Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 137 of 250
Found at i:44196752 original size:27 final size:27
Alignment explanation
Indices: 44196722--44196826 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
44196712 AAAAAATCTA
*
44196722 TCATTTTACCATATCGGGGTATTACAG
1 TCATTTTACCATATCGGGGTATTTCAG
*
44196749 TCATTTTACCCA-A-CAAGGGTATTTCAG
1 TCATTTTA-CCATATC-GGGGTATTTCAG
* ** * *
44196776 TCATTCTACTTTATTGGGGTATTTCGG
1 TCATTTTACCATATCGGGGTATTTCAG
* **
44196803 TCATTTTACCCTATAAGGGTATTT
1 TCATTTTACCATATCGGGGTATTT
44196827 TGGTTATTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.92
28 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTTTACCATATCGGGGTATTTCAG
Found at i:44196845 original size:27 final size:27
Alignment explanation
Indices: 44196738--44196849 Score: 82
Period size: 27 Copynumber: 4.1 Consensus size: 27
44196728 TACCATATCG
* * * * *
44196738 GGGTATTACAGTCATTTTACCCAACAA
1 GGGTATTTCGGTCATTTTACACTATAA
* * ** **
44196765 GGGTATTTCAGTCATTCTACTTTATTG
1 GGGTATTTCGGTCATTTTACACTATAA
*
44196792 GGGTATTTCGGTCATTTTACCCTATAA
1 GGGTATTTCGGTCATTTTACACTATAA
* *
44196819 GGGTATTTTGGTTATTTTATCAC-ATAA
1 GGGTATTTCGGTCATTTTA-CACTATAA
44196846 GGGT
1 GGGT
44196850 TTAGGTACGC
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 65 0.97
28 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACACTATAA
Found at i:44204773 original size:27 final size:27
Alignment explanation
Indices: 44204735--44204789 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
44204725 ATGATTATAA
*
44204735 CCTAGCAGTACACTGTTGGTATTCTAT
1 CCTAGCAATACACTGTTGGTATTCTAT
*
44204762 CCTAGCAATACACTGTTTGTATTCTAT
1 CCTAGCAATACACTGTTGGTATTCTAT
44204789 C
1 C
44204790 TCAAAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (27 bp):
CCTAGCAATACACTGTTGGTATTCTAT
Found at i:44220324 original size:42 final size:42
Alignment explanation
Indices: 44220274--44220379 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
44220264 AAATCGGTGC
* * * * *
44220274 CATATCCCAAATATAGTCTTATACGAAATCTCATTTCGATGT
1 CATATCCCAAATATGGTCTTACACGAAATCTCATATCAACGT
* * * *
44220316 CATGTCCCAGACATGGTCTTACATGAAATCTCATATCAACGT
1 CATATCCCAAATATGGTCTTACACGAAATCTCATATCAACGT
*
44220358 CATACCCCAAATATGGTCTTAC
1 CATATCCCAAATATGGTCTTAC
44220380 TTGATAACAC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTACACGAAATCTCATATCAACGT
Found at i:44227952 original size:40 final size:40
Alignment explanation
Indices: 44227908--44227984 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
44227898 TAGTGCCTCA
* *
44227908 TGTAGTCGAAGCTA-TTCCAACTCGCACACTTAGTGTCATT
1 TGTAGCCGAAGCTATTTCAAACT-GCACACTTAGTGTCATT
44227948 TGTAGCCGAAGCTATTTCAAACTGCACACTTAGTGTC
1 TGTAGCCGAAGCTATTTCAAACTGCACACTTAGTGTC
44227985 GAACTTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 27 0.79
41 7 0.21
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
TGTAGCCGAAGCTATTTCAAACTGCACACTTAGTGTCATT
Found at i:44230443 original size:42 final size:42
Alignment explanation
Indices: 44230312--44230464 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 42
44230302 AATAAGATGA
* * ** *
44230312 CAATGCCATGTCCCAGATGTGGTTTTACATGGGATCTCACAT
1 CAATGCCATATCCCAGATGTGGTCTTACATGAAATCTCATAT
** * * * *
44230354 CGGTGCCA-ATCCCAGATATGGTCTTATACGAAATCTCATTT
1 CAATGCCATATCCCAGATGTGGTCTTACATGAAATCTCATAT
** * * *
44230395 TGATGCCATGTCCCAGACGTAGTCTTACATGAAATCTCATAT
1 CAATGCCATATCCCAGATGTGGTCTTACATGAAATCTCATAT
* *
44230437 CAATGCCATATCCCATATATGGTCTTAC
1 CAATGCCATATCCCAGATGTGGTCTTAC
44230465 TTGATAACAC
Statistics
Matches: 83, Mismatches: 27, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
41 30 0.36
42 53 0.64
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATGTGGTCTTACATGAAATCTCATAT
Found at i:44239063 original size:58 final size:58
Alignment explanation
Indices: 44238993--44239108 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
44238983 TTTCACGTTC
* *
44238993 TTCCTTTCCCAAATAGATGATCTATTGAGTAACCCTATAAAACAATTAATAAATCATA
1 TTCCTTTCCCAAATAGATGATCCATTAAGTAACCCTATAAAACAATTAATAAATCATA
44239051 TTCCTTTCCCAAATAGATGATCCATTAAGTAACCCTATAAAACAATTAATAAATCATA
1 TTCCTTTCCCAAATAGATGATCCATTAAGTAACCCTATAAAACAATTAATAAATCATA
44239109 CCTCCACTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (58 bp):
TTCCTTTCCCAAATAGATGATCCATTAAGTAACCCTATAAAACAATTAATAAATCATA
Found at i:44242763 original size:38 final size:37
Alignment explanation
Indices: 44242667--44242765 Score: 146
Period size: 36 Copynumber: 2.6 Consensus size: 37
44242657 TTATGTTTGT
44242667 AATTTAACCTTTGTTGCTGATAAAAGAGAGTAGGGTGC
1 AATTTAA-CTTTGTTGCTGATAAAAGAGAGTAGGGTGC
*
44242705 AATTTAA-TTTGTTGCTGATAAAAGATAGTAGGGTGC
1 AATTTAACTTTGTTGCTGATAAAAGAGAGTAGGGTGC
**
44242741 AATTTAATCTTTGTTAATGATAAAA
1 AATTTAA-CTTTGTTGCTGATAAAA
44242766 TAGGGTGGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
36 35 0.62
38 21 0.38
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.36
Consensus pattern (37 bp):
AATTTAACTTTGTTGCTGATAAAAGAGAGTAGGGTGC
Found at i:44255916 original size:14 final size:14
Alignment explanation
Indices: 44255897--44255925 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44255887 TTAGACTTAG
44255897 TATTGTAAAAAGTA
1 TATTGTAAAAAGTA
44255911 TATTGTAAAAAGTA
1 TATTGTAAAAAGTA
44255925 T
1 T
44255926 TTTCATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (14 bp):
TATTGTAAAAAGTA
Found at i:44258444 original size:26 final size:26
Alignment explanation
Indices: 44258397--44258446 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
44258387 TTTATACTGA
**
44258397 TTACTGGCAGCTTTGCTGCGATACCG
1 TTACTGGCAGCTTTGCCACGATACCG
44258423 TTACTGGCAGCTTTGCCACGATAC
1 TTACTGGCAGCTTTGCCACGATAC
44258447 TGATTAGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACGATACCG
Found at i:44261084 original size:40 final size:40
Alignment explanation
Indices: 44261029--44261170 Score: 171
Period size: 40 Copynumber: 3.5 Consensus size: 40
44261019 ACCCAAGTAT
* * *
44261029 CTTCGGGACTTAGCCCAGATATAGTCGCTATCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44261069 CTTCGGGTCTTAGCCCTGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
44261109 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
44261149 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44261171 CATTCGAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.03
40 79 0.92
41 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44271668 original size:12 final size:12
Alignment explanation
Indices: 44271651--44271675 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44271641 GTAGGTTTCC
44271651 AAAATGGAAATG
1 AAAATGGAAATG
44271663 AAAATGGAAATG
1 AAAATGGAAATG
44271675 A
1 A
44271676 TTCATTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:44276490 original size:27 final size:27
Alignment explanation
Indices: 44276433--44276490 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
44276423 GCTCATCTTG
* ** **
44276433 GCTTGAATCCATTTTGTATCTTACATG
1 GCTTGAATCCATTCTACATCTTACAAA
*
44276460 GCTTGAATCCATTCTACATCTTGCAAA
1 GCTTGAATCCATTCTACATCTTACAAA
44276487 GCTT
1 GCTT
44276491 CTTCAATATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (27 bp):
GCTTGAATCCATTCTACATCTTACAAA
Found at i:44276968 original size:68 final size:68
Alignment explanation
Indices: 44276877--44277003 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
44276867 TGACAATTTG
** * *
44276877 CATATAAACACAACACGGACATTGTCACA-GCTCGCATATTTACACAGTCCACATATTGACATAG
1 CATATAAACACAACACACACATTGTCACATG-TCACATATTTACACAGTCCACACATTGACATAG
44276941 TATA
65 TATA
*
44276945 CATATAAACACAACACACACATTGTCACATGTCACATATTTACACGGTCCACACATTGA
1 CATATAAACACAACACACACATTGTCACATGTCACATATTTACACAGTCCACACATTGA
44277004 AACAGTTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
68 52 0.98
69 1 0.02
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (68 bp):
CATATAAACACAACACACACATTGTCACATGTCACATATTTACACAGTCCACACATTGACATAGT
ATA
Found at i:44277069 original size:17 final size:17
Alignment explanation
Indices: 44277049--44277110 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
44277039 ACGGATCTCT
**
44277049 TATAAACACAGCTTTCA
1 TATAAACACAGCTAGCA
* *
44277066 TATAAACAAAGGTAGCA
1 TATAAACACAGCTAGCA
* *
44277083 TATAAACACAAC-ACACA
1 TATAAACACAGCTA-GCA
44277100 TATAAACACAG
1 TATAAACACAG
44277111 ATCGCACATT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 1 0.03
17 34 0.97
ACGTcount: A:0.52, C:0.21, G:0.08, T:0.19
Consensus pattern (17 bp):
TATAAACACAGCTAGCA
Found at i:44282879 original size:42 final size:42
Alignment explanation
Indices: 44282816--44283018 Score: 156
Period size: 42 Copynumber: 4.7 Consensus size: 42
44282806 TAAGATGCCA
* ** * **
44282816 ATGCCATGTCCCAGACGTGGTCTTATATGGGATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTATACGAAATCTCACATCG
* **
44282858 ATGCCATATCTCAGATATGGTCTTATACGAAATCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTATACGAAATCTCACATCG
* * * * *
44282900 ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGATATGGTCTTATACGAAATCTCACATCG
* * * * * *
44282942 ACGCCATATCCCAAATACGGTCTTACATGATAA-CACATACCGATGCCG
1 ATGCCATATCCCAGATATGGTCTTATACGA-AATCTC--A-C-AT--CG
44282990 ATGCCATATCCCAGATATGGTCTTATACG
1 ATGCCATATCCCAGATATGGTCTTATACG
44283019 GGATTTTTTC
Statistics
Matches: 125, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
42 95 0.76
43 2 0.02
44 1 0.01
46 2 0.02
48 25 0.20
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATACGAAATCTCACATCG
Found at i:44282986 original size:84 final size:84
Alignment explanation
Indices: 44282816--44282988 Score: 186
Period size: 84 Copynumber: 2.1 Consensus size: 84
44282806 TAAGATGCCA
* * ** * * * * *
44282816 ATGCCATGTCCCAGACGTGGTCTTATATGGGATCTCACATCGATGCCATATCTCAGATATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCCAAATACGGTCT
* * **
44282881 TATACGAAATCTCATTTCG
66 TACACGAAATCACATACCG
* *
44282900 ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCATATCAACGCCATATCCCAAATACGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCCAAATACGGTCT
*
44282965 TACATGATAA-CACATACCG
66 TACACGA-AATCACATACCG
44282984 ATGCC
1 ATGCC
44282989 GATGCCATAT
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
84 70 0.97
85 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (84 bp):
ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCCAAATACGGTCT
TACACGAAATCACATACCG
Found at i:44308273 original size:659 final size:647
Alignment explanation
Indices: 44307001--44308302 Score: 1562
Period size: 659 Copynumber: 2.0 Consensus size: 647
44306991 GCTGGTGAGA
** *
44307001 GTCATTTAATTTCATACTTTTCTATGATAGTATAATGATATTTAAACTGACTGAAAACGTTCATG
1 GTCATTTAATTTCATACTTTTCTATGATAACATAATGATATTTAAACTGACTGAAAACGTTCAAG
* * ** * *
44307066 CACATGTATGATAAGCATGTCATATTGTTTAGGAAAAGAATATTTCATGTACTTTTCATGCATTT
66 CACATGTATGATAAGCATGACATATAGTTTAGGAAAAGAATATCACATCTACTTGTCATGCATTT
** * *
44307131 ATTAATCATTGGTGATTGAAATCGAACATAAAACCTTGCATGTTATTAAAGATTAAGTGGGAGAA
131 ATTAATCATTCATGATTGAAATCAAAAATAAAACCTTGCATGTTATTAAAGATTAAGTGGGAGAA
* * * * * * * * * *
44307196 GGTCCTTAAGCAAGACATTTGACTTTTATCAATGGTCTCTTGTGTTGGCATGACAATTGTTGGCC
196 AGTCCCTAAGCAAGACATATAACCTTCATCAATGGTCTCTTGTGATGGCATGAAAATTGGTGCCC
* * * * * *
44307261 TCAGGGTAGGTATTGTCATGTGGATTTCTATAAGGATATTTCTTTAAAAGATATAACTTTCTTGT
261 TCAAGGTAGGTATTGTCATGTGGATTTCTATAAGGAGATTTCCTTAAAAGAGATAACTATCATGT
* * * * *
44307326 GATAGCATATGATAGTTTGTTGGCCCTGAAGTAGATATTATCATGTAGAATTTATTAAAGAAGTT
