Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 118 of 163
Found at i:32816735 original size:29 final size:28
Alignment explanation
Indices: 32816643--32816744 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
32816633 TTTTTGACCC
** *
32816643 CAAAAATTACATTTTTG-CCCTTAAACTT
1 CAAAAATTACATTTTTGACCC-CGAACCT
*
32816671 CCAAAAATTACATTTTTGACCCCGAACTT
1 -CAAAAATTACATTTTTGACCCCGAACCT
* *
32816700 CAAAAATTCCATTTTTGACCTCGAAACCCT
1 CAAAAATTACATTTTTGACCCCG-AA-CCT
32816730 C-AAAATTACTATTTT
1 CAAAAATTAC-ATTTT
32816745 ACTCCCGGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
28 21 0.33
29 31 0.49
30 11 0.17
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (28 bp):
CAAAAATTACATTTTTGACCCCGAACCT
Found at i:32816906 original size:28 final size:27
Alignment explanation
Indices: 32816846--32816906 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
32816836 CTAAATTTTC
*
32816846 CCAAAATTACCATTTTGCCCTAAAAGT
1 CCAAAATTACCATTTTCCCCTAAAAGT
*
32816873 CTAAAATTACCATTTTACCCCTAAACA-T
1 CCAAAATTACCATTTT-CCCCTAAA-AGT
32816901 CCAAAA
1 CCAAAA
32816907 AGTCTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 15 0.52
28 13 0.45
29 1 0.03
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (27 bp):
CCAAAATTACCATTTTCCCCTAAAAGT
Found at i:32816937 original size:144 final size:146
Alignment explanation
Indices: 32816756--32817039 Score: 367
Period size: 144 Copynumber: 2.0 Consensus size: 146
32816746 CTCCCGGATG
* * * * * *
32816756 TCCAAAAATCTCGTTTTTGATCCTAATTTTTCTAAAAATTACTATTTTACCCTCAAATATTTAAA
1 TCCAAAAATCTCATTTTTGATCCTAATTCTTCCAAAAATTACCATTTTACCCTCAAACATCTAAA
* * *
32816821 ATGTCATTTTTAACCCTAAATTTTCCCAAAATTACCATTTT-GCCCT-AAAAGTCTAAAATTACC
66 ATGACATTTCTAACCCTAAATTTTCCCAAAATTACCATTTTACCCCTCAAAAGTCTAAAATTACC
32816884 ATTTTACCCCTAAACA
131 ATTTTACCCCTAAACA
* * * **
32816900 TCCAAAAAGTCTCATTTTT-ATCTTGATTCTTCCAAAAATTACCGTTTTACCCTCGGACATCTAA
1 TCCAAAAA-TCTCATTTTTGATCCTAATTCTTCCAAAAATTACCATTTTACCCTCAAACATCTAA
* * * *
32816964 AATGACATTTCTAACCCTAAATTTTCCTAAAATTACCATTTTACCCCTCGAGAGTGTAAAATTAC
65 AATGACATTTCTAACCCTAAATTTTCCCAAAATTACCATTTTACCCCTCAAAAGTCTAAAATTAC
*
32817029 CATTTTGCCCC
130 CATTTTACCCC
32817040 CGAGTATCCA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
144 82 0.69
145 13 0.11
146 23 0.19
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (146 bp):
TCCAAAAATCTCATTTTTGATCCTAATTCTTCCAAAAATTACCATTTTACCCTCAAACATCTAAA
ATGACATTTCTAACCCTAAATTTTCCCAAAATTACCATTTTACCCCTCAAAAGTCTAAAATTACC
ATTTTACCCCTAAACA
Found at i:32832182 original size:31 final size:30
Alignment explanation
Indices: 32832140--32832213 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
32832130 TTTAATCCTT
*
32832140 TTTATTTATT-TTTATAT-TTGATT-TGCA
1 TTTATTTATTATTTTTATGTTGATTATGCA
* *
32832167 TTTATTTATTCATTTTTATGTTGTTTATTCA
1 TTTATTTATT-ATTTTTATGTTGATTATGCA
32832198 TTTATTTATTATTTTT
1 TTTATTTATTATTTTT
32832214 TCCATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 10 0.25
29 6 0.15
30 11 0.28
31 13 0.32
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.70
Consensus pattern (30 bp):
TTTATTTATTATTTTTATGTTGATTATGCA
Found at i:32832788 original size:22 final size:23
Alignment explanation
Indices: 32832763--32832807 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
32832753 TAATTTCCAG
32832763 ATCTTCTTCCCCCATC-TTCCCC
1 ATCTTCTTCCCCCATCTTTCCCC
*
32832785 ATCTTCTTCCCCTATCTTTCCCC
1 ATCTTCTTCCCCCATCTTTCCCC
32832808 TATCATGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.09, C:0.51, G:0.00, T:0.40
Consensus pattern (23 bp):
ATCTTCTTCCCCCATCTTTCCCC
Found at i:32832990 original size:17 final size:17
Alignment explanation
Indices: 32832964--32833032 Score: 84
Period size: 17 Copynumber: 4.1 Consensus size: 17
32832954 CTTAAACCCA
*
32832964 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
* *
32832981 ATTATAAATTTAAATCT
1 ATTTTAAATTTAAATTT
* *
32832998 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
32833015 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
32833032 A
1 A
32833033 ATTAAAAAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:32833753 original size:12 final size:13
Alignment explanation
Indices: 32833727--32833756 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
32833717 ATTTATTGTA
32833727 TTATTATTATCAT
1 TTATTATTATCAT
32833740 TTATTATT-TCAT
1 TTATTATTATCAT
32833752 TTATT
1 TTATT
32833757 TCCCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTATCAT
Found at i:32834809 original size:30 final size:29
Alignment explanation
Indices: 32834773--32835094 Score: 230
Period size: 29 Copynumber: 10.9 Consensus size: 29
32834763 GAAGGCCCTC
32834773 AAACTTTCCAAAAATTACATTTTGACCTGT
1 AAACTTTCCAAAAATTACATTTTGACCT-T
* *
32834803 AAACTTTTCAAAAATTACATTTTAACCCTT
1 AAACTTTCCAAAAATTACATTTTGA-CCTT
* * *
32834833 AAACTTT-CTAAAATTGCATTTTAGCCCTT
1 AAACTTTCCAAAAATTACATTTT-GACCTT
* *
32834862 AAACTTCTCAAAAAATTACATTTTTACCCTT
1 AAACTT-TCCAAAAATTACATTTTGA-CCTT
* * **
32834893 -AATTTTCCAAAAATCATGTTTTGACCCTT
1 AAACTTTCCAAAAATTACATTTTGA-CCTT
* *
32834922 AAACTTTTCAAAAATTACATTTTTGCCCTT
1 AAACTTTCCAAAAATTACA-TTTTGACCTT
* *
32834952 GAAC-TTCCAAAAATTACCATTTT-ACCCCT
1 AAACTTTCCAAAAATTA-CATTTTGA-CCTT
* *
32834981 AAACTTT-TAAAAA-TATCATTTTTGACCTC
1 AAACTTTCCAAAAATTA-CA-TTTTGACCTT
* * * *
32835010 GAACTTTCCAAAAATCACATTTTGCCCTC
1 AAACTTTCCAAAAATTACATTTTGACCTT
* * *
32835039 GAAC-TTCCAAAAATTACCATTTTGCCCTC
1 AAACTTTCCAAAAATTA-CATTTTGACCTT
*
32835068 GAAC-TTCCAAAAATATA-ATTTTTGACC
1 AAACTTTCCAAAAAT-TACA-TTTTGACC
32835095 CCCAAGCTTT
Statistics
Matches: 237, Mismatches: 38, Indels: 35
0.76 0.12 0.11
Matches are distributed among these distances:
28 16 0.07
29 126 0.53
30 70 0.30
31 25 0.11
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
AAACTTTCCAAAAATTACATTTTGACCTT
Found at i:32834882 original size:60 final size:58
Alignment explanation
Indices: 32834768--32835061 Score: 237
Period size: 59 Copynumber: 5.0 Consensus size: 58
32834758 GCCCAGAAGG
* * *
32834768 CCCTCAAACTTTCCAAAAATTACATTTT-GACCTGTAAACTTTTCAAAAATTACATTTTAA
1 CCCTTAAACTTT-CAAAAATT-CATTTTAGCCCT-TAAACTTTTCAAAAATTACATTTTTA
* *
32834828 CCCTTAAACTTTCTAAAATTGCATTTTAGCCCTTAAACTTCTCAAAAAATTACATTTTTA
1 CCCTTAAACTTTCAAAAATT-CATTTTAGCCCTTAAACTTTTC-AAAAATTACATTTTTA
* * *
32834888 CCCTT-AATTTTCCAAAAA-TCATGTTTTGACCCTTAAACTTTTCAAAAATTACATTTTTG
1 CCCTTAAACTTT-CAAAAATTCAT-TTTAG-CCCTTAAACTTTTCAAAAATTACATTTTTA
* * *
32834947 CCCTTGAACTTCCAAAAATTACCATTTTA-CCCCTAAACTTTT-AAAAA-TATCATTTTTGA
1 CCCTTAAACTTTCAAAAATT--CATTTTAGCCCTTAAACTTTTCAAAAATTA-CATTTTT-A
** * ** *
32835006 -CCTCGAACTTTCCAAAAATCACATTTT-GCCCTCGAAC-TTCCAAAAATTACCATTTT
1 CCCTTAAACTTT-CAAAAAT-TCATTTTAGCCCTTAAACTTTTCAAAAATTA-CATTTT
32835062 GCCCTCGAAC
Statistics
Matches: 194, Mismatches: 24, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
57 4 0.02
58 41 0.21
59 85 0.44
60 58 0.30
61 3 0.02
62 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (58 bp):
CCCTTAAACTTTCAAAAATTCATTTTAGCCCTTAAACTTTTCAAAAATTACATTTTTA
Found at i:32835014 original size:29 final size:29
Alignment explanation
Indices: 32834808--32835149 Score: 159
Period size: 29 Copynumber: 11.6 Consensus size: 29
32834798 CCTGTAAACT
** **
32834808 TTTCAAAAAT-TACATTTTAACCCTTAAAC
1 TTTCAAAAATAT-CATTTTTGCCCTCGAAC
* * **
32834837 TTTCTAAAAT-TGCATTTTAGCCCTTAAAC
1 TTTCAAAAATAT-CATTTTTGCCCTCGAAC
* * *
32834866 TTCTCAAAAA-ATTACATTTTTACCCT-TAAT
1 TT-TCAAAAATA-T-CATTTTTGCCCTCGAAC
* **
32834896 TTTCCAAAA-ATCATGTTTTGACCCTTAAAC
1 TTTCAAAAATATCAT-TTTTG-CCCTCGAAC
*
32834926 TTTTCAAAAAT-TACATTTTTGCCCTTGAAC
1 -TTTCAAAAATAT-CATTTTTGCCCTCGAAC
* * ** *
32834956 TTCCAAAAATTACCATTTTACCCCT-AAAC
1 TTTCAAAAA-TATCATTTTTGCCCTCGAAC
* *
32834985 TTTTAAAAATATCATTTTTGACCTCGAAC
1 TTTCAAAAATATCATTTTTGCCCTCGAAC
32835014 TTTCCAAAAATCA-CA-TTTTGCCCTCGAAC
1 TTT-CAAAAAT-ATCATTTTTGCCCTCGAAC
* *
32835043 TTCCAAAAATTACCA-TTTTGCCCTCGAAC
1 TTTCAAAAA-TATCATTTTTGCCCTCGAAC
* * *
32835072 TTCCAAAAATATAATTTTTGACCC-CCAAGC
1 TTTCAAAAATATCATTTTTG-CCCTCGAA-C
* * *
32835102 TTTAAAAAAAATCATATTTTCCCCTCGAAC
1 TTTCAAAAATATCAT-TTTTGCCCTCGAAC
* *
32835132 -ATCAAAAATTACCATTTT
1 TTTCAAAAA-TATCATTTT
32835150 ACCCCCGAAC
Statistics
Matches: 248, Mismatches: 43, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.01
28 26 0.10
29 121 0.49
30 62 0.25
31 33 0.13
32 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTCAAAAATATCATTTTTGCCCTCGAAC
Found at i:32835014 original size:58 final size:57
Alignment explanation
Indices: 32834767--32835154 Score: 234
Period size: 59 Copynumber: 6.6 Consensus size: 57
32834757 TGCCCAGAAG
* ** *
32834767 GCCCTCAAACTTTCCAAAAATTACATTTTGACCTGTAAACTTTTCAAAAAT-TACATTTTA
1 GCCCTCGAAC-TTCCAAAAATTACATTTT-ACCCCTAAACTTTT-AAAAATAT-CATTTTT
* ** * * * * *
32834827 ACCCTTAAACTTTCTAAAATTGCATTTTAGCCCTTAAACTTCTCAAAAA-ATTACATTTTT
1 GCCCTCGAACTTCCAAAAATTACATTTTA-CCCCTAAACTT-TTAAAAATA-T-CATTTTT
* * * * ** *
32834887 ACCCT-TAATTTTCCAAAAATCATGTTTTGACCCTTAAACTTTTCAAAAAT-TACATTTTT
1 GCCCTCGAA-CTTCCAAAAATTACATTTT-ACCCCTAAACTTTT-AAAAATAT-CATTTTT
*
32834946 GCCCTTGAACTTCCAAAAATTACCATTTTACCCCTAAACTTTTAAAAATATCATTTTT
1 GCCCTCGAACTTCCAAAAATTA-CATTTTACCCCTAAACTTTTAAAAATATCATTTTT
* * * * ** *
32835004 GACCTCGAACTTTCCAAAAATCACATTTT-GCCCTCGAACTTCCAAAAATTACCA-TTTT
1 GCCCTCGAAC-TTCCAAAAATTACATTTTACCCCT-AAACTTTTAAAAA-TATCATTTTT
* * * *
32835062 GCCCTCGAACTTCCAAAAATATA-ATTTTTGACCCCCAAGCTTTAAAAAAAATCATATTTT
1 GCCCTCGAACTTCCAAAAAT-TACA-TTTT-ACCCCTAAACTTTTAAAAATATCAT-TTTT
* *
32835122 CCCCTCGAACAT-CAAAAATTACCATTTTACCCC
1 GCCCTCGAACTTCCAAAAATTA-CATTTTACCCC
32835155 CGAACATCCA
Statistics
Matches: 261, Mismatches: 45, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
57 15 0.06
58 66 0.25
59 105 0.40
60 74 0.28
61 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.36
Consensus pattern (57 bp):
