Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 124 of 344
Found at i:41937039 original size:24 final size:24
Alignment explanation
Indices: 41937001--41937077 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
41936991 CCAGCACTGT
* * *
41937001 TCTCCCTAATTAGCTCTTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
41937025 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
**
41937049 AATCCCTTATC-GACTCCTAAATCC
1 TCTCCCTTATCAG-CTCCTAAATCC
41937073 TCTCC
1 TCTCC
41937078 TGACAGACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.23, C:0.39, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:41942947 original size:26 final size:27
Alignment explanation
Indices: 41942850--41942952 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
41942840 CTGTCAAAAT
* *
41942850 AGAT-AATGTGACAGAGTCACCAGAAC
1 AGATAAATGTGGCAGAGCCACCAGAAC
*
41942876 AGATAATTGTGGCAGAGCCACCAGAAC
1 AGATAAATGTGGCAGAGCCACCAGAAC
* * *
41942903 AGGTATATGTGGCAGAGCCACCAGATC
1 AGATAAATGTGGCAGAGCCACCAGAAC
*
41942930 A-ATAAATGTGGCATAGCCACCAG
1 AGATAAATGTGGCAGAGCCACCAG
41942953 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
26 23 0.35
27 43 0.65
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (27 bp):
AGATAAATGTGGCAGAGCCACCAGAAC
Found at i:41944574 original size:24 final size:24
Alignment explanation
Indices: 41944544--41944680 Score: 136
Period size: 24 Copynumber: 5.7 Consensus size: 24
41944534 GTTCTCTCTA
* * *
41944544 ATCAGCTCCTGAATCCTCTTCCTT
1 ATCAGCTCCTAAATCCTATACCTT
*
41944568 ATTAGCTCCTAAATCCTATACCTT
1 ATCAGCTCCTAAATCCTATACCTT
* *
41944592 ATCAACTCCTAAATCCTATCCCTT
1 ATCAGCTCCTAAATCCTATACCTT
*
41944616 ATC-GACTCCTAAATCCTATCCCTT
1 ATCAG-CTCCTAAATCCTATACCTT
* *
41944640 ATC-GACTTCTAAATCCTATCCCTT
1 ATCAG-CTCCTAAATCCTATACCTT
*
41944664 ATC-GACTCCTTAATCCT
1 ATCAG-CTCCTAAATCCT
41944681 CTCCTGGCAG
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
24 101 1.00
ACGTcount: A:0.25, C:0.35, G:0.04, T:0.36
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTATACCTT
Found at i:41944607 original size:48 final size:49
Alignment explanation
Indices: 41944544--41944680 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 49
41944534 GTTCTCTCTA
* * * *
41944544 ATCAGCTCCTGAATCCTCTTCCTTATTAG-CTCCTAAATCCTATACCTT
1 ATCAACTCCTAAATCCTATCCCTTATTAGACTCCTAAATCCTATACCTT
* *
41944592 ATCAACTCCTAAATCCTATCCCTTA-TCGACTCCTAAATCCTATCCCTT
1 ATCAACTCCTAAATCCTATCCCTTATTAGACTCCTAAATCCTATACCTT
* * * *
41944640 ATCGACTTCTAAATCCTATCCCTTA-TCGACTCCTTAATCCT
1 ATCAACTCCTAAATCCTATCCCTTATTAGACTCCTAAATCCT
41944681 CTCCTGGCAG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.03
48 77 0.97
ACGTcount: A:0.25, C:0.35, G:0.04, T:0.36
Consensus pattern (49 bp):
ATCAACTCCTAAATCCTATCCCTTATTAGACTCCTAAATCCTATACCTT
Found at i:41953199 original size:76 final size:78
Alignment explanation
Indices: 41953080--41953232 Score: 202
Period size: 76 Copynumber: 2.0 Consensus size: 78
41953070 AGCACTCGAT
* * * * * *
41953080 ATATATCCGGGTTAAGTCCTGCAGGCTTCGTGCTAGTAATATATTCG-GGTTAAA-TCCTGTAGG
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATATATCCGAGCTTAAAGTCCCGTAGG
41953143 CTTAGAGCTGGTA
66 CTTAGAGCTGGTA
* *
41953156 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGAGCTTAAAGTCCCGTAGG
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATATATCCGAGCTTAAAGTCCCGTAGG
* *
41953221 CTTTGTGCTGGT
66 CTTAGAGCTGGT
41953233 GGCTGGATTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 41 0.63
77 6 0.09
78 18 0.28
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (78 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAATATATCCGAGCTTAAAGTCCCGTAGG
CTTAGAGCTGGTA
Found at i:41953229 original size:40 final size:38
Alignment explanation
Indices: 41953080--41953232 Score: 180
Period size: 38 Copynumber: 4.0 Consensus size: 38
41953070 AGCACTCGAT
* * * *
41953080 ATATATCCGGGTTAAGTCCTGCAGGCTTCGTGCTAGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
* * * *
41953118 ATATATTCGGGTTAAATCCTGTAGGCTTAGAGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
41953156 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
* * * *
41953194 TTATATCCGAGCTTAAAGTCCCGTAGGCTTTGTGCTGGT
1 ATATATCCG-GGTTAAA-TCCCGCAGGCTTAGTGCTGGT
41953233 GGCTGGATTC
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 74 0.75
39 6 0.06
40 19 0.19
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:41956147 original size:40 final size:40
Alignment explanation
Indices: 41956049--41956311 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
41956039 TCCTCGTTCA
* * * * *
41956049 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41956088 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41956128 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41956168 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41956208 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41956248 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41956288 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41956312 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41964090 original size:40 final size:40
Alignment explanation
Indices: 41963992--41964254 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
41963982 TCCTCGTTCA
* * * * *
41963992 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41964031 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41964071 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41964111 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41964151 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41964191 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41964231 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41964255 CAGCATTCAA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41986601 original size:40 final size:40
Alignment explanation
Indices: 41986409--41986594 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
41986399 TTGAATGATG
* * * *
41986409 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41986449 TCCGGACTAAGAT-CCGAAGGCATTTGTTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTG-TGCGAGTTACTAAA
*
41986490 TCCGGGATAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41986529 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41986570 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41986595 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 22 0.18
40 77 0.63
41 21 0.17
42 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41986601 original size:80 final size:79
Alignment explanation
Indices: 41986462--41986627 Score: 176
Period size: 80 Copynumber: 2.1 Consensus size: 79
41986452 GGACTAAGAT
* * **
41986462 CCGAAGGCATTTGTTGCGAGATACTAATTCCGGGATAAGCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCAATTGTTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAG-TAGCT
*
41986526 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * * *
41986542 CCGAAGGCAATTG-TGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGC
1 CCGAAGGCAATTGTTGCGAGATACTAAT-ACCGGGATAAG-CCCGAAGGCATTTGAACGAGTAGC
* *
41986605 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
41986621 CCGAAGG
1 CCGAAGG
41986628 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.03
79 34 0.47
80 36 0.50
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:41993783 original size:79 final size:80
Alignment explanation
Indices: 41993637--41993821 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
41993627 TTGAATGATG
* * *
41993637 TCCGGGCTAAGTCCCAAAGGCTTTGTGCTAAGTGACCATATCCGGGCTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGGCTAAGATCCGAAGGCAATT
41993702 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * * *
41993716 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGGCTAAGAT-CCGAAGGCA
*
41993778 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
41993796 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
41993822 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGGCTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:41993828 original size:40 final size:40
Alignment explanation
Indices: 41993637--41993821 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
41993627 TTGAATGATG
* * * * *
41993637 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
41993677 TCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41993717 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41993756 TCTGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41993797 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41993822 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41993843 original size:79 final size:79
Alignment explanation
Indices: 41993690--41993854 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
41993680 GGGCTAAGAT
* * **
41993690 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
41993755 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
41993769 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
41993832 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
41993848 CCGAAGG
1 CCGAAGG
41993855 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:42007021 original size:26 final size:26
Alignment explanation
Indices: 42006952--42007021 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 26
42006942 ATATAGCAGA
* *
42006952 AAGCTCATAAA-AGCC-ATAATCAGG
1 AAGCTCACAAAGAGCCTTTAATCAGG
* * * *
42006976 AAGTTCACAAAGAACTTTTAATGAGG
1 AAGCTCACAAAGAGCCTTTAATCAGG
42007002 AAGCTCACAAAGAGCCTTTA
1 AAGCTCACAAAGAGCCTTTA
42007022 GTCAAGAGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 9 0.26