326 GATAGCATATGATAATTTGTTGGCCCTGAAGTAGATATTATCATGTAGAACTCACTAAAGAACTT
* * ** * *
44307391 TTTTTTATAGAGGACAACTAGTCGTACATGTTATTCATAGAGATTGTCCCAAGACGACTCAATCG
391 TTTTTTATAGAGGACAAATAGTCATACAACTTACTCATAGAGATTGTCCCAAGACGACTCAATCA
* ** * * *
44307456 CCGTGCATGGAATGATAGGTGTTGAGTTGATGATTATACACTCAAGATCATTCTAGTTAAGTGAC
456 CCGTGCATGGAAAGATAAATATTGAGTTGATGATTATACACTCAAGATAATTCTAGTTAAGTAAC
* * * ** *
44307521 TTCCCAAGAAGCTATGCTTAAGTTAGAATGATGGCCAAATGTAAAGTGATTATTAGTACGTGTTA
521 TTCCCAAGAAGCTATGCATAAGTTAGAATAATGGCCAAACGTAAAGCAATTATTAGTACGTGTGA
* * * *
44307586 ATTCCTAAGGAATTAGGTTCATGTATTAATTGGATGGAAATCCATATTGTTACTAGTTTAAG
586 ATACCTAAGGAATTAGGTTCACGTATTAAGTGGATGGAAATCCATATTCTTACTAGTTTAAG
* * * *
44307648 GTCATTTAATTTTATGC-TTTCATATGATAACATGATGATATTTAAATTGACTGAAATGTACGTT
1 GTCATTTAATTTCATACTTTTC-TATGATAACATAATGATATTTAAACTGACTGAAA---ACGTT
* *
44307712 CAAGCATATGTATGATAAGCATGACATATAGTTTAAGGAAAA-AATGTCACATCTACTTGTCATG
62 CAAGCACATGTATGATAAGCATGACATATAGTTT-AGGAAAAGAATATCACATCTACTTGTCATG
* *
44307776 ACA-TT-TTAATCATTCATGATTGAAATCAAAAATAAAAAAAACCTTGCATGTTTTTAAAATATT
126 -CATTTATTAATCATTCATGATTGAAATCAAAAAT----AAAACCTTGCATGTTATT-AAAGATT
* * *
44307839 GAGTGGGAGAAAGTCCCT-AGATAAGACCTATAACCTTCATCAATGGTCTCTTGTGATGGCATGA
185 AAGTGGGAGAAAGTCCCTAAG-CAAGACATATAACCTTCATCAATGGTCTCTTGTGATGGCATGA
* * *
44307903 AAATTTGCGTGCCCT-AAGGTAGGTATTGTTATGTGGATTTCGT-TGAGGAGCTTTCCTTAAAAG
249 AAA-TTG-GTGCCCTCAAGGTAGGTATTGTCATGTGGATTTC-TATAAGGAGATTTCCTTAAAAG
* * * *
44307966 AGATTACTATCATGTGATAGCATATGATAATTTTTTGGCCCT-AAGGTAGGTATTATCATGTGGA
311 AGATAACTATCATGTGATAGCATATGATAATTTGTTGGCCCTGAA-GTAGATATTATCATGTAGA
*
44308030 ACTCACTGAAGAAACCTTTTTTTCTAATAGAGGACAAATAGTCATACACACTT-CTCATTA-AGA
375 ACTCACTAAAG-AA-CTTTTTTT-T-ATAGAGGACAAATAGTCATACA-ACTTACTCA-TAGAGA
* * * **
44308093 TTGTCCCACGATGACTCATTCATGGTGCATGGAAAGATAAATATTGAGTTGATGATTATACACTC
434 TTGTCCCAAGACGACTCAATCACCGTGCATGGAAAGATAAATATTGAGTTGATGATTATACACTC
* *
44308158 AAGATAATTCTAGTTAAGTAACTTCCCAAGAAGCTATGCATAAGTTAGAATAATGGTCAAACGTG
499 AAGATAATTCTAGTTAAGTAACTTCCCAAGAAGCTATGCATAAGTTAGAATAATGGCCAAACGTA
* * *
44308223 AAGCAATTATTAGTACGTGTGAATACCTAAGGGATTAGGTTGACGTATTAAGTGGATGGAAATTC
564 AAGCAATTATTAGTACGTGTGAATACCTAAGGAATTAGGTTCACGTATTAAGTGGATGGAAATCC
*
44308288 ATGTTCTTACTAGTT
629 ATATTCTTACTAGTT
44308303 GATTAAGATT
Statistics
Matches: 547, Mismatches: 86, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
646 4 0.01
647 45 0.08
649 24 0.04
650 54 0.10
651 9 0.02
653 19 0.03
654 61 0.11
655 103 0.19
656 8 0.01
657 7 0.01
658 1 0.00
659 208 0.38
660 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (647 bp):
GTCATTTAATTTCATACTTTTCTATGATAACATAATGATATTTAAACTGACTGAAAACGTTCAAG
CACATGTATGATAAGCATGACATATAGTTTAGGAAAAGAATATCACATCTACTTGTCATGCATTT
ATTAATCATTCATGATTGAAATCAAAAATAAAACCTTGCATGTTATTAAAGATTAAGTGGGAGAA
AGTCCCTAAGCAAGACATATAACCTTCATCAATGGTCTCTTGTGATGGCATGAAAATTGGTGCCC
TCAAGGTAGGTATTGTCATGTGGATTTCTATAAGGAGATTTCCTTAAAAGAGATAACTATCATGT
GATAGCATATGATAATTTGTTGGCCCTGAAGTAGATATTATCATGTAGAACTCACTAAAGAACTT
TTTTTTATAGAGGACAAATAGTCATACAACTTACTCATAGAGATTGTCCCAAGACGACTCAATCA
CCGTGCATGGAAAGATAAATATTGAGTTGATGATTATACACTCAAGATAATTCTAGTTAAGTAAC
TTCCCAAGAAGCTATGCATAAGTTAGAATAATGGCCAAACGTAAAGCAATTATTAGTACGTGTGA
ATACCTAAGGAATTAGGTTCACGTATTAAGTGGATGGAAATCCATATTCTTACTAGTTTAAG
Found at i:44315300 original size:40 final size:40
Alignment explanation
Indices: 44315173--44315425 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 40
44315163 AAGCCAAGTA
* * *
44315173 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
44315211 CCTTCGGGACATAG-CCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
44315249 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
44315289 CCTTCGGGACTTAGCCCGGATATAGTAGCTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
44315329 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
44315369 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
44315409 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
44315426 AGTTATCATC
Statistics
Matches: 200, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
37 1 0.00
38 45 0.22
39 21 0.10
40 133 0.67
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44322353 original size:28 final size:28
Alignment explanation
Indices: 44322290--44322387 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
44322280 ATATTAAGTC
*
44322290 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44322317 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44322345 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44322374 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44322388 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44330593 original size:27 final size:28
Alignment explanation
Indices: 44330562--44330659 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
44330552 ATATTAAGTC
* *
44330562 CGCACACTCAGTGCTATATAATCAACCT
1 CGCACACTTAGTGCTATATAATCAAACT
44330590 -GCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44330617 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44330646 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44330660 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
27 25 0.40
28 18 0.29
29 19 0.31
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44335173 original size:40 final size:40
Alignment explanation
Indices: 44335080--44335376 Score: 370
Period size: 40 Copynumber: 7.5 Consensus size: 40
44335070 AAGCCAAGTA
* * **
44335080 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGTTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
44335118 CCTTCAGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
44335158 TCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
44335198 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
44335238 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
44335278 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
44335318 CCTTCGGGACTTAGCTCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
44335358 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44335377 TTATCATCCA
Statistics
Matches: 233, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
38 11 0.05
39 17 0.07
40 205 0.88
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44338784 original size:22 final size:21
Alignment explanation
Indices: 44338741--44338796 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
44338731 AATATACTGC
* *
44338741 CTAAAATAGTTTCAGTATATT
1 CTAACATAGTTTCAGTAAATT
44338762 CTAATCATAGTTTCAG-ACAATT
1 CTAA-CATAGTTTCAGTA-AATT
*
44338784 CTAACAGAGTTTC
1 CTAACATAGTTTC
44338797 GGAAACTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (21 bp):
CTAACATAGTTTCAGTAAATT
Found at i:44339565 original size:46 final size:48
Alignment explanation
Indices: 44339486--44339578 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 48
44339476 AGTTAGGGCT
* * *
44339486 TTAGCCCATCAGATATAGAATGCAGATAGAATATCAGAATCCTACCCC
1 TTAGCCCATCAGATATAGAATACAGACAAAATATCAGAATCCTACCCC
44339534 TTAGCCCATCA-A-ATAGAATACAGACAAAATATCAGAATCCTACCC
1 TTAGCCCATCAGATATAGAATACAGACAAAATATCAGAATCCTACCC
44339579 ACCAACCTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 30 0.71
47 1 0.02
48 11 0.26
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.22
Consensus pattern (48 bp):
TTAGCCCATCAGATATAGAATACAGACAAAATATCAGAATCCTACCCC
Found at i:44341158 original size:16 final size:17
Alignment explanation
Indices: 44341137--44341169 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44341127 TTGTGCTACT
44341137 AATTTAC-AAAAGTTGG
1 AATTTACGAAAAGTTGG
*
44341153 AATTTACGAAAATTTGG
1 AATTTACGAAAAGTTGG
44341170 GGCGTTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (17 bp):
AATTTACGAAAAGTTGG
Found at i:44342557 original size:16 final size:16
Alignment explanation
Indices: 44342512--44342557 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
44342502 GTGAAATTTA
*
44342512 AATATTTTATTGAAAT
1 AATATTTTATTTAAAT
*
44342528 AATATTTTAATTAAGAT
1 AATATTTTATTTAA-AT
44342545 AAT-TTTTATTTAA
1 AATATTTTATTTAA
44342558 TAAATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
AATATTTTATTTAAAT
Found at i:44345842 original size:32 final size:32
Alignment explanation
Indices: 44345806--44345869 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
44345796 AAGAATGTTT
44345806 ATAATTACTACTTCTCATCTATGGTAATGTAA
1 ATAATTACTACTTCTCATCTATGGTAATGTAA
44345838 ATAATTACTACTTCTCATCTATGGTAATGTAA
1 ATAATTACTACTTCTCATCTATGGTAATGTAA
44345870 GTCAATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (32 bp):
ATAATTACTACTTCTCATCTATGGTAATGTAA
Found at i:44349823 original size:19 final size:20
Alignment explanation
Indices: 44349801--44349844 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44349791 CTGTTTTATT
44349801 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
44349820 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
44349840 ATGGG
1 ATGGG
44349845 GAAGACCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:44349947 original size:34 final size:29
Alignment explanation
Indices: 44349866--44349949 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 29
44349856 ATATCTCGAC
44349866 TTGTAATAGGGCTATGGCCCAGACTGATA
1 TTGTAATAGGGCTATGGCCCAGACTGATA
*
44349895 CTG--ATATGGGCTA-GGCCCAGTATGCTCTGATA
1 TTGTAATA-GGGCTATGGCCCAG-A----CTGATA
44349927 TTGTAATAGGGCTATGGCCCAGA
1 TTGTAATAGGGCTATGGCCCAGA
44349950 TTAATACTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
27 10 0.23
28 7 0.16
29 2 0.05
32 8 0.18
33 7 0.16
34 10 0.23
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (29 bp):
TTGTAATAGGGCTATGGCCCAGACTGATA
Found at i:44350008 original size:62 final size:61
Alignment explanation
Indices: 44349866--44350010 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
44349856 ATATCTCGAC
* * *
44349866 TTGTAATAGGGCTATGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
44349927 TTGTAATAGGGCTATGGCCCAGATTAATACTTATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
44349988 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
44350011 TAAAGCTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 43 0.58
62 31 0.42
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:44354475 original size:27 final size:27
Alignment explanation
Indices: 44354435--44354575 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
44354425 AGGAAGCGTC
*
44354435 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
44354462 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
44354488 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
44354516 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
44354543 CTAGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
44354570 CTGGTG
1 CTGGTG
44354576 ACTTCGTCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:44354514 original size:54 final size:54
Alignment explanation
Indices: 44354432--44354575 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
44354422 TGGAGGAAGC
44354432 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
44354486 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
44354540 GTTCTAGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
44354576 ACTTCGTCGC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:44358034 original size:18 final size:18
Alignment explanation
Indices: 44358011--44358046 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44358001 TTCCTGGGTG