GCCCTCGAACTTCCAAAAATTACATTTTACCCCTAAACTTTTAAAAATATCATTTTT
Found at i:32835138 original size:28 final size:28
Alignment explanation
Indices: 32835107--32835187 Score: 67
Period size: 28 Copynumber: 2.8 Consensus size: 28
32835097 CAAGCTTTAA
32835107 AAAAAATCATATTTTCCCCTCGAACATC
1 AAAAAATCATATTTTCCCCTCGAACATC
* *
32835135 AAAAATTACCAT-TTTACCCC-CGAACATC
1 AAAAA--ATCATATTTTCCCCTCGAACATC
* * *
32835163 CAAAAATTACCATTTTCACCCTCGA
1 AAAAAATCA-TATTTTC-CCCTCGA
32835188 GTGTCCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
26 2 0.05
28 21 0.52
29 10 0.25
30 7 0.17
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (28 bp):
AAAAAATCATATTTTCCCCTCGAACATC
Found at i:32835198 original size:59 final size:59
Alignment explanation
Indices: 32835134--32835303 Score: 270
Period size: 59 Copynumber: 2.9 Consensus size: 59
32835124 CCTCGAACAT
*
32835134 CAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTCACCCTCGAGTGTC
1 CAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCTCGAGTGTC
* * * *
32835193 CAAAAATTACCGTTTTACCCTCGAACATTCGAAAATTACCATTTTCACCCTTGAGTGTC
1 CAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCTCGAGTGTC
* *
32835252 CAATAATTACCATTTTACCCTCGAACCTCCAAAAATTACCATTTT-ACCCTCG
1 CAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCTCG
32835304 GGCATCCAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 6 0.06
59 94 0.94
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTCACCCTCGAGTGTC
Found at i:32835301 original size:29 final size:29
Alignment explanation
Indices: 32834930--32835303 Score: 288
Period size: 29 Copynumber: 12.8 Consensus size: 29
32834920 TTAAACTTTT
* *
32834930 CAAAAATTA-CATTTTTGCCCTTGAACTTC
1 CAAAAATTACCA-TTTTACCCTCGAACTTC
* *
32834959 CAAAAATTACCATTTTACCC-CTAAACTTT
1 CAAAAATTACCATTTTACCCTC-GAACTTC
* *
32834988 TAAAAA-TATCATTTTTGA-CCTCGAACTTTC
1 CAAAAATTACCA-TTTT-ACCCTCGAAC-TTC
* *
32835018 CAAAAATCA-CATTTTGCCCTCGAACTTC
1 CAAAAATTACCATTTTACCCTCGAACTTC
*
32835046 CAAAAATTACCATTTTGCCCTCGAACTTC
1 CAAAAATTACCATTTTACCCTCGAACTTC
*
32835075 CAAAAATATA--ATTTTTGACCC-CCAAGCTT-
1 CAAAAAT-TACCA-TTTT-ACCCTCGAA-CTTC
* ** * * *
32835104 TAAAAAAAATCATATTTTCCCCTCGAACAT-
1 CAAAAATTA-C-CATTTTACCCTCGAACTTC
* *
32835134 CAAAAATTACCATTTTACCCCCGAACATC
1 CAAAAATTACCATTTTACCCTCGAACTTC
*
32835163 CAAAAATTACCATTTTCACCCTCG-AGTGTC
1 CAAAAATTACCATTTT-ACCCTCGAACT-TC
*
32835193 CAAAAATTACCGTTTTACCCTCGAACATT-
1 CAAAAATTACCATTTTACCCTCGAAC-TTC
* * *
32835222 CGAAAATTACCATTTTCACCCTTG-AGTGTC
1 CAAAAATTACCATTTT-ACCCTCGAACT-TC
* *
32835252 CAATAATTACCATTTTACCCTCGAACCTC
1 CAAAAATTACCATTTTACCCTCGAACTTC
32835281 CAAAAATTACCATTTTACCCTCG
1 CAAAAATTACCATTTTACCCTCG
32835304 GGCATCCAAA
Statistics
Matches: 277, Mismatches: 41, Indels: 54
0.74 0.11 0.15
Matches are distributed among these distances:
28 33 0.12
29 156 0.56
30 78 0.28
31 9 0.03
32 1 0.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCTCGAACTTC
Found at i:32835316 original size:88 final size:87
Alignment explanation
Indices: 32834930--32835303 Score: 260
Period size: 88 Copynumber: 4.3 Consensus size: 87
32834920 TTAAACTTTT
* * * ** * **
32834930 CAAAAATTA-CATTTTTGCCCTTGAACTTCCAAAAATTACCATTTTACCCCTAAACTTTTAAAAA
1 CAAAAATTACCA-TTTTACCCTCGAACAT-CAAAAATTACCATTTTACCCCCGAACATCCAAAAA
* * *
32834994 -TATCATTTTTGA-CCTCGAACTTTC
64 TTACCA-TTTTCACCCTCGAAC-CTC
* * * * * *
32835018 CAAAAATCA-CATTTTGCCCTCGAACTTCCAAAAATTACCATTTTGCCCTCGAACTTCCAAAAAT
1 CAAAAATTACCATTTTACCCTCGAACAT-CAAAAATTACCATTTTACCCCCGAACATCCAAAAAT
* * * *
32835082 ATA--ATTTTTGACCC-CCAAGCTT
65 -TACCA-TTTTCACCCTCGAACCTC
* ** * *
32835104 TAAAAAAAATCATATTTTCCCCTCGAACATCAAAAATTACCATTTTACCCCCGAACATCCAAAAA
1 CAAAAATTA-C-CATTTTACCCTCGAACATCAAAAATTACCATTTTACCCCCGAACATCCAAAAA
***
32835169 TTACCATTTTCACCCTCGAGTGTC
64 TTACCATTTTCACCCTCGAACCTC
* * ** *** *
32835193 CAAAAATTACCGTTTTACCCTCGAACATTCGAAAATTACCATTTTCACCCTTGAGTGTCCAATAA
1 CAAAAATTACCATTTTACCCTCGAACA-TCAAAAATTACCATTTT-ACCCCCGAACATCCAAAAA
32835258 TTACCATTTT-ACCCTCGAACCTC
64 TTACCATTTTCACCCTCGAACCTC
32835281 CAAAAATTACCATTTTACCCTCG
1 CAAAAATTACCATTTTACCCTCG
32835304 GGCATCCAAA
Statistics
Matches: 231, Mismatches: 44, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
86 7 0.03
87 72 0.31
88 102 0.44
89 50 0.22
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (87 bp):
CAAAAATTACCATTTTACCCTCGAACATCAAAAATTACCATTTTACCCCCGAACATCCAAAAATT
ACCATTTTCACCCTCGAACCTC
Found at i:32835657 original size:97 final size:98
Alignment explanation
Indices: 32835545--32835730 Score: 288
Period size: 97 Copynumber: 1.9 Consensus size: 98
32835535 AAATAAACCT
*
32835545 TTAAAATCGAGGCAATA-TTCTTTTAGT-TCGGGTTTTGAAAATTTGTTCCTTAACTTACTAGGC
1 TTAAAATCGAGGCAATATTTC-TTTA-TCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGC
* *
32835608 GCGATTTTTCTTCAAATTGGGATAATTGAATGCCC
64 GCGACTTTTCTTCAAATCGGGATAATTGAATGCCC
* *
32835643 TTAAAA-CGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
1 TTAAAATCGAGGCAATATTTCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
32835707 GACTTTTCTTCAAATCGGGATAAT
66 GACTTTTCTTCAAATCGGGATAAT
32835731 CAAATACTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
96 1 0.01
97 71 0.88
98 9 0.11
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (98 bp):
TTAAAATCGAGGCAATATTTCTTTATCTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
GACTTTTCTTCAAATCGGGATAATTGAATGCCC
Found at i:32836181 original size:19 final size:20
Alignment explanation
Indices: 32836159--32836197 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32836149 TAAACGTTTC
*
32836159 GATAGAGAA-AGAAAAGGAT
1 GATAAAGAACAGAAAAGGAT
32836178 GATAAAGAACAGAAAAGGAT
1 GATAAAGAACAGAAAAGGAT
32836198 TTATTAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.28, T:0.10
Consensus pattern (20 bp):
GATAAAGAACAGAAAAGGAT
Found at i:32843116 original size:47 final size:46
Alignment explanation
Indices: 32843058--32843250 Score: 190
Period size: 46 Copynumber: 4.2 Consensus size: 46
32843048 TGTAGTGGGT
* * * *
32843058 CAGATTAAAGCCACCATCTAATCTGATACCACTAAATTCTAAAAGGA
1 CAGATTGAAGCCACCATCCAATCTTATACCACTAAATTC-AAAGGGA
* * * ** *
32843105 CAGATTGAAGCCACCATCCAACCTTACACCATTAAACCCAAAGGGG
1 CAGATTGAAGCCACCATCCAATCTTATACCACTAAATTCAAAGGGA
* **
32843151 TAGATTGAAGATACCATCCAATCTTATACC-CTAAAATTCAAAGGGA
1 CAGATTGAAGCCACCATCCAATCTTATACCACT-AAATTCAAAGGGA
* * * * *
32843197 AAGATTGAACCCACCATCCAATCTTATACCTCTAAATCCAAAGGCA
1 CAGATTGAAGCCACCATCCAATCTTATACCACTAAATTCAAAGGGA
*
32843243 CAAATTGA
1 CAGATTGA
32843251 GCTACCAAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
45 1 0.01
46 83 0.71
47 33 0.28
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (46 bp):
CAGATTGAAGCCACCATCCAATCTTATACCACTAAATTCAAAGGGA
Found at i:32843193 original size:46 final size:46
Alignment explanation
Indices: 32843059--32843288 Score: 187
Period size: 46 Copynumber: 5.0 Consensus size: 46
32843049 GTAGTGGGTC
* * * * * *
32843059 AGATTAAAGCCACCATCTAATCTGATACCACTAAATTCTAAAAGGAC
1 AGATTGAAGCCACCATCCAATCTTATACCACTAAA-TCCAAAGGGAA
* * * * **
32843106 AGATTGAAGCCACCATCCAACCTTACACCATTAAACCCAAAGGGGT
1 AGATTGAAGCCACCATCCAATCTTATACCACTAAATCCAAAGGGAA
** *
32843152 AGATTGAAGATACCATCCAATCTTATACC-CTAAAATTCAAAGGGAA
1 AGATTGAAGCCACCATCCAATCTTATACCACT-AAATCCAAAGGGAA
* * *
32843198 AGATTGAACCCACCATCCAATCTTATACCTCTAAATCCAAAGGCACA
1 AGATTGAAGCCACCATCCAATCTTATACCACTAAATCCAAAGGGA-A
* * * * *
32843245 A-ATTG-AGCTACCAAATCAAATCGTATACCCCTAAATCTAAAGGG
1 AGATTGAAGCCACC--ATCCAATCTTATACCACTAAATCCAAAGGG
32843289 GCCAATTTAA
Statistics
Matches: 146, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
45 6 0.04
46 82 0.56
47 58 0.40
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (46 bp):
AGATTGAAGCCACCATCCAATCTTATACCACTAAATCCAAAGGGAA
Found at i:32843238 original size:92 final size:93
Alignment explanation
Indices: 32843070--32843240 Score: 231
Period size: 92 Copynumber: 1.8 Consensus size: 93
32843060 GATTAAAGCC
* * *
32843070 ACCATCTAATCTGATACCACTAAATTCTAAAAGGACAGATTGAAGCCACCATCCAACCTTACACC
1 ACCATCCAATCTGATACCACTAAATTCTAAAAGGAAAGATTGAACCCACCATCCAACCTTACACC
32843135 ATTAAACCCAAAGGGGTAGATTGAAGAT
66 ATTAAACCCAAAGGGGTAGATTGAAGAT
* * * *
32843163 ACCATCCAATCTTATACC-CTAAAATTC-AAAGGGAAAGATTGAACCCACCATCCAATCTTATAC
1 ACCATCCAATCTGATACCACT-AAATTCTAAAAGGAAAGATTGAACCCACCATCCAACCTTACAC
*
32843226 C-TCTAAATCCAAAGG
65 CAT-TAAACCCAAAGG
32843241 CACAAATTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
91 1 0.01
92 45 0.66
93 22 0.32
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (93 bp):
ACCATCCAATCTGATACCACTAAATTCTAAAAGGAAAGATTGAACCCACCATCCAACCTTACACC
ATTAAACCCAAAGGGGTAGATTGAAGAT
Found at i:32847724 original size:25 final size:25
Alignment explanation
Indices: 32847665--32847724 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
32847655 GTAAAGGGGG
*
32847665 TTACGAACCCAGTTCTGAAAATCAA
1 TTACAAACCCAGTTCTGAAAATCAA
*
32847690 TTACAGACCC-GTTCTTG-AAATCAA
1 TTACAAACCCAGTTC-TGAAAATCAA
*
32847714 TATATAAACCC
1 T-TACAAACCC
32847725 TTTCATTACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
TTACAAACCCAGTTCTGAAAATCAA
Found at i:32850125 original size:15 final size:15
Alignment explanation
Indices: 32850095--32850138 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32850085 ATTATATTAA
*
32850095 AAATATTATTAAATT
1 AAATATTATTTAATT
* *
32850110 ACATATTATTTTATT
1 AAATATTATTTAATT
*
32850125 AAATAGTATTTAAT
1 AAATATTATTTAAT
32850139 AATAATTATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
AAATATTATTTAATT
Found at i:32850145 original size:58 final size:58
Alignment explanation
Indices: 32850057--32850202 Score: 176
Period size: 58 Copynumber: 2.5 Consensus size: 58
32850047 ATATATTATA
* *
32850057 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
*
32850114 ATTATTTTATTAAA-TAGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTA-TATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
