Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 77 of 250
Found at i:24537381 original size:12 final size:12
Alignment explanation
Indices: 24537364--24537388 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24537354 CCACACACGC
24537364 CTGTGTGCTAGG
1 CTGTGTGCTAGG
24537376 CTGTGTGCTAGG
1 CTGTGTGCTAGG
24537388 C
1 C
24537389 CGTGACAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (12 bp):
CTGTGTGCTAGG
Found at i:24539267 original size:27 final size:26
Alignment explanation
Indices: 24539191--24539585 Score: 292
Period size: 27 Copynumber: 14.7 Consensus size: 26
24539181 TTAGTTTACC
* * *
24539191 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCT-AGTTTGTA
* *
24539218 AAATTA-CTAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACC-CTAGTTTGTA
24539244 AAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
* *
24539271 AAATTACCAAAATACCCATGGTTTGTG
1 AAATTACCAAAATACCC-TAGTTTGTA
*
24539298 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTAG-TTTGTA
** * *
24539325 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
* *
24539352 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATA-CCCTAGTTTGTA
* ** * *
24539379 AAGTTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
* **
24539406 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-TAGTTTGTA
*
24539433 AAATTACAAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
24539460 AAATTACCAAAATACCCCT-GATTTGTA
1 AAATTACCAAAATA-CCCTAG-TTTGTA
* * *
24539487 AAATTATCGAAATACCCTTAGTTTGCA
1 AAATTACCAAAATACCC-TAGTTTGTA
*** * *
24539514 AAATTATTGAAATACTCTCAATTTGTA
1 AAATTACCAAAATACCCT-AGTTTGTA
** * *
24539541 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACCAAAATACCCTAG-TTTGT-A
*
24539569 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
24539586 CCGATTTACA
Statistics
Matches: 297, Mismatches: 54, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
26 35 0.12
27 232 0.78
28 30 0.10
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTAGTTTGTA
Found at i:24539351 original size:81 final size:79
Alignment explanation
Indices: 24539191--24539585 Score: 346
Period size: 81 Copynumber: 4.9 Consensus size: 79
24539181 TTAGTTTACC
* * * * * *
24539191 AAATTACTAAAATGCCCTCAATTTGTAAAATTA-CTAAATACCTCTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
24539255 ATATCCCTAGTTTGTA
65 ATA-CCCTAGTTTGTA
* * * **
24539271 AAATTACCAAAATACCCATGGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
* *
24539336 ATACCCTCGACTTGTA
65 ATACCCTAG-TTTGTA
* * * ** *
24539352 AAATTACCAAAATACCCCTAATTTGTGAAGTTACTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAA
* **
24539416 AATACCCTTGGTTTACA
64 AATACCC-TAGTTTGTA
* * *
24539433 AAATTACAAAAATATCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATCGAA
1 AAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
*
24539498 ATACCCTTAGTTTGCA
65 ATACCC-TAGTTTGTA
*** * * ** *
24539514 AAATTATTGAAATACTCTCAATTTGTAAAATTACTGAAATA-CCCTCGACTTGTAAAAATTACCA
1 AAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCT-GATTTGT-AAAATTACCA
*
24539578 AAGTACCC
63 AAATACCC
24539586 CCGATTTACA
Statistics
Matches: 256, Mismatches: 49, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
80 42 0.16
81 190 0.74
82 24 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
TACCCTAGTTTGTA
Found at i:24539638 original size:27 final size:27
Alignment explanation
Indices: 24539387--24539639 Score: 108
Period size: 27 Copynumber: 9.3 Consensus size: 27
24539377 TGAAGTTACT
* ** *
24539387 GAAATACCCTCGACTTGTAAAATTACC
1 GAAATACCCTCGATTTACAAAATTATC
* * *
24539414 AAAATACCCTTGGTTTACAAAATTA-C
1 GAAATACCCTCGATTTACAAAATTATC
* * ** *
24539440 AAAAATATCCCTAG-TTTGTAAAATTACC
1 -GAAATA-CCCTCGATTTACAAAATTATC
* **
24539468 AAAATACCC-CTGATTTGTAAAATTATC
1 GAAATACCCTC-GATTTACAAAATTATC
* * *
24539495 GAAATACCCT-TAGTTTGCAAAATTATT
1 GAAATACCCTCGA-TTTACAAAATTATC
* * **
24539522 GAAATACTCTCAATTTGTAAAATTA-C
1 GAAATACCCTCGATTTACAAAATTATC
24539548 TGAAATACCCTCGACTTGTA-AAAATTA-C
1 -GAAATACCCTCGA-TT-TACAAAATTATC
* * *
24539576 CAAAGTACCCCCGATTTACAGAATTA-C
1 GAAA-TACCCTCGATTTACAAAATTATC
* ** *
24539603 CATTTTACCCTCGATTTACAAAATTATT
1 GA-AATACCCTCGATTTACAAAATTATC
24539631 GAAATACCC
1 GAAATACCC
24539640 CTGTAAGGTA
Statistics
Matches: 178, Mismatches: 33, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
26 8 0.04
27 143 0.80
28 26 0.15
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTACAAAATTATC
Found at i:24539654 original size:27 final size:27
Alignment explanation
Indices: 24539631--24539793 Score: 200
Period size: 27 Copynumber: 6.0 Consensus size: 27
24539621 CAAAATTATT
*
24539631 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
24539658 AAAATACCTCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
24539685 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
24539712 AAAATACCCTTGTAGGGAAAAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
24539739 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
24539766 GAGATACCCTTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
24539793 G
1 G
24539794 TTTTGCCCTT
Statistics
Matches: 116, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:24539709 original size:81 final size:81
Alignment explanation
Indices: 24539622--24539791 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
24539612 CTCGATTTAC
* * * * *
24539622 AAAATTATTGAAATACCCCTGTAAGGTAGAATTACCAAAATACCTCTATAGGGTAGAATTACCGA
1 AAAATTACTAAAATACCCCTGTAAGGAAAAATTACCAAAATACCCCTATAGGGTAGAATTACCGA
24539687 AATACCCTTGTAGGGT
66 AATACCCTTGTAGGGT
* * * ** *
24539703 AGAATTACTAAAATACCCTTGTAGGGAAAAATTACTGAAATACCCCTGTAGGGTAGAATTACCGA
1 AAAATTACTAAAATACCCCTGTAAGGAAAAATTACCAAAATACCCCTATAGGGTAGAATTACCGA
*
24539768 GATACCCTTGTAGGGT
66 AATACCCTTGTAGGGT
24539784 AAAATTAC
1 AAAATTAC
24539792 CGTTTTGCCC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGTAAGGAAAAATTACCAAAATACCCCTATAGGGTAGAATTACCGA
AATACCCTTGTAGGGT
Found at i:24540031 original size:25 final size:25
Alignment explanation
Indices: 24539997--24540091 Score: 172
Period size: 25 Copynumber: 3.8 Consensus size: 25
24539987 AGGAAGTGCT
*
24539997 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
24540022 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
24540047 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
24540072 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
24540092 ATTAAAAGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:24540104 original size:24 final size:25
Alignment explanation
Indices: 24539997--24540104 Score: 127
Period size: 25 Copynumber: 4.4 Consensus size: 25
24539987 AGGAAGTGCT
*
24539997 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
*
24540021 GAAAAG-GGCTTTGCCCCAGTTTACC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
24540046 AAAA-AGGGCTTTGCCCCAGTTTATC
1 AAAAGA-GGCTTTGCCCCAGTTTATC
*
24540071 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
24540095 AAAAGAGGCT
1 AAAAGAGGCT
24540105 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
24 16 0.21
25 62 0.79
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:24540347 original size:31 final size:30
Alignment explanation
Indices: 24540312--24540394 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
24540302 CGTTTACAGT
*
24540312 AAAGGCTTCGGCCCAGTGATATGATT-TATGA
1 AAAGGCTTCGGCCCAGT-ATATG-TTAAATGA
*
24540343 AAAGGCTTCGGCCCAGTA-ACAGTTAAATGA
1 AAAGGCTTCGGCCCAGTATA-TGTTAAATGA
24540373 AAA-GCTTCGGCCCAGTATATGT
1 AAAGGCTTCGGCCCAGTATATGT
24540395 CGAGACTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 19 0.41
30 10 0.22
31 17 0.37
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGTTAAATGA
Found at i:24542316 original size:27 final size:27
Alignment explanation
Indices: 24542278--24542626 Score: 298
Period size: 27 Copynumber: 12.9 Consensus size: 27
24542268 TTAGTTTACC
* *
24542278 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
24542305 AAATTACTAAAATACCC-CTAGTTTGTT
1 AAATTACTAAAATACCCTCGA-TTTGTA
* *
24542332 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTA
* *
24542359 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
24542386 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTA
* * *
24542413 AAGTTACTAAAATACCTTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * **
24542440 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
24542467 AAATTACCAAAATATCCCTAG-TTTATA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* *
24542494 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACTAAAATACCCTC-GATTTGTA
*
24542521 AAATTA-TCAAAATACCCT-TAGTTTGTA
1 AAATTACT-AAAATACCCTCGA-TTTGTA
* *
24542548 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
24542575 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTAAAATACCCTCGATTTGT-A
* * *
24542603 AAATTACCAAAGTACCCCCGATTT
1 AAATTACTAAAATACCCTCGATTT
24542627 ACAGAATTAC
Statistics
Matches: 264, Mismatches: 44, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
26 8 0.03
27 226 0.86
28 30 0.11
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:24542637 original size:27 final size:27
Alignment explanation
Indices: 24542604--24542743 Score: 79
Period size: 27 Copynumber: 5.2 Consensus size: 27
24542594 GACTTGTAAA
24542604 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** * *
24542631 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCAAAGTACCCCCGATTTACAG
** * * **
24542658 AATTATTGAAA-TACCTCTGTAGGGT--AG
1 AATTA-CCAAAGTACCCCCG-A-TTTACAG
*
24542685 AATTACCGAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** * *
24542712 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCAAAGTACCCCCGATTTACAG
24542739 AATTA
1 AATTA
24542744 TTAAAATACC
Statistics
Matches: 79, Mismatches: 28, Indels: 12
0.66 0.24 0.10
Matches are distributed among these distances:
25 1 0.01
26 3 0.04
27 72 0.91
28 2 0.03
29 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:24542714 original size:81 final size:81
Alignment explanation
Indices: 24542604--24542781 Score: 329
Period size: 81 Copynumber: 2.2 Consensus size: 81
24542594 GACTTGTAAA
* *
24542604 AATTACCAAAGTACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATTGAAA
1 AATTACCGAAGTACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAA
24542669 TACCTCTGTAGGGTAG
66 TACCTCTGTAGGGTAG
24542685 AATTACCGAAGTACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAA
1 AATTACCGAAGTACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAA
24542750 TACCTCTGTAGGGTAG
66 TACCTCTGTAGGGTAG
*
24542766 AATTACCGAAATACCC