25 2 0.06
26 24 0.69
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCTTTAATCAGG
Found at i:42007212 original size:65 final size:64
Alignment explanation
Indices: 42007094--42007215 Score: 156
Period size: 65 Copynumber: 1.9 Consensus size: 64
42007084 AAGAACTGCG
* * *
42007094 GTTTTGTCTGCAACATATGCAATATCACAACATAGCATAAAGCAGGACACTCACAAATAGTTGC
1 GTTTTGTCTGCAACATATGCAAGATCACAACAGAGCATAAAGCAGAACACTCACAAATAGTTGC
* * * *
42007158 GTTTGTGTCTGCAATATATGCAGGATCACAACAGATCATATAA-CAGAACGCTCACAAA
1 GTTT-TGTCTGCAACATATGCAAGATCACAACAGAGCATA-AAGCAGAACACTCACAAA
42007216 GAAATGCGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 4 0.08
65 43 0.88
66 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (64 bp):
GTTTTGTCTGCAACATATGCAAGATCACAACAGAGCATAAAGCAGAACACTCACAAATAGTTGC
Found at i:42009757 original size:45 final size:45
Alignment explanation
Indices: 42009652--42009823 Score: 235
Period size: 45 Copynumber: 3.9 Consensus size: 45
42009642 CTGAATTCAT
* * * *
42009652 TCACCGACATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
** * *
42009694 TCACTAGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
42009739 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
42009784 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
42009824 ATACTGTGCG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 8 0.07
43 16 0.14
44 4 0.03
45 86 0.75
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:42009802 original size:90 final size:86
Alignment explanation
Indices: 42009610--42009823 Score: 229
Period size: 90 Copynumber: 2.5 Consensus size: 86
42009600 TTTTATCAAA
* * * * * *
42009610 TCACCGGCATT-CAGCCTTCTAGGTTTAAAAACCTGAAT-TCATTCACCGACATTTCGCCTGCTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATATCATTCACCGACATTTAGCCTGCTA
* *
42009673 GGCTCGAAGCCCGATATCATT
66 GGCTCAAAGCCCGATATCATC
** *
42009694 TCACTAGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATAGT-ATCTCACCGGCATTATAGCCTG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATA-TCAT-TCACCGACATT-TAGCCTG
42009758 CTAGGCTCAAAGGCCCGAATAGT-ATC
63 CTAGGCTCAAA-GCCCG-ATA-TCATC
* *
42009784 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATA
42009824 ATACTGTGCG
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
84 9 0.08
85 22 0.21
86 2 0.02
87 11 0.10
88 16 0.15
89 5 0.05
90 41 0.38
91 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (86 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCTGAATATCATTCACCGACATTTAGCCTGCTA
GGCTCAAAGCCCGATATCATC
Found at i:42010688 original size:47 final size:47
Alignment explanation
Indices: 42010634--42010726 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
42010624 AAAATTTACT
*
42010634 TTAACTAAGTAACTTATCC-AGAAATATTAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGA-AAATATTAAGAGAAAATTTAACAAGC
*
42010681 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAG
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAGAAAATTTAACAAG
42010727 TTTTAAATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 42 0.98
48 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGAAAATATTAAGAGAAAATTTAACAAGC
Found at i:42013998 original size:14 final size:14
Alignment explanation
Indices: 42013979--42014010 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
42013969 TCAAAATGTC
42013979 ATCTGATTCATTAA
1 ATCTGATTCATTAA
42013993 ATCTGATTCATTAA
1 ATCTGATTCATTAA
42014007 ATCT
1 ATCT
42014011 ATGAACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (14 bp):
ATCTGATTCATTAA
Found at i:42017315 original size:45 final size:44
Alignment explanation
Indices: 42017207--42017369 Score: 206
Period size: 45 Copynumber: 3.7 Consensus size: 44
42017197 CTGAATTCAT
* * *
42017207 TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATC
* *
42017249 TCACCGGTATTATAGCGTGCTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
* *
42017294 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
*
42017339 TCACCGGTATTATAGCCTGCTAGGCTCAAAG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAG
42017370 GCATGAATAA
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
42 10 0.10
43 13 0.12
44 11 0.10
45 70 0.67
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:42018247 original size:47 final size:47
Alignment explanation
Indices: 42018191--42018286 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
42018181 AAAATTTTCT
* * *
42018191 TTAACTAAGTAACTTCTCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAGCAAATTTAACAAGC
* *
42018238 TTAACTAAGTAACTTATTCGAAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAGCAAATTTAACAAGC
42018285 TT
1 TT
42018287 TAAATTCAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGAAAATAATAAGAGCAAATTTAACAAGC
Found at i:42021651 original size:31 final size:31
Alignment explanation
Indices: 42021613--42021674 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
42021603 CGTGTAACCT
*
42021613 GACCATGTATCACACACGGCTAAGACACACG
1 GACCATGTATCACACACAGCTAAGACACACG
* *
42021644 GACCATGTATCACACACAGTTGAGACACACG
1 GACCATGTATCACACACAGCTAAGACACACG
42021675 CTTGTGTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (31 bp):
GACCATGTATCACACACAGCTAAGACACACG
Found at i:42034432 original size:17 final size:19
Alignment explanation
Indices: 42034390--42034435 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
42034380 ATAAAATTTT
*
42034390 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
42034409 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
42034427 AA-TATTATT
1 AATTATTATT
42034436 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:42034546 original size:15 final size:15
Alignment explanation
Indices: 42034528--42034556 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42034518 ATATTTATAA
42034528 AATTATTATTATTAT
1 AATTATTATTATTAT
42034543 AATTATTATTATTA
1 AATTATTATTATTA
42034557 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:42035102 original size:18 final size:18
Alignment explanation
Indices: 42035081--42035137 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
42035071 TCTTTGACAA
*
42035081 TTCTTTTCTCTTCTTCTT
1 TTCTTCTCTCTTCTTCTT
* *
42035099 TTCTCCTCTCTTCATCTAT
1 TTCTTCTCTCTTCTTCT-T
*
42035118 TTCCTCT-TCTTCTTCTT
1 TTCTTCTCTCTTCTTCTT
42035135 TTC
1 TTC
42035138 CTCTATAGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 4 0.12
18 22 0.69
19 6 0.19
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TTCTTCTCTCTTCTTCTT
Found at i:42036705 original size:27 final size:27
Alignment explanation
Indices: 42036675--42036852 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42036665 ATATTGAGTC
* * * *
42036675 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42036702 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42036729 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42036757 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42036784 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42036811 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42036838 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42036853 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42036814 original size:82 final size:81
Alignment explanation
Indices: 42036696--42036851 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42036686 TGCTATATAA
* *
42036696 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42036761 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42036778 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42036842 CACTTAGTGC
65 CACTTAGTGC
42036852 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42036866 original size:82 final size:83
Alignment explanation
Indices: 42036675--42036866 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
42036665 ATATTGAGTC
* * * * *
42036675 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
42036739 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
42036757 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
42036818 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
42036838 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
42036867 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:42039669 original size:27 final size:26
Alignment explanation
Indices: 42039639--42039695 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
42039629 AATACCTTTA
* *
42039639 TAGGTGGAAAATTTACAAATTTACCCC
1 TAGGAGGAAAA-TTACAAATATACCCC
* **
42039666 TAGGAGTAAAATTACTGATATACCCC
1 TAGGAGGAAAATTACAAATATACCCC
42039692 TAGG
1 TAGG
42039696 GTTAAGGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (26 bp):
TAGGAGGAAAATTACAAATATACCCC
Found at i:42045292 original size:47 final size:47
Alignment explanation
Indices: 42045175--42045469 Score: 401
Period size: 47 Copynumber: 6.2 Consensus size: 47
42045165 AATTCTAAAT
*
42045175 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
42045224 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
42045271 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
42045320 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
42045367 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** ** * * * *
42045414 TGTGACAGGGCCGAGCGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
42045461 TGTGATAAG
1 TGTGATAAG
42045470 TCCCGAAGGG
Statistics
Matches: 219, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
47 136 0.62
49 83 0.38
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:42045322 original size:96 final size:96
Alignment explanation
Indices: 42045178--42045414 Score: 438
Period size: 96 Copynumber: 2.5 Consensus size: 96
42045168 TCTAAATTGT