32850174 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
32850203 CATTAAAATT
Statistics
Matches: 78, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
57 1 0.01
58 47 0.60
59 14 0.18
60 8 0.10
61 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:32850396 original size:16 final size:16
Alignment explanation
Indices: 32850372--32850443 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
32850362 TGAATTACTG
*
32850372 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
32850388 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
32850404 ATTACAGTTTTATTCT
1 ATTACAGCTCTATTCC
*
32850420 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
32850436 ATTACAGC
1 ATTACAGC
32850444 GAACCAAACG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:32850607 original size:3 final size:3
Alignment explanation
Indices: 32850601--32850684 Score: 69
Period size: 3 Copynumber: 26.7 Consensus size: 3
32850591 TAAATATTAT
* * *
32850601 TAA TAA TAA TAT TAT TAA TAA TCA TAA TAA TTAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA
* * * *
32850648 TAT TTA TAA TTAA TAT TAA TAT TAA TAAA TAA TAA TA
1 TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TA
32850685 TCAACTATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
3 53 0.82
4 12 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:32850638 original size:19 final size:18
Alignment explanation
Indices: 32850593--32850684 Score: 98
Period size: 19 Copynumber: 5.1 Consensus size: 18
32850583 TAATTTTATA
*
32850593 AATATTATTAATAATAAT
1 AATATTAATAATAATAAT
* *
32850611 ATTATTAATAATCATAAT
1 AATATTAATAATAATAAT
32850629 -A-ATTAATAATAATAAT
1 AATATTAATAATAATAAT
* *
32850645 AAATATTTATAATTAATATT
1 -AATATTAATAA-TAATAAT
32850665 AATATTAATAAATAATAAT
1 AATATTAAT-AATAATAAT
32850684 A
1 A
32850685 TCAACTATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
16 14 0.23
18 16 0.27
19 22 0.37
20 8 0.13
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTAATAATAATAAT
Found at i:32850693 original size:29 final size:29
Alignment explanation
Indices: 32850617--32850698 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
32850607 TAATATTATT
* *
32850617 AATAATCATAAT-AATTAATAATAATAATA
1 AATAATAATAATCAA-TATTAATAATAATA
* * * *
32850646 AATATTTATAATTAATATTAATATTAATA
1 AATAATAATAATCAATATTAATAATAATA
32850675 AATAATAAT-ATCAACTATTAATAA
1 AATAATAATAATCAA-TATTAATAA
32850699 AAAAGGAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 4 0.09
29 37 0.86
30 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
AATAATAATAATCAATATTAATAATAATA
Found at i:32851847 original size:31 final size:29
Alignment explanation
Indices: 32851775--32851907 Score: 96
Period size: 31 Copynumber: 4.6 Consensus size: 29
32851765 ATAGGTCCCT
* * *
32851775 AAACTATCTAGAAATTATA-TTTTGACCCT
1 AAACT-TCTAAAAATTACATTTTTGACCCA
*
32851804 AAACTTCCAAAAATTACATTTTTAGACCCCA
1 AAACTTCTAAAAATTACATTTTT-GA-CCCA
32851835 AAACTTCTAAAAATTACATTTTT--CCTC-
1 AAACTTCTAAAAATTACATTTTTGACC-CA
* * * * *
32851862 GAACTTCCAAAAATCACATTTTTTATCCCG
1 AAACTTCTAAAAATTACATTTTTGA-CCCA
*
32851892 AAAC-TCTCAAAATTAC
1 AAACTTCTAAAAATTAC
32851908 CGTTTTACCC
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
27 22 0.26
28 11 0.13
29 19 0.23
30 7 0.08
31 25 0.30
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCTAAAAATTACATTTTTGACCCA
Found at i:32864514 original size:92 final size:92
Alignment explanation
Indices: 32863885--32864503 Score: 1049
Period size: 92 Copynumber: 6.7 Consensus size: 92
32863875 AGATTTAAAT
* *
32863885 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGTAAGTCTTTATCTCCCTGAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
32863950 TTGAAGTAAGAGCTAGATAAAGCATCA
66 TTGAAGTAAGAGCTAGATAAAGCATCA
*
32863977 AACATCATTTCCTATCCTTTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
*
32864042 TTGAAGTAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATAAAGCATCA
*
32864069 AACATCATTTCCTATCCTCTTGAAATTAAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
32864134 TTGAAGTAAGAGCTAGATAAAGCATCA
66 TTGAAGTAAGAGCTAGATAAAGCATCA
*
32864161 AATATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
*
32864226 TTAAAGTAAGAGCTAGATAAAGCATCA
66 TTGAAGTAAGAGCTAGATAAAGCATCA
* *
32864253 AACATCATTTCCAATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
* *
32864318 TTGAAGAAAGAGCTAGATGAAGCATCA
66 TTGAAGTAAGAGCTAGATAAAGCATCA
* *
32864345 AATATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
*
32864410 TTGAAGTAAGAGCTAGATAAAGTATCA
66 TTGAAGTAAGAGCTAGATAAAGCATCA
* * * * * * *
32864437 AACATCATTTCCTGTCCTCTTGAAGTTGTAGTAAAATGGGATAGCAAGTCTTTATTTATCTGAAA
1 AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
32864502 TT
66 TT
32864504 CTATTAAGAG
Statistics
Matches: 495, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 495 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (92 bp):
AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAA
TTGAAGTAAGAGCTAGATAAAGCATCA
Found at i:32864813 original size:6 final size:6
Alignment explanation
Indices: 32864787--32864848 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
32864777 TGCTTTTTAA
* *
32864787 TTAAAGT TTAAA- TTAATT TTAAAT TTAAAT TT--AT CTTAAAT TT-ATT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT
32864833 TTAAAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAA
32864849 TTGAATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
4 2 0.04
5 10 0.22
6 27 0.59
7 7 0.15
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:32864815 original size:17 final size:17
Alignment explanation
Indices: 32864787--32864861 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
32864777 TGCTTTTTAA
32864787 TTAAAGTTTAAATTAATT
1 TTAAA-TTTAAATTAATT
* *
32864805 TTAAATTTAAATTTATC
1 TTAAATTTAAATTAATT
** *
32864822 TTAAATTTATTTTAAAT
1 TTAAATTTAAATTAATT
32864839 TTAAATTT-AATTGAATT
1 TTAAATTTAAATT-AATT
*
32864856 TAAAAT
1 TTAAAT
32864862 AATATTAAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
16 2 0.04
17 38 0.84
18 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:32864825 original size:28 final size:28
Alignment explanation
Indices: 32864794--32864847 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
32864784 TAATTAAAGT
32864794 TTAAATTAATTTTAAATTTAAATTTATC
1 TTAAATTAATTTTAAATTTAAATTTATC
*
32864822 TTAAATTTATTTTAAATTTAAATTTA
1 TTAAATTAATTTTAAATTTAAATTTA
32864848 ATTGAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
TTAAATTAATTTTAAATTTAAATTTATC
Found at i:32865301 original size:25 final size:25
Alignment explanation
Indices: 32865242--32865301 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
32865232 GTAAAGGGGG
*
32865242 TTACGAACCCAGTTTTGAAAATCAA
1 TTACAAACCCAGTTTTGAAAATCAA
*
32865267 TTACAGACCC-GTTCTTG-AAATCAA
1 TTACAAACCCAGTT-TTGAAAATCAA
32865291 TATACAAACCC
1 T-TACAAACCC
32865302 TTTCATTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
TTACAAACCCAGTTTTGAAAATCAA
Found at i:32865576 original size:3 final size:3
Alignment explanation
Indices: 32865570--32865653 Score: 69
Period size: 3 Copynumber: 26.7 Consensus size: 3
32865560 TAAATATTAT
* * *
32865570 TAA TAA TAA TAT TAT TAA TAA TCA TAA TAA TTAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA
* * * *
32865617 TAT TTA TAA TTAA TAT TAA TAT TAA TAAA TAA TAA TA
1 TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TA
32865654 TCAACTATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
3 53 0.82
4 12 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:32865607 original size:19 final size:18
Alignment explanation
Indices: 32865562--32865653 Score: 98
Period size: 19 Copynumber: 5.1 Consensus size: 18
32865552 TAATTTTATA
*
32865562 AATATTATTAATAATAAT
1 AATATTAATAATAATAAT
* *
32865580 ATTATTAATAATCATAAT
1 AATATTAATAATAATAAT
32865598 -A-ATTAATAATAATAAT
1 AATATTAATAATAATAAT
* *
32865614 AAATATTTATAATTAATATT
1 -AATATTAATAA-TAATAAT
32865634 AATATTAATAAATAATAAT
1 AATATTAAT-AATAATAAT
32865653 A
1 A
32865654 TCAACTATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
16 14 0.23
18 16 0.27
19 22 0.37
20 8 0.13
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTAATAATAATAAT
Found at i:32865662 original size:29 final size:29
Alignment explanation
Indices: 32865586--32865667 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
32865576 TAATATTATT
* *
32865586 AATAATCATAAT-AATTAATAATAATAATA
1 AATAATAATAATCAA-TATTAATAATAATA
* * * *
32865615 AATATTTATAATTAATATTAATATTAATA
1 AATAATAATAATCAATATTAATAATAATA
32865644 AATAATAAT-ATCAACTATTAATAA
1 AATAATAATAATCAA-TATTAATAA
32865668 AAAAGGAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 4 0.09
29 37 0.86
30 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
AATAATAATAATCAATATTAATAATAATA
Found at i:32866889 original size:28 final size:28
Alignment explanation
Indices: 32866769--32866951 Score: 147
Period size: 29 Copynumber: 6.3 Consensus size: 28
32866759 CTGTAGAGGT
**
32866769 CCCT-AAACTGTCCAAAAATTGTATTTTG
1 CCCTCAAACT-TCCAAAAATTACATTTTG
*
32866797 ACCCCCAAACTTCCAAAAATTACATTTTCGG
1 -CCCTCAAACTTCCAAAAATTACATTTT--G
* * *
32866828 ACCTCGAAACTTTCAAAAATTACATTTTTA
1 CCCTC-AAACTTCCAAAAATTACA-TTTTG
*
32866858 CCCTTAAACTTCCAAAAATTACATTTTG
1 CCCTCAAACTTCCAAAAATTACATTTTG
* *
32866886 CCCTCGAACTTCCAAAAATCACATATTTG
1 CCCTCAAACTTCCAAAAATTACAT-TTTG
* * *
32866915 ATCCTGAAAC-TCTC-AAAATTACCATTTTA
1 -CCCTCAAACTTC-CAAAAATTA-CATTTTG
32866944 CCCTCAAA
1 CCCTCAAA
32866952 TGTTCAAAAA
Statistics
Matches: 124, Mismatches: 21, Indels: 19
0.76 0.13 0.12
Matches are distributed among these distances:
28 31 0.25
29 50 0.40
30 21 0.17
31 18 0.15
32 4 0.03
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (28 bp):
CCCTCAAACTTCCAAAAATTACATTTTG
Found at i:32866941 original size:58 final size:58