1 AATTACCGAAGTACCC
24542782 TTGTAGGGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (81 bp):
AATTACCGAAGTACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAA
TACCTCTGTAGGGTAG
Found at i:24542795 original size:81 final size:81
Alignment explanation
Indices: 24542629--24542890 Score: 255
Period size: 81 Copynumber: 3.2 Consensus size: 81
24542619 CCCGATTTAC
*
24542629 AGAATTACCATTTTACCCTCGATTTACAAAATTATTGAAATACCTCTGTAGGGTAGAATTACCGA
1 AGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAATACCTCTGTAGGGTAGAATTACCGA
* ** **
24542694 AGTACCCCCG-A-TTT
66 AATACCCTTGTAGGGT
24542708 ACAGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAATACCTCTGTAGGGTAGAATTACC
1 --AGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAATACCTCTGTAGGGTAGAATTACC
24542773 GAAATACCCTTGTAGGGT
64 GAAATACCCTTGTAGGGT
* ** * ** * * * * *
24542791 AGAATTACTGA-AATACCCTTGTAGGGT--AGAGTTACTAAAACACCCCTGTAGGGTAGAATTAC
1 AGAATTAC-CATTTTACCCTCG-A-TTTACAAAATTATTAAAATACCTCTGTAGGGTAGAATTAC
* *
24542853 CGAGATACCCTTGTGGGGT
63 CGAAATACCCTTGTAGGGT
* *
24542872 AAAATTACCATTTTGCCCT
1 AGAATTACCATTTTACCCT
24542891 TTGGGTGTTA
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 145 0.96
82 3 0.02
83 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTATTAAAATACCTCTGTAGGGTAGAATTACCGA
AATACCCTTGTAGGGT
Found at i:24542880 original size:27 final size:27
Alignment explanation
Indices: 24542747--24542880 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
24542737 AAAATTATTA
24542747 AAATA-CCTCTGTAGGGTAGAATTACCG
1 AAATACCCT-TGTAGGGTAGAATTACCG
*
24542774 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
* **
24542801 AAATACCCTTGTAGGGTAGAGTTACTA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
24542828 AAACACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
24542855 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
24542881 ATTTTGCCCT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 90 0.97
28 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:24542890 original size:27 final size:28
Alignment explanation
Indices: 24542860--24542922 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
24542850 TACCGAGATA
*
24542860 CCCTTGTGGG-GTAAAATTACCATTTTG
1 CCCTTGTGGGTGTAAAATGACCATTTTG
* ***
24542887 CCCTT-TGGGTGTTAAATGATTGTTTTG
1 CCCTTGTGGGTGTAAAATGACCATTTTG
24542914 CCCTTGTGG
1 CCCTTGTGG
24542923 CCAAGTGACA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 4 0.14
27 22 0.76
28 3 0.10
ACGTcount: A:0.16, C:0.17, G:0.25, T:0.41
Consensus pattern (28 bp):
CCCTTGTGGGTGTAAAATGACCATTTTG
Found at i:24543119 original size:25 final size:25
Alignment explanation
Indices: 24543085--24543205 Score: 163
Period size: 25 Copynumber: 4.8 Consensus size: 25
24543075 AGGAAGTGTT
* *
24543085 AAAAGGGCTTTTCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
24543110 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
24543135 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
24543160 AAAAGGGCTTTTTACCCCAGTTTATCA
1 AAAAGGGC--TTTGCCCCAGTTTACCA
24543187 AAAAGGG-TTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
24543206 ATTAAAAGAG
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
24 11 0.13
25 54 0.62
27 22 0.25
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:24543162 original size:50 final size:51
Alignment explanation
Indices: 24543085--24543205 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 51
24543075 AGGAAGTGTT
* *
24543085 AAAAGGGCTTTTCCCCAGTTTACCGAAAAGGGC-TTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTTACCCCAGTTTACCA
* *
24543135 AAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTTTTTACCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGC-TTTTACCCCAGTTTACCA
24543187 AAAAGGG-TTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
24543206 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 31 0.48
51 12 0.18
52 22 0.34
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTTACCCCAGTTTACCA
Found at i:24545362 original size:27 final size:27
Alignment explanation
Indices: 24545331--24545752 Score: 347
Period size: 27 Copynumber: 15.6 Consensus size: 27
24545321 TAGTTTACCC
* *
24545331 AATTACTAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* *
24545358 AATTACCAAAATACTCGT-GGTTTGTAA
1 AATTACCAAAATAC-CCTCGATTTGTAA
*
24545385 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* * *
24545412 AATTGCCAAAATACCC-CTAGTTTGTGA
1 AATTACCAAAATACCCTCGA-TTTGTAA
*
24545439 AATTACCAAAATACCC-CTAATTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
** *
24545466 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
24545493 AATTACCAAAATACCC-CTGATTTGTGA
1 AATTACCAAAATACCCTC-GATTTGTAA
** *
24545520 AATTACTTAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * **
24545547 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTCGATTTGTAA
24545574 AATTACCAAAATACCC-CTGATTTGTAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* *
24545601 AATTATCGAAATACCCTC-AGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
* **
24545628 AATTACTAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
** * * *
24545655 AATTACTGAAATACCTTAGACTTGTAAA
1 AATTACCAAAATACCCTCGATTTGT-AA
* ** *
24545683 AATTACCAAAGTACCC-CTGATTTACAG
1 AATTACCAAAATACCCTC-GATTTGTAA
* * **
24545710 AATTACCATATTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTGTAA
**
24545737 AATTATTAAAATACCC
1 AATTACCAAAATACCC
24545753 CTGTAGGGTA
Statistics
Matches: 318, Mismatches: 62, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.01
27 289 0.91
28 26 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTGTAA
Found at i:24545767 original size:27 final size:27
Alignment explanation
Indices: 24545745--24545905 Score: 205
Period size: 27 Copynumber: 6.0 Consensus size: 27
24545735 AAAATTATTA
*
24545745 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
24545772 AAATACCCCTATAGGTTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
24545799 AAATACCCTTGTAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
24545826 AAATACCCTTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
24545853 AAATACCCCTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
24545880 AGATACCCTTGTGGGGTAAAATTACT
1 AAATACCCCTGTAGGGTAGAATTACT
24545906 ATTTTGCCCT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:24545889 original size:54 final size:54
Alignment explanation
Indices: 24545745--24545905 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
24545735 AAAATTATTA
* *
24545745 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGTTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAATTACTG
* * *
24545799 AAATACCCTTGTAAGGTAGAATTACTGAAATACCCTTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAATTACTG
* * * * *
24545853 AAATACCCCTGTAGGGTAAAATTACCGAGATACCCTTGTGGGGTAAAATTACT
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAATTACT
24545906 ATTTTGCCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAATTACTG
Found at i:24545915 original size:27 final size:27
Alignment explanation
Indices: 24545885--24545948 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
24545875 TACCGAGATA
*
24545885 CCCTTGTGGGGTAAAATTACTATTTTG
1 CCCTTGTGGGGTAAAATGACTATTTTG
* * *
24545912 CCCTTAG-GGTGTTAAATGATTATTTTG
1 CCCTT-GTGGGGTAAAATGACTATTTTG
24545939 CCCTTGTGGG
1 CCCTTGTGGG
24545949 CAAGTGACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.03
27 28 0.93
28 1 0.03
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.41
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACTATTTTG
Found at i:24546144 original size:25 final size:25
Alignment explanation
Indices: 24546110--24546179 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
24546100 AAGAAGTGCT
*
24546110 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
24546135 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
24546160 AAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTTTGCCCCAGTT
24546180 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:24547080 original size:21 final size:19
Alignment explanation
Indices: 24547055--24547122 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
24547045 GACTTTCAAT
24547055 TCAAAGCTTCATAACTTATA
1 TCAAA-CTTCATAACTTATA
*
24547075 TGCAAACTTCATAACTT-CA
1 T-CAAACTTCATAACTTATA
24547094 T--AACTTCATAACTTATA
1 TCAAACTTCATAACTTATA
24547111 TTCAAAGCTTCA
1 -TCAAA-CTTCA
24547123 ATTTATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 13 0.32
17 1 0.03
18 1 0.03
19 2 0.05
20 14 0.35
21 9 0.22
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.35
Consensus pattern (19 bp):
TCAAACTTCATAACTTATA
Found at i:24547092 original size:8 final size:8
Alignment explanation
Indices: 24547079--24547107 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24547069 CTTATATGCA
24547079 AACTTCAT
1 AACTTCAT
24547087 AACTTCAT
1 AACTTCAT
24547095 AACTTCAT
1 AACTTCAT
24547103 AACTT
1 AACTT
24547108 ATATTCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (8 bp):
AACTTCAT
Found at i:24547357 original size:40 final size:40
Alignment explanation
Indices: 24547255--24547393 Score: 172
Period size: 40 Copynumber: 3.4 Consensus size: 40
24547245 CGAATTCTCA
**
24547255 CACACTAAGTGCCAATACATAGCCGAAGCTAT-TTTAATCTTG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAATC--G
* * * *
24547297 CATAGTAAGTGTCATACATAGCTGAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
*
24547337 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATTG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
*
24547377 CACACGAAGTGCCATAC
1 CACACTAAGTGCCATAC
24547394 GTAATCAAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 52 0.62
41 17 0.20
42 15 0.18
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
Found at i:24551326 original size:42 final size:43
Alignment explanation
Indices: 24551220--24551376 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
24551210 TGTGTTATCG
* * * **
24551220 TGTAAGACCACGTCTGGGACATTGGCATCGAT-TGAAGATCTACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATAT-ATGAT-TATA
* * *
24551264 TATAAGACCATATCTGGGACATTGGCATCG-TATATGATT-TCA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTAT-A
* * * *
24551306 TGTAAGACCTTGTCTAGGACAGTGGCATTGATATTTGATTATA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTATA
* *
24551349 TGTAAGAGCACGTCTAGGACATTGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
24551377 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 25 0.27
43 38 0.41
44 29 0.32
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTATA
Found at i:24555792 original size:39 final size:39
Alignment explanation
Indices: 24555682--24555905 Score: 220
Period size: 39 Copynumber: 5.6 Consensus size: 39
24555672 GCTACTCGTT
* * **
24555682 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* * *
24555722 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
* * *
24555762 CAAATGCCCTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
24555801 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
24555840 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
24555881 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
24555906 CATCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 74 0.47
40 73 0.46
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:24555859 original size:79 final size:79
Alignment explanation
Indices: 24555682--24555905 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 79
24555672 GCTACTCGTT
* * * ** * *
24555682 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24555747 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
24555762 CAAATGCCCTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCAGGACTTAGCCCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCG
*
24555824 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * *
24555840 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCAGGA-CTTAGCCCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCC
24555903 GGA
63 GGA
24555906 CATCATTCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
77 2 0.02
78 34 0.28
79 53 0.43
80 33 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCAGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:24563585 original size:40 final size:40
Alignment explanation
Indices: 24563536--24563766 Score: 158
Period size: 40 Copynumber: 5.9 Consensus size: 40
24563526 CAGAATTTAA
** *
24563536 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* * *
24563576 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * *
24563616 CCGGATTTAGTAACTCGGCACAAATGCTTTCGGG-CTTAGC
1 CCGGATATAGTAACTC-GCACAAATGCCTTCGGGACATAAC
* *
24563656 CCGGA-AT--TAATCTCGCACAAATGCCTTC--GACTTAGC
1 CCGGATATAGTAA-CTCGCACAAATGCCTTCGGGACATAAC
* * * **
24563692 CCGGA-ATTAGTATCTCGCACAAATTCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * *
24563732 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGAC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGAC
24563767 TTAGCCCAGA
Statistics
Matches: 158, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
35 1 0.01
36 12 0.08
37 17 0.11
38 19 0.12
39 6 0.04
40 76 0.48
41 27 0.17
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:24563736 original size:76 final size:77
Alignment explanation
Indices: 24563555--24563723 Score: 200
Period size: 76 Copynumber: 2.2 Consensus size: 77
24563545 GCTACTCGTT
* * *
24563555 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAA-CTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGG--A-ATTAATCTCGCACAAATGCCTTC-GGACTTAACCCG
*
24563619 GATTTAGTAACTCGGCA
61 GAATTAGTAACTCGGCA
* *
24563636 CAAATGCTTTCGGGCTTAGCCCGGAATTAATCTCGCACAAATGCCTTC-GACTTAGCCCGGAATT
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAATCTCGCACAAATGCCTTCGGACTTAACCCGGAATT
*
24563700 AGTATCTC-GCA
66 AGTAACTCGGCA
*
24563711 CAAATTCCTTCGG
1 CAAATGCCTTCGG
24563724 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
75 14 0.18
76 21 0.27
77 4 0.05
78 17 0.22
80 9 0.12
81 13 0.17
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAATCTCGCACAAATGCCTTCGGACTTAACCCGGAATT
AGTAACTCGGCA
Found at i:24580873 original size:26 final size:26
Alignment explanation
Indices: 24580844--24580896 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
24580834 TCCAATTCAG
24580844 GTACATTTGAAATGTTTATCATGTTT
1 GTACATTTGAAATGTTTATCATGTTT
*
24580870 GTACGTTTGAAATGTTTATCATGTTT
1 GTACATTTGAAATGTTTATCATGTTT
24580896 G
1 G
24580897 AGAATGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.49
Consensus pattern (26 bp):
GTACATTTGAAATGTTTATCATGTTT
Found at i:24581152 original size:10 final size:10
Alignment explanation
Indices: 24581137--24581168 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
24581127 TATTGGAAGC
24581137 TCGAGGATCA
1 TCGAGGATCA
*
24581147 TTGAGGATCA
1 TCGAGGATCA
24581157 TCGAGGATCA
1 TCGAGGATCA
24581167 TC
1 TC
24581169 ACCACACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (10 bp):
TCGAGGATCA
Found at i:24586708 original size:33 final size:33
Alignment explanation
Indices: 24586614--24586737 Score: 162
Period size: 33 Copynumber: 3.8 Consensus size: 33
24586604 CATTTGGGTC
24586614 TAGTTAGTTTCATCATTTTAGATATGGCATGTA
1 TAGTTAGTTTCATCATTTTAGATATGGCATGTA
** * * * *
24586647 TAGGGACTTT-GTC-TTTTTGTTATTTGGCATGTA
1 TAGTTAGTTTCATCATTTTAG--ATATGGCATGTA
24586680 TAGTTAGTTTCATCATTTTAGATATGGCATGTA
1 TAGTTAGTTTCATCATTTTAGATATGGCATGTA
24586713 TAGTTAGTTTCATCATTTTAGATAT
1 TAGTTAGTTTCATCATTTTAGATAT
24586738 TATTATGGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
31 5 0.07
32 2 0.03
33 61 0.81
34 2 0.03
35 5 0.07
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.48
Consensus pattern (33 bp):
TAGTTAGTTTCATCATTTTAGATATGGCATGTA
Found at i:24592102 original size:40 final size:40
Alignment explanation
Indices: 24592028--24592246 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
24592018 AACCCAAGTA
* *
24592028 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
24592067 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
24592107 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAAAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
24592147 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
24592187 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACCAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
24592226 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
24592247 GTCATCCGAA
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 33 0.20
40 127 0.79
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24598570 original size:328 final size:328
Alignment explanation
Indices: 24597973--24598628 Score: 1294
Period size: 328 Copynumber: 2.0 Consensus size: 328
24597963 AGCGATCATG
24597973 GAATCTACAACTCCCCGAATGCCATTTACCATAATACTGGCACTCTGTTCTGTCTCGACGATCAT
1 GAATCTACAACTCCCCGAATGCCATTTACCATAATACTGGCACTCTGTTCTGTCTCGACGATCAT
24598038 TTCCAACACTGGCAACCGAAGCGACTCGTGTACTCACAGGGGGTCGATCACGATCTCTTCTAGAA
66 TTCCAACACTGGCAACCGAAGCGACTCGTGTACTCACAGGGGGTCGATCACGATCTCTTCTAGAA
24598103 AAGCCCGAAGTGCCTTTAGATCGGCCTGAATCATCTCTAAATTTCTTCGATGACTGTTGAAAGGG
131 AAGCCCGAAGTGCCTTTAGATCGGCCTGAATCATCTCTAAATTTCTTCGATGACTGTTGAAAGGG
24598168 CTTCCCCGAAGATCTCTTACGAAACTCCTTTGCTCCCATATCAGCTTTTCTTTTCTCCTTACTAA
196 CTTCCCCGAAGATCTCTTACGAAACTCCTTTGCTCCCATATCAGCTTTTCTTTTCTCCTTACTAA
24598233 GCTCTTCGGCTTTGCAAGCTCGCTCGACAAGTACCACAAATTCTCTGATTTCCAAAATGCCAACA
261 GCTCTTCGGCTTTGCAAGCTCGCTCGACAAGTACCACAAATTCTCTGATTTCCAAAATGCCAACA
24598298 CAC
326 CAC
24598301 GAATCTACAACTCCCCGAATGCCATTTACCATAATACTGGCACTCTGTTCTGTCTCGACGATCAT
1 GAATCTACAACTCCCCGAATGCCATTTACCATAATACTGGCACTCTGTTCTGTCTCGACGATCAT
*
24598366 TTCCAACACTGGCAACCGAAGCGACTCGTGTACTCACAGGGGGTCTATCACGATCTCTTCTAGAA
66 TTCCAACACTGGCAACCGAAGCGACTCGTGTACTCACAGGGGGTCGATCACGATCTCTTCTAGAA
24598431 AAGCCCGAAGTGCCTTTAGATCGGCCTGAATCATCTCTAAATTTCTTCGATGACTGTTGAAAGGG
131 AAGCCCGAAGTGCCTTTAGATCGGCCTGAATCATCTCTAAATTTCTTCGATGACTGTTGAAAGGG
24598496 CTTCCCCGAAGATCTCTTACGAAACTCCTTTGCTCCCATATCAGCTTTTCTTTTCTCCTTACTAA
196 CTTCCCCGAAGATCTCTTACGAAACTCCTTTGCTCCCATATCAGCTTTTCTTTTCTCCTTACTAA
*
24598561 GCTCTTCGGCTTTGCAAGCTCGCTCGACAAGTACCACAAATTCTCTGATTTCTAAAATGCCAACA
261 GCTCTTCGGCTTTGCAAGCTCGCTCGACAAGTACCACAAATTCTCTGATTTCCAAAATGCCAACA
24598626 CAC
326 CAC
24598629 AATTTTATAT
Statistics
Matches: 326, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
328 326 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (328 bp):
GAATCTACAACTCCCCGAATGCCATTTACCATAATACTGGCACTCTGTTCTGTCTCGACGATCAT
TTCCAACACTGGCAACCGAAGCGACTCGTGTACTCACAGGGGGTCGATCACGATCTCTTCTAGAA
AAGCCCGAAGTGCCTTTAGATCGGCCTGAATCATCTCTAAATTTCTTCGATGACTGTTGAAAGGG
CTTCCCCGAAGATCTCTTACGAAACTCCTTTGCTCCCATATCAGCTTTTCTTTTCTCCTTACTAA
GCTCTTCGGCTTTGCAAGCTCGCTCGACAAGTACCACAAATTCTCTGATTTCCAAAATGCCAACA
CAC
Found at i:24600929 original size:40 final size:40
Alignment explanation
Indices: 24600855--24601033 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
24600845 AACCCAAGTA
* *
24600855 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
24600894 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
24600934 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
24600974 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
24601013 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
24601034 GTCATCCGAA
Statistics
Matches: 132, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 36 0.27
40 93 0.70
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:24604793 original size:19 final size:19
Alignment explanation
Indices: 24604771--24604808 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24604761 CTTATAATTC
24604771 CATAAAT-AATATATACCTT
1 CATAAATAAATAT-TACCTT
*
24604790 CATACATAAATATTACCTT
1 CATAAATAAATATTACCTT
24604809 GGCTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (19 bp):
CATAAATAAATATTACCTT
Found at i:24605669 original size:12 final size:12
Alignment explanation
Indices: 24605652--24605676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24605642 AAATTAAACT
24605652 TATTTAATCAAA
1 TATTTAATCAAA
24605664 TATTTAATCAAA
1 TATTTAATCAAA
24605676 T
1 T
24605677 TCATCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTTAATCAAA
Found at i:24610072 original size:55 final size:53
Alignment explanation
Indices: 24609946--24610131 Score: 142
Period size: 55 Copynumber: 3.5 Consensus size: 53
24609936 TTACCATTGT
* *
24609946 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATCC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATCC
* * * * **
24609999 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAGTGT
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATCC
* * *** * * * * *
24610054 GATGTCTTGACATAGTCTTACATGATTTCCTTACCTTATATAACTTATCAATAC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-GAACTCACCAATCC
*
24610108 CATG-CATTGGCATGGTCTTACATG
1 CATGTC-TTGACATGGTCTTACATG
24610132 ATATCCTTAT
Statistics
Matches: 104, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
52 2 0.02
53 33 0.32
54 29 0.28
55 38 0.37