*
44358011 GTAGTCGATTATCAACTC
1 GTAGTCCATTATCAACTC
*
44358029 GTAGTCCTTTATCAACTC
1 GTAGTCCATTATCAACTC
44358047 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (18 bp):
GTAGTCCATTATCAACTC
Found at i:44362589 original size:28 final size:28
Alignment explanation
Indices: 44362556--44362612 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
44362546 ACGTTGATTG
44362556 AATTCACACTTCATACTTCATGTAAAAT
1 AATTCACACTTCATACTTCATGTAAAAT
44362584 AATTCACACTTCATACTTCATGTAAAAT
1 AATTCACACTTCATACTTCATGTAAAAT
44362612 A
1 A
44362613 CACAAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (28 bp):
AATTCACACTTCATACTTCATGTAAAAT
Found at i:44362994 original size:49 final size:47
Alignment explanation
Indices: 44362831--44363099 Score: 136
Period size: 49 Copynumber: 5.6 Consensus size: 47
44362821 ATGCCGACGC
* * * * *
44362831 CATGTCCCAGACATGGTCTTACTCTGGCTAACA-C-ATCAAAGTTGATGC
1 CATGTCCCAGACA-GGTCTTACACTGGCT-TCATCTATC-AGGTCGATGT
* ** * *
44362879 CATGTCTCAGACAGGTCTTACACTAACTTCCATATATCGAGGCCGATGT
1 CATGTCCCAGACAGGTCTTACACTGGCTT-CATCTATC-AGGTCGATGT
* * *
44362928 CGTGTCCTAAACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGT
1 CATGTCCCAGACAGGTCTTACACTGGCT-TCATCTATCAG-GTCGATGT
* * * * * * *
44362977 CATGTCCCAGACGGGTCTTAGACTAGCTTGTATATCTCGAGGCCGATG-
1 CATGTCCCAGACAGGTCTTACACTGGCTT-CATCTATC-AGGTCGATGT
** * * * * *
44363025 CATGTCCCAGACATATTTTACACTAGC-TC-TCGTCTCAATGCCGATG-
1 CATGTCCCAGACAGGTCTTACACTGGCTTCATC-TATC-AGGTCGATGT
* *
44363071 CATGTCCCAGACATGTCTTACACTAGCTT
1 CATGTCCCAGACAGGTCTTACACTGGCTT
44363100 GTATATCTCT
Statistics
Matches: 172, Mismatches: 40, Indels: 19
0.74 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 37 0.22
47 16 0.09
48 37 0.22
49 78 0.45
50 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTGGCTTCATCTATCAGGTCGATGT
Found at i:44362994 original size:98 final size:94
Alignment explanation
Indices: 44362874--44363095 Score: 237
Period size: 98 Copynumber: 2.3 Consensus size: 94
44362864 CATCAAAGTT
* * *
44362874 GATGCCATGTCTCAGACAGGTCTTACACTAACTTCCATATATCGAGGCCGATGTCGTGTCCTAAA
1 GATG-CATGTCCCAGACAGGTCTTACACTAACTTCCATATATCGAGGCCGATG-CATGTCCCAAA
* * * *
44362939 CAGGTCTTACACTGGCTCTCATCTATCAGTGTC
64 CAGATCTTACACTAGCTCTCATC--TCAATGCC
* * * ** * *
44362972 GATGTCATGTCCCAGACGGGTCTTAGACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAGGTCTTACACTAACTTCCATATATCGAGGCCGATGCATGTCCCAAAC
* * *
44363037 ATATTTTACACTAGCTCTCGTCTCAATGCC
65 AGATCTTACACTAGCTCTCATCTCAATGCC
*
44363067 GATGCATGTCCCAGACATGTCTTACACTA
1 GATGCATGTCCCAGACAGGTCTTACACTA
44363096 GCTTGTATAT
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
94 22 0.21
95 10 0.10
97 26 0.25
98 45 0.44
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (94 bp):
GATGCATGTCCCAGACAGGTCTTACACTAACTTCCATATATCGAGGCCGATGCATGTCCCAAACA
GATCTTACACTAGCTCTCATCTCAATGCC
Found at i:44363036 original size:48 final size:48
Alignment explanation
Indices: 44362874--44363137 Score: 176
Period size: 49 Copynumber: 5.5 Consensus size: 48
44362864 CATCAAAGTT
* * * ** * *
44362874 GATGCCATGTCTCAGACAGGTCTTACACTAACTTCCATATATCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC
* * * * * * * * *
44362923 GATGTCGTGTCCTAAACAGGTCTTACACTGGCTCT-CATCTATC-AGTGTC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCAAG-GCC
** * *
44362972 GATGTCATGTCCCAGACGGGTCTTAGACTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC
* * * ** *
44363021 GATGCATGTCCCAGACATATTTTACACTAGC-TCT-CGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC
* * *
44363067 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCTAGACT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC
* *
44363115 GATGCATGTCCTAGAAATGTCTT
1 GATGCATGTCCCAGACATGTCTT
44363138 CCAGTGGCTC
Statistics
Matches: 169, Mismatches: 40, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
46 37 0.22
47 4 0.02
48 52 0.31
49 73 0.43
50 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCC
Found at i:44363096 original size:94 final size:96
Alignment explanation
Indices: 44362874--44363125 Score: 274
Period size: 94 Copynumber: 2.6 Consensus size: 96
44362864 CATCAAAGTT
* * ** * * *
44362874 GATGCCATGTCTCAGACAGGTCTTACACTAACTTCCATATATCGAGGCCGATGTCGTGTCCTAAA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG-CATGTCCCAAA
* * * *
44362939 CAGGTCTTACACTGGCTCTCATCTATCAGTGTC
65 CAGATCTTACACTAGCTCTCATC-ATCAATGCC
* * * *
44362972 GATGTCATGTCCCAGACGGGTCTTAGACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAAAC
* * *
44363037 ATATTTTACACTAGCTCTCGTC-TCAATGCC
66 AGATCTTACACTAGCTCTCATCATCAATGCC
* * * *
44363067 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCTAGACTGATGCATGTCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCC
44363126 TAGAAATGTC
Statistics
Matches: 130, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
94 49 0.38
95 10 0.08
97 26 0.20
98 45 0.35
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (96 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAAAC
AGATCTTACACTAGCTCTCATCATCAATGCC
Found at i:44371164 original size:21 final size:21
Alignment explanation
Indices: 44371138--44371180 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
44371128 GGTTCGCTGT
*
44371138 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
44371159 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
44371180 A
1 A
44371181 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:44371180 original size:16 final size:16
Alignment explanation
Indices: 44371161--44371193 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44371151 TGTATTGGAT
*
44371161 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
44371177 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
44371193 T
1 T
44371194 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:44371238 original size:45 final size:44
Alignment explanation
Indices: 44371172--44371266 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
44371162 GGATTAGAGG
* *
44371172 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
44371217 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
44371261 TGTAAT
1 TGTAAT
44371267 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:44371449 original size:18 final size:17
Alignment explanation
Indices: 44371428--44371462 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44371418 TTATTATTTA
*
44371428 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44371446 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44371463 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44371456 original size:28 final size:27
Alignment explanation
Indices: 44371386--44371458 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
44371376 TTTATTATCA
*
44371386 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
44371414 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
44371441 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
44371459 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:44371575 original size:144 final size:147
Alignment explanation
Indices: 44371347--44371618 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
44371337 ATGATTATTG
44371347 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
44371412 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAGC
44371477 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
44371496 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
44371558 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTA
44371619 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:44371609 original size:44 final size:44
Alignment explanation
Indices: 44371550--44371736 Score: 113
Period size: 44 Copynumber: 4.3 Consensus size: 44
44371540 ATTTAATCAT
*
44371550 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATA
1 ATTT-AACAAAATTATTATTAAATATATTTTAATTAAAATATATA
* * * *
44371595 ATTTAATAAAATTATTAATAATTAATATTCTT-A-TATGAAT-T-TA
1 ATTTAACAAAATTATTATTAAAT-ATATT-TTAATTA-AAATATATA
* ** * *
44371638 CTCAAACCATAATTATTATTAAATATGA---TACTGTAAAATATA-A
1 ATTTAA-CAAAATTATTATTAAATAT-ATTTTAAT-TAAAATATATA
* * * *
44371681 A-ATAACATAATTATTATTAAATATAATATAATTAAAATATATA
1 ATTTAACAAAATTATTATTAAATATATTTTAATTAAAATATATA
*
44371724 ATTTAATAAAATT
1 ATTTAACAAAATT
44371737 CTTAATAATT
Statistics
Matches: 106, Mismatches: 21, Indels: 31
0.67 0.13 0.20
Matches are distributed among these distances:
40 2 0.02
41 19 0.18
42 14 0.13
43 16 0.15
44 40 0.38
45 13 0.12
46 2 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (44 bp):
ATTTAACAAAATTATTATTAAATATATTTTAATTAAAATATATA
Found at i:44371613 original size:17 final size:18
Alignment explanation
Indices: 44371572--44371606 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44371562 TTATTATTAA
*
44371572 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
44371590 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
44371607 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:44371693 original size:129 final size:130
Alignment explanation
Indices: 44371555--44371788 Score: 416
Period size: 129 Copynumber: 1.8 Consensus size: 130
44371545 ATCATATTTA
* *
44371555 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
44371620 TATTCTTATATGAATTTACTCAAACCATAAT-TATTATTAAATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
*
44371684 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
44371749 TATTCTTATATGAATTTACTCAAATCATAATATATGATTA
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTA
44371789 TAACTAATAT
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
129 92 0.93
130 7 0.07
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (130 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
Found at i:44371722 original size:18 final size:17
Alignment explanation
Indices: 44371701--44371735 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44371691 TTATTATTAA
44371701 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
44371719 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
44371736 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:44371798 original size:17 final size:16
Alignment explanation
Indices: 44371776--44371822 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
44371766 ACTCAAATCA
44371776 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
44371793 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
44371807 TAAATATATGATTTAA
1 T-AATATATGATTTAA
44371823 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:44371823 original size:17 final size:17
Alignment explanation
Indices: 44371795--44371828 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44371785 ATTATAACTA
*
44371795 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
44371812 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
44371829 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:44371971 original size:93 final size:91
Alignment explanation
Indices: 44371861--44372054 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
44371851 GATTATAGTT
* *
44371861 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
44371924 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
44371954 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
44372019 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
44372045 TATGAATTTA
1 TATGAATTTA
44372055 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:44373423 original size:12 final size:12