Alignment explanation
Indices: 32866773--32866948 Score: 169
Period size: 60 Copynumber: 3.0 Consensus size: 58
32866763 AGAGGTCCCT
*** ** *
32866773 AAACTGTCCAAAAATTGTATTTTGACCCCCAAACTTCCAAAAATTACATTTTCGGACCTCG
1 AAACT-TCCAAAAATCACATTTTGACCCTGAAACTTCCAAAAATTACATTTT--GCCCTCG
* * * *
32866834 AAACTTTCAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTGCCCTCG
1 AAACTTCCAAAAATCACATTTTGACCCTGAAACTTCCAAAAATTACATTTTGCCCTCG
* *
32866892 -AACTTCCAAAAATCACATATTTGATCCTGAAAC-TCTC-AAAATTACCATTTTACCCTC
1 AAACTTCCAAAAATCACAT-TTTGACCCTGAAACTTC-CAAAAATTA-CATTTTGCCCTC
32866949 AAATGTTCAA
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
57 25 0.25
58 29 0.29
60 40 0.40
61 5 0.05
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (58 bp):
AAACTTCCAAAAATCACATTTTGACCCTGAAACTTCCAAAAATTACATTTTGCCCTCG
Found at i:32867077 original size:28 final size:28
Alignment explanation
Indices: 32867045--32867105 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
32867035 TAAATTTTCT
32867045 CAAAATTACCATTTTGCGCTCGAA-AGTC
1 CAAAATTACCATTTTGCGCTCGAACA-TC
*
32867073 CAAAATTACCATTTTGCTCTCGAACATC
1 CAAAATTACCATTTTGCGCTCGAACATC
32867101 CAAAA
1 CAAAA
32867106 AGTCCCGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (28 bp):
CAAAATTACCATTTTGCGCTCGAACATC
Found at i:32867246 original size:145 final size:145
Alignment explanation
Indices: 32866928--32867249 Score: 394
Period size: 145 Copynumber: 2.2 Consensus size: 145
32866918 CTGAAACTCT
* ** * ** * *
32866928 CAAAATTACCATTTTACCCTCAAATGTTCAAAAAGTTTCGTTTTAATCTCGATTCATTCAAAAAT
1 CAAAATTACCATTTTACCCTCGAACATCCAAAAAGTCCCGTTTTAATCCCGATTCATTCAAAAAG
* * * *
32866993 TACCATTTTACCCTTGATTATCTAAAATGTCAGTTTCAACCCTAAATTTTCTCAAAATTACCATT
66 TACCATTTTACCCTTAAGTATCTAAAATATCAGTTTCAACCCCAAATTTTCTCAAAATTACCATT
*
32867058 TTGCGCTCGAAAGTC
131 TTGCCCTCGAAAGTC
* * * * *
32867073 CAAAATTACCATTTTGCTCTCGAACATCCAAAAAGTCCCGTTTTGATCCCGATTCTTTCGAAAAG
1 CAAAATTACCATTTTACCCTCGAACATCCAAAAAGTCCCGTTTTAATCCCGATTCATTCAAAAAG
* * * **
32867138 TACCATTTTACCCTTAAGTGTCTAAAATATCATTTTTAACCCCAAATTTT-TCTAAAATTGTCAT
66 TACCATTTTACCCTTAAGTATCTAAAATATCAGTTTCAACCCCAAATTTTCTC-AAAATTACCAT
*
32867202 TTTGCCCTCGAGAGTC
130 TTTGCCCTCGAAAGTC
* *
32867218 CAAAATTACCATTTTACCCCCGAGCATCCAAA
1 CAAAATTACCATTTTACCCTCGAACATCCAAA
32867250 GTCTCTTTTT
Statistics
Matches: 148, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
144 2 0.01
145 146 0.99
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (145 bp):
CAAAATTACCATTTTACCCTCGAACATCCAAAAAGTCCCGTTTTAATCCCGATTCATTCAAAAAG
TACCATTTTACCCTTAAGTATCTAAAATATCAGTTTCAACCCCAAATTTTCTCAAAATTACCATT
TTGCCCTCGAAAGTC
Found at i:32874466 original size:51 final size:52
Alignment explanation
Indices: 32874382--32874484 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
32874372 CACATAATCA
* **
32874382 AATCAATTAATACAATTTCATCCTTTTGGGAAATTTATGAATTTACCCCTAT
1 AATCAATTAATACAATTTCATCCTTTTGAGAAATTTACAAATTTACCCCTAT
** * *
32874434 AATCAA-TAATACAATTTGGTCTTTTTTAGAAATTTACAAATTTACCCCTAT
1 AATCAATTAATACAATTTCATCCTTTTGAGAAATTTACAAATTTACCCCTAT
32874485 CATTTTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 38 0.86
52 6 0.14
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (52 bp):
AATCAATTAATACAATTTCATCCTTTTGAGAAATTTACAAATTTACCCCTAT
Found at i:32875827 original size:21 final size:20
Alignment explanation
Indices: 32875793--32875850 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
32875783 AATTTTTCGC
*
32875793 TTTTATTCGCTTTTTTTGTAT
1 TTTTATTC-ATTTTTTTGTAT
*
32875814 TTTTACTTTATTTTTTATGT-T
1 TTTTA-TTCATTTTTT-TGTAT
*
32875835 GTTTATTCATTTTTTT
1 TTTTATTCATTTTTTT
32875851 ATTATTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
21 16 0.52
22 5 0.16
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTTATTCATTTTTTTGTAT
Found at i:32882173 original size:29 final size:30
Alignment explanation
Indices: 32882043--32882371 Score: 378
Period size: 30 Copynumber: 11.1 Consensus size: 30
32882033 CTCAAGAGGT
* *
32882043 CCCC-AAACATTTCCAAAATTATATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* * * *
32882072 CCCTTAAACTTTTCCATAACTATATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* *
32882102 CCCCTAAATTTTTCCAAAATTACATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* *
32882132 CCCTTAAAATTTTCCAAAATTACA-TTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
*
32882161 CCCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* *
32882191 CCCTTAAAC-TTTCCAAAATTACATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* * *
32882220 CCCCTAAATTTTTCTAAAATTAC-TTTTTA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* * *
32882249 ACCTTAAACTTTTCCAAAATCACATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
*
32882279 CCCCTAAACTTTTCCAAAATTATATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* * * *
32882309 CCCCTAAAATTTTCCACAATCATATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
* * * *
32882339 CCCCTAAACTTTTTCAGAATCACATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTGA
32882369 CCC
1 CCC
32882372 TCGAGCTTTT
Statistics
Matches: 257, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
29 79 0.31
30 178 0.69
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.39
Consensus pattern (30 bp):
CCCCTAAACTTTTCCAAAATTACATTTTGA
Found at i:32882183 original size:59 final size:60
Alignment explanation
Indices: 32882043--32882372 Score: 416
Period size: 59 Copynumber: 5.6 Consensus size: 60
32882033 CTCAAGAGGT
* * * * * * *
32882043 CCCC-AAACATTTCCAAAATTATATTTTGACCCTTAAACTTTTCCATAACTATATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACATTTTGA
*
32882102 CCCCTAAATTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACA-TTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACATTTTGA
* *
32882161 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTT-AAACTTTCCAAAATTACATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACATTTTGA
* * * * *
32882220 CCCCTAAATTTTTCTAAAATTACTTTTTAA-CCTTAAACTTTTCCAAAATCACATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACATTTTGA
* * * * * *
32882279 CCCCTAAACTTTTCCAAAATTATATTTTGACCCCTAAAATTTTCCACAATCATATTTTGA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACATTTTGA
* * *
32882339 CCCCTAAACTTTTTCAGAATCACATTTTAACCCT
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCT
32882373 CGAGCTTTTC
Statistics
Matches: 234, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
58 21 0.09
59 119 0.51
60 94 0.40
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.39
Consensus pattern (60 bp):
CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAAATTTTCCAAAATTACATTTTGA
Found at i:32886583 original size:16 final size:16
Alignment explanation
Indices: 32886556--32886596 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
32886546 ACACACTATT
*
32886556 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAGAAAG
32886572 AAGAAGAAAAAAGAAAG
1 AA-AAGAAAAAAGAAAG
32886589 AAAAGAAA
1 AAAAGAAA
32886597 GGAAAGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:32886585 original size:10 final size:12
Alignment explanation
Indices: 32886556--32886595 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
32886546 ACACACTATT
*
32886556 AAAAGAA-AAAA
1 AAAAGAAGAAAG
32886567 AAAAGAAG-AAG
1 AAAAGAAGAAAG
32886578 AAAA-AAGAAAG
1 AAAAGAAGAAAG
32886589 AAAAGAA
1 AAAAGAA
32886596 AGGAAAGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 3 0.12
11 20 0.80
12 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAAG
Found at i:32886670 original size:61 final size:60
Alignment explanation
Indices: 32886576--32886693 Score: 202
Period size: 61 Copynumber: 1.9 Consensus size: 60
32886566 AAAAAGAAGA
*
32886576 AGAAAAAAGAAAGAAAAGAAAGGAAAGGTCAAGATGAAAACCCGCAAAGGGCATCTTTTT
1 AGAAAAAAGAAAGAAAAGAAAGGAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTTTTT
32886636 AGAAAAAAG-AAGAAAAGAAAAAGGAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTT
1 AGAAAAAAGAAAGAAAAG--AAAGGAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTT
32886694 AAAAAAAATC
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
59 8 0.15
60 9 0.16
61 38 0.69
ACGTcount: A:0.54, C:0.12, G:0.23, T:0.11
Consensus pattern (60 bp):
AGAAAAAAGAAAGAAAAGAAAGGAAAAGTCAAGATGAAAACCCGCAAAGGGCATCTTTTT
Found at i:32888548 original size:49 final size:48
Alignment explanation
Indices: 32888494--32889461 Score: 632
Period size: 49 Copynumber: 19.8 Consensus size: 48
32888484 CAAATATTAT
*
32888494 GGGAAAGATTTAAGCCGCAACGGC-ATATCCAGTACCACGAAGATTTGAA
1 GGGAAAGATTTAAGTCGCAACGGCGA-ATCCAGTACCACGAAGA-TTGAA
* * * * *
32888543 CGGAAAGGTTTAAGTCACAACGGCGAA-CCTTGTACCTCAGAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
* * *
32888592 GGGAAAGATTTAAGTCACAACGGCGAATCCAATACCACGAAGATATGGA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGAT-TGAA
* * * * *
32888641 GGGAAAGGTTTCAGTCACAACGGTGAA-CCTTA-TACCTCAGAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC--AGTACCAC-GAAG-ATTGAA
* *
32888690 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGAT-T-GAA
* * ** *
32888740 -GGAAGGGTTTAAGTCGCAACGGCGAA-CCTTTTACCTCAGAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
* * * * *
32888788 GGGAAAGATATAAGCCACAACGACGAATCCAGTACCACGAAGAAGATATGGA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCAC---GAAGAT-TGAA
* * * * * *
32888840 GGGAAAGGTTTAAGTTGCAATGACGAA-CCTTGTACCTCAGAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
* ** * *
32888889 GGGAAAGATTTAAGCCGCAACGATGAATCCAGTACCACTAAGATATGGA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGAT-TGAA
* * * * *
32888938 GGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTGCCTCAAAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
* * * *
32888987 GAGAAAGATTTAAGCCGCAACGGCGAATCCAGTAGCACGAAGATATGGA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGAT-TGAA
