 0.00
575 122 0.07
576 9 0.00
578 2 0.00
582 3 0.00
585 2 0.00
588 62 0.03
589 110 0.06
590 158 0.09
591 54 0.03
592 147 0.08
593 300 0.16
594 168 0.09
595 100 0.05
596 20 0.01
597 68 0.04
598 19 0.01
599 227 0.12
600 1 0.00
601 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (588 bp):
ATCACCTGAAAAATGATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGATTCTATCT
TATATCTATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATTTTTCTCTA
CTGTATAACCCTGAGTTAAATAAAGGAGCTTTAAATACTTAGTATAACTTTGAGTTAAGATAAAG
AGTTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTTCGAAATAAATATTTTTAT
AAAAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTA
AAAAAGAGTAAGGTGTTTTACAATTTCAAGATTCCACTACCGCTATTCGCTGTCGCTATACCTCT
ACTGGACCTGCTTTTTAACCTATCTTAGAATATTTGAAAATTTTTATCTCACGTGGCAGCTTAGG
GTGCTTCGTAACGGCTCAAAATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATCCCCTG
GACAAAGCTCATACGTTGTTTTGGTTGTTTTGAGCTCGCCGAAGTTCATACTCAACCTTAGATCT
CCA
Found at i:39973195 original size:14 final size:15
Alignment explanation
Indices: 39973175--39973214 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
39973165 TAATGTCCAT
39973175 AAAATATTTTGA-AA
1 AAAATATTTTGATAA
* *
39973189 TAAATATTTTTATAA
1 AAAATATTTTGATAA
39973204 AAAATATTTTG
1 AAAATATTTTG
39973215 TTTTAAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
AAAATATTTTGATAA
Found at i:39973550 original size:11 final size:10
Alignment explanation
Indices: 39973524--39973557 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
39973514 ATCACCTGAA
*
39973524 AAATGTTTTT
1 AAATGATTTT
39973534 AAATGATTTT
1 AAATGATTTT
39973544 AATATGATTTT
1 AA-ATGATTTT
39973555 AAA
1 AAA
39973558 GTCTCCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (10 bp):
AAATGATTTT
Found at i:39987089 original size:6 final size:6
Alignment explanation
Indices: 39987045--39987237 Score: 94
Period size: 6 Copynumber: 31.3 Consensus size: 6
39987035 AAGAAACATT
* * * * *
39987045 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATTAGA ATCAGA ATCAGGTG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
39987095 AT-AGA ATCAAA ATCAAA ATCAGA ATCAAA ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * * *
39987143 ATCAGT ATCAGGTA AT-AGA ATCAGG ATTAGA ACCAGA ATTAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
39987194 A-CAGA ATCAGA ATCA-A TATTAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA AT
39987238 GTGAATGCAA
Statistics
Matches: 142, Mismatches: 26, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
5 13 0.09
6 109 0.77
7 10 0.07
8 9 0.06
9 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:39987101 original size:19 final size:19
Alignment explanation
Indices: 39987077--39987147 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
39987067 GAATCAAAAT
* *
39987077 TAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGGTAA
*
39987096 TAGAATCAAAATCA--AAA
1 TAGAATCAAAATCAGGTAA
39987113 TCAGAATCAAAATCAGGTAA
1 T-AGAATCAAAATCAGGTAA
* *
39987133 CAGAATCAGAATCAG
1 TAGAATCAAAATCAG
39987148 TATCAGGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 26 0.60
20 2 0.05
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (19 bp):
TAGAATCAAAATCAGGTAA
Found at i:39987139 original size:25 final size:25
Alignment explanation
Indices: 39987111--39987166 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
39987101 TCAAAATCAA
39987111 AATCAGAATCAAAATCAGGTAACAG
1 AATCAGAATCAAAATCAGGTAACAG
** *
39987136 AATCAGAATCAGTATCAGGTAATAG
1 AATCAGAATCAAAATCAGGTAACAG
39987161 AATCAG
1 AATCAG
39987167 GATTAGAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAAAATCAGGTAACAG
Found at i:39987153 original size:37 final size:37
Alignment explanation
Indices: 39987068--39987146 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39987058 TCAAAATGAG
* * * *
39987068 AATCAAAATTAGAATCAGAATCAGGTGATAGAATCAA
1 AATCAAAATCAGAATCAAAATCAGGTAACAGAATCAA
*
39987105 AATCAAAATCAGAATCAAAATCAGGTAACAGAATCAG
1 AATCAAAATCAGAATCAAAATCAGGTAACAGAATCAA
39987142 AATCA
1 AATCA
39987147 GTATCAGGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (37 bp):