42045178 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
42045243 CGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
42045274 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
42045339 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
42045370 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
42045415 GTGACAGGGC
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 136 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:42047541 original size:43 final size:43
Alignment explanation
Indices: 42047493--42047810 Score: 573
Period size: 43 Copynumber: 7.4 Consensus size: 43
42047483 TTGGTTTTCA
*
42047493 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
42047536 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
42047579 GCACTAAGTGTGCGGGCAATAAGTATTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
42047622 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
42047665 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
42047708 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
* * *
42047751 GCACTAAGTGTACGGGCAATAAGTATTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
42047794 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
42047811 TTGAAATGCA
Statistics
Matches: 266, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 266 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
Found at i:42047825 original size:29 final size:29
Alignment explanation
Indices: 42047792--42047865 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
42047782 GTTGTGAGAT
* *
42047792 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
42047821 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
42047850 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42047866 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:42047947 original size:40 final size:40
Alignment explanation
Indices: 42047888--42048085 Score: 263
Period size: 40 Copynumber: 5.0 Consensus size: 40
42047878 AAGCACTATG
* *
42047888 TGTGCGAATTGATATATCCGAGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* * *
42047928 TGTCCGAATTGATATATCCGGGCTAAGACCTGAAGGCACT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
42047968 TGTGCGAATTGATATATCCGGGCTAAGACCCGGAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
42048008 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
42048048 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
42048086 ATTGAGCTTG
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 135 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:42048021 original size:80 final size:79
Alignment explanation
Indices: 42047888--42048122 Score: 274
Period size: 80 Copynumber: 2.9 Consensus size: 79
42047878 AAGCACTATG
* * *
42047888 TGTGCGAATTGATATATCCGAGATAAGACCCGAAGGCATTTGTCCGAA-TTGATATATCCGGGCT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGC-AAGTTGATATATCCGGGCT
*
42047952 AAGACCTGAAGGCACT
65 AAGACCCGAAGGCA-T
* * *
42047968 TGTGCGAATTGATATATCCGGGCTAAGACCCGGAGGCAATTGTGCAAGTTGATACATCCGGGCTA
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTA
42048033 AGACCCGAAGGCAT
66 AGACCCGAAGGCAT
* * * * * ** * *
42048047 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCT
1 T-GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCT
* *
42048112 AGGTCCCGAAG
65 AAGACCCGAAG
42048123 AGCAATCATG
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
79 4 0.03
80 129 0.97
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTA
AGACCCGAAGGCAT
Found at i:42048104 original size:120 final size:120
Alignment explanation
Indices: 42047888--42048112 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
42047878 AAGCACTATG
* * *
42047888 TGTGCGAATTGATATATCCGAGATAAGACCCGAAGGCATTTGTCCGAATTGATATATCCGGGCTA
1 TGTGCGAATTGATACATCCGAGATAAGACCCGAAGGCATTCGTCCGAATTGATATACCCGGGCTA
* * * *
42047953 AGACCTGAAGGCACTTGTGCGAATTGATATATCCGGGCTAAGACCCGGAGGCAAT
66 AGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGACCCGGAGGCAAT
* * * * * *
42048008 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTT
1 TGTGCGAA-TTGATACATCCGAGATAAGACCCGAAGGCATTCGTCCGAATTGATATACCCGGGCT
*** *
42048072 AAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCTA
65 AAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTA
42048113 GGTCCCGAAG
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
119 2 0.02
120 85 0.98
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (120 bp):
TGTGCGAATTGATACATCCGAGATAAGACCCGAAGGCATTCGTCCGAATTGATATACCCGGGCTA
AGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGACCCGGAGGCAAT
Found at i:42048109 original size:40 final size:40
Alignment explanation
Indices: 42047888--42048128 Score: 238
Period size: 40 Copynumber: 6.0 Consensus size: 40
42047878 AAGCACTATG
* * *
42047888 TGTGCGAA-TTGATATATCCGAGATAAGACCCGAAGGCATT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
42047928 TGTCCGAA-TTGATATATCCGGGCTAAGACCTGAAGGCACT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
42047968 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGGAGGCAAT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
42048008 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGC-AT
1 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * * *
42048047 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 T-GTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* ** * * * *
42048088 TGAGCTTGTGGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAG-GCAAT
42048129 CATGCTGGTG
Statistics
Matches: 172, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
39 5 0.03
40 159 0.92
41 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:42051813 original size:47 final size:47
Alignment explanation
Indices: 42051692--42051986 Score: 401
Period size: 47 Copynumber: 6.2 Consensus size: 47
42051682 AATTCTAAAT
42051692 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
42051741 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
42051788 TGCGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
42051837 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
42051884 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
42051931 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
42051978 TGTGATAAG
1 TGTGATAAG
42051987 TCCCGAAGGG
Statistics
Matches: 218, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
47 136 0.62
49 82 0.38
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:42051839 original size:96 final size:96
Alignment explanation
Indices: 42051695--42051971 Score: 432
Period size: 96 Copynumber: 2.9 Consensus size: 96
42051685 TCTAAATTGT
42051695 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
42051760 CGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* *
42051791 GATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
42051856 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* * * ** *
42051887 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
42051950 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
42051972 CATAAATGTG
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 40 0.24
96 127 0.76
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:42062250 original size:39 final size:40
Alignment explanation
Indices: 42062146--42062330 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
42062136 TTGAATGATG
* * *
42062146 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
42062185 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42062226 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42062265 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42062304 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42062331 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42062284 original size:79 final size:81
Alignment explanation
Indices: 42062146--42062330 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
42062136 TTGAATGATG
* *
42062146 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
42062210 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
42062225 TTCCGGGCTAAG-CCCAAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
42062287 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
42062305 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42062331 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:42062352 original size:79 final size:79
Alignment explanation
Indices: 42062199--42062363 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
42062189 GGACTAAGAT
* * **
42062199 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
42062264 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
42062278 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
42062341 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42062357 CCGAAGG
1 CCGAAGG
42062364 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42066436 original size:30 final size:30
Alignment explanation
Indices: 42066379--42066439 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42066369 TTCCCGAGCC
*
42066379 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
* * * *
42066409 TAGGGGCAAAATTTTAATTTTGAAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
42066439 T
1 T
42066440 GAGTTAAGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGAAAAAGTT
Found at i:42067254 original size:64 final size:64
Alignment explanation
Indices: 42067174--42067357 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
42067164 AGACATTATG
* * *
42067174 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
42067238 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