* * *
32889036 GGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCTCAGAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
* * * * *
32889085 AGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCACGAATA-TGGA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATTGAA
* * * *
32889132 GGGAAAGGTTTAAGTCGCAATGGTGAA-CCTTGTACCTTA-GAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACC--ACGAAG-ATTGAA
* * * * *
32889181 GGGAAAGATTTAAGCCGCAATGACAAATCCAGTACCACGAAGATATGGA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGAT-TGAA
* * * *
32889230 GGGAAAGGTTTAAGTTGCAACGGCGAA-CCTTGTACCTCAGAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
*
32889279 GGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAAGATTTGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGA-TTGAA
* * * * * * *
32889328 AGGAAAGGTTTAAGTTGCAACGACGAA-CCTTGTACCTCAAAAGCA-TGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCAC-GAAG-ATTGAA
* * **
32889377 GGGATAGATTTAAGCCGCAACGGTAAATCCAGTACCACGAAGATTTGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGA-TTGAA
* * * * *
32889426 GGGCAAGGTTTAAGCCGCAACGACGAATCGAGTACC
1 GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACC
32889462 TTAGAAACAT
Statistics
Matches: 713, Mismatches: 146, Indels: 120
0.73 0.15 0.12
Matches are distributed among these distances:
46 2 0.00
47 38 0.05
48 49 0.07
49 524 0.73
50 55 0.08
51 15 0.02
52 30 0.04
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (48 bp):
GGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATTGAA
Found at i:32889503 original size:98 final size:98
Alignment explanation
Indices: 32888494--32889494 Score: 1391
Period size: 98 Copynumber: 10.2 Consensus size: 98
32888484 CAAATATTAT
* * * *
32888494 GGGAAAGATTTAAGCCGCAACGGC-ATATCCAGTACCACGAAGATTTGAACGGAAAGGTTTAAGT
1 GGGAAAGATTTAAGCCGCAACGACGA-ATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
*
32888558 CACAACGGCGAACCTTGTACCTCAGAAGCATGAA
65 CGCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * * * *
32888592 GGGAAAGATTTAAGTCACAACGGCGAATCCAATACCACGAAGATATGGAGGGAAAGGTTTCAGTC
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* * *
32888657 ACAACGGTGAACCTTATACCTCAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* *
32888690 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAAGGAAGGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
*
32888755 GCAACGGCGAACCTTTTACCTCAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* *
32888788 GGGAAAGATATAAGCCACAACGACGAATCCAGTACCACGAAGAAGATATGGAGGGAAAGGTTTAA
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCAC---GAAGATATGGAGGGAAAGGTTTAA
* * *
32888853 GTTGCAATGACGAACCTTGTACCTCAGAAGCATGAA
63 GTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* *
32888889 GGGAAAGATTTAAGCCGCAACGATGAATCCAGTACCACTAAGATATGGAGGGAAAGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* *
32888954 GCAACGGCGAACCTTGTGCCTCAAAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * *
32888987 GAGAAAGATTTAAGCCGCAACGGCGAATCCAGTAGCACGAAGATATGGAGGGAAAGGTTTAAGTC
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
32889052 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
*
32889085 AGGAAAGATTTAAGCCGCAAC-AGCGAATCCAGTACCACG-A-ATATGGAGGGAAAGGTTTAAGT
1 GGGAAAGATTTAAGCCGCAACGA-CGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGT
* * *
32889147 CGCAATGGTGAACCTTGTACCTTAGAAGCATGAA
65 CGCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * *
32889181 GGGAAAGATTTAAGCCGCAATGACAAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTT
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
32889246 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* * * * *
32889279 GGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAAGATTTGAAAGGAAAGGTTTAAGTT
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* *
32889344 GCAACGACGAACCTTGTACCTCAAAAGCATGAA
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
* *** * * * *
32889377 GGGATAGATTTAAGCCGCAACGGTAAATCCAGTACCACGAAGATTTGAAGGGCAAGGTTTAAGCC
1 GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
* * ** * * *
32889442 GCAACGACGAATCGAGTACCTTAGAAACATGAC
66 GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
*
32889475 GAGAAAGA-TTAAGGCCGCAA
1 GGGAAAGATTTAA-GCCGCAA
32889495 TGTTAAATCT
Statistics
Matches: 811, Mismatches: 83, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
96 87 0.11
97 7 0.01
98 627 0.77
99 1 0.00
101 89 0.11
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (98 bp):
GGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTC
GCAACGGCGAACCTTGTACCTCAGAAGCATGAA
Found at i:32889844 original size:40 final size:38
Alignment explanation
Indices: 32889754--32889845 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 38
32889744 CATCACCATC
* *
32889754 CAATCTCTTACCCCGATCATGGGGCAATTTGAAAACCATT
1 CAATCT-TTA-CCCAATCATGGGGCAATTTGAAAACAATT
*
32889794 CGATCTTTTACCCAATCATGGGGCAGA-TTGAAACCACAATT
1 CAATC-TTTACCCAATCATGGGGCA-ATTTGAAA--ACAATT
32889835 CAATCTTTACC
1 CAATCTTTACC
32889846 TTAAACCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
39 20 0.45
40 14 0.32
41 10 0.23
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (38 bp):
CAATCTTTACCCAATCATGGGGCAATTTGAAAACAATT
Found at i:32891579 original size:30 final size:30
Alignment explanation
Indices: 32891545--32891842 Score: 399
Period size: 30 Copynumber: 10.1 Consensus size: 30
32891535 TCAAGAGGTT
* *
32891545 CTTAAACTTTTCTAAAATTACATTTTGACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
*
32891575 CTTAAACTTTTCCATAATTACATTTTAACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
*
32891605 CCTAAACTTTTCCAAAATTACATTTTAACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
32891635 CTTAAACTTTTCCAAAATTACATTTTAACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
* * * *
32891665 CCTAAAATTTT-CAAAATTACATTTTGATC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
32891694 C-TAAACTTTTCCAAAATTACATTTTAATCC
1 CTTAAACTTTTCCAAAATTACATTTTAA-CC
*
32891724 C-TAAACTTTTCCAAAATCACATTTTAACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
* *
32891753 C-CAAACTTTT-CAAAATTACATTATAACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
*
32891781 CTTAAACTTTTCCAAAATCACATTTTAACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
** * * *
32891811 CCCAAACTTTTCTAAAATCACATTTTGACC
1 CTTAAACTTTTCCAAAATTACATTTTAACC
32891841 CT
1 CT
32891843 CGAGCGTTTC
Statistics
Matches: 239, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.10
29 51 0.21
30 163 0.68
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.38
Consensus pattern (30 bp):
CTTAAACTTTTCCAAAATTACATTTTAACC
Found at i:32891720 original size:58 final size:59
Alignment explanation
Indices: 32891547--32891841 Score: 405
Period size: 58 Copynumber: 5.0 Consensus size: 59
32891537 AAGAGGTTCT
* * *
32891547 TAAACTTTTCTAAAATTACATTTTGACCCTTAAACTTTTCCATAATTACATTTTAACCCC
1 TAAACTTTTCCAAAATTACATTTTAACCC-TAAACTTTTCCAAAATTACATTTTAACCCC
32891607 TAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCC
1 TAAACTTTTCCAAAATTACATTTTAACCC-TAAACTTTTCCAAAATTACATTTTAACCCC
* * * *
32891667 TAAAATTTT-CAAAATTACATTTTGATCCTAAACTTTTCCAAAATTACATTTTAATCCC
1 TAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCCC
* * * *
32891725 TAAACTTTTCCAAAATCACATTTTAACCCCAAACTTTT-CAAAATTACATTATAACCCT
1 TAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCCC
* * * * *
32891783 TAAACTTTTCCAAAATCACATTTTAACCCCCAAACTTTTCTAAAATCACATTTTGACCC
1 TAAACTTTTCCAAAATTACATTTTAA-CCCTAAACTTTTCCAAAATTACATTTTAACCC
32891842 TCGAGCGTTT
Statistics
Matches: 213, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
58 80 0.38
59 53 0.25
60 80 0.38
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.38
Consensus pattern (59 bp):
TAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCCC
Found at i:32891729 original size:88 final size:87
Alignment explanation
Indices: 32891547--32891841 Score: 403
Period size: 88 Copynumber: 3.3 Consensus size: 87
32891537 AAGAGGTTCT
* * * * *
32891547 TAAACTTTTCTAAAATTACATTTTGACCCTTAAACTTTTCCATAATTACATTTTAACCCCTAAAC
1 TAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTT-CAAAATTACATTTTAA-CCCTAAAC
32891612 TTTTCCAAAATTACATTTTAACCC
64 TTTTCCAAAATTACATTTTAACCC
* * * *
32891636 TTAAACTTTTCCAAAATTACATTTTAACCCCTAAAATTTTCAAAATTACATTTTGATCCTAAACT
1 -TAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTTCAAAATTACATTTTAACCCTAAACT
32891701 TTTCCAAAATTACATTTTAATCCC
65 TTTCCAAAATTACATTTTAA-CCC
*
32891725 TAAACTTTTCCAAAATCACATTTTAACCCC-AAACTTTTCAAAATTACATTATAACCCTTAAACT
1 TAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTTCAAAATTACATTTTAACCC-TAAACT
*
32891789 TTTCCAAAATCACATTTTAACCCC
65 TTTCCAAAATTACATTTTAA-CCC
* * *
32891813 CAAACTTTTCTAAAATCACATTTTGACCC
1 TAAACTTTTCCAAAATCACATTTTAACCC
32891842 TCGAGCGTTT
Statistics
Matches: 186, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
87 23 0.12
88 111 0.60
89 17 0.09
90 35 0.19
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.38
Consensus pattern (87 bp):
TAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTTTCAAAATTACATTTTAACCCTAAACTT
TTCCAAAATTACATTTTAACCC
Found at i:32893709 original size:17 final size:17
Alignment explanation
Indices: 32893687--32893720 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32893677 CAAAATGTGT
32893687 TTTTTTTTAATTTTTAA
1 TTTTTTTTAATTTTTAA
*
32893704 TTTTTTTTATTTTTTAA
1 TTTTTTTTAATTTTTAA
32893721 CTTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTAATTTTTAA
Found at i:32894837 original size:21 final size:21
Alignment explanation
Indices: 32894811--32894850 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32894801 CATTAAATAA
*
32894811 TAATAATATTACTAATAACAT
1 TAATAATATTAATAATAACAT
32894832 TAATAATATTAATAATAAC
1 TAATAATATTAATAATAAC