AATCAAAATCAGAATCAAAATCAGGTAACAGAATCAA
Found at i:39987161 original size:62 final size:62
Alignment explanation
Indices: 39987078--39987233 Score: 195
Period size: 62 Copynumber: 2.5 Consensus size: 62
39987068 AATCAAAATT
* * * *
39987078 AGAATCAGAATCAGGTGATAGAATCAAAATCAAAATCAGAATCAAAATCAGGTAACAGAATC
1 AGAATCAGTATCAGGTAATAGAATCAGAATCAAAACCAGAATCAAAATCAGGTAACAGAATC
* * * * * *
39987140 AGAATCAGTATCAGGTAATAGAATCAGGATTAGAACCAGAATTAGAATTAGGTAACAGAATC
1 AGAATCAGTATCAGGTAATAGAATCAGAATCAAAACCAGAATCAAAATCAGGTAACAGAATC
* * *
39987202 AGAATCAATATTAGGTAACAGAATCAGAATCA
1 AGAATCAGTATCAGGTAATAGAATCAGAATCA
39987234 GAATGTGAAT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 79 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (62 bp):
AGAATCAGTATCAGGTAATAGAATCAGAATCAAAACCAGAATCAAAATCAGGTAACAGAATC
Found at i:39987204 original size:25 final size:25
Alignment explanation
Indices: 39987171--39987237 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
39987161 AATCAGGATT
* *
39987171 AGAACCAGAATTAGAATTAGGTAAC
1 AGAATCAGAATCAGAATTAGGTAAC
39987196 AGAATCAGAATCA-ATATTAGGTAAC
1 AGAATCAGAATCAGA-ATTAGGTAAC
39987221 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
39987238 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTAAC
Found at i:39987404 original size:27 final size:26
Alignment explanation
Indices: 39987356--39987415 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
39987346 GCGAGGCTGC
*
39987356 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
39987383 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
39987409 CAGATAT
1 CAGATAT
39987416 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:39987460 original size:71 final size:67
Alignment explanation
Indices: 39987383--39987524 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
39987373 TCACCAGATA
* * *
39987383 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
39987448 GGCTGC
62 GGCTGC
* * *
39987454 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGATGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
39987519 GC
66 GC
39987521 CAGA
1 CAGA
39987525 ACGCGTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:39987502 original size:27 final size:26
Alignment explanation
Indices: 39987454--39987505 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
39987444 GCGAGGCTGC
*
39987454 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
39987480 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
39987506 TTGCAGCGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:39987780 original size:27 final size:27
Alignment explanation
Indices: 39987750--39987947 Score: 240
Period size: 27 Copynumber: 7.3 Consensus size: 27
39987740 GGGGTAAAAT
* * *
39987750 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
39987777 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
39987804 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
39987831 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
39987858 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
39987885 AGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
39987912 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
**
39987939 AATAATTTT
1 GGTAATTTT
39987948 GTAAATCGAG
Statistics
Matches: 151, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.04
27 138 0.91
28 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:39987797 original size:54 final size:54
Alignment explanation
Indices: 39987750--39987938 Score: 288
Period size: 54 Copynumber: 3.5 Consensus size: 54
39987740 GGGGTAAAAT
* * * * *
39987750 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTC
* *
39987804 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTC
*
39987858 GGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTC
* *
39987912 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39987939 AATAATTTTG
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTC
Found at i:39987945 original size:81 final size:81
Alignment explanation
Indices: 39987754--39987938 Score: 336
Period size: 81 Copynumber: 2.3 Consensus size: 81