42067303 AA
63 AA
* * *
42067305 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
42067358 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42069008 original size:39 final size:39
Alignment explanation
Indices: 42068891--42069152 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
42068881 GCTCCTCGTT
* * *
42068891 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
42068931 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
42068971 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
42069010 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
42069049 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
42069088 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
42069129 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
42069153 CATCATTCAA
Statistics
Matches: 203, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 60 0.30
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:42074572 original size:79 final size:78
Alignment explanation
Indices: 42074470--42074692 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
42074460 GCTCCTCGTT
* *
42074470 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
42074535 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
42074550 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
42074613 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
42074628 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
42074691 GA
63 GA
42074693 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:42074587 original size:39 final size:40
Alignment explanation
Indices: 42074470--42074692 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
42074460 GCTCCTCGTT
* *
42074470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
42074510 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42074550 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42074589 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
42074628 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
42074669 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42074693 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:42083317 original size:43 final size:42
Alignment explanation
Indices: 42083263--42083376 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
42083253 TGTGATTGCA
*
42083263 TGTAAGA-CATGTCTGGGACATTGGCATTGTATTAA-GATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG--TTAACGATTTCG
** * *
42083305 TGTAAGACCATGTCTAAGACATTAGCATCGTTAATCGGTTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAA-CGATTTCG
* *
42083348 TGTAAGACCCTGTCTGGGACAGTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
42083377 CATATGTAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
41 4 0.07
42 7 0.12
43 48 0.81
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTAACGATTTCG
Found at i:42093501 original size:30 final size:30
Alignment explanation
Indices: 42093465--42093525 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
42093455 TCCTTAACTC
42093465 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTTCAAAATTACAATTTTGCCCCT
* * *
42093495 AAACTTTTTCATATTTACACTTTTGCCCCT
1 AAACTTTTTCAAAATTACAATTTTGCCCCT
42093525 A
1 A
42093526 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.43
Consensus pattern (30 bp):
AAACTTTTTCAAAATTACAATTTTGCCCCT
Found at i:42098751 original size:20 final size:22
Alignment explanation
Indices: 42098726--42098771 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
42098716 TATATGTATT
42098726 CAAATTAACTC-ATTTAAT-CA
1 CAAATTAACTCAATTTAATCCA
* *
42098746 CAAATTTATTCAATTTAATCCA
1 CAAATTAACTCAATTTAATCCA
42098768 CAAA
1 CAAA
42098772 ACATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.35
Consensus pattern (22 bp):
CAAATTAACTCAATTTAATCCA
Found at i:42098990 original size:28 final size:29
Alignment explanation
Indices: 42098926--42098991 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
42098916 TTTTCATTTA
* * *
42098926 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
* *
42098955 TTTCTCAAATTAATCCCT-AATTGACATT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
42098983 TTTGTCAAA
1 TTTCTCAAA
42098992 AATCACTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:42100775 original size:40 final size:40
Alignment explanation
Indices: 42100720--42100799 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
42100710 TTATTCAACC
* * *
42100720 TAAAATACATGGAAACTCTAGGAGAGAGAGAAGGAACTTT
1 TAAAATACATGGAAACCCTAGGAGAGAGAAAAGAAACTTT
42100760 TAAAATACATGGAAACCCTAGGAGAGAGAAAAGAAACTTT
1 TAAAATACATGGAAACCCTAGGAGAGAGAAAAGAAACTTT
42100800 CATGGCTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (40 bp):
TAAAATACATGGAAACCCTAGGAGAGAGAAAAGAAACTTT
Found at i:42105029 original size:28 final size:28
Alignment explanation
Indices: 42104963--42105090 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
42104953 CATGAGATTG
* * **
42104963 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
42104992 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42105020 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
42105049 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42105077 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
42105091 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42105052 original size:57 final size:57
Alignment explanation
Indices: 42104963--42105090 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
42104953 CATGAGATTG
*
42104963 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
42105020 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
42105077 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
42105091 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:42108566 original size:45 final size:43
Alignment explanation
Indices: 42108397--42108563 Score: 139
Period size: 45 Copynumber: 3.9 Consensus size: 43
42108387 ATATCATACA
* * * * *
42108397 ATGCCAACGTCCCAGATGTGGTCTTACATGCTATCTC-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACAATATCG
* *
42108440 ATGCC-ACTGTCCCAAACAG-GGTCTTATAC-AAATCA-AATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAA-CACAATATCG
* * *
42108481 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAACACA-ATATCG
42108526 ATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-AACACA
42108564 TATTAGAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 22
0.72 0.11 0.16
Matches are distributed among these distances:
41 24 0.25
42 10 0.10
43 23 0.24
44 6 0.06
45 34 0.35
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAACACAATATCG
Found at i:42114534 original size:46 final size:46
Alignment explanation
Indices: 42114467--42114632 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
42114457 CGAACTCGTT
*
42114467 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAAC
* * * * *
42114513 TCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCAAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAAC
* * *
42114560 TCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAAC
42114606 TCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCGTTGAGTTGAGTCCGAGTTCACTTA
42114633 GGGGCGGGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 52 0.53
47 28 0.29
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAAC
Found at i:42114893 original size:19 final size:20
Alignment explanation
Indices: 42114856--42114893 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42114846 ATAAGGTGGT
42114856 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
42114876 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
42114894 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:42121416 original size:18 final size:18
Alignment explanation
Indices: 42121393--42121429 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42121383 ATGATTATGG
*
42121393 ATGGGATAATTCGTTGAA
1 ATGGGATAATTAGTTGAA
*
42121411 ATGGGATTATTAGTTGAA
1 ATGGGATAATTAGTTGAA
42121429 A
1 A
42121430 AAAGATGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (18 bp):
ATGGGATAATTAGTTGAA
Found at i:42125457 original size:10 final size:10
Alignment explanation
Indices: 42125438--42125469 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
42125428 ATGGAAGGGG
42125438 GAAA-AAAAA
1 GAAATAAAAA
42125447 GAAATAAAAA
1 GAAATAAAAA
42125457 GAAAT-AAAA
1 GAAATAAAAA
42125466 GAAA
1 GAAA
42125470 ATGAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 12 0.55
10 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (10 bp):
GAAATAAAAA
Found at i:42130567 original size:29 final size:29
Alignment explanation
Indices: 42130521--42130576 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
42130511 TAAAATACTT
42130521 AAAAATATAAAAGGAATAAATA-AATACA
1 AAAAATATAAAAGGAATAAATACAATACA
**
42130549 AAAAATATAAAACTTAATAAATACAATA
1 AAAAATATAAAA-GGAATAAATACAATA
42130577 TGGAGGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 8 0.33
30 4 0.17
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (29 bp):
AAAAATATAAAAGGAATAAATACAATACA
Found at i:42132829 original size:57 final size:57
Alignment explanation
Indices: 42132711--42132829 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 57
42132701 GTTAGGTCAA
* * * * * * * *
42132711 ATCTTGTCTTTTTAATCCCTTGATACTTGTTTCCAGTTCTGCCCTTAATTTTTGCAT
1 ATCTTGCCTTCTTAATCCCTTGATACTTGCTGCCAGTTATGCCCTTAATCTTGGCAG
* * *
42132768 ATCTTGCCTTCTTAATCCCTTGATCCTTGCTGCCAGTTATGCCTTTGATCTTGGCAG
1 ATCTTGCCTTCTTAATCCCTTGATACTTGCTGCCAGTTATGCCCTTAATCTTGGCAG
42132825 ATCTT
1 ATCTT
42132830 TTGTTGTTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.15, C:0.25, G:0.13, T:0.46