32894851 CGTAATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATAATATTAATAATAACAT
Found at i:32894847 original size:9 final size:9
Alignment explanation
Indices: 32894806--32894848 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
32894796 CACAACATTA
*
32894806 AATAATAAT
1 AATAATATT
* *
32894815 AATATTACT
1 AATAATATT
*
32894824 AATAACATT
1 AATAATATT
32894833 AATAATATT
1 AATAATATT
32894842 AATAATA
1 AATAATA
32894849 ACCGTAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (9 bp):
AATAATATT
Found at i:32894856 original size:21 final size:21
Alignment explanation
Indices: 32894811--32894857 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32894801 CATTAAATAA
* *
32894811 TAATAATATTACTAATAACAT
1 TAATAATATTAATAATAACAG
*
32894832 TAATAATATTAATAATAACCG
1 TAATAATATTAATAATAACAG
32894853 TAATA
1 TAATA
32894858 TTGAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATAATATTAATAATAACAG
Found at i:32895714 original size:31 final size:32
Alignment explanation
Indices: 32895679--32895738 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
32895669 TATTTACGCA
*
32895679 TTTAGTCCTTTC-GTATTTTTGAA-TATTTCAG
1 TTTAGTCCTTTCTGTACTTTT-AATTATTTCAG
32895710 TTTAGTCCTTTCTGTACTTTTAATTATTT
1 TTTAGTCCTTTCTGTACTTTTAATTATTT
32895739 TTAAATTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTAGTCCTTTCTGTACTTTTAATTATTTCAG
Found at i:32896054 original size:29 final size:29
Alignment explanation
Indices: 32896011--32896272 Score: 237
Period size: 29 Copynumber: 8.9 Consensus size: 29
32896001 CTCTAGAGGT
32896011 CCCTAAACTATCCAAAAATTACATTTTTAC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
* *
32896041 CCCTAGACTTCCAAAAATTCCATTTTTTAC
1 CCCTAAACTTCCAAAAATTACA-TTTTTAC
* **
32896071 CCCGAAACTTTTAAAAATTACATTTTTA-
1 CCCTAAACTTCCAAAAATTACATTTTTAC
32896099 CCCTCAAACTTCCAAAAATT-CAATTTTTAAC
1 CCCT-AAACTTCCAAAAATTAC-ATTTTT-AC
* *
32896130 CCCGAAACTTCCAAAAATTACATTTTTAT
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* **
32896159 CCC-AAACTTCCAAACATCCTA-ATTTGGA-
1 CCCTAAACTTCCAAAAAT--TACATTTTTAC
** *
32896187 CCCTAAAACTTTTAGAAATTACATTTTTAC
1 CCCT-AAACTTCCAAAAATTACATTTTTAC
* * *
32896217 CCCTAAACTTCTAAAAATTCCATTTTGAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* * *
32896246 CCCGAAGCTTTCAAAAATTACCATTTT
1 CCCTAAACTTCCAAAAATTA-CATTTT
32896273 GCCCCGGATG
Statistics
Matches: 189, Mismatches: 30, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
28 22 0.12
29 87 0.46
30 76 0.40
31 4 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:32896116 original size:59 final size:59
Alignment explanation
Indices: 32896023--32896272 Score: 301
Period size: 59 Copynumber: 4.3 Consensus size: 59
32896013 CTAAACTATC
* *
32896023 CAAAAATTACATTTTTACCCCTAGACTTCCAAAAATTCCATTTTTTACCCCGAAACTTT
1 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCCGAAACTTT
* * * *
32896082 TAAAAATTACATTTTTA-CCCTCAAACTTCCAAAAATTCAATTTTTAACCCCGAAACTTC
1 CAAAAATTACATTTTTACCCCT-AAACTTCCAAAAATTCCATTTTTGACCCCGAAACTTT
* * * * **
32896141 CAAAAATTACATTTTTATCCC-AAACTTCCAAACA-TCCTAATTTGGACCCTAAAACTTT
1 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCC-ATTTTTGACCCCGAAACTTT
* * * *
32896199 TAGAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCA-TTTTGACCCCGAAGCTTT
1 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCCGAAACTTT
32896257 CAAAAATTACCATTTT
1 CAAAAATTA-CATTTT
32896273 GCCCCGGATG
Statistics
Matches: 160, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
57 2 0.01
58 69 0.43
59 83 0.52
60 6 0.04
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (59 bp):
CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCCGAAACTTT
Found at i:32902088 original size:6 final size:5
Alignment explanation
Indices: 32902065--32902129 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
32902055 TTCAATGAAC
*
32902065 AAAAG AAAAG AAAAG AAGAAG AAGAA- AAAAG AAAA- AGAA- AAAAG AAAAG
1 AAAAG AAAAG AAAAG AA-AAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG
32902114 AAATA- AAAA- AAAAG AA
1 AAA-AG AAAAG AAAAG AA
32902130 GAAAAGGAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
4 13 0.25
5 31 0.58
6 9 0.17
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:32902096 original size:13 final size:12
Alignment explanation
Indices: 32902065--32902135 Score: 83
Period size: 13 Copynumber: 5.8 Consensus size: 12
32902055 TTCAATGAAC
32902065 AAAAGAAAAGAA
1 AAAAGAAAAGAA
32902077 AAGAAGAAGAAGAA
1 AA-AAGAA-AAGAA
32902091 AAAAGAAAAAGAA
1 AAAAG-AAAAGAA
32902104 AAAAGAAAAGAA
1 AAAAGAAAAGAA
*
32902116 ATAA-AAAA-AA
1 AAAAGAAAAGAA
*
32902126 AGAAGAAAAG
1 AAAAGAAAAG
32902136 GAGAGGTTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
10 5 0.10
11 8 0.15
12 12 0.23
13 18 0.35
14 9 0.17
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:32902099 original size:26 final size:24
Alignment explanation
Indices: 32902065--32902135 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 24
32902055 TTCAATGAAC
32902065 AAAAGAAAAGAAAAGAAGAAGAAGAA
1 AAAAGAAAAGAAAAGAAGAA-AAG-A
32902091 AAAAGAAAAAGAAAA-AAGAAAAGA
1 AAAAG-AAAAGAAAAGAAGAAAAGA
*
32902115 AATA-AAAA-AAAAGAAGAAAAG
1 AAAAGAAAAGAAAAGAAGAAAAG
32902136 GAGAGGTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
24 4 0.10
25 3 0.07
26 10 0.24
27 9 0.21
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (24 bp):
AAAAGAAAAGAAAAGAAGAAAAGA
Found at i:32902103 original size:22 final size:21
Alignment explanation
Indices: 32902070--32902134 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
32902060 TGAACAAAAG
32902070 AAAAG-AAAAGAAGAAGAAGAA
1 AAAAGAAAAAGAA-AAGAAGAA
32902091 AAAAGAAAAAGAAAA-AAGAA
1 AAAAGAAAAAGAAAAGAAGAA
*
32902111 AAGAA-ATAAAAAAAAAGAAGAA
1 AA-AAGA-AAAAGAAAAGAAGAA
32902133 AA
1 AA
32902135 GGAGAGGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 8 0.21
21 17 0.44
22 14 0.36
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAGAAGAA
Found at i:32902121 original size:29 final size:29
Alignment explanation
Indices: 32902065--32902134 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
32902055 TTCAATGAAC
32902065 AAAAGAA-AAGAAAAGAAGAAGAAGAAAAA
1 AAAAGAAGAA-AAAAGAAGAAGAAGAAAAA
*
32902094 AGAAA-AAGAAAAAAGAA-AAGAAATAAAAA
1 A-AAAGAAGAAAAAAGAAGAAG-AAGAAAAA
32902123 AAAAGAAGAAAA
1 AAAAGAAGAAAA
32902135 GGAGAGGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
28 6 0.17
29 25 0.69
30 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (29 bp):
AAAAGAAGAAAAAAGAAGAAGAAGAAAAA
Found at i:32903428 original size:50 final size:50
Alignment explanation
Indices: 32903280--32903851 Score: 339
Period size: 50 Copynumber: 11.3 Consensus size: 50
32903270 GCACCATGAA
* * ** *
32903280 ACATGACGGGAAAGATCTAAGACCGCAATGGCAAATCCAGTACCGCAAAG
1 ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
* * * * *
32903330 --ATGCAAAGGGAAAGGTTTAAG-TCGCAACGGC-GAACCTTA-TACCTCAAAG
1 ACATG--AAGGGAAAGATCTAAGACCGCAACGGCGGATCC--AGTACCACAAAG
* *
32903379 ACATGACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAG
1 ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
* ** * * * * *
32903429 ATACCAAAGGGAAAGGTCTAAG-TCGCAACGACGGA-CCGTGTACCTCAGAAG
1 ACA-TGAAGGGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACA-AAG
* * * *
32903480 ACATGAAGGGAAGGATCTAAGATCGCAACGGCGGATCTAGTACCGCAAAG
1 ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
* * * * * * * **
32903530 ATACA-AAAGGGAAAGGTCTAAG-TCGCAACGACAGA-CCGTGTACCTCAGACT
1 --ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACA-AAG
* * * *
32903581 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCGAAG
1 ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
* * *
32903631 ACA-CAAGGCAAAGATCTAAGACCGCAACGGCAGATCCAGTACCACAAAG
1 ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
* * *
32903680 ATACA-GAAGGGAAAGGTCTAAGACCACAACGGCAG-TCCAGTACCACAAA-
1 --ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
* * * *
32903729 AAATGACGGGAAAGATTTAAGACCGTATCTAAGCTGCGACGATGGATCCAGTACCACGAAG
1 ACATGAAGGGAAAGATCTAAGACCG---C-AA-C-G-G-C---GGATCCAGTACCACAAAG
* * **
32903790 ACA-CAAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGTACCATGAAG
1 ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
**
32903838 ATTTGAAGGGAAAG
1 ACATGAAGGGAAAG
32903852 GTTTAAGTCG
Statistics
Matches: 401, Mismatches: 83, Indels: 77
0.71 0.15 0.14
Matches are distributed among these distances:
47 2 0.00
48 41 0.10
49 85 0.21
50 117 0.29
51 106 0.26
52 8 0.02
53 2 0.00
54 2 0.00
55 3 0.01
56 2 0.00
59 4 0.01
60 27 0.07
61 2 0.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (50 bp):
ACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAG
Found at i:32903513 original size:101 final size:101
Alignment explanation
Indices: 32903280--32903631 Score: 501
Period size: 101 Copynumber: 3.5 Consensus size: 101
32903270 GCACCATGAA
* ** *
32903280 ACATGACGGGAAAGATCTAAGACCGCAATGGCAAATCCAGTACCGCAAAGAT-GCAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACCAAAGGGAAAG
* * * * *
32903344 GTTTAAGTCGCAACGGCGAACCTTATACCTCA-AAG
66 GTCTAAGTCGCAACGACGGACCGTGTACCTCAGAAG
* *
32903379 ACATGACGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACCAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACCAAAGGGAAAG
32903444 GTCTAAGTCGCAACGACGGACCGTGTACCTCAGAAG
66 GTCTAAGTCGCAACGACGGACCGTGTACCTCAGAAG
* * * * *
32903480 ACATGAAGGGAAGGATCTAAGATCGCAACGGCGGATCTAGTACCGCAAAGATACAAAAGGGAAAG
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACCAAAGGGAAAG
* **
32903545 GTCTAAGTCGCAACGACAGACCGTGTACCTCAGACT
66 GTCTAAGTCGCAACGACGGACCGTGTACCTCAGAAG
* *
32903581 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCGAAGA
1 ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGA
32903632 CACAAGGCAA
Statistics
Matches: 226, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
99 49 0.22
100 38 0.17
101 139 0.62