39987744 TAAAATGGTA
* *
39987754 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
39987818 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
39987834 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
39987899 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
39987915 ATTTCTACCCTACAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
39987939 AATAATTTTG
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 4 0.04
81 97 0.96
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:39988014 original size:27 final size:26
Alignment explanation
Indices: 39987984--39988324 Score: 145
Period size: 27 Copynumber: 12.7 Consensus size: 26
39987974 TGTAAATTAG
* *
39987984 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGATAATTTTACAA-TCGA
** *
39988011 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGATAATTTTACA-ATCGA
** *
39988038 GGGTATTTCAATAATTTCACAAATC-A
1 GGGTATTTTGATAATTTTAC-AATCGA
* * *
39988064 GGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTGATAATTTTACAATCGA
* *
39988091 GGGATATTTTGATAATTTTACAAACCA
1 GGG-TATTTTGATAATTTTACAATCGA
* * * *
39988118 GGGGTATTTTGGTAGTTTTACAAACCA
1 -GGGTATTTTGATAATTTTACAATCGA
* * *
39988145 GGGGTATTTT-AGTAATTTTATAAACAAA
1 -GGGTATTTTGA-TAATTTTACAATC-GA
* * *
39988173 GGGTA-TTTAAGTAATTTTACAAACCA
1 GGGTATTTTGA-TAATTTTACAATCGA
* * * *
39988199 GGGGTATTTTGGTAATTTTATAAACCAA
1 -GGGTATTTTGATAATTTTA-CAATCGA
* *
39988227 GGGTATTTTTG-TAATTTTACAAACCA
1 GGGTA-TTTTGATAATTTTACAATCGA
* * * *
39988253 GGGGTATTTT-AGTGATTTTATAAACCAA
1 -GGGTATTTTGA-TAATTTTA-CAATCGA
* * *
39988281 GGGTATTTT-AGTAACTTTACAAACCA
1 GGGTATTTTGA-TAATTTTACAATCGA
*
39988307 GGGGTATTTTGGTAATTT
1 -GGGTATTTTGATAATTT
39988325 GATAAACTAA
Statistics
Matches: 254, Mismatches: 41, Indels: 38
0.76 0.12 0.11
Matches are distributed among these distances:
26 23 0.09
27 210 0.83
28 21 0.08
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
GGGTATTTTGATAATTTTACAATCGA
Found at i:39988123 original size:81 final size:81
Alignment explanation
Indices: 39987982--39988333 Score: 372
Period size: 81 Copynumber: 4.3 Consensus size: 81
39987972 TCTGTAAATT
* * * * ***
39987982 AGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAA-TAATTTTACAGGTC-GAGGGTATT
1 AGGGGTATTTTGGTAATTTTACAA-ACTAGGGTATTTTAAGTAATTTTACAAACCAG-GGGTATT
* * * *
39988045 TCAATAATTTCACAAATC
64 TTAGTAATTTTACAAACC
*
39988063 AGGGGTATTTTGGTAATTTTACAAACTAGGGATATTTTGA-TAATTTTACAAACCAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGG-TATTTTAAGTAATTTTACAAACCAGGGGTATTT
* *
39988127 TGGTAGTTTTACAAACC
65 TAGTAATTTTACAAACC
* * *
39988144 AGGGGTATTTTAGTAATTTTATAAACAAAGGGTA-TTTAAGTAATTTTACAAACCAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAAC-TAGGGTATTTTAAGTAATTTTACAAACCAGGGGTATTT
* *
39988208 TGGTAATTTTATAAACC
65 TAGTAATTTTACAAACC
* * * * * *
39988225 AAGGGTATTTTTGTAATTTTACAAACCAGGGGTATTTT-AGTGATTTTATAAACCAAGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTAAGTAATTTTACAAACCAGGGGTATTT
*
39988289 TAGTAACTTTACAAACC
65 TAGTAATTTTACAAACC
* *
39988306 AGGGGTATTTTGGTAATTTGATAAACTA
1 AGGGGTATTTTGGTAATTTTACAAACTA
39988334 AAGTTTCTAA
Statistics
Matches: 230, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
80 10 0.04
81 212 0.92
82 8 0.03
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGTATTTTAAGTAATTTTACAAACCAGGGGTATTTT
AGTAATTTTACAAACC
Found at i:39988331 original size:27 final size:27
Alignment explanation
Indices: 39988049--39988324 Score: 363
Period size: 27 Copynumber: 10.2 Consensus size: 27
39988039 GGTATTTCAA
* *
39988049 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
39988076 TAATTTTACAAACTAGGGATATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
39988103 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
39988130 TAGTTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * **
39988157 TAATTTTATAAACAAAGGGTATTTAAG
1 TAATTTTACAAACCAGGGGTATTTTGG
39988184 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
39988211 TAATTTTATAAACCAAGGGTATTTTTG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
39988238 TAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