Consensus pattern (57 bp):
ATCTTGCCTTCTTAATCCCTTGATACTTGCTGCCAGTTATGCCCTTAATCTTGGCAG
Found at i:42137384 original size:31 final size:31
Alignment explanation
Indices: 42137344--42137413 Score: 131
Period size: 31 Copynumber: 2.2 Consensus size: 31
42137334 GAAGTTGTTT
42137344 TAAATTAAACTTTCTTATTGATATAAAACTCC
1 TAAA-TAAACTTTCTTATTGATATAAAACTCC
42137376 TAAATAAACTTTCTTATTGATATAAAACTCC
1 TAAATAAACTTTCTTATTGATATAAAACTCC
42137407 TAAATAA
1 TAAATAA
42137414 CTTAAACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAATAAACTTTCTTATTGATATAAAACTCC
Found at i:42139644 original size:51 final size:50
Alignment explanation
Indices: 42139589--42139729 Score: 212
Period size: 51 Copynumber: 2.8 Consensus size: 50
42139579 TTAATTTAAA
*
42139589 GATGCAAACTTTAACTAACATGTGAGTTACGTAATGCATGTCATTATTTAT
1 GATGCAAAC-TTAACTAACATGAGAGTTACGTAATGCATGTCATTATTTAT
* *
42139640 GATGCAAACTTAACTAATCATGAGAGTTGCATAATGCATGTCATTATTTAT
1 GATGCAAACTTAACTAA-CATGAGAGTTACGTAATGCATGTCATTATTTAT
*
42139691 GATGCATACTTAACTAACATGAGAGTTACAG-AATGCATG
1 GATGCAAACTTAACTAACATGAGAGTTAC-GTAATGCATG
42139730 ACTTTATTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 27 0.33
51 55 0.67
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (50 bp):
GATGCAAACTTAACTAACATGAGAGTTACGTAATGCATGTCATTATTTAT
Found at i:42139737 original size:50 final size:50
Alignment explanation
Indices: 42139572--42139737 Score: 201
Period size: 51 Copynumber: 3.3 Consensus size: 50
42139562 GTTACTTAAC
* *
42139572 GCATGAC-TTAATTTAAAGATGCAAACTTTAACTAACATGTGAGTTAC-GTAAT
1 GCATGACATT-ATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACAG-AAT
* * *
42139624 GCATGTCATTATTTATGATGCAAACTTAACTAATCATGAGAGTTGCATAAT
1 GCATGACATTATTTATGATGCAAACTTAACTAA-CATGAGAGTTACAGAAT
* *
42139675 GCATGTCATTATTTATGATGCATACTTAACTAACATGAGAGTTACAGAAT
1 GCATGACATTATTTATGATGCAAACTTAACTAACATGAGAGTTACAGAAT
*
42139725 GCATGACTTTATT
1 GCATGACATTATT
42139738 AAATGTAGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
50 34 0.34
51 55 0.54
52 10 0.10
53 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (50 bp):
GCATGACATTATTTATGATGCAAACTTAACTAACATGAGAGTTACAGAAT
Found at i:42142403 original size:100 final size:100
Alignment explanation
Indices: 42142230--42142415 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
42142220 GTTGACTGTC
*
42142230 GTCGTGGTGTTGCTCTGTGAAACTTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
1 GTCGTGGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
42142295 GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
66 GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
* *
42142330 GTCGTGGTGTTGCTCTGTGGAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACTATGAT
1 GTCGTGGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
42142395 GCTCGAACACCAAAGTGCCCC
66 GCTCGAACACCAAAGTGCCCC
42142416 TTGCAAGGCC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (100 bp):
GTCGTGGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
Found at i:42151004 original size:42 final size:42
Alignment explanation
Indices: 42150940--42151023 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
42150930 TAATCAGCGT
*
42150940 CTGAAACCACAAATTTAGATGATAAATATATATTTAAAAATA
1 CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
*
42150982 CTGAAACCATAAATTTAAATGATAAATATATATTTAAAAATA
1 CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
42151024 AAATAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (42 bp):
CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
Found at i:42151027 original size:19 final size:19
Alignment explanation
Indices: 42150963--42151028 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
42150953 TTTAGATGAT
42150963 AAATATATATTTAAAAATA
1 AAATATATATTTAAAAATA
* * *
42150982 CTGAAACCATAAATTTAAATGAT-
1 ---AAA-TATATATTTAAA-AATA
42151005 AAATATATATTTAAAAATA
1 AAATATATATTTAAAAATA
42151024 AAATA
1 AAATA
42151029 AAATAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 3 0.09
22 3 0.09
23 10 0.29
24 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATATATTTAAAAATA
Found at i:42151392 original size:20 final size:20
Alignment explanation
Indices: 42151363--42151403 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
42151353 TGAATCTCAC
42151363 TATATACATATTTTCTTGAT
1 TATATACATATTTTCTTGAT
*
42151383 TATATGCATATTTTCTTGAT
1 TATATACATATTTTCTTGAT
42151403 T
1 T
42151404 TTTGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (20 bp):
TATATACATATTTTCTTGAT
Found at i:42154320 original size:43 final size:42
Alignment explanation
Indices: 42154165--42154321 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 42
42154155 TGTGTTTTCT
* *
42154165 TGTAAGACCACTTCTGGGACGTTGGCGTCGAT-TTATGACTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATT-TGA-TTACG
* * * * * **
42154209 TGTGAGACCATGTCTGGGACATCGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACG
*** * * *
42154251 TGTAAGACCTTTTCTAGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATC-ATATTTGATTACG
42154294 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
42154322 TGTATGAGCT
Statistics
Matches: 84, Mismatches: 25, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
42 25 0.30
43 34 0.40
44 25 0.30
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACG
Found at i:42156944 original size:40 final size:39
Alignment explanation
Indices: 42156846--42157068 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
42156836 TCCTCGTTCA
* * * * *
42156846 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACTC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
42156885 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
42156924 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
42156964 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
42157004 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
42157045 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42157069 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:42157028 original size:80 final size:79
Alignment explanation
Indices: 42156844--42157068 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
42156834 GCTCCTCGTT
* * * * * *
42156844 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACTCAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
42156908 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
42156923 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
42156988 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
42157003 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
42157067 GA
63 GA
42157069 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.31
80 69 0.57
81 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:42157077 original size:41 final size:41
Alignment explanation
Indices: 42157000--42157077 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42156990 TTTGTATCTC
* * *
42157000 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42157041 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42157078 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42163990 original size:27 final size:27
Alignment explanation
Indices: 42163917--42164030 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
42163907 AGCATGGCTG
* * * *
42163917 CCAGAACAGATA-TTGTGACATAGTCA
1 CCAGAAAAGATATTTGTGGCGTAGCCA
* * *
42163943 CCAGATACAGATA-TTGCGGCGGAGCCA
1 CCAGA-AAAGATATTTGTGGCGTAGCCA
42163970 CCAGAAAAGATATTTGTGGCGTAGCCA
1 CCAGAAAAGATATTTGTGGCGTAGCCA
** *
42163997 TAAGAAATAGATATTTGTGGCATAGCCA
1 CCAGAAA-AGATATTTGTGGCGTAGCCA
42164025 CCAGAA
1 CCAGAA
42164031 CGCTTCCTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.15
27 38 0.53
28 23 0.32
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGAAAAGATATTTGTGGCGTAGCCA
Found at i:42164017 original size:28 final size:27
Alignment explanation
Indices: 42163972--42164024 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
42163962 CGGAGCCACC
*
42163972 AGAAAAGATATTTGTGGCGTAGCCATA
1 AGAAAAGATATTTGTGGCATAGCCATA
42163999 AGAAATAGATATTTGTGGCATAGCCA
1 AGAAA-AGATATTTGTGGCATAGCCA
42164025 CCAGAACGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (27 bp):
AGAAAAGATATTTGTGGCATAGCCATA
Found at i:42173322 original size:28 final size:28
Alignment explanation
Indices: 42173259--42173412 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
42173249 ATATTAAGTC
* *
42173259 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
42173286 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
42173314 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
42173342 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
42173370 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
42173398 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42173413 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:42181701 original size:28 final size:28
Alignment explanation
Indices: 42181638--42181788 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
42181628 ATATTAAGTC
*
42181638 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
42181665 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
42181693 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
42181721 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42181749 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
42181778 CGCACACTTAG
1 CGCACACTTAG
42181789 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42188406 original size:101 final size:99
Alignment explanation
Indices: 42188239--42188493 Score: 267
Period size: 101 Copynumber: 2.5 Consensus size: 99
42188229 CTGGTACGCA