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATCC
Found at i:24610171 original size:47 final size:47
Alignment explanation
Indices: 24610118--24610362 Score: 238
Period size: 47 Copynumber: 5.6 Consensus size: 47
24610108 CATGCATTGG
* **
24610118 CATGGTCTTACATGATATCCTTATCTTACCAAATTTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
24610165 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* * **
24610212 CATGGTCTTACATGGTATCC---TGTT-CCAAA---CATGGT-CTTA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
24610251 CATGG----------TATCCTTGTCTTACCAAATGCCGTGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
24610288 CATGGTTTTACATGGTATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
24610335 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
24610363 GTGCCAATGC
Statistics
Matches: 164, Mismatches: 16, Indels: 36
0.76 0.07 0.17
Matches are distributed among these distances:
29 5 0.03
32 3 0.02
33 5 0.03
36 4 0.02
37 7 0.04
39 7 0.04
40 5 0.03
43 5 0.03
44 3 0.02
47 120 0.73
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:24610220 original size:29 final size:28
Alignment explanation
Indices: 24610187--24610251 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
24610177 TGGTATCCTT
24610187 GTCTTACCA-AATGCCATGTTCCAAACATG
1 GTCTTACCAGAAT-CC-TGTTCCAAACATG
*
24610216 GTCTTA-CATGGTATCCTGTTCCAAACATG
1 GTCTTACCA--GAATCCTGTTCCAAACATG
24610245 GTCTTAC
1 GTCTTAC
24610252 ATGGTATCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 2 0.06
29 25 0.81
30 2 0.06
31 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (28 bp):
GTCTTACCAGAATCCTGTTCCAAACATG
Found at i:24610252 original size:29 final size:29
Alignment explanation
Indices: 24610203--24610261 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24610193 CCAAATGCCA
24610203 TGTTCCAAACATGGTCTTACATGGTATCC
1 TGTTCCAAACATGGTCTTACATGGTATCC
24610232 TGTTCCAAACATGGTCTTACATGGTATCC
1 TGTTCCAAACATGGTCTTACATGGTATCC
24610261 T
1 T
24610262 TGTCTTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (29 bp):
TGTTCCAAACATGGTCTTACATGGTATCC
Found at i:24610267 original size:76 final size:76
Alignment explanation
Indices: 24610156--24610308 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
24610146 CCAAATTTCA
24610156 TGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
1 TGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
24610221 ACATGGTATCC
66 ACATGGTATCC
* *
24610232 TGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCGTGTTCCAAACATGGTTTT
1 TGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
24610297 ACATGGTATCC
66 ACATGGTATCC
24610308 T
1 T
24610309 TGTCTTACCA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (76 bp):
TGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
ACATGGTATCC
Found at i:24610337 original size:123 final size:123
Alignment explanation
Indices: 24610118--24610355 Score: 413
Period size: 123 Copynumber: 1.9 Consensus size: 123
24610108 CATGCATTGG
**
24610118 CATGGTCTTACATGATATCCTTATCTTACCAAATTTCATGTTCCAAACATGGTCTTACATGGTAT
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTAT
24610183 CCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTGTTCCAAA
66 CCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTGTTCCAAA
* * * *
24610241 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCGTGTTCCAAACATGGTTTTACATGGTAT
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTAT
*
24610306 CCTTGTCTTACCAAATTCCATGTTCCAAACATGGTCTTACATGGTATCCT
66 CCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCT
24610356 TGTCTTAGTG
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 108 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (123 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTAT
CCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTGTTCCAAA
Found at i:24611155 original size:29 final size:30
Alignment explanation
Indices: 24611126--24611182 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
24611116 CTAACTCAAA
24611126 CTTTAAAAAAATTACGA-TTTTCCCCTAAAC
1 CTTT-AAAAAATTACGATTTTTCCCCTAAAC
** *
24611156 CTTTGTAGAATTACGATTTTTCCCCTA
1 CTTTAAAAAATTACGATTTTTCCCCTA
24611183 GGCTCGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
CTTTAAAAAATTACGATTTTTCCCCTAAAC
Found at i:24612297 original size:31 final size:31
Alignment explanation
Indices: 24612262--24612325 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
24612252 ACTTTTCATA
24612262 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
* ***
24612293 TTTCATATTTCTTGTTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
24612324 TT
1 TT
24612326 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:24612567 original size:25 final size:26
Alignment explanation
Indices: 24612544--24612630 Score: 85
Period size: 25 Copynumber: 3.5 Consensus size: 26
24612534 GCCTCTTTTA
24612544 ATAACTGGGGCAAAAGCCCTTTT-TG
1 ATAACTGGGGCAAAAGCCCTTTTCTG
** *
24612569 ATAAAC-ACGGCAAAAGCCCTTTTCGGG
1 AT-AACTGGGGCAAAAGCCCTTTTC-TG
*
24612596 A-AACTGGGACAAAA-CCCTTTTCT-
1 ATAACTGGGGCAAAAGCCCTTTTCTG
24612619 ATAACTGGGGCA
1 ATAACTGGGGCA
24612631 TAGCCCATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.02
24 9 0.18
25 28 0.57
26 9 0.18
27 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (26 bp):
ATAACTGGGGCAAAAGCCCTTTTCTG
Found at i:24623385 original size:25 final size:26
Alignment explanation
Indices: 24623370--24623465 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
24623360 CTCTTTTAAT
*
24623370 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
24623396 AACTGGGGGAAAAGCCCTTTTCGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
24623422 AACTAGGGC-AAAGCCCTTTTCTG-T-
1 AACTGGGGCAAAAGCCCTTTTC-GATA
*
24623446 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
24623466 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
24 18 0.29
25 13 0.21
26 32 0.51
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:24629078 original size:43 final size:41
Alignment explanation
Indices: 24628984--24629100 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 41
24628974 GATTTGAGAT
* * *
24628984 TTACATGTAAGAACTGTCTGGGAC-ATCGGTATTGTATATGA
1 TTACATGTAAGACCTGTCTGGGACAAT-GGCATCGTATATGA
* * *
24629025 TTTCGTGTAAGACCTTGTCTGGGACAATGGCATCGATATTTGA
1 TTACATGTAAGACC-TGTCTGGGACAATGGCATCG-TATATGA
* * *
24629068 TTACATGTAAGACCACGTCTGAGACATTGGCAT
1 TTACATGTAAGACC-TGTCTGGGACAATGGCAT
24629101 TGTACGAGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 11 0.18
42 15 0.25
43 35 0.57
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
TTACATGTAAGACCTGTCTGGGACAATGGCATCGTATATGA
Found at i:24632547 original size:81 final size:81
Alignment explanation
Indices: 24632410--24632660 Score: 333
Period size: 81 Copynumber: 3.1 Consensus size: 81
24632400 TGGGCCATGT
* * *
24632410 ATGACTGAAATAACCCCATAGGGTAAAATGACCGAAATACCCCTATAGGGTGAAATGACTGAAAT
1 ATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGAGTAAAATGACTGAAAT
** *
24632475 ACCCCCATAAGGTGAA
66 ACCCCTGTAAGGTAAA
* *
24632491 ATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGAGTAAAATGACCGAAAT
1 ATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGAGTAAAATGACTGAAAT
*
24632556 ACCCCTGTAGGGTAAA
66 ACCCCTGTAAGGTAAA
* ** ** * * *
24632572 ATGACCGAAATACCCCTTTAGGGTAAAATGATTGAAATACCCCTGTA-AGATAAAATAACTGTAA
1 ATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGAG-TAAAATGACTGAAA
24632636 TACCCCTGTAAGGTAAA
65 TACCCCTGTAAGGTAAA
24632653 ATGACTGA
1 ATGACTGA
24632661 TTTGCCCTAT
Statistics
Matches: 148, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 2 0.01
81 146 0.99
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (81 bp):
ATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAGAGTAAAATGACTGAAAT
ACCCCTGTAAGGTAAA
Found at i:24632608 original size:27 final size:27
Alignment explanation
Indices: 24632410--24632660 Score: 297
Period size: 27 Copynumber: 9.3 Consensus size: 27
24632400 TGGGCCATGT
24632410 ATGACTGAAATAACCCC-ATAGGGTAAA
1 ATGACTGAAAT-ACCCCTATAGGGTAAA
* *
24632437 ATGACCGAAATACCCCTATAGGGTGAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* * *
24632464 ATGACTGAAATACCCCCATAAGGTGAA
1 ATGACTGAAATACCCCTATAGGGTAAA
*
24632491 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* * *
24632518 ATGACCGAAATACCCCCATAGAGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* *
24632545 ATGACCGAAATACCCCTGTAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* *
24632572 ATGACCGAAATACCCCTTTAGGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* * * *
24632599 ATGATTGAAATACCCCTGTAAGATAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
* * * *
24632626 ATAACTGTAATACCCCTGTAAGGTAAA
1 ATGACTGAAATACCCCTATAGGGTAAA
24632653 ATGACTGA
1 ATGACTGA
24632661 TTTGCCCTAT
Statistics
Matches: 199, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 5 0.03
27 194 0.97
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
ATGACTGAAATACCCCTATAGGGTAAA
Found at i:24632848 original size:36 final size:36
Alignment explanation
Indices: 24632803--24632873 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
24632793 GTACTGATAT
* * *
24632803 GGTTACACGGGTCGCCCAAGACGACTGTGGACCTAA
1 GGTTACACGGGTCACCCAAGACAACTATGGACCTAA
* *
24632839 GGTTGCACGGGTCACCCAAGGCAACTATGGACCTA
1 GGTTACACGGGTCACCCAAGACAACTATGGACCTA
24632874 CTGATGACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (36 bp):
GGTTACACGGGTCACCCAAGACAACTATGGACCTAA
Found at i:24640884 original size:40 final size:40
Alignment explanation
Indices: 24640827--24641051 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
24640817 CTAACGGGGT
* * * * *
24640827 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
24640867 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
24640907 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
24640947 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
24640987 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* *
24641027 TAAGACCC-AACGGC-CTTGTGCGAGT
1 TAAGTCCCGAA-GGCATTTGTGCGAGT
24641052 GGTTATATTC
Statistics
Matches: 172, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 13 0.08
40 159 0.92
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:24643202 original size:17 final size:16
Alignment explanation
Indices: 24643169--24643202 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24643159 GCAAATAACT
*
24643169 CAATTAATCCTTCAAG
1 CAATTAATCCATCAAG
24643185 CAATTAATCCAATCAAG
1 CAATTAATCC-ATCAAG
24643202 C
1 C
24643203 TAGACAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
CAATTAATCCATCAAG