Alignment explanation
Indices: 44373395--44373446 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
44373385 ATAACCCATG
44373395 CAAAAATCAATA
1 CAAAAATCAATA
*
44373407 C-AAAATTAATA
1 CAAAAATCAATA
44373418 CAAAAATCAATA
1 CAAAAATCAATA
44373430 CAAAAATCAATA
1 CAAAAATCAATA
44373442 CAAAA
1 CAAAA
44373447 GTTTCACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAATCAATA
Found at i:44373455 original size:11 final size:11
Alignment explanation
Indices: 44373441--44373467 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44373431 AAAAATCAAT
44373441 ACAAAAGTTTC
1 ACAAAAGTTTC
44373452 ACAAAAGTTTC
1 ACAAAAGTTTC
44373463 ACAAA
1 ACAAA
44373468 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:44375668 original size:15 final size:15
Alignment explanation
Indices: 44375648--44375678 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44375638 ATATTATGTA
44375648 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
44375663 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
44375678 T
1 T
44375679 TGAAGGTTGG
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:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:44385023 original size:27 final size:26
Alignment explanation
Indices: 44384993--44385058 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
44384983 GTCAAAATTA
*
44384993 ACCTTAGGGGTATAACGGTCATTTTGC
1 ACCTTAGGGGTATAACGGTAATTTT-C
* * *
44385020 ACC-TAGAGGTAAAATGGTAATTTTC
1 ACCTTAGGGGTATAACGGTAATTTTC
*
44385045 ATACTTAGGGGTAT
1 A-CCTTAGGGGTAT
44385059 TTTAATAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
25 2 0.07
26 18 0.60
27 10 0.33
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (26 bp):
ACCTTAGGGGTATAACGGTAATTTTC
Found at i:44386961 original size:27 final size:27
Alignment explanation
Indices: 44386931--44386984 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44386921 CTAAACATAC
*
44386931 TAAATAATA-ATAATAATAATAATTTCA
1 TAAA-AATATATAATAATAAAAATTTCA
* *
44386958 TAAACATATCTAATAATAAAAATTTCA
1 TAAAAATATATAATAATAAAAATTTCA
44386985 AATACCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAAAATATATAATAATAAAAATTTCA
Found at i:44389778 original size:15 final size:14
Alignment explanation
Indices: 44389747--44389787 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
44389737 TTACTTTTGT
44389747 AATAAAA-ATT-T-
1 AATAAAATATTATA
44389758 AATAAAATATTTATA
1 AATAAAATA-TTATA
44389773 AATAAAATATTATA
1 AATAAAATATTATA
44389787 A
1 A
44389788 CTTTTGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 1 0.04
13 2 0.08
14 7 0.27
15 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAAATATTATA
Found at i:44394302 original size:42 final size:41
Alignment explanation
Indices: 44394221--44394356 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 41
44394211 CCAAACGTGA
* * *
44394221 TCTTACATGTAATCAAATACCAATGCCACTGTTCCAGACAAGG
1 TCTTACATGAAATCAAATA-CAATGCCAATG-TCCAGACATGG
*
44394264 TCTTACATGAAATCAAATACGATGCCAATGTCCTAGACATGG
1 TCTTACATGAAATCAAATACAATGCCAATGTCC-AGACATGG
* * *
44394306 TCTTACACGTAAATCATAAGT-CAATGCCAACGTCCCAGACGTGG
1 TCTTACATG-AAATCA-AA-TACAATGCCAATGT-CCAGACATGG
44394350 TCTTACA
1 TCTTACA
44394357 CGATAACACA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
41 3 0.04
42 24 0.30
43 24 0.30
44 26 0.32
45 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
TCTTACATGAAATCAAATACAATGCCAATGTCCAGACATGG
Found at i:44402290 original size:44 final size:46
Alignment explanation
Indices: 44402227--44402394 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 46
44402217 TATATGTGTT
* * * *
44402227 GATGCATGTCCCAGGCATGTCTTACACTAGCACA-A-CTCT-CAGTC
1 GATGCATGTCCTAGACATGTCTTACACTGGCACACATCTCTAC-GCC
*
44402271 GATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCTACGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCACACATCTCTACGCC
* * ** * *
44402317 AATGCCATGTCCTAGACATGGTCTTACACTGGCACTCAT-AATATGGCT
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCACACATCTCTA-CGCC
* *
44402365 GATGCATGTCCCAGACATGTCTTACGCTGG
1 GATGCATGTCCTAGACATGTCTTACACTGG
44402395 GACATAAGTA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 30 0.29
45 1 0.01
46 20 0.19
47 30 0.29
48 24 0.23
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCACACATCTCTACGCC
Found at i:44403128 original size:12 final size:12
Alignment explanation
Indices: 44403111--44403135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44403101 CAAAAATGTA
44403111 AAAATCATCAAG
1 AAAATCATCAAG
44403123 AAAATCATCAAG
1 AAAATCATCAAG
44403135 A
1 A
44403136 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:44408146 original size:22 final size:22
Alignment explanation
Indices: 44408118--44408163 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
44408108 TTTGAATGAA
44408118 CAAACTCCT-AATACCAAGCATC
1 CAAACT-CTGAATACCAAGCATC
44408140 CAAACTCTGAATACCAAGCATC
1 CAAACTCTGAATACCAAGCATC
44408162 CA
1 CA
44408164 TCATTCGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.41, C:0.35, G:0.07, T:0.17
Consensus pattern (22 bp):
CAAACTCTGAATACCAAGCATC
Found at i:44409937 original size:47 final size:45
Alignment explanation
Indices: 44409735--44410052 Score: 252
Period size: 47 Copynumber: 6.8 Consensus size: 45
44409725 GGATAAGTTA
*
44409735 CCGATGTCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCAAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCATC-AGG
* * * * * *
44409784 TCGATGCCATGTCCCTGACATGGTCTTATACTAGCTCTCAT-ATATACGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCAT-CA-G-G
** * *
44409834 TTGATGCATGTCCCAGACATGTCTTACAATAGCA-CAACTC-TCA-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCATC-A-TCATCAGG
*
44409878 CCGATGCATGTCCTAGACATGTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCATC-AGG
*
44409925 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCTATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCATC-AGG
* * *
44409971 CCAATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATAAT-ATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCATCA-GG
* *
44410019 CCGATGCATGCCCCAGACATGTCTTACAATGGCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA
44410053 CATAAGTAAT
Statistics
Matches: 223, Mismatches: 30, Indels: 35
0.77 0.10 0.12
Matches are distributed among these distances:
44 31 0.14
45 4 0.02
46 26 0.12
47 66 0.30
48 41 0.18
49 49 0.22
50 6 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCAGG
Found at i:44410022 original size:141 final size:140
Alignment explanation
Indices: 44409735--44410051 Score: 345
Period size: 141 Copynumber: 2.2 Consensus size: 140
44409725 GGATAAGTTA
* * *
44409735 CCGATGTCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCAAGGTCGATGCCATGTCCCT
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCAAGGCCGATGCCATGTCCCA
* * *** *
44409800 GACATGGTCTTATACTAGCTCTCATATATACGTGTTGATGCATGTCCCAGACATGTCTTACAATA
64 GACATGGTCTTACACTAGCACTCATATATAC-TGCCAATGCATGTCCCAAACATGTCTTACAATA
* *
44409865 GCACAACTCTCAG
128 GCACAAATATCAG
* *
44409878 CCGATGCATGTCCTAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATG-CATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCAAGGCCGATGCCATGTCCCAGA
* * * * *
44409942 CAT-GTCTTACACTGGCACTCATCTCTA-TGCCAATGCCATGTCCCAAACATGGTCTTACACTGG
66 CATGGTCTTACACTAGCACTCATATATACTGCCAATG-CATGTCCCAAACAT-GTCTTACAATAG
*
44410005 CACTCATAATAT-GG
129 CA--CA-AATATCAG
* *
44410019 CCGATGCATGCCCCAGACATGTCTTACAATGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
44410052 ACATAAGTAA
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
137 5 0.03
138 13 0.09
139 31 0.21
140 13 0.09
141 64 0.44
142 15 0.10
143 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCAAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCACTCATATATACTGCCAATGCATGTCCCAAACATGTCTTACAATAGCA
CAAATATCAG
Found at i:44410034 original size:94 final size:91
Alignment explanation
Indices: 44409735--44410052 Score: 311
Period size: 94 Copynumber: 3.4 Consensus size: 91
44409725 GGATAAGTTA
* * * * *
44409735 CCGATGTCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCAAGGTCGATGCCATGTCCCT
1 CCGATG-CATGTCCCAGACAT-GTCTTACAATGGC-ATCATC-TCTA-GCCGATGCCATGTCCCA
* * *
44409800 GACATGGTCTTATACTAGCTCTCATATATACGTG
61 GACATGGTCTTACACTGGCACTCATA-ATA-G-G
** * * *
44409834 TTGATGCATGTCCCAGACATGTCTTACAATAGCA-CAACTCTCAGCCGATG-CATGTCCTAGACA
1 CCGATGCATGTCCCAGACATGTCTTACAATGGCATCATCTCT-AGCCGATGCCATGTCCCAGACA
*
44409897 T-GTCTTACACTGGCTA-TCATCATCGAGG
65 TGGTCTTACACTGGC-ACTCATAAT--AGG
* * *
44409925 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCCAATGCCATGTCCCAAAC
1 CCGATGCATGTCCCAGACATGTCTTACAATGGCA-TCATCTCTA-GCCGATGCCATGTCCCAGAC
44409990 ATGGTCTTACACTGGCACTCATAATATGG
64 ATGGTCTTACACTGGCACTCATAATA-GG
*
44410019 CCGATGCATGCCCCAGACATGTCTTACAATGGCA
1 CCGATGCATGTCCCAGACATGTCTTACAATGGCA
44410053 CATAAGTAAT
Statistics
Matches: 183, Mismatches: 25, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
91 33 0.18
92 17 0.09
93 26 0.14
94 55 0.30
95 23 0.13
96 1 0.01
97 11 0.06
98 13 0.07
99 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (91 bp):
CCGATGCATGTCCCAGACATGTCTTACAATGGCATCATCTCTAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCACTCATAATAGG
Found at i:44410786 original size:12 final size:12
Alignment explanation
Indices: 44410769--44410793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44410759 TAAAAATGCA
44410769 AAAATCATCAAG
1 AAAATCATCAAG
44410781 AAAATCATCAAG
1 AAAATCATCAAG
44410793 A
1 A
44410794 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:44415014 original size:43 final size:43
Alignment explanation
Indices: 44414930--44415015 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
44414920 TATGTGATTC
* *
44414930 CGATATGTGTTTACGAGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATGTGGTTACGAGTAAGACCCTGTCTAGGACAGTGGCAT
44414973 CGATATGTGGTTAC-ATGTAAGACCAC-GTCTAGGAC-GTTGGCAT
1 CGATATGTGGTTACGA-GTAAGACC-CTGTCTAGGACAG-TGGCAT
44415016 TGTACCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGACCCTGTCTAGGACAGTGGCAT
Found at i:44418999 original size:21 final size:21
Alignment explanation
Indices: 44418975--44419019 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
44418965 ATTCTAGAAC
44418975 CAACTTCTAATAGTAGACCTA
1 CAACTTCTAATAGTAGACCTA
44418996 CAACTTCTAATAGTAGACCTA
1 CAACTTCTAATAGTAGACCTA
44419017 CAA
1 CAA
44419020 ACAATCAGTA
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:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (21 bp):
CAACTTCTAATAGTAGACCTA
Found at i:44424326 original size:23 final size:22
Alignment explanation
Indices: 44424300--44424359 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
44424290 TAGGCATCAC
44424300 AGAATAAGCCACAAAGGCTTTAT
1 AGAA-AAGCCACAAAGGCTTTAT
*
44424323 AGAACACA-CTACAAAGGCTTTAT
1 AGAA-A-AGCCACAAAGGCTTTAT
44424346 AGAAAATGCCACAA
1 AGAAAA-GCCACAA
44424360 TGGATTTAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 28 0.90
24 1 0.03
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (22 bp):
AGAAAAGCCACAAAGGCTTTAT
Found at i:44428627 original size:47 final size:46
Alignment explanation
Indices: 44428550--44428765 Score: 131
Period size: 47 Copynumber: 4.6 Consensus size: 46
44428540 GATTTGTGCC
** *
44428550 AGTGTAAGACATGTCTGGGATGTGCTTCGGC-CATATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCGCATA-TATGAGAGCT
* * * *
44428596 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCCACAGA-GATAG-T