* * *
42188239 TAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACAAATTATCCGGTACACATAGTAGCCTGCACTTA
42188304 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGTGACCTAACCATCTGATACATG
* * * * * *
42188338 TAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGCGA-C-AAATTATCCGGTACACATAGTAGCCTGCACT
* * ** * * ***
42188403 TAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
64 TAGTACTACACACGTGACCTAA-CCATCTGATACATG
** * * * *
42188440 TAGTAGCCTGTACTTAGTACTACACATGCGACTAATTATCCGGCACACGTAGTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACAAATTATCCGGTACACATAGTA
42188494 CTACACACGT
Statistics
Matches: 125, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
99 27 0.22
100 17 0.14
101 47 0.38
102 34 0.27
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACAAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACATG
Found at i:42188407 original size:51 final size:51
Alignment explanation
Indices: 42188226--42188465 Score: 279
Period size: 51 Copynumber: 4.8 Consensus size: 51
42188216 TAGCCAAAGC
* * * * *
42188226 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGA-C-AAAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * * * * *
42188275 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA-C
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * *** *
42188325 CATCTGATACATGTAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
42188376 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
*
42188427 TATCGGGTACGCATAGTAGCCTGTACTTAGTACTACACA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
42188466 TGCGACTAAT
Statistics
Matches: 163, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 37 0.23
50 42 0.26
51 84 0.52
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (51 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:42192142 original size:13 final size:13
Alignment explanation
Indices: 42192126--42192150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42192116 TTAAATCCGT
42192126 TAATTAGTTTAAA
1 TAATTAGTTTAAA
42192139 TAATTAGTTTAA
1 TAATTAGTTTAA
42192151 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:42194637 original size:27 final size:26
Alignment explanation
Indices: 42194590--42194640 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
42194580 CGAGGCTGCC
*
42194590 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
42194616 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
42194641 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:42196564 original size:27 final size:28
Alignment explanation
Indices: 42196503--42196565 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
42196493 GTCATTTACG
*
42196503 CACAAGGGGCAAAATAGTCATTTAACACC
1 CACAA-GGGCAAAATAGTAATTTAACACC
* * *
42196532 C-TAAGGGCAAAATGGTAATTTTAC-CC
1 CACAAGGGCAAAATAGTAATTTAACACC
42196558 CACAAGGG
1 CACAAGGG
42196566 TATCTCGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 2 0.07
29 1 0.04
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (28 bp):
CACAAGGGCAAAATAGTAATTTAACACC
Found at i:42196575 original size:27 final size:27
Alignment explanation
Indices: 42196545--42196690 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
42196535 AGGGCAAAAT
* * * *
42196545 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42196572 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42196599 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42196626 GGTAATTCTATCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42196653 GGTAATTCTACTCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
42196680 GGTAATTCTAC
1 GGTAATTCTAC
42196691 AACTTATCCA
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42215935 original size:28 final size:28
Alignment explanation
Indices: 42215853--42216030 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
42215843 GAGATTGGCG
* * * *
42215853 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
42215882 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
42215909 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
42215937 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
42215965 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* * *
42215993 CTAGGTGTGCGAG-CTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
42216020 CTGAGTGTGCG
1 CTAAGTGTGCG
42216031 GACTTAATAT
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
27 41 0.31
28 81 0.61
29 11 0.08
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:42216021 original size:83 final size:83
Alignment explanation
Indices: 42215878--42216030 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
42215868 TAAATTGTGC
* *
42215878 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
42215943 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
42215961 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
42216025 TGTGCG
65 TGTGCG
42216031 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:42226039 original size:16 final size:17
Alignment explanation
Indices: 42226018--42226051 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
42226008 TTGAGTTAAA
42226018 TTGAATGAAA-TAAATT
1 TTGAATGAAACTAAATT
*
42226034 TTGAATTAAACTAAATT
1 TTGAATGAAACTAAATT
42226051 T
1 T
42226052 ATCCATATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (17 bp):
TTGAATGAAACTAAATT
Found at i:42226457 original size:25 final size:25
Alignment explanation
Indices: 42226423--42226492 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
42226413 CGTTCCAACC
42226423 TACAGCTCGTGTGAGCATACCGATT
1 TACAGCTCGTGTGAGCATACCGATT
* *
42226448 TACAGTTCGTATGAGCATACCGATT
1 TACAGCTCGTGTGAGCATACCGATT
* *
42226473 CACAGCTCATGTGAGCATAC
1 TACAGCTCGTGTGAGCATAC
42226493 ATGTACAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
TACAGCTCGTGTGAGCATACCGATT
Found at i:42231753 original size:36 final size:35
Alignment explanation
Indices: 42231677--42231769 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 35
42231667 GACTAGCTCT
*
42231677 TATGAGCATTGGTGTG-TTTAGAGGGATTGGATCG
1 TATGAGCATTGGTGTGTTTTGGAGGGATTGGATCG
* *
42231711 TGTGAGCATATGGTGTGTTTTGGAGGGATT-GACTTG
1 TATGAGCAT-TGGTGTGTTTTGGAGGGATTGGA-TCG
*
42231747 TATGAGCATCTGGTGTATTTTGG
1 TATGAGCAT-TGGTGTGTTTTGG
42231770 TTGGACCGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 8 0.16
35 9 0.18
36 33 0.66
ACGTcount: A:0.18, C:0.06, G:0.37, T:0.39
Consensus pattern (35 bp):
TATGAGCATTGGTGTGTTTTGGAGGGATTGGATCG
Found at i:42235719 original size:43 final size:42
Alignment explanation
Indices: 42235671--42235850 Score: 107
Period size: 43 Copynumber: 4.2 Consensus size: 42
42235661 TCCCGGATGT
* * * *
42235671 GGTCTTACATATAAT-TCAATATCGATGCCTCTGTCTCAGACAG
1 GGTCTTACATAAAATCTCAAT-T-GAGGCCTCTGTCCCAGACAC
* *
42235714 GGTCTTACACGAAAATCTCAATTGAGGCCTGTGTCCCAGACAC
1 GGTCTTACA-TAAAATCTCAATTGAGGCCTCTGTCCCAGACAC
* * * ** * *
42235757 GGTCTTACATGAAAT-T-AGATACGACGCCGATGTTCCAGACAT
1 GGTCTTACATAAAATCTCA-AT-TGAGGCCTCTGTCCCAGACAC
* * * * *
42235799 GGCCTTATACGT-AAATCTCAATCGAGGCCTATGTCCCAAACAC
1 GGTC-T-TACATAAAATCTCAATTGAGGCCTCTGTCCCAGACAC
42235842 GGTCTTACA
1 GGTCTTACA
42235851 CGATGTCTCA
Statistics
Matches: 106, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.01
41 6 0.06
42 23 0.22
43 58 0.55
44 12 0.11
45 6 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACATAAAATCTCAATTGAGGCCTCTGTCCCAGACAC
Found at i:42242192 original size:39 final size:39
Alignment explanation
Indices: 42242138--42242263 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
42242128 TTCAGTGATG
42242138 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
42242177 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
42242216 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
42242255 TATGTCCGG
1 TATATCCGG
42242264 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:42242277 original size:39 final size:39
Alignment explanation
Indices: 42242138--42242299 Score: 200
Period size: 39 Copynumber: 4.2 Consensus size: 39
42242128 TTCAGTGATG
* *
42242138 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
42242177 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
42242216 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
42242255 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
42242294 TATATC
1 TATATC
42242300 GGGTTTAAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 5 0.05
39 104 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:42250714 original size:43 final size:43
Alignment explanation
Indices: 42250666--42250824 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
42250656 GATTACCGAG
*
42250666 ATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACAT-GGCATCGTAT
* * *
42250710 -TGTGATTACGTGTAAAACCATGTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAT
* * * * * *
42250752 ATATGATTTCGTTTAAGACCTTGTCTGGGGCAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAT
* *
42250795 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
42250825 TATTATATTG
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 90 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATGGCATCGTAT
Found at i:42255671 original size:17 final size:16
Alignment explanation
Indices: 42255649--42255686 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
42255639 AAATACGCTC
42255649 TCTCTTTGTTCTCTTAT
1 TCTCTTTGTTCT-TTAT
42255666 TCTCTTTGTTCTTTAT
1 TCTCTTTGTTCTTTAT
42255682 TCTCT
1 TCTCT
42255687 GTCTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.66
Consensus pattern (16 bp):
TCTCTTTGTTCTTTAT
Found at i:42259098 original size:39 final size:39
Alignment explanation