Found at i:24647025 original size:43 final size:43
Alignment explanation
Indices: 24646889--24647059 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
24646879 ATATGATTCT
* * * *
24646889 GATATGTGATTTCGTGTAAGACCATGTCT-GAGACGTTGGCGTC
1 GATATTTGATTTCATGTAAGACCATGTCTAG-GACATTGGCATC
* * *
24646932 GAT-TTGAGATTTACATGTAAGACCATGTCTAGGACATCGGTATC
1 GATATT-TGATTT-CATGTAAGACCATGTCTAGGACATTGGCATC
* *
24646976 G-TATTTGATTTCGTGTAAGACCCTGTCTAGGACATTGGCATC
1 GATATTTGATTTCATGTAAGACCATGTCTAGGACATTGGCATC
* * * * *
24647018 GATATTTGATTACATGTAAGACAACGTCTGGGACGTTGGCAT
1 GATATTTGATTTCATGTAAGACCATGTCTAGGACATTGGCAT
24647060 TGTACGAGTT
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 29 0.28
43 47 0.45
44 27 0.26
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATATTTGATTTCATGTAAGACCATGTCTAGGACATTGGCATC
Found at i:24648999 original size:40 final size:40
Alignment explanation
Indices: 24648901--24649163 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
24648891 TCCTCGTTCA
* * * * *
24648901 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
24648940 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24648980 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24649020 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24649060 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24649100 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24649140 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24649164 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 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:24656524 original size:40 final size:40
Alignment explanation
Indices: 24656426--24656688 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
24656416 TCCTCGTTCA
* * * * *
24656426 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
24656465 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24656505 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24656545 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24656585 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24656625 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24656665 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24656689 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 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:24663188 original size:43 final size:43
Alignment explanation
Indices: 24663140--24663297 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
24663130 GTTACCTAGA
*
24663140 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* *
24663183 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATCAT-TAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT--TGTAT
* * * * * *
24663227 T-CGATTTCATGCAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
**
24663268 ATGTGACGACATGTAAGACCATATCTGGGA
1 -TGTGATTACATGTAAGACCATATCTGGGA
24663298 TATGGCTTTG
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 87 0.92
44 4 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:24665685 original size:42 final size:43
Alignment explanation
Indices: 24665624--24665772 Score: 123
Period size: 40 Copynumber: 3.6 Consensus size: 43
24665614 ATGTCAAATA
* *
24665624 CTTTAATTCTCGTACACTAAGTGCCAATACTTAACCAAAGCTAT
1 CTTTAATT-TCGCACACTAAGTGCCAATACATAACCAAAGCTAT
* * *
24665668 -TTTAATTTCGCACACTAAGTGTC-ATACATAGCCGAAGCTAT
1 CTTTAATTTCGCACACTAAGTGCCAATACATAACCAAAGCTAT
** ** *
24665709 CTCGAA--TCGCACACTAAGTGCC-ATACATAGTCGAAGCTAT
1 CTTTAATTTCGCACACTAAGTGCCAATACATAACCAAAGCTAT
** *
24665749 CTCGAA-TT-ACACACTAAGTGCCAA
1 CTTTAATTTCGCACACTAAGTGCCAA
24665773 CATAACTGAA
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
40 51 0.55
41 17 0.18
42 17 0.18
43 7 0.08
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (43 bp):
CTTTAATTTCGCACACTAAGTGCCAATACATAACCAAAGCTAT
Found at i:24665724 original size:40 final size:40
Alignment explanation
Indices: 24665675--24665776 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
24665665 TATTTTAATT
*
24665675 TCGCACACTAAGTGTCATACATAGCCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
*
24665715 TCGCACACTAAGTGCCATACATAGTCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
**
24665755 TTACACACTAAGTGCCA-ACATA
1 TCGCACACTAAGTGCCATACATA
24665777 ACTGAATTGT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 5 0.09
40 53 0.91
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
Found at i:24669302 original size:7 final size:7
Alignment explanation
Indices: 24669290--24669314 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24669280 TTTTTGGTAA
24669290 AAATGTC
1 AAATGTC
24669297 AAATGTC
1 AAATGTC
24669304 AAATGTC
1 AAATGTC
24669311 AAAT
1 AAAT
24669315 AGGGACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATGTC
Found at i:24684385 original size:65 final size:65
Alignment explanation
Indices: 24684251--24684372 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 65
24684241 ACCGCGGCTT
*
24684251 TTTGTGAGCATCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCGGACACAAACACAGCTC
1 TTTGTGAGCATCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACACAGCTC
* **
24684316 TTTGTGAGCGTCCTGTTATATGATCGGTTGTGATTTTGCATATATTGCAGACACAAA
1 TTTGTGAGCATCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
24684373 TGTAGTTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (65 bp):
TTTGTGAGCATCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAACACAGCTC
Found at i:24684471 original size:26 final size:26
Alignment explanation
Indices: 24684435--24684498 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
24684425 GGCTATCCGG
24684435 AGCTT-CTGATTAAAGTCTCTTCGT-A
1 AGCTTCCTGATTAAAGT-TCTTCGTGA
*
24684460 AGCTTCCTGATTAAAAGTTCTTTGTGA
1 AGCTTCCTGATT-AAAGTTCTTCGTGA
24684487 A-CTTCCTGATTA
1 AGCTTCCTGATTA
24684499 TGGCTTGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 6 0.17
26 22 0.63
27 7 0.20
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (26 bp):
AGCTTCCTGATTAAAGTTCTTCGTGA
Found at i:24691968 original size:26 final size:27
Alignment explanation
Indices: 24691903--24691993 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
24691893 ACTGATTTCA
* * *
24691903 CACACTTAGTGCTCAGAAATTAATTCACG
1 CACACTTAGTGCTCAG-AATCAA-ACTCG
* *
24691932 CACA--TAGTGCTTA-AATCCAACTCG
1 CACACTTAGTGCTCAGAATCAAACTCG
* *
24691956 CACACTTAGTGCTCAGTATCAAATTCG
1 CACACTTAGTGCTCAGAATCAAACTCG
24691983 CACACTTAGTG
1 CACACTTAGTG
24691994 TATCCCTCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 7 0.14
25 4 0.08
26 8 0.16
27 27 0.54
29 4 0.08
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTCAGAATCAAACTCG
Found at i:24693304 original size:39 final size:41
Alignment explanation
Indices: 24693203--24693386 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 41
24693193 TCGAATGATC
* * *
24693203 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
24693243 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
24693283 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
24693322 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
24693361 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24693387 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.02
39 68 0.54
40 47 0.37
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:24697904 original size:24 final size:24
Alignment explanation
Indices: 24697877--24697960 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
24697867 TTGGAGGCCT
24697877 AGCCTCTTTTAAT-AACTGGGGAAA
1 AGCC-CTTTTAATAAACTGGGGAAA
* *
24697901 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGAAA
** * *
24697926 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGAAA
24697951 AGCCCTTTTA
1 AGCCCTTTTA
24697961 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 40 0.77
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGAAA
Found at i:24697922 original size:25 final size:25
Alignment explanation
Indices: 24697890--24697959 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
24697880 CTCTTTTAAT
*
24697890 AACTGGGGAAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
24697915 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
24697940 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
24697960 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:24698975 original size:27 final size:27
Alignment explanation
Indices: 24698875--24699071 Score: 148
Period size: 27 Copynumber: 7.2 Consensus size: 27
24698865 TTGGTAAATC
* ** *
24698875 TACAAACCAAGGGTATTTCAATAGTTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** * * *
24698902 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCTGTAA-TTT
* *
24698930 TAGAAAGTCAATGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
* * *
24698958 TATAAATCAAGCGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
24698985 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
24699012 CACAAA-CTAGTGGTATTTCGGTAATTT
1 TACAAATCAAG-GGTATTTCTGTAATTT
24699039 TACAAA-CTAAGGGTATTT-TGGTAATTT
1 TACAAATC-AAGGGTATTTCT-GTAATTT
24699066 TACAAA
1 TACAAA
24699072 CTAGGGGTAT
Statistics
Matches: 140, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 105 0.75
28 17 0.12
29 16 0.11
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:24699055 original size:81 final size:81
Alignment explanation
Indices: 24698941--24699091 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
24698931 AGAAAGTCAA
* * * *
24698941 TGGTATTTCTGTAATTTTATAAATCAAGCGTATTTTTGTAATTTTACAAA-TTGAGGGTATTTCG
1 TGGTATTTCGGTAATTTTACAAATCAAGCGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCG
24699005 GTAATTTCACAAACTAG
65 GTAATTTCACAAACTAG
* *
24699022 TGGTATTTCGGTAATTTTACAAA-CTAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 TGGTATTTCGGTAATTTTACAAATC-AAGCGTATTTTGGTAATTTTACAAACTAGGGGTATTTCG
24699086 GTAATT
65 GTAATT
24699092 CTATCCTACA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 59 0.95
82 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (81 bp):
TGGTATTTCGGTAATTTTACAAATCAAGCGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
TAATTTCACAAACTAG
Found at i:24699072 original size:27 final size:27
Alignment explanation
Indices: 24698942--24699091 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
24698932 GAAAGTCAAT
*
24698942 GGTATTTCT-GTAATTTTATAAA-TCAAG
1 GGTATTT-TGGTAATTTTACAAACT-AAG
* * * *
24698969 CGTATTTTTGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAACTAAG
* *
24698996 GGTATTTCGGTAATTTCACAAACT-AG
1 GGTATTTTGGTAATTTTACAAACTAAG
*