39988265 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
39988292 TAACTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
39988319 TAATTT
1 TAATTT
39988325 GATAAACTAA
Statistics
Matches: 214, Mismatches: 35, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 214 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:39995071 original size:42 final size:41
Alignment explanation
Indices: 39994954--39995072 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 41
39994944 GTTTGAGTCA
* * *
39994954 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGACT-AGATT
* *
39994996 TCCGTATAAGACCATGTCTGGGACATC-GACATCGTAACT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG--ACTAGATT
* *
39995039 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGA
39995073 TATTGAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.02
42 28 0.44
43 31 0.49
44 1 0.02
45 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGACTAGATT
Found at i:39999059 original size:40 final size:40
Alignment explanation
Indices: 39998965--39999189 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
39998955 TATTCGAACG
*
39998965 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
39999006 ATAACCGGACTAAGATCCGAAGGCATTCGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
39999046 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
39999086 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
39999126 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
39999166 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
39999190 CTTGCGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:39999145 original size:80 final size:80
Alignment explanation
Indices: 39998965--39999225 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
39998955 TATTCGAACG
* * * *
39998965 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
39999030 ATTCGTGCAAGTTGCT
65 ATTCGTGCAAGTCGCT
* * * *
39999046 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
39999111 TTTGTGCTAG-CGACT
66 TTCGTGCAAGTCG-CT
* * * *
39999126 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
39999191 TT-GCGCAAGTAGTT
66 TTCGTGCAAGTCGCT
*
39999205 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39999226 ATTTCTTGAC
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 95 0.62
81 32 0.21
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTCGCT
Found at i:39999179 original size:120 final size:121
Alignment explanation
Indices: 39998965--39999189 Score: 312
Period size: 120 Copynumber: 1.9 Consensus size: 121
39998955 TATTCGAACG
** * *
39998965 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
39999030 ATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCAAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
39999086 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
39999149 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTCATGCAAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
39999190 CTTGCGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 3 0.03
120 57 0.63
121 31 0.34
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCAAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:40005571 original size:16 final size:17
Alignment explanation
Indices: 40005552--40005584 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40005542 TTCGTTCAGC
*
40005552 ATTTTTAAAAT-ATTTT
1 ATTTTAAAAATGATTTT
40005568 ATTTTAAAAATGATTTT
1 ATTTTAAAAATGATTTT
40005585 TTTATCTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTAAAAATGATTTT
Found at i:40006183 original size:34 final size:33
Alignment explanation
Indices: 40006136--40006206 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 33
40006126 TCAACCACCT
40006136 ATTAATGTATTAACCCTTAGAATATATTTCTGG
1 ATTAATGTATTAACCCTTAGAATATATTTCTGG
*
40006169 ATTACATGTATTAACCCTTAGAATATATTTTTGG
1 ATTA-ATGTATTAACCCTTAGAATATATTTCTGG
40006203 ATTA
1 ATTA
40006207 TTCTTCTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (33 bp):
ATTAATGTATTAACCCTTAGAATATATTTCTGG
Found at i:40007969 original size:15 final size:15
Alignment explanation