1 AGTGTAAGA-CATGTCTGGGACATGCATCGG-C-GCATATATGAGAGCT
** * * * * *
44428643 CAGTGTAAGATGTGTCTGGGACACGCATCGGC-TA-AAAGTTA-TGCTT
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCGCATATA-TGAGAGC-T
* *
44428689 A-TGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G-GCGCATATATGAGAGCT
*
44428736 AGTATAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
44428766 AGCAATATAT
Statistics
Matches: 130, Mismatches: 23, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
43 2 0.02
44 25 0.19
45 3 0.02
46 12 0.09
47 41 0.32
48 24 0.18
49 15 0.12
50 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCGCATATATGAGAGCT
Found at i:44436115 original size:47 final size:46
Alignment explanation
Indices: 44436003--44436224 Score: 155
Period size: 47 Copynumber: 4.7 Consensus size: 46
44435993 TGATTTGTGC
* * *
44436003 GCCAGTGTAAGACATGTCTGGGACGTGCTTCAGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* *
44436049 GCCAGTGTAAGACAATGTCTGGGACATGCATCGGCCTCGA-TAGTGATA
1 GCCAGTGTAAGAC-ATGTCTGGGACATGCATCGGCCAC-ATTA-TGAGA
* * * * * * *
44436097 GCCAGTGTAAGACGTGTCTGGGACACGCACCGGCTA-A--AAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGA
** * * * * *
44436141 GCTGGTGTAAGACATGTCTGGGACATGCGTCAGCACGCGTATATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGAGA
* *
44436189 GCCAGTATTAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
44436225 AATATATTCC
Statistics
Matches: 131, Mismatches: 34, Indels: 18
0.72 0.19 0.10
Matches are distributed among these distances:
43 1 0.01
44 28 0.21
45 1 0.01
46 13 0.10
47 40 0.31
48 27 0.21
49 15 0.11
50 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:44440936 original size:27 final size:27
Alignment explanation
Indices: 44440898--44441017 Score: 188
Period size: 27 Copynumber: 4.4 Consensus size: 27
44440888 GTTGGGCTAG
*
44440898 AAGGTAAAATGACTATAATACCCTTGT
1 AAGGTAAAATGACTATAATACCCCTGT
44440925 AAGGTAAAATGACTATAATACCCCTGT
1 AAGGTAAAATGACTATAATACCCCTGT
*
44440952 -AGGATCAAATGACTATAATACCCCTGT
1 AAGG-TAAAATGACTATAATACCCCTGT
* *
44440979 AGGGTAAAATGACTGTAATACCCCTGT
1 AAGGTAAAATGACTATAATACCCCTGT
44441006 AAGGTAAAATGA
1 AAGGTAAAATGA
44441018 ATGATTTGCC
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
26 3 0.04
27 80 0.94
28 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGTAAAATGACTATAATACCCCTGT
Found at i:44441429 original size:33 final size:34
Alignment explanation
Indices: 44441376--44441485 Score: 104
Period size: 33 Copynumber: 3.3 Consensus size: 34
44441366 CTGATTGCAT
* *
44441376 ACTG-TACTGATTTTGTAATGGGCTTAGGCCC-C
1 ACTGATACTGATTCTGAAATGGGCTTAGGCCCAC
*
44441408 ACTGATACTG-TTACTGAAATGGGCTCAGGCCCAC
1 ACTGATACTGATT-CTGAAATGGGCTTAGGCCCAC
* * *
44441442 ACTGTTTCTGATTCTGGAATGGGC-TAGGCCCTA-
1 ACTGATACTGATTCTGAAATGGGCTTAGGCCC-AC
*
44441475 ACTGAAACTGA
1 ACTGATACTGA
44441486 AAGGGCTTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
32 6 0.10
33 35 0.56
34 20 0.32
35 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (34 bp):
ACTGATACTGATTCTGAAATGGGCTTAGGCCCAC
Found at i:44447497 original size:43 final size:42
Alignment explanation
Indices: 44447395--44447505 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
44447385 TAAGATTCTG
* *
44447395 TGTAAGACCATATCT-GGATTATGGAATTGATACGAGACTTCG
1 TGTAAGACCATATCTGGGA-TATGGCATTGATACGAGACTTCA
* * * *
44447437 TGAAAGACCACAGCTGGGCTATTGGCATTGATACGAGA-TTACA
1 TGTAAGACCATATCTGGGATA-TGGCATTGATACGAGACTT-CA
44447480 TGTAAGACCATATCTGGGATATGGCA
1 TGTAAGACCATATCTGGGATATGGCA
44447506 GTGGTACAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATACGAGACTTCA
Found at i:44471157 original size:27 final size:26
Alignment explanation
Indices: 44471127--44471192 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
44471117 GTCAAAATTA
*
44471127 ACCTTAGGGGTATAACGGTCATTTTGC
1 ACCTTAGGGGTATAACGGTAATTTT-C
* * *
44471154 ACC-TAGAGGTAAAATGGTAATTTTC
1 ACCTTAGGGGTATAACGGTAATTTTC
*
44471179 ATACTTAGGGGTAT
1 A-CCTTAGGGGTAT
44471193 TTTAATAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
25 2 0.07
26 18 0.60
27 10 0.33
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (26 bp):
ACCTTAGGGGTATAACGGTAATTTTC
Found at i:44475907 original size:15 final size:14
Alignment explanation
Indices: 44475876--44475916 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
44475866 TTACTTTTGT
44475876 AATAAAA-ATT-T-
1 AATAAAATATTATA
44475887 AATAAAATATTTATA
1 AATAAAATA-TTATA
44475902 AATAAAATATTATA
1 AATAAAATATTATA
44475916 A
1 A
44475917 CTTTTGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 1 0.04
13 2 0.08
14 7 0.27
15 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAAATATTATA
Found at i:44551897 original size:17 final size:17
Alignment explanation
Indices: 44551857--44551891 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44551847 ACTAAATTGG
44551857 AAAT-AAAAATTATTAA
1 AAATGAAAAATTATTAA
44551873 AAATGAAAAATTAATTAA
1 AAATGAAAAATT-ATTAA
44551891 A
1 A
44551892 TAGAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 7 0.41
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATGAAAAATTATTAA
Found at i:44562979 original size:19 final size:19
Alignment explanation
Indices: 44562926--44562972 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
44562916 ACACTAAAAA
* *
44562926 AATTAAATTTTTAAAAATT
1 AATTAAAATATTAAAAATT
*
44562945 ATTTAAAATATTAAAAATT
1 AATTAAAATATTAAAAATT
44562964 AATTAAAAT
1 AATTAAAAT
44562973 CATAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAAAATATTAAAAATT
Found at i:44563362 original size:26 final size:26
Alignment explanation
Indices: 44563333--44563386 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
44563323 TTTTATATTT
* * *
44563333 TTTAATTTTTTTATCATTTTTAAAGA
1 TTTAAATTTTTTATAATTTCTAAAGA
*
44563359 TTTAAATTTTTTATAATTTCTAATGA
1 TTTAAATTTTTTATAATTTCTAAAGA
44563385 TT
1 TT
44563387 CTTATAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTAAATTTTTTATAATTTCTAAAGA
Found at i:44565103 original size:16 final size:16
Alignment explanation
Indices: 44565078--44565109 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44565068 TTTTGAAATT
44565078 TTTTAATTTAATTTAA
1 TTTTAATTTAATTTAA
*
44565094 TTTTATTTTAATTTAA
1 TTTTAATTTAATTTAA
44565110 AAGTGTCACT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATTTAATTTAA
Found at i:44568261 original size:46 final size:46
Alignment explanation
Indices: 44568209--44568296 Score: 176
Period size: 46 Copynumber: 1.9 Consensus size: 46
44568199 AAGTGATAGG
44568209 CTTTAATTTGAGCAACTCCCTTTGAACATAGTGTGTGCGTGTATCA
1 CTTTAATTTGAGCAACTCCCTTTGAACATAGTGTGTGCGTGTATCA
44568255 CTTTAATTTGAGCAACTCCCTTTGAACATAGTGTGTGCGTGT
1 CTTTAATTTGAGCAACTCCCTTTGAACATAGTGTGTGCGTGT
44568297 GTGGTGTGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (46 bp):
CTTTAATTTGAGCAACTCCCTTTGAACATAGTGTGTGCGTGTATCA
Found at i:44569439 original size:25 final size:26
Alignment explanation
Indices: 44569390--44569436 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
44569380 TAATATTTTG
44569390 TTTTAAA-TATTTATAATAAATTTAA
1 TTTTAAATTATTTATAATAAATTTAA
44569415 TTTTAAATTA-TTA-AATAAATTT
1 TTTTAAATTATTTATAATAAATTT
44569437 TAAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 10 0.48
26 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTAAATTATTTATAATAAATTTAA
Found at i:44572093 original size:20 final size:20
Alignment explanation
Indices: 44572068--44572105 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44572058 GTCACATATA
44572068 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
44572088 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
44572106 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:44578648 original size:27 final size:21
Alignment explanation
Indices: 44578590--44578632 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44578580 TTAATTAAAG
44578590 TTAAATTAATTAGGTTTTAAT
1 TTAAATTAATTAGGTTTTAAT
44578611 TTAAATTAATTAGGTTTTAAT
1 TTAAATTAATTAGGTTTTAAT
44578632 T
1 T
44578633 ATAATTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
TTAAATTAATTAGGTTTTAAT
Found at i:44602858 original size:216 final size:215
Alignment explanation
Indices: 44602484--44602910 Score: 800
Period size: 216 Copynumber: 2.0 Consensus size: 215
44602474 AACCTGTCAG
44602484 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
1 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
* *
44602549 GGCTAAAGTAATAAAATCGAGTGTTCCTAATATCTTAGTTCCCCGGCAACGGCGCCAAAAACTTG
66 GGCTAAAGCAATAAAATCGAGTGTTCCTAATATCTTAATTCCCCGGCAACGGCGCCAAAAACTTG
*
44602614 ATACGCGTGATATTCGTGACAGGTTTTAAATATTTATAACGAATCATTCTTGAAACTAACTATTA
131 ATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAACGAATCATTCTTGAAACTAACTATTA
44602679 TCACAATGAAGGCAAGCAGA
196 TCACAATGAAGGCAAGCAGA
44602699 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
1 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
44602764 GGCTAAAGCAATAAAAATCGAGTGTTCCTAATATCTTAATTCCCCGGCAACGGCGCCAAAAACTT
66 GGCTAAAGCAAT-AAAATCGAGTGTTCCTAATATCTTAATTCCCCGGCAACGGCGCCAAAAACTT
*
44602829 GATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATT
130 GATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAACGAATCATTCTTGAAACTAACTATT
*
44602894 ATCACGATGAAGGCAAG
195 ATCACAATGAAGGCAAG
44602911 TGTACCTATC
Statistics
Matches: 206, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
215 76 0.37
216 130 0.63
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (215 bp):
AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
GGCTAAAGCAATAAAATCGAGTGTTCCTAATATCTTAATTCCCCGGCAACGGCGCCAAAAACTTG
ATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAACGAATCATTCTTGAAACTAACTATTA
TCACAATGAAGGCAAGCAGA
Found at i:44606383 original size:49 final size:49
Alignment explanation
Indices: 44606315--44606542 Score: 185
Period size: 49 Copynumber: 4.7 Consensus size: 49
44606305 CATTAAAGTC
* *
44606315 GATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCT
1 GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATATTGAGGCT
* * * * * *
44606364 GATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTG-GTG-T
1 GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATATTGAG-GCT
* * * * *
44606412 CGATGCCATGCCCCAGACAAGTCTTGCACA-GACTTTCATATATTGAGGCC
1 -GATGCCGTGTCCCAGACAGGTCTTACA-ATGACTTTCATATATTGAGGCT
* * * * * ** *
44606462 GATGCCGTGTCCCAGACAGGTCTTGCACTGGCTCTCATTTATCAATG-T
1 GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATATTGAGGCT
* *
44606510 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 -GATGCCGTGTCCCAGACAGGTCTTACAATGAC
44606543 ACACAACAAG
Statistics
Matches: 139, Mismatches: 33, Indels: 14
0.75 0.18 0.08
Matches are distributed among these distances:
48 2 0.01
49 136 0.98
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATATTGAGGCT
Found at i:44606427 original size:98 final size:98
Alignment explanation
Indices: 44606268--44606542 Score: 344
Period size: 98 Copynumber: 2.8 Consensus size: 98
44606258 TAAGATGCCA
* * *
44606268 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACA-TTA--AA-GTCGATGCCATGTCCCA
1 ATGCCGTGTCCCAAACA-GGTCTTACACTGGCT--CTCATTTATCAATGTCGATGCCATGTCCCA
*
44606329 GACAGGTCTTACAATGACTTTCATATATCGAGGCTG
63 GACAGGTCTTACAATGACTTTCATATATCGAGGCCG
* *** *
44606365 ATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTGGTGTCGATGCCATGCCCCAGAC
1 ATGCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATCAATGTCGATGCCATGTCCCAGAC