24699022 TGGTATTTCGGTAATTTTACAAACTAAG
1 -GGTATTTTGGTAATTTTACAAACTAAG
*
24699050 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAAG
24699077 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
24699092 CTATCCTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.03
27 102 0.94
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAAG
Found at i:24699162 original size:27 final size:27
Alignment explanation
Indices: 24699123--24699320 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
24699113 GTAATTTCAC
*
24699123 AATCGTGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
24699150 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
24699177 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
24699204 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
24699231 AATCGAGGGTCAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
24699258 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
24699285 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
24699312 AATCGAGGG
1 AATCGAGGG
24699321 CATTTCAATA
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:24699197 original size:54 final size:54
Alignment explanation
Indices: 24699123--24699320 Score: 272
Period size: 54 Copynumber: 3.7 Consensus size: 54
24699113 GTAATTTCAC
* * *
24699123 AATCGTGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
24699177 AATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
24699231 AATCGAGGGTCAAACAGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * **
24699285 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
24699321 CATTTCAATA
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
54 127 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:24699239 original size:81 final size:81
Alignment explanation
Indices: 24699123--24699320 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
24699113 GTAATTTCAC
* * * * **
24699123 AATCGTGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAAGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTTTGTAAATCGAAGGT
* *
24699187 AAAACGGTAATTTTGTA
65 AAAACGGTAATTCTATA
* * *
24699204 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTCAAACAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAAGGTA
24699269 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
24699285 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
24699321 CATTTCAATA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAAGGTA
AAACGGTAATTCTATA
Found at i:24722795 original size:43 final size:42
Alignment explanation
Indices: 24722731--24722830 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 42
24722721 CATATCCTAG
* ** ** *
24722731 ATATGGTCTTACATGGGATCTCATATTGATGCCAAAAGCCCAG
1 ATATGGTCTTACACGAAATCTCATACCGATGCC-AAAGCCCAA
* * *
24722774 GTATGGTCTTACACGAAATCTCATACCGATGCCATATCCCAA
1 ATATGGTCTTACACGAAATCTCATACCGATGCCAAAGCCCAA
24722816 ATATGGTCTTACACG
1 ATATGGTCTTACACG
24722831 TAAACTCTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 20 0.43
43 27 0.57
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
ATATGGTCTTACACGAAATCTCATACCGATGCCAAAGCCCAA
Found at i:24724513 original size:46 final size:46
Alignment explanation
Indices: 24724463--24724638 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
24724453 TGGTTGAGCA
*
24724463 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
24724509 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
24724556 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
24724602 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24724639 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24724619 original size:93 final size:93
Alignment explanation
Indices: 24724460--24724630 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24724450 GGATGGTTGA
* *
24724460 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
24724525 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
24724553 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
24724618 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24724631 ACTTATGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:24741640 original size:93 final size:93
Alignment explanation
Indices: 24741534--24741705 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
24741524 CGCCCATAAG
* *
24741534 CGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
24741598 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
24741627 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24741692 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24741706 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24741700 original size:46 final size:46
Alignment explanation
Indices: 24741527--24741702 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
24741517 AGTAACCCGC
* * *
24741527 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
24741573 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
24741623 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24741666 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24741703 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24741721 original size:46 final size:44
Alignment explanation
Indices: 24741578--24741721 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
24741568 CGCATCCATA
24741578 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
24741625 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
24741671 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
24741717 AGTGA
1 AGTGA
24741722 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:24747756 original size:37 final size:36
Alignment explanation
Indices: 24747706--24747779 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
24747696 AAAATCTGTA
24747706 CATACAACACGTAGTCCGAGAACCGACTAAACCTGCT
1 CATACAACACGTAGTCCGAGAACCGACT-AACCTGCT
*
24747743 CATACAACACGTAGTCCGAGAACTGACTAACCTGCT
1 CATACAACACGTAGTCCGAGAACCGACTAACCTGCT
24747779 C
1 C
24747780 TGATACCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 9 0.25
37 27 0.75
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (36 bp):
CATACAACACGTAGTCCGAGAACCGACTAACCTGCT
Found at i:24749158 original size:45 final size:46
Alignment explanation
Indices: 24749094--24749268 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
24749084 TGTAACCCGC
*
24749094 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
24749139 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
24749189 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
24749232 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24749269 TGCTCGACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 36 0.33
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:24749259 original size:93 final size:92
Alignment explanation
Indices: 24749101--24749271 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
24749091 CGCCCATAAG
* *
24749101 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
24749166 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
24749193 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCAATAAGTGAACTCGGACTCAACTCA
24749258 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
24749272 TCGACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24749287 original size:46 final size:45
Alignment explanation
Indices: 24749097--24749287 Score: 183
Period size: 46 Copynumber: 4.2 Consensus size: 45
24749087 AACCCGCCCA
* * *
24749097 TAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCC
* *
24749141 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCC
* * ** *
24749190 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATC-C
*
24749235 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGACCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG--CATCC
24749282 T-AGTGA
1 TAAGTGA
24749288 CATGTCACTT
Statistics
Matches: 118, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
45 33 0.28
46 40 0.34
47 32 0.27
48 6 0.05
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCC
Found at i:24763684 original size:40 final size:40
Alignment explanation
Indices: 24763640--24763792 Score: 211
Period size: 40 Copynumber: 3.9 Consensus size: 40
24763630 TGATACTTGA
* *
24763640 GGAATGTTATCCGAGCTTAAAGACCCACAGGCTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
*
24763680 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
* *
24763720 GGAATGTTATCCGGGCTTAAAGACTCGCAGGCT-TCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
* * *
24763760 AGAATGCTATCCGGGC-TAGAGACCCGCAGGCTA
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA
24763793 CGAGCTGGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.15
40 86 0.85
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
Found at i:24767627 original size:93 final size:93
Alignment explanation
Indices: 24767515--24767685 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
24767505 GCCCATAAGT
* *
24767515 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCAATAAGTGAACTCGGACTCAACTCA
24767579 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
24767608 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
*
24767673 CGAGTTCGGATGC
66 CGAGCTCGGATGC
24767686 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:24767677 original size:46 final size:45
Alignment explanation
Indices: 24767508--24767682 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
24767498 GTAACCCGCC
*
24767508 CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
*
24767553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
24767603 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
24767646 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
24767683 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 4 0.04
46 62 0.56
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:24778621 original size:39 final size:40
Alignment explanation
Indices: 24778576--24778743 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
24778566 CGGGGTTTAG
* * *
24778576 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
24778615 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
24778655 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
24778695 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
24778736 CCGGATAT
1 CCGGATAT
24778744 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:24778726 original size:41 final size:40
Alignment explanation
Indices: 24778599--24778743 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
24778589 CTCGCACAAG
* * * * *