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (101 bp):
ACATGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACCAAAGGGAAAG
GTCTAAGTCGCAACGACGGACCGTGTACCTCAGAAG
Found at i:32903681 original size:150 final size:154
Alignment explanation
Indices: 32903493--32903864 Score: 402
Period size: 150 Copynumber: 2.4 Consensus size: 154
32903483 TGAAGGGAAG
* * * *
32903493 GATCTAAGATCGCAACGGCGGATCTAGTACCGCAAAGATACAAAAGGGAAAGGTCTAAGTCGCAA
1 GATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAGAAGGGAAAGGTCTAAGTCGCAA
* * * *
32903558 CGACAGACCGTGTACCTCAGACTACATGACGGGAAAGATCTAAGACCG-C-AA-C-G-G-C-GGA
66 CGACAGACC-AGTACCACA-A-AAAATGACGGGAAAGATCTAAGACCGTCTAAGCTGCGACAGGA
* *
32903616 TCCAGTATCGCGAAGACACAAGGCAAA
128 TCCAGTACCACGAAGACACAAGGCAAA
* * *
32903643 GATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGATACAGAAGGGAAAGGTCTAAGACCACA
1 GATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAGAAGGGAAAGGTCTAAG-TCGCA
* * *
32903708 ACGGCAGTCCAGTACCACAAAAAATGACGGGAAAGATTTAAGACCGTATCTAAGCTGCGACGATG
65 ACGACAGACCAGTACCACAAAAAATGACGGGAAAGATCTAAGACCG--TCTAAGCTGCGAC-A-G
*
32903773 GATCCAGTACCACGAAGACACAAGGGAAA
126 GATCCAGTACCACGAAGACACAAGGCAAA
* ** ** *
32903802 GATCTAAG-CCGCAACGACGGATCCAGTACCATGAAGAT-TTGAAGGGAAAGGTTTAAGTCGCAA
1 GATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAGAAGGGAAAGGTCTAAGTCGCAA
32903865 TGGTGAACTC
Statistics
Matches: 184, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
148 23 0.12
149 1 0.01
150 61 0.33
151 12 0.07
152 2 0.01
153 1 0.01
154 1 0.01
155 1 0.01
156 5 0.03
157 16 0.09
158 26 0.14
159 35 0.19
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (154 bp):
GATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAGAAGGGAAAGGTCTAAGTCGCAA
CGACAGACCAGTACCACAAAAAATGACGGGAAAGATCTAAGACCGTCTAAGCTGCGACAGGATCC
AGTACCACGAAGACACAAGGCAAA
Found at i:32904297 original size:39 final size:39
Alignment explanation
Indices: 32904249--32904389 Score: 147
Period size: 39 Copynumber: 3.6 Consensus size: 39
32904239 CAGCCATTTG
* * *
32904249 ATCTTTTACCCCGAGCTTGGGGTAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
* * * * ****
32904288 ATCTCTTACCCCGAGCTTGGGCCAGATTGTAACCATTTG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
* * *
32904327 ATCTTTTACCCCGAGTTTGGGGCAGATTATCGTCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
*
32904366 ATCTCTTACCCCGAGCTAGGGGCA
1 ATCTCTTACCCCGAGCTTGGGGCA
32904390 TATTGTAGTT
Statistics
Matches: 77, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTATCATCAACCA
Found at i:32904327 original size:78 final size:77
Alignment explanation
Indices: 32904198--32904396 Score: 281
Period size: 78 Copynumber: 2.5 Consensus size: 77
32904188 AGTGAAGTTA
* * * *
32904198 CATCATCAACCAATCTATTACCCCGAGCCTAGGGCAGGTTGCAGCCATTTGATCTTTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAG-CTAGGGCAGATTGTAACCATTTGATCTTTTACCCCGA
*
32904263 GCTTGGGGTAGAT
65 GCTTGGGGCAGAT
*
32904276 CATCATCAACCAATCTCTTACCCCGAGCTTGGGCCAGATTGTAACCATTTGATCTTTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAGCTAGGG-CAGATTGTAACCATTTGATCTTTTACCCCGA
*
32904341 GTTTGGGGCAGAT
65 GCTTGGGGCAGAT
* * *
32904354 TATCGTCAACCAATCTCTTACCCCGAGCTAGGGGCATATTGTA
1 CATCATCAACCAATCTCTTACCCCGAGCTA-GGGCAGATTGTA
32904397 GTTATCCGAA
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
77 5 0.05
78 100 0.93
79 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (77 bp):
CATCATCAACCAATCTCTTACCCCGAGCTAGGGCAGATTGTAACCATTTGATCTTTTACCCCGAG
CTTGGGGCAGAT
Found at i:32904908 original size:155 final size:152
Alignment explanation
Indices: 32904541--32904972 Score: 528
Period size: 153 Copynumber: 2.8 Consensus size: 152
32904531 TAAAATGGTT
* * * *
32904541 AGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGGTACAGAGAAGCGA
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
* * * * * * *
32904606 ATTGAAACAAGTGAGGCGGTCATCTTCCTAATGAGATAC-AGAGAAGTATACCAACTCGAAGCTC
66 ATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAAATC-AAACCC
32904670 AATATGAGAAAATCTTCGAACCCC
129 AATATGAGAAAATCTTCGAACCCC
32904694 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
*
32904759 ATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCA-
* * *
32904824 GCTATGTGTGCAAATCTTCGAA-CCC
130 ---ATATGAGAAAATCTTCGAACCCC
* * * * *
32904849 AGCTTCCTGATGAGATGCGGAGAAGTGAACCAAATTCGTCTTCCTGATGAAACACAGAGAAAG-G
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG-AAGCG
** ** * * * *
32904913 GATCAAAACAAGTGATGTAGTCATCTTCCTGATGAGATTCTGAGAAGAAGGCCAAGTCAA
65 GATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAA
32904973 TGAAACCAAA
Statistics
Matches: 244, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
152 5 0.02
153 110 0.45
154 1 0.00
155 109 0.45
156 19 0.08
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (152 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
ATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCAA
TATGAGAAAATCTTCGAACCCC
Found at i:32906185 original size:21 final size:20
Alignment explanation
Indices: 32906128--32906178 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
32906118 CGCAGCATTA
*
32906128 AATAATAATAATAATAATATT
1 AATAATAA-CATAATAATATT
*
32906149 ACTAATAACATCAATAATATT
1 AATAATAACAT-AATAATATT
32906170 AATAATAAC
1 AATAATAAC
32906179 CGTAATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATAACATAATAATATT
Found at i:32907326 original size:29 final size:29
Alignment explanation
Indices: 32907283--32907516 Score: 165
Period size: 29 Copynumber: 8.0 Consensus size: 29
32907273 CTCTGGAGGT
32907283 CCCT-AAACTATCCAAAAATTACATTTTTA
1 CCCTCAAACT-TCCAAAAATTACATTTTTA
* *
32907312 CCCTCGAACTTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTT-A
* * **
32907342 CCATAAAACTTTTAAAAATTACATTTTTA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
** *
32907371 CCC-CTAAACTTCCAAAAATCCCAATTTTGA
1 CCCTC-AAACTTCCAAAAATTAC-ATTTTTA
** * *
32907401 CCC-CAAAACTTTTAGAAATTATATTTTTA
1 CCCTC-AAACTTCCAAAAATTACATTTTTA
* * *
32907430 CCCTCAAACTTCCATAAATTCCATTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
* *
32907459 CCCT-AAAGCTTTCAAAAATTACCA-TTTTG
1 CCCTCAAA-CTTCCAAAAATTA-CATTTTTA
**
32907488 CCCTCGGA-TGTCCAAAAATTACCATTTTT
1 CCCTCAAACT-TCCAAAAATTA-CATTTTT
32907517 GATCCTTTTT
Statistics
Matches: 158, Mismatches: 37, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
28 4 0.03
29 98 0.62
30 56 0.35
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTACATTTTTA
Found at i:32907507 original size:58 final size:59
Alignment explanation
Indices: 32907295--32907518 Score: 258
Period size: 59 Copynumber: 3.8 Consensus size: 59
32907285 CTAAACTATC
*
32907295 CAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCATAAAACTTT
1 CAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTT
* * * * *
32907354 TAAAAATTACATTTTTACCC-CTAAACTTCCAAAAATCCCAATTTTGACCCCAAAACTTT
1 CAAAAATTACATTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTT
* * * * * *
32907413 TAGAAATTATATTTTTACCCTCAAACTTCCATAAATTCCA-TTTTGACCCTAAAGCTTT
1 CAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTT
* *
32907471 CAAAAATTACCA-TTTTGCCCTCGGA-TGTCCAAAAATTACCATTTTTGA
1 CAAAAATTA-CATTTTTACCCTCGAACT-TCCAAAAATT-CCATTTTTGA
32907519 TCCTTTTTCT
Statistics
Matches: 140, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
57 1 0.01
58 43 0.31
59 89 0.64
60 7 0.05
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (59 bp):
CAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTT
Found at i:32907562 original size:29 final size:28
Alignment explanation
Indices: 32907471--32907565 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 28
32907461 CTAAAGCTTT
*
32907471 CAAAAATTACCATTTTGCCCTCGGATGTC
1 CAAAAATTACCATTTTACCCT-GGATGTC
* * *
32907500 CAAAAATTACCATTTTTGATCCT--TTTTC
1 CAAAAATTACCA-TTTT-ACCCTGGATGTC
*
32907528 TAAAAAATTACCATTTTACCCCTGGATGTC
1 -CAAAAATTACCATTTTA-CCCTGGATGTC
32907558 CAAAAATT
1 CAAAAATT
32907566 TTGTTTTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
27 1 0.02
28 10 0.20
29 30 0.59
30 7 0.14
31 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (28 bp):
CAAAAATTACCATTTTACCCTGGATGTC
Found at i:32908002 original size:96 final size:96
Alignment explanation
Indices: 32907865--32908046 Score: 235
Period size: 96 Copynumber: 1.9 Consensus size: 96
32907855 AAAACTTTAA
* **
32907865 AATCGAGGCAATATTCTCTTATTTCGAGTTTCAAATATTTGTGCCTTAACTTACTAGGTATAATT
1 AATCGAGGCAATATTCTCTTATTTCGAGTTTCAAATATTTGTGCCTTAACTTACTAGGTACAACC
32907930 TTTCTTCAAAACGAAATAATCGAATACCCTT
66 TTTCTTCAAAACGAAATAATCGAATACCCTT
* * * *
32907961 AATCGAGGCAATGTT-TCCTTATCTTCGA-TTCTGAAA-ATTTGTGCCTTAATTTACTAGGTCCA
1 AATCGAGGCAATATTCT-CTTAT-TTCGAGTT-TCAAATATTTGTGCCTTAACTTACTAGGTACA
* *
32908023 ACCTTTCTTCAAATCGAGATAATC
63 ACCTTTCTTCAAAACGAAATAATC
32908047 AAACATCCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
95 1 0.01
96 64 0.86
97 9 0.12
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (96 bp):
AATCGAGGCAATATTCTCTTATTTCGAGTTTCAAATATTTGTGCCTTAACTTACTAGGTACAACC
TTTCTTCAAAACGAAATAATCGAATACCCTT
Found at i:32909932 original size:17 final size:17
Alignment explanation
Indices: 32909890--32909933 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
32909880 TTTCTTTAGA
* *
32909890 TTCATGAAAGGTTTAAG
1 TTCATGAATGCTTTAAG
*
32909907 TTCACGAATGCTTTAAG
1 TTCATGAATGCTTTAAG
32909924 TTCATGAATG
1 TTCATGAATG
32909934 AAAATTGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (17 bp):
TTCATGAATGCTTTAAG
Found at i:32911545 original size:16 final size:16
Alignment explanation
Indices: 32911520--32911557 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
32911510 ATGTCAGATA
*
32911520 AGGAGTGATACCTCCG
1 AGGAGCGATACCTCCG
32911536 AGGAGCGATACCTCCG
1 AGGAGCGATACCTCCG
32911552 AGGAGC
1 AGGAGC
32911558 ATCCGAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (16 bp):