Indices: 42259044--42259126 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
42259034 TTCGTGCTAA
*
42259044 GACATTGGGTGATTTGTGCTAGTGTAAGACCATGTCAGG
1 GACATTGGGTGATTTGTGCTAGTATAAGACCATGTCAGG
**
42259083 GACATTGGGTGATTTGTGCTAGTATAAGACCATGTTTGG
1 GACATTGGGTGATTTGTGCTAGTATAAGACCATGTCAGG
42259122 GACAT
1 GACAT
42259127 GGCATCGACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (39 bp):
GACATTGGGTGATTTGTGCTAGTATAAGACCATGTCAGG
Found at i:42259217 original size:46 final size:44
Alignment explanation
Indices: 42259100--42259268 Score: 119
Period size: 46 Copynumber: 3.7 Consensus size: 44
42259090 GGTGATTTGT
* * *
42259100 GCTAGTATAAGACCATGTTTGGGACATGGCATCGAC-ACAGATATGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-AGAGATGA
* * * * *
42259146 GTGTCAGAGTAAGACATGCCAGGGACATGCATCGGCCTCGACAGAGAT-A
1 G-CT-AGTGTAAGACATGTCTGGGACATGCATC-GACT--A-AGAGATGA
* ** * *
42259195 GCTAGTGTAA-ACGTGTCTGGGACACACATCGACTAAGAGTTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGATGA
42259238 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
42259269 AGCATGCATA
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
42 5 0.05
43 11 0.12
44 17 0.18
45 3 0.03
46 21 0.22
47 20 0.21
48 8 0.09
49 2 0.02
50 7 0.07
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGATGA
Found at i:42259227 original size:40 final size:43
Alignment explanation
Indices: 42259183--42259262 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 43
42259173 TGCATCGGCC
*
42259183 TCGAC-AGAGAT-AGCTAGTGTAA-ACGTGTCTGGGACACACA
1 TCGACAAGAGATGAGCTAGTGTAAGACATGTCTGGGACACACA
* *
42259223 TCGACTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACA
1 TCGAC-AAGAGATGAGCTAGTGTAAGACATGTCTGGGACA
42259263 TGCATCAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.15
42 5 0.15
43 10 0.30
44 13 0.39
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (43 bp):
TCGACAAGAGATGAGCTAGTGTAAGACATGTCTGGGACACACA
Found at i:42264231 original size:40 final size:40
Alignment explanation
Indices: 42264194--42264418 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
42264184 GCTACTCGTT
* *
42264194 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
42264234 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
42264274 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
42264314 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42264353 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42264394 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42264419 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42264378 original size:119 final size:120
Alignment explanation
Indices: 42264196--42264418 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
42264186 TACTCGTTCA
*
42264196 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
42264261 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
42264316 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
42264378 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42264419 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42268335 original size:31 final size:31
Alignment explanation
Indices: 42268292--42268373 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
42268282 TCAATCTCAG
42268292 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
42268322 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
42268353 CATATCACTGGGCCGAAGCCT
1 CATATCACTGGGCCGAAGCCT
42268374 CTACTGTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:42268640 original size:26 final size:25
Alignment explanation
Indices: 42268595--42268690 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
42268585 CTCTTTTAAT
*
42268595 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
42268620 AACTGGGGCAAAAGTCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
42268646 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * * *
42268671 AAATAGAGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
42268691 GTACTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 40 0.65
26 22 0.35
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:42268852 original size:24 final size:24
Alignment explanation
Indices: 42268825--42268870 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
42268815 ATAATTAAAC
* **
42268825 CCTAGGGTAAAATGGTCATTTTTA
1 CCTAGGGCAAAACAGTCATTTTTA
42268849 CCTAGGGCAAAACAGTCATTTT
1 CCTAGGGCAAAACAGTCATTTT
42268871 CATACTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (24 bp):
CCTAGGGCAAAACAGTCATTTTTA
Found at i:42275759 original size:55 final size:55
Alignment explanation
Indices: 42275675--42275786 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
42275665 TCTTGTAATA
*
42275675 TAGTTTTTTACATAATGGTGTAGATAAATGTACTTACACTAAATTCACTGATAGG
1 TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCACTGATAGG
*
42275730 TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCGCTGATAGG
1 TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCACTGATAGG
42275785 TA
1 TA
42275787 CAGTGTAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (55 bp):
TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCACTGATAGG
Found at i:42277736 original size:168 final size:168
Alignment explanation
Indices: 42277458--42277796 Score: 633
Period size: 168 Copynumber: 2.0 Consensus size: 168
42277448 AAACAATCCA
42277458 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
1 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
*
42277523 GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACTCTCTAGCAATTTTGTATTGGGGCAAATAGT
66 GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
*
42277588 TCTCTTTGGAAAACATCACACGCACCTTGAAGTCTACT
131 TCTCTTTGGAAAACATCACACGCACCTTAAAGTCTACT
42277626 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
1 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
*
42277691 GCTTCGTTGTATCCCGAGAGGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
66 GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
* *
42277756 TCTCTTTGGAAAACGTCACCCGCACCTTAAAGTCTACT
131 TCTCTTTGGAAAACATCACACGCACCTTAAAGTCTACT
42277794 ATT
1 ATT
42277797 AAATTCTATA
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 166 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (168 bp):
ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
TCTCTTTGGAAAACATCACACGCACCTTAAAGTCTACT
Found at i:42282446 original size:14 final size:14
Alignment explanation
Indices: 42282427--42282466 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
42282417 ATTGTTTCAC
*
42282427 AGAAAATAATTTTT
1 AGAAAATGATTTTT
*
42282441 AGAAAATGATCTTT
1 AGAAAATGATTTTT
*
42282455 GGAAAATGATTT
1 AGAAAATGATTT
42282467 ATTTTTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (14 bp):
AGAAAATGATTTTT
Found at i:42282971 original size:15 final size:15
Alignment explanation
Indices: 42282916--42282972 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
42282906 TTTATACTAC
42282916 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
42282931 AATACATTTATAATTGT
1 AAAATATTTATTA-T-T
42282948 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
42282965 AAAATATT
1 AAAATATT
42282973 AATATTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:42283038 original size:15 final size:16
Alignment explanation
Indices: 42283018--42283047 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42283008 GAATATTTAT
42283018 TTAAAA-TTATTATTC
1 TTAAAATTTATTATTC
42283033 TTAAAATTTATTATT
1 TTAAAATTTATTATT
42283048 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTC
Found at i:42288910 original size:25 final size:24
Alignment explanation
Indices: 42288739--42288909 Score: 135
Period size: 25 Copynumber: 7.0 Consensus size: 24
42288729 ACAAGCTATG
* * *
42288739 AATCGGTATGCTCTCACGAGTTGCA
1 AATCGGTAAGCTCTTACGAGCTG-A
*
42288764 AATCGGTAAGCTCCTACGAGCTGA
1 AATCGGTAAGCTCTTACGAGCTGA
* **
42288788 GAATCAGTAAGCTCTTACGAGCTCC
1 -AATCGGTAAGCTCTTACGAGCTGA
** * *
42288813 AATTTGTAAGTTCTTACGAGCTGC
1 AATCGGTAAGCTCTTACGAGCTGA
* *
42288837 AATCGGTAAGCTCTTACAAGTTGA
1 AATCGGTAAGCTCTTACGAGCTGA
* * * *
42288861 GAATTGGTATGCTCTCATGAGCTGTA
1 -AATCGGTAAGCTCTTACGAGCTG-A
* *
42288887 AATTGGTAAGCTCATACGAGCTG
1 AATCGGTAAGCTCTTACGAGCTG
42288910 TGGCGTGTTC
Statistics
Matches: 115, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
24 39 0.34
25 75 0.65
26 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AATCGGTAAGCTCTTACGAGCTGA
Found at i:42291122 original size:40 final size:40
Alignment explanation
Indices: 42291053--42291232 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
42291043 GAGTATAACT
* * * *
42291053 AGGGGCACAGAA-TGCAACCAGGGGTACCGAAGTAAAAAC
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
** * *
42291092 AGGGGCACATAAGCACAATCAAGGGTACCGAACTACAAAT
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
* * *
42291132 AGGGGCACGTAAGTGCAATCAAGGGTACTGAAATACAAAC
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
* * *
42291172 AAGGGCACATAAGTGCAACCAGGGGTACCGAAGTACAAAC
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
42291212 AGGGGCACATAAGTGCAATCA
1 AGGGGCACATAAGTGCAATCA
42291233 TTCAATAATT
Statistics
Matches: 118, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
39 11 0.09
40 107 0.91
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.12
Consensus pattern (40 bp):
AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
Found at i:42291214 original size:20 final size:20
Alignment explanation
Indices: 42291071--42291216 Score: 87
Period size: 20 Copynumber: 7.3 Consensus size: 20
42291061 AGAATGCAAC
*
42291071 CAGGGGTACCGAAGTAAAAA
1 CAGGGGTACCGAAGTACAAA