24778599 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
24778639 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
24778679 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
24778720 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
24778744 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:24783468 original size:40 final size:38
Alignment explanation
Indices: 24783422--24783506 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
24783412 CTCGCACAAG
* * *
24783422 GCCTTCGGGTCTTAACCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAA-CTGGATAT-ATCACTAGCACAAAT
*
24783462 GCCTTCGGGACTTAACTGGATATATCGCTAGCACAAAT
1 GCCTTCGGGACTTAACTGGATATATCACTAGCACAAAT
24783500 GCCTTCG
1 GCCTTCG
24783507 ATCTTAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 19 0.46
39 8 0.20
40 14 0.34
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (38 bp):
GCCTTCGGGACTTAACTGGATATATCACTAGCACAAAT
Found at i:24783502 original size:38 final size:38
Alignment explanation
Indices: 24783422--24783553 Score: 124
Period size: 40 Copynumber: 3.4 Consensus size: 38
24783412 CTCGCACAAG
* * * *
24783422 GCCTTCGGGTCTTAACCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAA-CTGGATAT-ATCGCTAGCACAAAT
24783462 GCCTTCGGGACTTAACTGGATATATCGCTAGCACAAAT
1 GCCTTCGGGACTTAACTGGATATATCGCTAGCACAAAT
* * * *
24783500 GCCTTC--GATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTA-ACTGGATATA-TCGC-TAGCACAAAT
24783540 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
24783554 GCCCGGATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
36 2 0.03
37 4 0.05
38 25 0.32
39 12 0.15
40 29 0.37
41 4 0.05
42 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (38 bp):
GCCTTCGGGACTTAACTGGATATATCGCTAGCACAAAT
Found at i:24791355 original size:8 final size:8
Alignment explanation
Indices: 24791342--24791366 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24791332 ATTAAGGACT
24791342 AAAATGTG
1 AAAATGTG
24791350 AAAATGTG
1 AAAATGTG
24791358 AAAATGTG
1 AAAATGTG
24791366 A
1 A
24791367 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:24791876 original size:43 final size:42
Alignment explanation
Indices: 24791780--24791884 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
24791770 AACTTATGAT
*
24791780 TTACATGTAAGACCAAGTCTGGGACATCAGCATCGTATTTGA
1 TTACATGTAAGACCAAGTCTAGGACATCAGCATCGTATTTGA
*** ** *
24791822 TTTTGTGTAAGACCCTGTCTAGGACAGT-GGCATCGATATTTGA
1 TTACATGTAAGACCAAGTCTAGGACA-TCAGCATCG-TATTTGA
*
24791865 TTACATGTAAGACCACGTCT
1 TTACATGTAAGACCAAGTCT
24791885 GAGACGTTGG
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
42 26 0.53
43 23 0.47
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCAAGTCTAGGACATCAGCATCGTATTTGA
Found at i:24791896 original size:43 final size:43
Alignment explanation
Indices: 24791741--24791897 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
24791731 TGTGTTTTCG
* *
24791741 TGTAAGACCACGTTTGGGACGTTGGCATC-A-ACTTATGATTTACA
1 TGTAAGACCACGTCTGAGACGTTGGCATCGATA-TT-TGA-TTACA
* * * ** ***
24791785 TGTAAGACCAAGTCTGGGACATCAGCATCG-TATTTGATTTTG
1 TGTAAGACCACGTCTGAGACGTTGGCATCGATATTTGATTACA
24791827 TGTAAGACC-CTGTCT-AGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGA-GAC-GTTGGCATCGATATTTGATTACA
24791870 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGAGACGTTGGCAT
24791898 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
42 25 0.28
43 34 0.39
44 28 0.32
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGACGTTGGCATCGATATTTGATTACA
Found at i:24793073 original size:43 final size:43
Alignment explanation
Indices: 24793007--24793120 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
24792997 TGTTTTCGCT
* *
24793007 CGACCTAGTCATA-GGAGCTTGTCTAATGTTTTTGTAAGGCACA
1 CGACCTAGTCACACGG-GCATGTCTAATGTTTTTGTAAGGCACA
* *
24793050 CGGCCTAGTCACACGGGCATGTCTAATGTTTTTGTAAGGCATA
1 CGACCTAGTCACACGGGCATGTCTAATGTTTTTGTAAGGCACA
*
24793093 CGACCTAGTCACACGGGCATGGCTAATG
1 CGACCTAGTCACACGGGCATGTCTAATG
24793121 CCGTGTGGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 62 0.97
44 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (43 bp):
CGACCTAGTCACACGGGCATGTCTAATGTTTTTGTAAGGCACA
Found at i:24797121 original size:30 final size:30
Alignment explanation
Indices: 24797081--24797141 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
24797071 TAGGATAGAA
* *
24797081 TGATGGTGGACTTTGTTTCGGGCTTGCCCT
1 TGATGATGGACTTTGTTTCGGACTTGCCCT
*
24797111 TGATGATGGACTTTGTTTCGGATTTGCCCT
1 TGATGATGGACTTTGTTTCGGACTTGCCCT
24797141 T
1 T
24797142 ACCTCCGCGA
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:0.10, C:0.18, G:0.30, T:0.43
Consensus pattern (30 bp):
TGATGATGGACTTTGTTTCGGACTTGCCCT
Found at i:24799552 original size:43 final size:42
Alignment explanation
Indices: 24799397--24799553 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
24799387 TGTGTTCTCG
* * *
24799397 TGTAAGACCACATCTGGGGCGTTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGA-TTACA
* * * * * *
24799441 TGTAATACCATGTCTGGGACATCGACATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTACA
* * *
24799483 TGTAAAACCTA-GTTTGGGACAGTGGCATCAGTATTTGATTACA
1 TGTAAGACC-ACGTCTGGGACATTGGCATC-GTATTTGATTACA
*
24799526 TGTAAGACCACGTCTGGGTCATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
24799554 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 26 0.29
43 37 0.42
44 25 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTACA
Found at i:24807892 original size:24 final size:24
Alignment explanation
Indices: 24807856--24807926 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
24807846 CTGTCAGGAG
*
24807856 AGGATTTAAGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
24807880 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
24807904 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24807927 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24809379 original size:27 final size:27
Alignment explanation
Indices: 24809339--24809450 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
24809329 AGGAAGCGTC
*
24809339 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
24809366 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
24809393 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
24809421 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
24809447 CTGG
1 CTGG
24809451 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:24809445 original size:54 final size:54
Alignment explanation
Indices: 24809339--24809450 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
24809329 AGGAAGCGTC
* *
24809339 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
24809393 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
24809447 CTGG
1 CTGG
24809451 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:24815640 original size:23 final size:24
Alignment explanation
Indices: 24815595--24815664 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
24815585 CTGTCAGGAG
24815595 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
24815619 AGGATTTAGGAGTT-ATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
24815642 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24815665 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 21 0.49
24 22 0.51
ACGTcount: A:0.36, C:0.01, G:0.37, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24817118 original size:27 final size:27
Alignment explanation
Indices: 24817078--24817189 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
24817068 AGGAAGCGCC
*
24817078 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
24817105 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
24817132 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
* ** *
24817160 CTGGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
24817186 CTGG
1 CTGG
24817190 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.65
28 17 0.24
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:24817184 original size:54 final size:54
Alignment explanation
Indices: 24817078--24817189 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
24817068 AGGAAGCGCC
* * *
24817078 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * * *
24817132 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTACCACATATATCTGTT
24817186 CTGG
1 CTGG
24817190 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:24819761 original size:334 final size:334
Alignment explanation
Indices: 24819152--24819804 Score: 1306
Period size: 334 Copynumber: 2.0 Consensus size: 334
24819142 AGAGGAGGGA
24819152 GTAAGCATAATTGTTTAGTAAGTTCACATGTAAATAGCAAGTAACATAACCATGCAACAATACGA
1 GTAAGCATAATTGTTTAGTAAGTTCACATGTAAATAGCAAGTAACATAACCATGCAACAATACGA
24819217 AATCCACATTTGCATAATATCACCAAAGCATTCATATCATATTTCTCATTCATGATCCTACCATA
66 AATCCACATTTGCATAATATCACCAAAGCATTCATATCATATTTCTCATTCATGATCCTACCATA
24819282 TTATTGTTATATTGAAGTCTCAAGCCAGCCGAGGGTTAAGTACATACCTGTACAAATTTTCTCAT
131 TTATTGTTATATTGAAGTCTCAAGCCAGCCGAGGGTTAAGTACATACCTGTACAAATTTTCTCAT
24819347 TCACCACACTTACCAACATGTCACCTTCGTTTTAGGTACTCACCTTATCCACTTAAGATTTCCCC
196 TCACCACACTTACCAACATGTCACCTTCGTTTTAGGTACTCACCTTATCCACTTAAGATTTCCCC
24819412 GTTGAACACATCGGAATATGATTCGAATACACGGATTTCATGCACATAAGTGCCATACCACATGT
261 GTTGAACACATCGGAATATGATTCGAATACACGGATTTCATGCACATAAGTGCCATACCACATGT
24819477 AAATAGCAT
326 AAATAGCAT
24819486 GTAAGCATAATTGTTTAGTAAGTTCACATGTAAATAGCAAGTAACATAACCATGCAACAATACGA
1 GTAAGCATAATTGTTTAGTAAGTTCACATGTAAATAGCAAGTAACATAACCATGCAACAATACGA
24819551 AATCCACATTTGCATAATATCACCAAAGCATTCATATCATATTTCTCATTCATGATCCTACCATA
66 AATCCACATTTGCATAATATCACCAAAGCATTCATATCATATTTCTCATTCATGATCCTACCATA
24819616 TTATTGTTATATTGAAGTCTCAAGCCAGCCGAGGGTTAAGTACATACCTGTACAAATTTTCTCAT
131 TTATTGTTATATTGAAGTCTCAAGCCAGCCGAGGGTTAAGTACATACCTGTACAAATTTTCTCAT
24819681 TCACCACACTTACCAACATGTCACCTTCGTTTTAGGTACTCACCTTATCCACTTAAGATTTCCCC
196 TCACCACACTTACCAACATGTCACCTTCGTTTTAGGTACTCACCTTATCCACTTAAGATTTCCCC
24819746 GTTGAACACATCGGAATATGATTCGAATACACGGATTTCATGCACATAAGTGCCATACC
261 GTTGAACACATCGGAATATGATTCGAATACACGGATTTCATGCACATAAGTGCCATACC
24819805 CGTAACTAGA
Statistics
Matches: 319, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 319 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (334 bp):
GTAAGCATAATTGTTTAGTAAGTTCACATGTAAATAGCAAGTAACATAACCATGCAACAATACGA
AATCCACATTTGCATAATATCACCAAAGCATTCATATCATATTTCTCATTCATGATCCTACCATA
TTATTGTTATATTGAAGTCTCAAGCCAGCCGAGGGTTAAGTACATACCTGTACAAATTTTCTCAT
TCACCACACTTACCAACATGTCACCTTCGTTTTAGGTACTCACCTTATCCACTTAAGATTTCCCC
GTTGAACACATCGGAATATGATTCGAATACACGGATTTCATGCACATAAGTGCCATACCACATGT