* * *
44606430 AAGTCTTGCACA-GACTTTCATATATTGAGGCCG
66 AGGTCTTACA-ATGACTTTCATATATCGAGGCCG
* *
44606463 ATGCCGTGTCCCAGACAGGTCTTGCACTGGCTCTCATTTATCAATGTCGATGCCATGTCCCAGAC
1 ATGCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATCAATGTCGATGCCATGTCCCAGAC
*
44606528 AGGTCTTACACTGAC
66 AGGTCTTACAATGAC
44606543 ACACAACAAG
Statistics
Matches: 151, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
94 3 0.02
95 3 0.02
96 15 0.10
97 14 0.09
98 115 0.76
99 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (98 bp):
ATGCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATCAATGTCGATGCCATGTCCCAGAC
AGGTCTTACAATGACTTTCATATATCGAGGCCG
Found at i:44606652 original size:46 final size:46
Alignment explanation
Indices: 44606586--44606708 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
44606576 TCTTGAGGCT
* * *
44606586 GATGCATGTCCTA-AACATGTCTTACACTAGCTGTCGT-CTCAAAACC
1 GATGCATGTCCCAGAA-ATGTCTTACACTAGCTCTCGTAAT-AAAACC
****
44606632 GATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTAATGTGGCC
1 GATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTAATAAAACC
* *
44606678 GAAGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGAAATGTCTTACACTAGC
44606709 ACACATATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 63 0.95
47 3 0.05
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTAATAAAACC
Found at i:44614313 original size:49 final size:50
Alignment explanation
Indices: 44614198--44614472 Score: 251
Period size: 49 Copynumber: 5.6 Consensus size: 50
44614188 TAAGATGCCA
* ** * **
44614198 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACAT-T--AAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGAGTGTCG
* *
44614246 ATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAG-G-CTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTGTC-G
* * * * * *
44614295 ATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTG-GTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTGTCG
* * * * * * *
44614344 ATGCCATGCCCCAGACAAGTCTTGCACAGACTTTCATATATTGAG-GCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTGTCG
* * * *
44614393 ATGCCGTGTCCCAGACAGGTCTTGCACTGGCTCTCATTTATC-AGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTGTCG
44614442 ATGCCATGTCCCAGACAGGTCTTACACTGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC
44614473 ACACAACAAG
Statistics
Matches: 182, Mismatches: 37, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
47 17 0.09
48 22 0.12
49 140 0.77
50 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTGTCG
Found at i:44614357 original size:98 final size:98
Alignment explanation
Indices: 44614242--44614472 Score: 347
Period size: 98 Copynumber: 2.4 Consensus size: 98
44614232 GCACATTAAA
* *
44614242 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCTGATGTCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCCGATGCCGTGTCCC
**
44614307 AAACAGGTCTTACACTGGCTCTCATTTATTGGT
66 AAACAGGTCTTACACTGGCTCTCATTTATCAGT
* * * *
44614340 GTCGATGCCATGCCCCAGACAAGTCTTGCACA-GACTTTCATATATTGAGGCCGATGCCGTGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACA-ATGACTTTCATATATCGAGGCCGATGCCGTGTCC
* *
44614404 CAGACAGGTCTTGCACTGGCTCTCATTTATCAGT
65 CAAACAGGTCTTACACTGGCTCTCATTTATCAGT
*
44614438 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGAC
44614473 ACACAACAAG
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
98 116 0.99
99 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCCGATGCCGTGTCCC
AAACAGGTCTTACACTGGCTCTCATTTATCAGT
Found at i:44614585 original size:46 final size:46
Alignment explanation
Indices: 44614532--44614642 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 46
44614522 TGTCCTGGAC
*
44614532 ATGTCTTACACTAGCTCTCGTCTCAAAGCCGATGCATGTCCCAGAA
1 ATGTCTTACACTAGCTCTCGCCTCAAAGCCGATGCATGTCCCAGAA
** * *
44614578 ATGTCTTACACTAGCTCTCGCCTCAAAGTTGATGCATGTCTCAGAC
1 ATGTCTTACACTAGCTCTCGCCTCAAAGCCGATGCATGTCCCAGAA
*
44614624 ATGTCTTACACTGGCTCTC
1 ATGTCTTACACTAGCTCTC
44614643 ATAATGTCGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (46 bp):
ATGTCTTACACTAGCTCTCGCCTCAAAGCCGATGCATGTCCCAGAA
Found at i:44615035 original size:21 final size:22
Alignment explanation
Indices: 44615009--44615049 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44614999 TATTAGATAC
44615009 AGGGGC-ACATGCCAGTGTGGG
1 AGGGGCAACATGCCAGTGTGGG
*
44615030 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACATGCCAGTGTG
44615050 ACCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.22, G:0.44, T:0.15
Consensus pattern (22 bp):
AGGGGCAACATGCCAGTGTGGG
Found at i:44616360 original size:46 final size:47
Alignment explanation
Indices: 44616140--44616361 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 47
44616130 GGGGTAAGAT
* *
44616140 GCCGATGCCATGTCCCAGACGTGGTCTTACACTAG--CTC--AACTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAA-TCGTG
* * * * *
44616186 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTAATCGTG
* * * * * *
44616232 GCTGATGCATGTCTCAGACATGTCTTACACTAACTCTTGT-CTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATC-GTG
44616278 GCCGA-GACCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAAT-GTG
1 GCCGATG--CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATCGTG
*
44616326 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
44616362 ACAATAGTCC
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 64 0.45
47 28 0.20
48 22 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATCGTG
Found at i:44619956 original size:44 final size:45
Alignment explanation
Indices: 44619879--44620127 Score: 218
Period size: 45 Copynumber: 5.4 Consensus size: 45
44619869 GGATGTTACA
* *
44619879 TTGCAGTAGAGCAGA-TGAAGATAGTAAATCTTATCTCTCTGAAG
1 TTGCAGTAGAGCAGATTAAAGATAGTAAATCTTATCTCCCTGAAG
* * *
44619923 TTGCAGTAGAGCAGATTAAAGCTA-TAAACCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGATTAAAGATAGTAAATCTTATCTCCCTGAAG
* * * * * *
44619967 TTGCATTAGAGTAGATCAAAGATAGCAAATCTTATCTCTCTAAAG
1 TTGCAGTAGAGCAGATTAAAGATAGTAAATCTTATCTCCCTGAAG
* * * *
44620012 TTGTAGT-GAAGCAGATTGAAA-ATTGAAAATCTTATTTCCCTGAAG
1 TTGCAGTAG-AGCAGATT-AAAGATAGTAAATCTTATCTCCCTGAAG
* * * *
44620057 TTGCAGTGGAACAGATTAAAGCTACAAATTGTAAATTTTATCTCCCTGAAG
1 TTGCAGTAGAGCAGATTAAAG------ATAGTAAATCTTATCTCCCTGAAG
*
44620108 TTGCAGTGGAGCAGATTAAA
1 TTGCAGTAGAGCAGATTAAA
44620128 ATGATAAGTC
Statistics
Matches: 164, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
44 56 0.34
45 64 0.39
46 4 0.02
51 40 0.24
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (45 bp):
TTGCAGTAGAGCAGATTAAAGATAGTAAATCTTATCTCCCTGAAG
Found at i:44620085 original size:89 final size:89
Alignment explanation
Indices: 44619879--44620085 Score: 233
Period size: 89 Copynumber: 2.3 Consensus size: 89
44619869 GGATGTTACA
* * * *
44619879 TTGCAGTAGAGCAGAT-GAAGATAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
1 TTGCAGTAGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
*
44619943 GCTATAAACCTTATTTCCCTGAAG
66 ACTATAAACCTTATTTCCCTGAAG
* ** *
44619967 TTGCATTAGAGTAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGT-GAAGCAGATTGA
1 TTGCAGTAGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAG-AGCAGATT-A
* *
44620031 AAATTGA-AAATCTTATTTCCCTGAAG
64 AAACT-ATAAACCTTATTTCCCTGAAG
* * *
44620057 TTGCAGTGGAACAGATTAAAGCTA-CAAAT
1 TTGCAGTAGAACAGATCAAAGATAGCAAAT
44620086 TGTAAATTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 15 0.15
89 44 0.44
90 40 0.40
91 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (89 bp):
TTGCAGTAGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
ACTATAAACCTTATTTCCCTGAAG
Found at i:44620107 original size:51 final size:51
Alignment explanation
Indices: 44620031--44620127 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
44620021 AGCAGATTGA
*
44620031 AAATTGAAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
1 AAATTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * *
44620082 AAATTGTAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AAATTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAA
44620128 ATGATAAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (51 bp):
AAATTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
Found at i:44621873 original size:27 final size:28
Alignment explanation
Indices: 44621839--44622054 Score: 96
Period size: 27 Copynumber: 7.7 Consensus size: 28
44621829 TAATCAAATG
44621839 TTTCCTTTATTACTTA-TTTACTTAATA
1 TTTCCTTTATTACTTATTTTACTTAATA
* *
44621866 TTTCCTTTATT--TTAGTTTTACAATTGGATT
1 TTTCCTTTATTACTTA-TTTTAC--TT-AATA
** *
44621896 TTTTATTTATTACTTATTTTA-TTATTTA
1 TTTCCTTTATTACTTATTTTACTTA-ATA
* * * * * *
44621924 TTT-ATTTAGTTTC-AATTTTAATCAAATG
1 TTTCCTTTA-TTACTTATTTTACT-TAATA
44621952 TTTCCTTTATTACTTA-TTTACTTAATA
1 TTTCCTTTATTACTTATTTTACTTAATA
* * *
44621979 CTTCCTTTATT--TTATTTTTACAATTGGATTT
1 TTTCCTTTATTACTTA-TTTTAC--TT--AATA
**
44622010 TTTTATTTATTACTTA-TTTACTTAATA
1 TTTCCTTTATTACTTATTTTACTTAATA
44622037 TTTCCTTTATT--TTATTTT
1 TTTCCTTTATTACTTATTTT
44622055 TACAATTGGA
Statistics
Matches: 139, Mismatches: 28, Indels: 45
0.66 0.13 0.21
Matches are distributed among these distances:
25 9 0.06
26 3 0.02
27 56 0.40
28 22 0.16
29 12 0.09
30 11 0.08
31 20 0.14
32 3 0.02
33 3 0.02
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTCCTTTATTACTTATTTTACTTAATA
Found at i:44621925 original size:113 final size:114
Alignment explanation
Indices: 44621796--44622028 Score: 432
Period size: 113 Copynumber: 2.1 Consensus size: 114
44621786 CTGTCATTTG
*
44621796 TTATTTTATTTTTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
1 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
*
44621861 TAATATTTCCTTTATTTTAGTTTTACAATTGGA-TTTTTTATTTATTAC
66 TAATACTTCCTTTATTTTAGTTTTACAATTGGATTTTTTTATTTATTAC
44621909 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
1 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
*
44621974 TAATACTTCCTTTATTTTATTTTTACAATTGGATTTTTTTATTTATTAC
66 TAATACTTCCTTTATTTTAGTTTTACAATTGGATTTTTTTATTTATTAC
44622023 TTATTT
1 TTATTT
44622029 ACTTAATATT
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
113 95 0.82
114 21 0.18
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (114 bp):
TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
TAATACTTCCTTTATTTTAGTTTTACAATTGGATTTTTTTATTTATTAC
Found at i:44622020 original size:31 final size:31
Alignment explanation
Indices: 44621984--44622073 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
44621974 TAATACTTCC
44621984 TTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTTTATTTTTACAATTGGATTTTTTTA
* * **
44622015 TTTA--TTACTTATTTAC--TT--AATATTTCC
1 TTTATTTTA-TT-TTTACAATTGGATTTTTTTA
44622042 TTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTTTATTTTTACAATTGGATTTTTTTA
44622073 T
1 T
44622074 ATTTTCTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
27 14 0.33
28 2 0.05
29 10 0.23
30 2 0.05
31 15 0.35
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (31 bp):
TTTATTTTATTTTTACAATTGGATTTTTTTA
Found at i:44622026 original size:58 final size:58
Alignment explanation
Indices: 44621844--44622073 Score: 283
Period size: 58 Copynumber: 4.0 Consensus size: 58
44621834 AAATGTTTCC
*
44621844 TTTATTACTTATTTACTTAATATTTCCTTTATTTTAGTTTTACAATTGGA-TTTTTTA
1 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
* * * * ** * * **
44621901 TTTATTACTTATTTTA-TTATTTATTT-ATTTAGTTTCAATTTT--AA-TCAAATGTTTCC