* ** * *
42291091 CAGGGGCACATAAGCACAAT
1 CAGGGGTACCGAAGTACAAA
* *
42291111 CAAGGGTACCGAACTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
42291131 TAGGGGCA-CGTAAGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
* * *
42291151 CAAGGGTACTGAAATACAAA
1 CAGGGGTACCGAAGTACAAA
* * ** * *
42291171 CAAGGGCACATAAGTGCAAC
1 CAGGGGTACCGAAGTACAAA
42291191 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
42291211 CAGGGG
1 CAGGGG
42291217 CACATAAGTG
Statistics
Matches: 86, Mismatches: 38, Indels: 4
0.67 0.30 0.03
Matches are distributed among these distances:
19 2 0.02
20 83 0.97
21 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:42301551 original size:45 final size:45
Alignment explanation
Indices: 42301501--42301657 Score: 156
Period size: 45 Copynumber: 3.4 Consensus size: 45
42301491 GAGAACATCG
*
42301501 TGTAAGACCATATATGGGCTATCGGCTTTGATATGTGTGATCCCA
1 TGTAAGACCATATCTGGGCTATCGGCTTTGATATGTGTGATCCCA
* * * * * * *
42301546 TGTAAGACCATGTCTGGGACATGACATTGGCATTGATA--TGAGAACATCG
1 TGTAAGACCATATCTGGG-C-T---ATCGGCTTTGATATGTGTGATC-CCA
*
42301595 TGTAAGACCATAGCTGGGCTATCGGCTTTGATATGTGTGATCCCA
1 TGTAAGACCATATCTGGGCTATCGGCTTTGATATGTGTGATCCCA
*
42301640 TGTAAGACCATGTCTGGG
1 TGTAAGACCATATCTGGG
42301658 ACATGGCATT
Statistics
Matches: 86, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
44 11 0.13
45 33 0.38
46 6 0.07
47 2 0.02
48 6 0.07
49 17 0.20
50 11 0.13
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (45 bp):
TGTAAGACCATATCTGGGCTATCGGCTTTGATATGTGTGATCCCA
Found at i:42301612 original size:49 final size:49
Alignment explanation
Indices: 42301470--42301612 Score: 129
Period size: 49 Copynumber: 3.0 Consensus size: 49
42301460 CTGGGCTATC
* **
42301470 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATATATGGG
1 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
* * * * * *
42301519 -C-T---ATCGGCTTTGATATGTGTGATC-CCATGTAAGACCAT-GTCTGGG
1 ACATGACATTGGCATTGATA--TGAGAACATCGTGTAAGACCATAG-CTGGG
42301564 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
1 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
42301613 CTATCGGCTT
Statistics
Matches: 69, Mismatches: 15, Indels: 20
0.66 0.14 0.19
Matches are distributed among these distances:
44 10 0.14
45 16 0.23
46 6 0.09
47 2 0.03
48 6 0.09
49 17 0.25
50 12 0.17
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (49 bp):
ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
Found at i:42301631 original size:94 final size:94
Alignment explanation
Indices: 42301470--42301673 Score: 372
Period size: 94 Copynumber: 2.2 Consensus size: 94
42301460 CTGGGCTATC
*
42301470 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATATATGGGCTATCGGCTTTGATAT
1 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGATGGGCTATCGGCTTTGATAT
42301535 GTGTGATCCCATGTAAGACCATGTCTGGG
66 GTGTGATCCCATGTAAGACCATGTCTGGG
* *
42301564 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGGCTATCGGCTTTGATAT
1 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGATGGGCTATCGGCTTTGATAT
42301629 GTGTGATCCCATGTAAGACCATGTCTGGG
66 GTGTGATCCCATGTAAGACCATGTCTGGG
*
42301658 ACATGGCATTGGCATC
1 ACATGACATTGGCATC
42301674 AATAAGTGGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 105 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (94 bp):
ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGATGGGCTATCGGCTTTGATAT
GTGTGATCCCATGTAAGACCATGTCTGGG
Found at i:42308431 original size:18 final size:18
Alignment explanation
Indices: 42308408--42308444 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42308398 CTACCCTTTA
42308408 TTTGCATTTTTAATGTTC
1 TTTGCATTTTTAATGTTC
*
42308426 TTTGCATTTTTGATGTTC
1 TTTGCATTTTTAATGTTC
42308444 T
1 T
42308445 ACCTTAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.62
Consensus pattern (18 bp):
TTTGCATTTTTAATGTTC
Found at i:42310909 original size:94 final size:94
Alignment explanation
Indices: 42310811--42310987 Score: 302
Period size: 94 Copynumber: 1.9 Consensus size: 94
42310801 TGTGATCCTA
* *
42310811 TGTAAGACCATAGCTGGGCTA-TCGGCTTCGATATGTGTGATCCCATGTAAGACCATGACTGGGA
1 TGTAAGACCATAGCTGGGCTACT-AGCTTCAATATGTGTGATCCCATGTAAGACCATGACTGGGA
42310875 CATGGCATTGGCATCGATATGAGAACATCG
65 CATGGCATTGGCATCGATATGAGAACATCG
*
42310905 TGTAAGACCATAGCTGGGCTACTAGCTTCAATATGTGTGATCCCATGTAAGACCATGTCTGGGAC
1 TGTAAGACCATAGCTGGGCTACTAGCTTCAATATGTGTGATCCCATGTAAGACCATGACTGGGAC
*
42310970 ATGGTATTGGCATCGATA
66 ATGGCATTGGCATCGATA
42310988 AGTGGTCCTA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 77 0.99
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (94 bp):
TGTAAGACCATAGCTGGGCTACTAGCTTCAATATGTGTGATCCCATGTAAGACCATGACTGGGAC
ATGGCATTGGCATCGATATGAGAACATCG
Found at i:42310967 original size:45 final size:45
Alignment explanation
Indices: 42310766--42310960 Score: 202
Period size: 45 Copynumber: 4.2 Consensus size: 45
42310756 GAGAACATCG
*
42310766 TGTAAGACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTA
1 TGTAAGACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCCA
*
42310811 TGTAAGACCATAGCTGGGCTATCGGCTTCGATATGTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCCA
* * * * *
42310856 TGTAAGACCAT-GACTGGGAC-ATGGCATTGGCATCGATA--TGAGAACATCG
1 TGTAAGACCATAG-CTGGG-CTAT--CA---GCTTCGATATGTGTGATC-CCA
*
42310905 TGTAAGACCATAGCTGGGCTA-CTAGCTTCAATATGTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATC-AGCTTCGATATGTGTGATCCCA
42310950 TGTAAGACCAT
1 TGTAAGACCAT
42310961 GTCTGGGACA
Statistics
Matches: 123, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.07
45 73 0.59
46 7 0.06
47 2 0.02
48 6 0.05
49 18 0.15
50 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (45 bp):
TGTAAGACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCCA
Found at i:42310967 original size:139 final size:139
Alignment explanation
Indices: 42310707--42310960 Score: 456
Period size: 139 Copynumber: 1.8 Consensus size: 139
42310697 GGCATCGTTA
*
42310707 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGACTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
* *
42310772 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCAATATGTGTGATCCCATGTAAGACCATAGCTGGGCTATCGGC
42310837 TTCGATATG
131 TTCGATATG
*
42310846 TGTGATCCCATGTAAGACCATGACTGGGACATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGACTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
42310911 ACCATAGCTGGGCTA-CTAGCTTCAATATGTGTGATCCCATGTAAGACCAT
66 ACCATAGCTGGGCTATC-AGCTTCAATATGTGTGATCCCATGTAAGACCAT
42310961 GTCTGGGACA
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
138 1 0.01
139 109 0.99
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (139 bp):
TGTGATCCCATGTAAGACCATGACTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
ACCATAGCTGGGCTATCAGCTTCAATATGTGTGATCCCATGTAAGACCATAGCTGGGCTATCGGC
TTCGATATG
Found at i:42311969 original size:35 final size:35
Alignment explanation
Indices: 42311923--42312000 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
42311913 TGACACACGG
*
42311923 CTTGCCCCATGGTCGTGTGTTCTGGCCGTGTGTCC
1 CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
42311958 CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
1 CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
42311993 CTTGCACC
1 CTTGCACC
42312001 CTAATTAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.05, C:0.32, G:0.29, T:0.33
Consensus pattern (35 bp):
CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
Found at i:42331176 original size:29 final size:28
Alignment explanation
Indices: 42331126--42331183 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
42331116 ACTTTTCATT
42331126 TATTTCACATTTCAACCTCTAAGTTTGCA
1 TATTTCACATTTCAACCTCTAA-TTTGCA
42331155 TATTTCACAATTT-AATCC-CTAATTTGCA
1 TATTTCAC-ATTTCAA-CCTCTAATTTGCA
42331183 T
1 T
42331184 TTTTACGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.26
29 14 0.52
30 6 0.22
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (28 bp):
TATTTCACATTTCAACCTCTAATTTGCA
Found at i:42332958 original size:20 final size:20
Alignment explanation
Indices: 42332921--42332958 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42332911 TGATGGGGAG
*
42332921 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
42332941 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
42332959 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:42334919 original size:46 final size:46
Alignment explanation
Indices: 42334852--42335115 Score: 413
Period size: 46 Copynumber: 5.7 Consensus size: 46
42334842 AGTGTGCTCT
*
42334852 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
42334898 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
42334944 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
42334990 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
42335036 GTGATATTAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
42335082 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
42335116 CACTATGGAT
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 203 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:42337309 original size:46 final size:45
Alignment explanation
Indices: 42337256--42337431 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
42337246 TATTTGGGCA
42337256 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
42337302 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
42337349 TCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
42337395 -CCTGAGCTCGTTGAGTTGAGTCTGAGTACACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42337432 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Done.