AAATAGCAT
Found at i:24823649 original size:24 final size:25
Alignment explanation
Indices: 24823622--24823672 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
24823612 GCCTAGCCTC
*
24823622 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
**
24823646 TTTTGGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
24823671 TT
1 TT
24823673 CCGTACTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:24823776 original size:21 final size:21
Alignment explanation
Indices: 24823721--24823766 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24823711 TATAGTGAGT
24823721 ATATCA-AAGCATATCATGTGC
1 ATATCATAA-CATATCATGTGC
*
24823742 ATCTCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
24823763 ATAT
1 ATAT
24823767 TATGTCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:24834234 original size:43 final size:44
Alignment explanation
Indices: 24834187--24834300 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 44
24834177 CATCGACTTA
24834187 TGATTTACATGTAAGACCATGTCTGGGACA-T-CAACATC-ATATT
1 TGATTTACATGTAAGACCATGTCTGGGACAGTGC--CATCGATATT
* *
24834230 TGATTT-CATGTAAGACCTTGTTTGGGACAGTGCCATCGATATT
1 TGATTTACATGTAAGACCATGTCTGGGACAGTGCCATCGATATT
* *
24834273 TGA-TTACATGTAATACCATGCCTGGGAC
1 TGATTTACATGTAAGACCATGTCTGGGAC
24834301 GTTGGCATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 27 0.44
43 33 0.54
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTCTGGGACAGTGCCATCGATATT
Found at i:24836003 original size:34 final size:33
Alignment explanation
Indices: 24835960--24836024 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
24835950 AATATCAATA
*
24835960 TGGGTCTTAGCCTAATACAATAACAGTATCAGTG
1 TGGGCCTTAGCCTAATACAAT-ACAGTATCAGTG
* * *
24835994 TGGGCCTTAGCCTATTTCAGTACAGTATCAG
1 TGGGCCTTAGCCTAATACAATACAGTATCAG
24836025 AAATGCATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (33 bp):
TGGGCCTTAGCCTAATACAATACAGTATCAGTG
Found at i:24836085 original size:22 final size:23
Alignment explanation
Indices: 24836046--24836089 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
24836036 AAGATCCTAC
*
24836046 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
24836069 CCATCCAGCC-CTACACTCCAC
1 CCATCCAGCCTCTACACTCCAC
24836090 ATGGAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.23, C:0.55, G:0.02, T:0.20
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:24845607 original size:34 final size:33
Alignment explanation
Indices: 24845569--24845638 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
24845559 TTAGTTGCAA
24845569 TATCAATGTGGACATTAGCCCAATACAGTAGCAG
1 TATCAATGTGGACATTAGCCCAATACAGTA-CAG
* * * * *
24845603 TATCAGTGTGGGCCTTAGCCCATTTCAGTACAG
1 TATCAATGTGGACATTAGCCCAATACAGTACAG
24845636 TAT
1 TAT
24845639 AAGAAATGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 6 0.19
34 25 0.81
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (33 bp):
TATCAATGTGGACATTAGCCCAATACAGTACAG
Found at i:24848870 original size:29 final size:29
Alignment explanation
Indices: 24848806--24848928 Score: 203
Period size: 29 Copynumber: 4.3 Consensus size: 29
24848796 GTCTACATAT
* *
24848806 ATTCATATGGCCCACTAGGCCC-AATCTC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
24848834 ATTCATATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
*
24848863 ATTCATATGGACCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
*
24848892 ATTCATACGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
24848921 ATTCATAT
1 ATTCATAT
24848929 ACATGCTTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 21 0.24
29 67 0.76
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:24864884 original size:26 final size:26
Alignment explanation
Indices: 24864855--24864906 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
24864845 AATGGTAATT
*
24864855 AAATGTTA-AATTTATATGCTGTTATG
1 AAATGTTAGAATTTATAT-ATGTTATG
24864881 AAATGTTAGAATTTATATATGTTATG
1 AAATGTTAGAATTTATATATGTTATG
24864907 GCCAAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (26 bp):
AAATGTTAGAATTTATATATGTTATG
Found at i:24871283 original size:25 final size:25
Alignment explanation
Indices: 24871255--24871324 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
24871245 CTCTTTTAAT
*
24871255 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
24871280 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
24871305 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
24871325 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:24872162 original size:27 final size:27
Alignment explanation
Indices: 24872132--24872196 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
24872122 GGGCATATTC
*
24872132 GTCATTTTACCATACA-AGGGTATTACA
1 GTCATTTTACCATACAGAGGCT-TTACA
* * *
24872159 GTCACTTTACCCTACAGAGGCTTTACG
1 GTCATTTTACCATACAGAGGCTTTACA
*
24872186 GTCTTTTTACC
1 GTCATTTTACC
24872197 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGAGGCTTTACA
Found at i:24872280 original size:27 final size:27
Alignment explanation
Indices: 24872250--24872455 Score: 128
Period size: 27 Copynumber: 7.6 Consensus size: 27
24872240 GTAAATCTAC
*
24872250 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
** * *
24872277 AAACCAACAGTATTTTTA-TAATTTTTAG
1 AAACCAAGGGTA-TTTCAGTAA-TTTTAT
* * *
24872305 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * **
24872333 AAATCAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
24872360 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
24872387 AAACC-AGTGGTATTTCAGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* * ** *
24872414 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
24872441 AAACTAGGGGTATTT
1 AAACCAAGGGTATTT
24872456 TGGTAATTCT
Statistics
Matches: 143, Mismatches: 30, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 110 0.77
28 22 0.15
29 9 0.06
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:24872346 original size:56 final size:54
Alignment explanation
Indices: 24872254--24872383 Score: 143
Period size: 56 Copynumber: 2.4 Consensus size: 54
24872244 ATCTACAAAC
*
24872254 CAAGGGTATTTCAGTAATTTTGTAAACCAACAGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAACAGTATTTTGATAA-TTTTAGAAA-T
* * *** * *
24872310 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAACAGTATTTTGATAATTTTAGAAAT
** *
24872364 TGAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
24872384 CACAAACCAG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 18 0.29
55 8 0.13
56 37 0.59
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAACAGTATTTTGATAATTTTAGAAAT
Found at i:24872399 original size:54 final size:53
Alignment explanation
Indices: 24872230--24872463 Score: 180
Period size: 54 Copynumber: 4.3 Consensus size: 53
24872220 CATCCTACAA
* * * * * ** *
24872230 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTCGGTAATTTTACAAACCAG
** ** * * * ** *
24872284 CAGTATTTTTATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAA-TTTTACAAA--CTAGGGTATTTCGGTAATTTTACAAACCAG
* * *
24872340 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTCGGTAATTTTACAAACCAG
* ** * *
24872394 TGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTA-GGGTATTTCGGTAATTTTACAAACCAG
24872448 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
24872464 CTATCCTACA
Statistics
Matches: 141, Mismatches: 35, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
53 1 0.01
54 89 0.63
55 14 0.10
56 37 0.26
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTCGGTAATTTTACAAACCAG
Found at i:24872430 original size:81 final size:81
Alignment explanation
Indices: 24872314--24872463 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
24872304 GAAAGTCAAG
* ** * *
24872314 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAA-TTGAGGGTATTTCGG
1 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
24872378 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
24872395 GGTATTTCAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
24872459 TAATT
65 TAATT
24872464 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.95
82 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:24872456 original size:27 final size:27
Alignment explanation
Indices: 24872313--24872496 Score: 169
Period size: 27 Copynumber: 6.8 Consensus size: 27
24872303 AGAAAGTCAA
**
24872313 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
* *
24872340 GGGTATTTTGGTAATTTTATAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
24872366 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* **
24872394 TGGTATTTCAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
24872421 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
24872448 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
24872475 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
24872497 TCGAGGGTAA
Statistics
Matches: 131, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 124 0.95
28 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:24872488 original size:81 final size:81
Alignment explanation
Indices: 24872313--24872496 Score: 198
Period size: 81 Copynumber: 2.3 Consensus size: 81
24872303 AGAAAGTCAA
** * *
24872313 GGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCG
1 GGGTATTT-TAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCG
24872377 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
* * *
24872394 TGGTATTTCAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTTAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTC
**
24872457 GGTAA-TTCTATCCTA-CAG
64 GGTAATTTC-A-CAAACCAG
*
24872475 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTAGTAATTTTACAA
24872497 TCGAGGGTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
80 4 0.05
81 78 0.91
82 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:24872529 original size:27 final size:27
Alignment explanation
Indices: 24872495--24872692 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
24872485 GTAATTTCAC
* * *
24872495 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
24872522 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
24872549 AATCGAAGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
24872576 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
24872603 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
24872630 AATCAAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
24872657 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
24872684 AATCGAGGG
1 AATCGAGGG
24872693 CATTTCAGTA
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Done.