Indices: 40007949--40007979 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40007939 TAGTTGCTCA
40007949 ACGTGTTATTTGTCT
1 ACGTGTTATTTGTCT
40007964 ACGTGTTATTTGTCT
1 ACGTGTTATTTGTCT
40007979 A
1 A
40007980 TTTGTCTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (15 bp):
ACGTGTTATTTGTCT
Found at i:40011617 original size:53 final size:53
Alignment explanation
Indices: 40011542--40011646 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
40011532 ATAAACTATT
* * * *
40011542 ATAAGGCAAACATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC
1 ATAAGGCAAACATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTC
** * *
40011595 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGGCAAACATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTT
40011647 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAACATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTC
Found at i:40019076 original size:53 final size:53
Alignment explanation
Indices: 40018894--40019122 Score: 201
Period size: 53 Copynumber: 4.3 Consensus size: 53
40018884 ATTAGGGTTT
* * * * * * *
40018894 AAGGATACCAAGTAAGTCCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGACACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
40018948 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGACACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
** *
40019003 AAATATC-CCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
1 AAGGA-CACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * * * *
40019056 AAGGACACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTAAAAGGA
1 AAGGACACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
40019109 AAGGA-ACCCATGTA
1 AAGGACA-CCATGTA
40019123 TCCTTAGTAT
Statistics
Matches: 140, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
52 2 0.01
53 61 0.44
54 38 0.27
55 39 0.28
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGACACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:40020589 original size:26 final size:26
Alignment explanation
Indices: 40020513--40020593 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
40020503 AACAGTCTGG
* *
40020513 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACCTAGTAA
* *
40020539 TACACG-CGT-GACCT-CACC-ATCTAA
1 TACACGTAGTAG-CCTGCACCTA-GTAA
40020563 TACACGTAGTAGCCTGCACCTAGTAA
1 TACACGTAGTAGCCTGCACCTAGTAA
40020589 TACAC
1 TACAC
40020594 ACGTGATCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
23 1 0.02
24 12 0.28
25 10 0.23
26 19 0.44
27 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACCTAGTAA
Found at i:40022827 original size:15 final size:15
Alignment explanation
Indices: 40022777--40022830 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
40022767 TAAAGATAAC
*
40022777 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
40022791 AAGAAACCTA-AGATA
1 AAGAAACCCAGA-ATA
40022806 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
40022821 AAGAAACCCA
1 AAGAAACCCA
40022831 AGATACGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.31
15 19 0.59
16 3 0.09
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:40025836 original size:101 final size:99
Alignment explanation
Indices: 40025662--40025850 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 99
40025652 ATCTGGTACG
* * *
40025662 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACT
*
40025727 TAGTACTACACACGTGACCTCACCATCTAATACA
66 TAGTACTACACACGCGACCTCACCATCTAATACA
* * *
40025761 CATAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGC
*
40025825 ACTTAGTACTACACATGCGACCTCAC
63 ACTTAGTACTACACACGCGACCTCAC
40025851 AATAGATCAC
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 32 0.41
101 43 0.54
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCTCACCATCTAATACA
Found at i:40036414 original size:8 final size:8
Alignment explanation
Indices: 40036401--40036425 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
40036391 TCGTAAATTA
40036401 AAGGTGGC
1 AAGGTGGC
40036409 AAGGTGGC
1 AAGGTGGC
40036417 AAGGTGGC
1 AAGGTGGC
40036425 A
1 A
40036426 CCACTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.48, T:0.12