1 TTTATTACTTA-TTTACTTA-ATATTTCCTTTA-TTTTATTTTTACAATTGGATTTTTTTA
*
44621957 TTTATTACTTATTTACTTAATACTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
44622015 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
44622073 T
1 T
44622074 ATTTTCTTTT
Statistics
Matches: 143, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
55 18 0.13
56 24 0.17
57 20 0.14
58 81 0.57
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (58 bp):
TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
Found at i:44622072 original size:27 final size:27
Alignment explanation
Indices: 44621984--44622073 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 27
44621974 TAATACTTCC
44621984 TTTATTTTATTTTTACAATTGGATTTT
1 TTTATTTTATTTTTACAATTGGATTTT
*
44622011 TTTATTTATTACTTATTTACTTAA-T--ATTTCC
1 TTTA-TT-TTA-TT-TTTAC--AATTGGATTT-T
44622042 TTTATTTTATTTTTACAATTGGATTTT
1 TTTATTTTATTTTTACAATTGGATTTT
44622069 TTTAT
1 TTTAT
44622074 ATTTTCTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 14 0.27
28 8 0.16
29 6 0.12
30 8 0.16
31 9 0.18
32 1 0.02
33 2 0.04
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTTTACAATTGGATTTT
Found at i:44622101 original size:4 final size:4
Alignment explanation
Indices: 44622092--44622118 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
44622082 TTATTGTGCC
44622092 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
44622119 CTACTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:44622172 original size:18 final size:18
Alignment explanation
Indices: 44622149--44622197 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
44622139 AATTTAGATT
44622149 TTATTATTTTTTTTATCA
1 TTATTATTTTTTTTATCA
* *
44622167 TTATTATTTTTTTTGTTA
1 TTATTATTTTTTTTATCA
*
44622185 TTATCATTTTTTT
1 TTATTATTTTTTT
44622198 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTATTTTTTTTATCA
Found at i:44622179 original size:21 final size:21
Alignment explanation
Indices: 44622149--44622207 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
44622139 AATTTAGATT
* *
44622149 TTATTATTTTTTTTATCATTA
1 TTATTTTTTTTTTTATCATCA
* *
44622170 TTATTTTTTTTGTTATTATCA
1 TTATTTTTTTTTTTATCATCA
*
44622191 TTTTTTTATTTTTTTAT
1 TTATTTT-TTTTTTTAT
44622208 TTACGCATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (21 bp):
TTATTTTTTTTTTTATCATCA
Found at i:44624206 original size:27 final size:28
Alignment explanation
Indices: 44624140--44624207 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
44624130 TAAAAATTCC
* *
44624140 ATATTTATTTTTTATTTATATAATATAAA
1 ATATATATTATTTATTTATAT-ATATAAA
* *
44624169 A-ATAATTTTATTTATTTATAT-TTTAAA
1 ATAT-ATATTATTTATTTATATATATAAA
44624196 ATATATATTATT
1 ATATATATTATT
44624208 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 13 0.41
28 4 0.12
29 15 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATATATTATTTATTTATATATATAAA
Found at i:44635058 original size:44 final size:45
Alignment explanation
Indices: 44634956--44635406 Score: 182
Period size: 44 Copynumber: 10.2 Consensus size: 45
44634946 GTGAATTCAC
* * * * * *
44634956 CAGACCTTAACCCCCTAAGCAGTAGGGTAATAG-GTTGAA-TTCG-
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGAT-GA
*
44634999 CAGATCTTAACCCCCCTAAGCAGTAGGGAAACAGATC-AAAGATGA
1 CAGATCTTAA-CCCCCTAAGCAGTAGGGAAACAGAGCTAAAGATGA
* * * * *
44635044 CA-AGCATTAACCCCCTAAACAGTAGGGTAACAG-GCTGAAGATTTA
1 CAGATC-TTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGA-TGA
* * * *
44635089 CAGATCTTATCCCCCTAAGCAGTAGGGTAACA-AGCTAAAGTTCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGATGA
* * * * *
44635133 TAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAAGATG-
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGATGA
** * * ** * * * * * **
44635177 GTGAATCTT-GCCTTCCTGAAGTTGCAGTGAAGCAGA-TTCAA-ACCA
1 CAG-ATCTTAACC-CCCT-AAGCAGTAGGGAAACAGAGCTAAAGATGA
* * * * * *
44635222 CCA-AGCCTTAATCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATCTA
1 -CAGA-TCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGAT-GA
* *
44635268 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGATGA
* * * * * *
44635312 -TGATCTTATCACCCTAAGCAGTAGGGAAACGGA-TTAAAGAAGA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGATGA
** ** * * *
44635355 TGGGCCTTAACCCCCTAAGCAGTAGGGTAATAG-GCTGAAA-ATCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCT-AAAGATGA
44635399 CAGATCTT
1 CAGATCTT
44635407 GCCTCCCTGA
Statistics
Matches: 298, Mismatches: 84, Indels: 51
0.69 0.19 0.12
Matches are distributed among these distances:
43 45 0.15
44 133 0.45
45 101 0.34
46 19 0.06
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (45 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAGCTAAAGATGA
Found at i:44637424 original size:15 final size:15
Alignment explanation
Indices: 44637386--44637427 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
44637376 TAATACCATA
*
44637386 TATATTATTATCATT
1 TATATTATTATTATT
**
44637401 TATGCTATTATTATT
1 TATATTATTATTATT
44637416 TATATTATTATT
1 TATATTATTATT
44637428 TTTGTTATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TATATTATTATTATT
Found at i:44639321 original size:15 final size:14
Alignment explanation
Indices: 44639303--44639350 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
44639293 TGTGATTATG
44639303 GTTTGATTAATTAAA
1 GTTTGATTAATT-AA
*
44639318 GTTTAATTAAATTAA
1 GTTTGATT-AATTAA
*
44639333 TTTTGATTAATTAA
1 GTTTGATTAATTAA
44639347 GTTT
1 GTTT
44639351 ATACAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 15 0.54
16 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
GTTTGATTAATTAA
Found at i:44640089 original size:16 final size:16
Alignment explanation
Indices: 44640065--44640095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44640055 TATGGTATGA
*
44640065 ATGTGTTTAAATTTTT
1 ATGTATTTAAATTTTT
44640081 ATGTATTTAAATTTT
1 ATGTATTTAAATTTT
44640096 GTATATATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
ATGTATTTAAATTTTT
Found at i:44643313 original size:106 final size:106
Alignment explanation
Indices: 44643115--44643327 Score: 288
Period size: 106 Copynumber: 2.0 Consensus size: 106
44643105 CAATATTGCT
* *
44643115 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTTGAGTTAATCGAGAAGAAAATCATGTCT
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTTGAGCTAATCGAGAAGAAAATCATGTCT
*
44643180 CGTAAGTTTGGACACAATGTTTAGAATTC-CTAAAAATAAGA
66 CGTAAGTTAGGACACAATGTTTAGAATTCTC-AAAAATAAGA
* * * *
44643221 AATTAAATCAAATTTTATGAAGAATATCTTCGTATTTTGAGCTATTCGGGAAGAAAATCATGTC-
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTTGAGCTAATCGAGAAGAAAATCATGTCT
* * *
44643285 CTGTAAGTTAGGGCACGATGTCTT-GAATTCTCGAAAATAAGA
66 C-GTAAGTTAGGACACAATGT-TTAGAATTCTCAAAAATAAGA
44643327 A
1 A
44643328 TGCTCATTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
105 1 0.01
106 90 0.96
107 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTTGAGCTAATCGAGAAGAAAATCATGTCT
CGTAAGTTAGGACACAATGTTTAGAATTCTCAAAAATAAGA
Found at i:44644886 original size:24 final size:24
Alignment explanation
Indices: 44644841--44644886 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
44644831 CTTTGTGGTA
* *
44644841 TTTTTATTTCGATTCTTCTGATTT
1 TTTTTATTTCAATTATTCTGATTT
44644865 TTTTTATTTCAATGTATT-TGAT
1 TTTTTATTTCAAT-TATTCTGAT
44644887 CCCCCTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.65
Consensus pattern (24 bp):
TTTTTATTTCAATTATTCTGATTT
Found at i:44645796 original size:6 final size:6
Alignment explanation
Indices: 44645785--44645811 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44645775 AGACATGTGA
44645785 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
44645812 GTATAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:44646580 original size:5 final size:5
Alignment explanation
Indices: 44646570--44646594 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44646560 TTCATGAAAT
44646570 GGCTC GGCTC GGCTC GGCTC GGCTC
1 GGCTC GGCTC GGCTC GGCTC GGCTC
44646595 AAGTGTTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.40, T:0.20
Consensus pattern (5 bp):
GGCTC
Found at i:44650088 original size:14 final size:14
Alignment explanation
Indices: 44650057--44650097 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
44650047 AAATGTACAG
44650057 TATAATTAAA-TAA
1 TATAATTAAATTAA
44650070 TATAAATTAAATTAA
1 TAT-AATTAAATTAA
*
44650085 -ATAATTTAATTAA
1 TATAATTAAATTAA
44650098 CTATTTACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 13 0.52
14 9 0.36
15 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATAATTAAATTAA
Found at i:44651020 original size:18 final size:18
Alignment explanation
Indices: 44650978--44651022 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
44650968 GAAAAATGAG
44650978 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
44650995 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
44651012 AATTTTTGAAA
1 AATTTTTGAAA
44651023 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:44651641 original size:15 final size:17
Alignment explanation
Indices: 44651621--44651652 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44651611 TTAGGAAACG
44651621 TACATAA-A-AAATATA
1 TACATAATATAAATATA
44651636 TACATAATATAAATATA
1 TACATAATATAAATATA
44651653 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:44652194 original size:11 final size:11
Alignment explanation
Indices: 44652160--44652201 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
44652150 AAATCATTTT
44652160 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
44652171 GAA-AAAAAAA
1 GAAGAGAGAAA
*
44652181 GAAGGGAGAAA
1 GAAGAGAGAAA
44652192 GAAGAGAGAA
1 GAAGAGAGAA
44652202 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:44653556 original size:77 final size:78
Alignment explanation
Indices: 44653427--44654689 Score: 340
Period size: 74 Copynumber: 15.9 Consensus size: 78
44653417 AAAATTGAAA
* * **
44653427 AACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAA-TT
1 AACAGAAATTGAAAATACCTCAGCATGT-ACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTT
*
44653491 GATTTTTTTTTTGAC
64 GAATTTTTTTTTGAC
* * *
44653506 AACAGAAATTGAAATTCCCTCAGCATGT-CCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA
1 AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATAGAAGTTGA
*
44653570 A-TTTTTTTTGAAA
66 ATTTTTTTTTG-AC
* * * * ** * * * * * * * *
44653583 AATATAAATTTAAAAGCAGAAAT-TGAAAT-TAACTCAACGTGCCTTGAGGCTCAACT-TAC-CT
1 AACAGAAA-TTGAAA--ATACCTCAG-CATGTACCT-GA-G-G-C-TCA-ACTCACCTCT-CGCA
* * * * * *
44653644 CTCGCAGTATGAGTTGATTTTTTGAA
55 ATAGAAGT-TGAATT-TTTTTTTGAC
* * **
44653670 AGACAAAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATG-AGTT
1 A-ACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTT
44653733 G-A--TTTTTTTGAC
64 GAATTTTTTTTTGAC
* * * * *
44653745 AATAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCGCCTTTCGCAATATG-AGTTG
1 AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTTG
*
44653808 AA--TTTTTTTGAAA
65 AATTTTTTTTTG-AC
* * ** ** * *
44653821 AATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCG
1 AACAGAAATT-----G-A-AAA-T--ACCT-CAGCA-TGTACC-TGAGGCTCAACTCACCTCTCG
* * *
44653886 CTATATAAGTTG-A---TTTTTTGAA
53 CAATAGAAGTTGAATTTTTTTTTGAC
* * **
44653908 AGACAAAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATG-AGTT
1 A-ACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTT
44653971 G-A--TTTTTTTGAC
64 GAATTTTTTTTTGAC
* * *
44653983 AACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCACAATATG-AGTTG