Consensus pattern (8 bp):
AAGGTGGC
Found at i:40042585 original size:26 final size:26
Alignment explanation
Indices: 40042533--40042589 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
40042523 TGCTCAACAC
***
40042533 TCATATATCACATAGGGGTATTTTAG
1 TCATATATCACATAGGGGTACAATAG
* *
40042559 TCATTTATCTCATAGGGGTACAATAG
1 TCATATATCACATAGGGGTACAATAG
40042585 TCATA
1 TCATA
40042590 ACAAAAATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (26 bp):
TCATATATCACATAGGGGTACAATAG
Found at i:40045643 original size:17 final size:18
Alignment explanation
Indices: 40045608--40045693 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
40045598 CCTGGCCTAT
*
40045608 TGCAATAACAGTAAACAA
1 TGCAGTAACAGTAAACAA
*
40045626 TGCAGTAAAAGT-AACAA
1 TGCAGTAACAGTAAACAA
*
40045643 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAA
*
40045661 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAA
*
40045679 TGCAGTAGCAGTAAA
1 TGCAGTAACAGTAAA
40045694 TAGTATGCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 16 0.26
18 46 0.74
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAA
Found at i:40045659 original size:35 final size:36
Alignment explanation
Indices: 40045608--40045693 Score: 120
Period size: 35 Copynumber: 2.4 Consensus size: 36
40045598 CCTGGCCTAT
*
40045608 TGCAATAACAGTAAACAATGCAGTAAAAGT-AACAA
1 TGCAGTAACAGTAAACAATGCAGTAAAAGTAAACAA
* * *
40045643 TGCAGTAACAGTAAACAGTGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAATGCAGTAAAAGTAAACAA
*
40045679 TGCAGTAGCAGTAAA
1 TGCAGTAACAGTAAA
40045694 TAGTATGCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 27 0.60
36 18 0.40
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (36 bp):
TGCAGTAACAGTAAACAATGCAGTAAAAGTAAACAA
Found at i:40046070 original size:27 final size:27
Alignment explanation
Indices: 40046008--40046195 Score: 198
Period size: 27 Copynumber: 7.0 Consensus size: 27
40045998 AAACATACAT
* * * * *
40046008 CACATAGGGGTAAAATAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
40046035 CATAAAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
40046062 CACATAAGGGCAAAACAATTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
40046089 CTCATAAGGGCAAAAGAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
40046116 CTCATAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
40046143 CTCATAAGGGCAAAACAGTCATTTTATC
1 CACATAAGGGCAAAACAGTCATTTTA-C
* *
40046171 C-CATAAAGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
40046196 TCGATTAAGG
Statistics
Matches: 139, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 137 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:40046197 original size:27 final size:27
Alignment explanation
Indices: 40046040--40046195 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
40046030 CTTACCATAA
* * *
40046040 AAGGGAAAAATAGTCATTTTACCACAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* *
40046067 AAGGGCAAAACAATTATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
40046094 AAGGGCAAAAGAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
40046121 AAGGGCAAAACAGTTATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
40046148 AAGGGCAAAACAGTCATTTTATCC-CAT
1 AAGGGCAAAACAGTCATTTTA-CCTCAT
* *
40046175 AAAGGCAAAATAGTCATTTTA
1 AAGGGCAAAACAGTCATTTTA
40046196 TCGATTAAGG
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 113 0.98
28 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCTCAT
Found at i:40047500 original size:44 final size:45
Alignment explanation
Indices: 40047417--40047519 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
40047407 GTAACGGTAG
*
40047417 CAGTAATAGTAACAATATTCAACACACAAAGTGCTAAATCTGTAA
1 CAGTAATAGTAACAATATTCAACACACAAAGTGCTAAATCAGTAA
* * *
40047462 CAGTAATGGTAACAGTA-TCGACACACAAAGTG-TCAAATCAGTAA
1 CAGTAATAGTAACAATATTCAACACACAAAGTGCT-AAATCAGTAA
**
40047506 CAGTAGCAGTAACA
1 CAGTAATAGTAACA
40047520 GCAACAATAG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.68
45 15 0.30
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (45 bp):
CAGTAATAGTAACAATATTCAACACACAAAGTGCTAAATCAGTAA
Done.