1 AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTTG
*
44654046 AA--TTTTTTTGAAA
65 AATTTTTTTTTG-AC
* * ** ** * *
44654059 AATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCG
1 AACAGAAATT-----G-A-AAA-T--ACCT-CAGC-ATGTACC-TGAGGCTCAACTCACCTCTCG
44654124 CAATATG-AGTTG-A----TTTTTGAC
53 CAATA-GAAGTTGAATTTTTTTTTGAC
* * ** *
44654145 AAACAAAAATT-AAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCATTTCTCGTAATATG-AGT
1 -AACAGAAATTGAAAA-TACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGT
***** *
44654207 TG-ATTTTTGAAAAAT
63 TGAATTTTTTTTTGAC
** ** * ** * * *
44654222 AGATTGAAATACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
1 A-ACAGAAAT-TGAAAA-T-AC-CT-CAGCA-TGT-ACCTGAGGCTCAACTCACCTCTCGCAATA
*
44654287 TG-AGTT-AA----TTTTTGAAA
58 -GAAGTTGAATTTTTTTTTG-AC
* *
44654304 AACAGGAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG-AGTTG
1 AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTTG
** ** *
44654367 -ATTTTTGAAAAACATAAATTG
65 AATTTTT------TTTTGA--C
* * * * * ** *
44654388 AACAAAAATTGAAACTACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTTGCAATATG-AGTTG
1 AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTTG
* *
44654451 ATTTTTTTTTTGAA
65 AATTTTTTTTTGAC
* * * **
44654465 AGACAAAAATTTAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATG-AGTT
1 A-ACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTT
*
44654528 G-A--TTTTTTTGAA
64 GAATTTTTTTTTGAC
* * **
44654540 AGACAAAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATG-AGTT
1 A-ACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTT
*
44654603 GATTTTTTTTTTGAC
64 GAATTTTTTTTTGAC
* *
44654618 AACAAAAATTGAAATTACCTCAGCATGT-CCTGAGGCTCAACTCACCTCTCGCAATATG-AGTTG
1 AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATA-GAAGTTG
44654681 AATTTTTTT
65 AATTTTTTT
44654690 GAAAAATATA
Statistics
Matches: 905, Mismatches: 186, Indels: 188
0.71 0.15 0.15
Matches are distributed among these distances:
73 65 0.07
74 139 0.15
75 114 0.13
76 37 0.04
77 118 0.13
78 76 0.08
79 48 0.05
80 21 0.02
81 15 0.02
82 10 0.01
83 10 0.01
84 59 0.07
85 50 0.06
86 17 0.02
87 30 0.03
88 30 0.03
89 6 0.01
90 60 0.07
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCAGCATGTACCTGAGGCTCAACTCACCTCTCGCAATAGAAGTTGA
ATTTTTTTTTGAC
Found at i:44653869 original size:164 final size:163
Alignment explanation
Indices: 44653676--44654693 Score: 484
Period size: 164 Copynumber: 6.4 Consensus size: 163
44653666 TGAAAGACAA
* ** *
44653676 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTT
* * * * * *
44653741 TGACA-ATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTT-TCGCAATATGA
65 TGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTC-ACTTCTCGCAATATGA
44653804 GTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAG
129 GTTG-ATTTTTTTGAAAAATATAAATTGAAAAGCAG
* * *
44653840 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCTATATAAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
* *
44653905 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
66 GAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGT
*
44653970 TGA----TTT------T-T---TTGACAA-CAG
131 TGATTTTTTTGAAAAATATAAATTGAAAAGCAG
* * * *
44653988 AAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCACAATATGAGTTGAATTTT
1 AAATTGAAAATACCTCAGCATG-CCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTG-A-TTT
* * * *
44654052 TTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTC
63 TTTG--------AAA--G---A-CAAAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTC
* * * *
44654116 ACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATT-------A-
113 ACTTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAG
* ** * *
44654157 AAA-T-----TACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCATG-CCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTT
* * * * * *
44654215 GAAAAATAGATTGAAATACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
63 ------T---TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACTTCT
*
44654280 CGCAATATGAGTT-A-ATTTTTG----------A---AAAA-CAG
119 CGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAGCAG
* * *
44654309 GAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAATTGAAAATACCTCAGCATG-CCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
* * * * *
44654372 TGAAAAACATAAATTGAACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
65 TG--------AAA--G-ACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACTTCT
* *
44654437 TGCAATATGAGTTGA-TTTTTT------T-T---TTG-AAAGACAA
119 CGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAG-CAG
* * ** *
44654471 AAATTTAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTT
* *
44654536 TGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACTTCTCGCAATATGAG
* *
44654601 TTGA-TTTTTT------T-T---TTGACAA-CAA
130 TTGATTTTTTTGAAAAATATAAATTGAAAAGCAG
* *
44654623 AAATTGAAATTACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAATTGAAAATACCTCAGCATG-CCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTG-A-TTT
44654687 TTTGAAA
63 TTTGAAA
44654694 AATATAAATT
Statistics
Matches: 703, Mismatches: 70, Indels: 173
0.74 0.07 0.18
Matches are distributed among these distances:
146 3 0.00
148 56 0.08
149 10 0.01
150 7 0.01
151 1 0.00
152 57 0.08
153 85 0.12
154 6 0.01
155 2 0.00
156 3 0.00
157 53 0.08
158 113 0.16
159 6 0.01
160 4 0.01
161 1 0.00
162 54 0.08
163 62 0.09
164 166 0.24
166 3 0.00
168 1 0.00
169 4 0.01
170 1 0.00
172 3 0.00
176 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (163 bp):
AAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTT
GAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGT
TGATTTTTTTGAAAAATATAAATTGAAAAGCAG
Found at i:44653899 original size:238 final size:239
Alignment explanation
Indices: 44653421--44654691 Score: 1409
Period size: 238 Copynumber: 5.3 Consensus size: 239
44653411 AAGGCAAAAA
* * * * * * *
44653421 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATAC
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCATTTCTCGCAATAT
* * *
44653486 GAATTGATTTTTTTTTTGACAACAGAAATTGAAATTCCCTCAGCATGTCCTGAGGCTCAACTCAC
64 GAGTTGA--TTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
* * *
44653551 CTCTCGCAATATAAGTTGAATTTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAAC
127 CTCTCGCAATATGAGTTGAA-TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACC
* * *
44653616 TCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTT
191 TCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
44653665 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
* * *
44653730 GTTGA-TTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTTT
66 GTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
44653794 CGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGC
131 CGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGC
* *
44653859 GTGCCTTGAGGCTCAACTCACCTCTCGCTATATAAGTTGATTTT
196 GTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
44653903 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
44653968 GTTGA-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 GTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* *
44654032 CACAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAAC
131 CGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGC
44654097 GTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
196 GTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
44654140 TTGACAA-ACAAAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATAT
1 TTGA-AAGACAAAAATTGAAAA-TACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATAT
* * * *
44654203 GAGTTGATTTTTGAAAAATAGATTGAAATACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGC
64 GAGTTGATTTTT------T---TTGACA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGC
*
44654267 TCAACTCACCTCTCGCAATATGAGTT-AA--TTTTTG----------A---AAAA-CAGGAATTG
118 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTG
*
44654315 AAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
183 AAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
44654371 TTGAAAAACATAAATTGAACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG--------AAA--G-ACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTC
* * * * * * *
44654436 TTGCAATATGAGTTGATTTTTTTTTTGAAAGACAAAAATTTAAAATACCTCAGCATGTCTTGAGG
55 TCGCAATATGAGTTGA--TTTTTTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG
** *
44654501 CTCAACTCATTTCTCGCAATATGAGTTG-ATTTTTTTG--------AAA--G---A-CAAAAATT
117 CTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATT
* * * **
44654551 GAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT
182 GAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTT
* * **
44654613 TTGACA-ACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
*
44654677 GTTGAATTTTTTTGA
66 GTTGATTTTTTTTGA
44654692 AAAATATAAA
Statistics
Matches: 916, Mismatches: 68, Indels: 102
0.84 0.06 0.09
Matches are distributed among these distances:
228 9 0.01
230 56 0.06
231 62 0.07
232 6 0.01
234 4 0.00
235 59 0.06
236 5 0.01
237 123 0.13
238 322 0.35
239 71 0.08
242 91 0.10
243 3 0.00
244 36 0.04
245 6 0.01
247 7 0.01
248 54 0.06
249 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (239 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGC
GTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:44654164 original size:73 final size:73
Alignment explanation
Indices: 44654078--44654687 Score: 482
Period size: 73 Copynumber: 7.9 Consensus size: 73
44654068 TGAAAAGCAG
* *
44654078 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
44654143 ACAAACAA
66 ACAAACAA
** *
44654151 AAATTAAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTT
1 AAATTAAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
44654215 GAAAAATAGA
65 GACAAACA-A
* **
44654225 TTGAAATACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 ---AAAT--TAAAA-T-----TACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
44654290 GTTAATTTTTGAAAAACAG
55 GTTGATTTTTGACAAACAA
*
44654309 GAATTGAAAA-TACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATT-AAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
44654372 TGAAAAACATAAATTGAACAA
64 TG----AC----A---AACAA
* * * * ** *
44654393 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTT
1 AAATTAAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----T
44654458 TTTTGA-AAGACAA
61 TTTTGACAA-ACAA
* * **
44654471 AAATTTAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAA-TTAAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
44654535 TTGA-AAGACAA
63 TTGACAA-ACAA
* * **
44654546 AAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAATT-AAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----
44654610 TTTTTGAC-AACAA
60 TTTTTGACAAACAA
* *
44654623 AAATTGAAATTACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAATTAAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT
44654687 T
64 T
44654688 TTGAAAAATA
Statistics
Matches: 457, Mismatches: 36, Indels: 88
0.79 0.06 0.15
Matches are distributed among these distances:
73 117 0.26
74 7 0.02
75 72 0.16
76 3 0.01
77 58 0.13
78 65 0.14
79 9 0.02
80 6 0.01
81 4 0.01
83 4 0.01
84 52 0.11
85 54 0.12
89 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (73 bp):
AAATTAAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
ACAAACAA
Done.