AGGAGCGATACCTCCG
Found at i:32913083 original size:30 final size:29
Alignment explanation
Indices: 32913042--32913234 Score: 139
Period size: 29 Copynumber: 6.6 Consensus size: 29
32913032 CTTGAGGGCA
32913042 AAAAT-GTAATTTTGGGAAAATTTAGGGTT
1 AAAATGGTAATTTT-GGAAAATTTAGGGTT
* * *
32913071 AAAAATAG-AATTTTGGAAAGTTCGAGGG-T
1 -AAAATGGTAATTTTGGAAAATT-TAGGGTT
* **
32913100 AAAATGGTAATTTTGGGTGAAA-TCGGGGTT
1 AAAATGGTAATTTT-GG-AAAATTTAGGGTT
32913130 AAAAATGG-AATTTTGGAAAATTTAGGG-T
1 -AAAATGGTAATTTTGGAAAATTTAGGGTT
* * **
32913158 AAAACGGTAATTTTTAGAAGTTTTAGGGTT
1 AAAATGGTAA-TTTTGGAAAATTTAGGGTT
* *
32913188 AAAATGG-AATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTGGAAAATTTAGGGTT
* *
32913216 AATACGGTAATTTTTGGAA
1 AAAATGGTAA-TTTTGGAA
32913235 GTTTCGAGGT
Statistics
Matches: 129, Mismatches: 21, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
27 6 0.05
28 32 0.25
29 41 0.32
30 40 0.31
31 10 0.08
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAATTTAGGGTT
Found at i:32913215 original size:29 final size:29
Alignment explanation
Indices: 32913042--32913302 Score: 116
Period size: 30 Copynumber: 8.9 Consensus size: 29
32913032 CTTGAGGGCA
* *
32913042 AAAATGTAATTTTGGGAAAATTTA-GGGTT
1 AAAATGGAATTTT-GGAAAGTTTAGGGGTT
* *
32913071 AAAAATAGAATTTTGGAAAG-TTCGAGGG-T
1 -AAAATGGAATTTTGGAAAGTTTAG-GGGTT
*
32913100 AAAATGGTAATTTTGGGTGAAA---TCGGGGTT
1 AAAATGG-AATTTT--G-GAAAGTTTAGGGGTT
*
32913130 AAAAATGGAATTTTGGAAAATTTA-GGG-T
1 -AAAATGGAATTTTGGAAAGTTTAGGGGTT
* *
32913158 AAAACGGTAATTTT-TAGAAGTTTTA-GGGTT
1 AAAATGG-AATTTTGGA-AAG-TTTAGGGGTT
32913188 AAAATGGAATTTTGGAAAGTTTAGGGG-T
1 AAAATGGAATTTTGGAAAGTTTAGGGGTT
* * * * *
32913216 AATACGGTAATTTTTGG-AAGTTTCGAGGTCA
1 AAAATGG-AA-TTTTGGAAAGTTTAGGGGT-T
* * * *
32913247 AAAATGGAATTTTCTG-AAGTTTTGGGATC
1 AAAATGGAATTTT-GGAAAGTTTAGGGGTT
* *
32913276 AAAATGCAATTTTTGGGAAGTTTAGGG
1 AAAATGGAA-TTTTGGAAAGTTTAGGG
32913303 ACTAGAGAAC
Statistics
Matches: 181, Mismatches: 26, Indels: 48
0.71 0.10 0.19
Matches are distributed among these distances:
27 11 0.06
28 28 0.15
29 61 0.34
30 64 0.35
31 13 0.07
32 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGTT
Found at i:32913216 original size:58 final size:58
Alignment explanation
Indices: 32913062--32913259 Score: 199
Period size: 58 Copynumber: 3.4 Consensus size: 58
32913052 TTTGGGAAAA
* * * *
32913062 TTTAGGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGGT-GAA--
1 TTTAGGGTTAAAAATGGAATTTTGGAAAATT-TAGGGTAAAACGGTAATTTT---TAGAAGT
* **
32913121 ATCGGGGTTAAAAATGGAATTTTGGAAAATTTAGGGTAAAACGGTAATTTTTAGAAGT
1 TTTAGGGTTAAAAATGGAATTTTGGAAAATTTAGGGTAAAACGGTAATTTTTAGAAGT
* * *
32913179 TTTAGGGTT-AAAATGGAATTTTGGAAAGTTTAGGGGTAATACGGTAATTTTTGGAAG-
1 TTTAGGGTTAAAAATGGAATTTTGGAAAATTTA-GGGTAAAACGGTAATTTTTAGAAGT
* *
32913236 TTTCGAGGTCAAAAATGGAATTTT
1 TTTAG-GGTTAAAAATGGAATTTT
32913260 CTGAAGTTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
55 1 0.01
56 3 0.03
57 26 0.22
58 49 0.42
59 39 0.33
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (58 bp):
TTTAGGGTTAAAAATGGAATTTTGGAAAATTTAGGGTAAAACGGTAATTTTTAGAAGT
Found at i:32914361 original size:24 final size:26
Alignment explanation
Indices: 32914334--32914381 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
32914324 TTTTTTTATA
32914334 TTATTAAT-AAATA-TCATTATTACT
1 TTATTAATAAAATATTCATTATTACT
*
32914358 TTATTATTAAAATATTCATTATTA
1 TTATTAATAAAATATTCATTATTA
32914382 TTAAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATTAATAAAATATTCATTATTACT
Found at i:32914388 original size:19 final size:19
Alignment explanation
Indices: 32914358--32914403 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
32914348 CATTATTACT
*
32914358 TTATTATT-AAAATATTCA
1 TTATTATTAAAAACATTCA
*
32914376 TTATTATTAAAAACATTTA
1 TTATTATTAAAAACATTCA
32914395 TTATTATTA
1 TTATTATTA
32914404 TTGATGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTATTAAAAACATTCA
Found at i:32915194 original size:18 final size:18
Alignment explanation
Indices: 32915140--32915202 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
32915130 TTTAATATTG
32915140 ATTTAAAATTTAAC--TAA
1 ATTT-AAATTTAACAATAA
*
32915157 ATTTAGATTTAAAGCAATAA
1 ATTTAAATTT-AA-CAATAA
32915177 ATTTAAATTTAACAATAA
1 ATTTAAATTTAACAATAA
32915195 ATTTAAAT
1 ATTTAAAT
32915203 CTATTTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.12
17 6 0.15
18 15 0.38
19 2 0.05
20 12 0.30
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTTAAATTTAACAATAA
Found at i:32915991 original size:200 final size:199
Alignment explanation
Indices: 32915611--32916083 Score: 653
Period size: 200 Copynumber: 2.4 Consensus size: 199
32915601 CATCTATTTA
* * *
32915611 AATTCGCTTATCTGGTTCTCCTAAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTTATCAGGAA
1 AATTCGCTTCTCTGGATCTCCTAAGGAAGAC-AATTTGGTCCACTTCTCTGTATCTTATCAGGAA
* * * * *
32915676 GCTAATCTTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTT
65 GCTAACCATGTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGTACGAAGATTT
* * **
32915741 GCTCGCGTTGAGTGTTGAGTTGGTATTCTTCTCTATATCTCATCAGGAAGATGATTGCCCCTG-T
130 GCTCGCGTTGAGCGTTGAGTTAGTATTCTTCTCTATATCTCATCAGGAAGATGACCGCCCC-GCT
32915805 TGTTTT
194 TGTTTT
* * * *
32915811 ACTTTGCTTCTCTGGATCTCCTTAGGAAGACAATTTTGGTCCACTTCTTTGTATCTTATCAGGAA
1 AATTCGCTTCTCTGGATCTCCTAAGGAAGACAA-TTTGGTCCACTTCTCTGTATCTTATCAGGAA
* * *
32915876 ACTAACCATGTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACGAAGATTT
65 GCTAACCATGTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGTACGAAGATTT
* * * * * *
32915941 GCTCGCTTTGAGCGTTGATTTAGTATTCTTCTCTGTGTCTCATTAGGAAGATGACCGCCTCGCTT
130 GCTCGCGTTGAGCGTTGAGTTAGTATTCTTCTCTATATCTCATCAGGAAGATGACCGCCCCGCTT
32916006 GTTTT
195 GTTTT
*
32916011 AATTCGCTTCTCTGGATCTCCTCAA-GAAGACAAATTTGGTCCACTTCTCTGTATCTCATCAGGA
1 AATTCGCTTCTCTGGATCTCCT-AAGGAAGAC-AATTTGGTCCACTTCTCTGTATCTTATCAGGA
32916075 AGCTAACCA
64 AGCTAACCA
32916084 CATCACTTGT
Statistics
Matches: 238, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
199 3 0.01
200 232 0.97
201 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (199 bp):
AATTCGCTTCTCTGGATCTCCTAAGGAAGACAATTTGGTCCACTTCTCTGTATCTTATCAGGAAG
CTAACCATGTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTGGGTACGAAGATTTG
CTCGCGTTGAGCGTTGAGTTAGTATTCTTCTCTATATCTCATCAGGAAGATGACCGCCCCGCTTG
TTTT
Found at i:32916115 original size:86 final size:86
Alignment explanation
Indices: 32915968--32916169 Score: 280
Period size: 86 Copynumber: 2.3 Consensus size: 86
32915958 ATTTAGTATT
* * * * * * *
32915968 CTTCTCTGTGTCTCATTAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCT
1 CTTCTCTGTATCTCATTAGGAAGCTAACCACATCACTTGTTTTAATTCGCTTCTCTAGATCTCCT
32916033 CA-AGAAGACAAATTTGGTCCA
66 CAGA-AAGACAAATTTGGTCCA
* *
32916054 CTTCTCTGTATCTCATCAGGAAGCTAACCACATCACTTGTTTTAATTCGCTTCTCTAGATCTCGT
1 CTTCTCTGTATCTCATTAGGAAGCTAACCACATCACTTGTTTTAATTCGCTTCTCTAGATCTCCT
**
32916119 CAGAAAGATGAATTTGGTCCA
66 CAGAAAGACAAATTTGGTCCA
*
32916140 CTTCTCTGTATCTCATTAAGAAGCTAACCA
1 CTTCTCTGTATCTCATTAGGAAGCTAACCA
32916170 TTTTATTGTT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 101 0.99
87 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (86 bp):
CTTCTCTGTATCTCATTAGGAAGCTAACCACATCACTTGTTTTAATTCGCTTCTCTAGATCTCCT
CAGAAAGACAAATTTGGTCCA
Found at i:32916296 original size:286 final size:286
Alignment explanation
Indices: 32915804--32916369 Score: 866
Period size: 286 Copynumber: 2.0 Consensus size: 286
32915794 ATTGCCCCTG
* * * * * * *
32915804 TTGTTTTACTTTGCTTCTCTGGATCTCCTTAGGAAGACAATTTTGGTCCACTTCTTTGTATCTTA
1 TTGTTTTAATTCGCTTCTCTAGATCTCCTCAGAAAGACAATTTTGGTCCACTTCTCTGTATCTCA
*
32915869 TCAGGAAACTAACCATGTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACG
66 TCAAGAAACTAACCATGTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACG
* * ** *
32915934 AAGATTTGCTCGCTTTGAGCGTTGATTTAGTATTCTTCTCTGTGTCTCATTAGGAAGATGACCGC
131 AAGATTGGCTCGCTTTGAGCGTTGAATTAGTATTCTTCTCTGCATCTCATTAGGAAGATAACCGC
* **
32915999 CTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAAGAAGACAAATTTGGTCCACTTCTCTGTA
196 ATCAATTGTTTTAATTCGCTTCTCTGGATCTCCTCAAGAAGACAAATTTGGTCCACTTCTCTGTA
32916064 TCTCATCAGGAAGCTAACCACATCAC
261 TCTCATCAGGAAGCTAACCACATCAC
* *
32916090 TTGTTTTAATTCGCTTCTCTAGATCTCGTCAGAAAGATGAA-TTTGGTCCACTTCTCTGTATCTC
1 TTGTTTTAATTCGCTTCTCTAGATCTCCTCAGAAAGA-CAATTTTGGTCCACTTCTCTGTATCTC
* * * *
32916154 ATTAAGAAGCTAACCATTTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTAT
65 ATCAAGAAACTAACCATGTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTAC
*
32916219 GAAGATTGGCTCG-TGTTGAGCGTTGAATTGGTATTCTTCTCTGCATCTCATTAGGAAGATAACC
130 GAAGATTGGCTCGCT-TTGAGCGTTGAATTAGTATTCTTCTCTGCATCTCATTAGGAAGATAACC
* * *
32916283 GCATCAATTGTTTTAATTCGCTTCTTTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTG
194 GCATCAATTGTTTTAATTCGCTTCTCTGGATCTCCTCAAGAAGACAAATTTGGTCCACTTCTCTG
32916348 TATCTCATCAGGAAGCTAACCA
259 TATCTCATCAGGAAGCTAACCA
32916370 TGTTATTGTT
Statistics
Matches: 252, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
285 1 0.00
286 249 0.99
287 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (286 bp):
TTGTTTTAATTCGCTTCTCTAGATCTCCTCAGAAAGACAATTTTGGTCCACTTCTCTGTATCTCA
TCAAGAAACTAACCATGTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACG
AAGATTGGCTCGCTTTGAGCGTTGAATTAGTATTCTTCTCTGCATCTCATTAGGAAGATAACCGC
ATCAATTGTTTTAATTCGCTTCTCTGGATCTCCTCAAGAAGACAAATTTGGTCCACTTCTCTGTA
TCTCATCAGGAAGCTAACCACATCAC
Found at i:32916397 original size:200 final size:200
Alignment explanation
Indices: 32916054--32916478 Score: 672
Period size: 200 Copynumber: 2.1 Consensus size: 200
32916044 ATTTGGTCCA
* * * *
32916054 CTTCTCTGTATCTCATCAGGAAGCTAACCACATCACTTGTTTTAATTCGCTTCTCTAGATCTCGT
1 CTTCTCTGTATCTCATAAGGAAGATAACCACATCAATTGTTTTAATTCGCTTCTCTAGATCTCCT
* * *
32916119 CAGAAAGATGAATTTGGTCCACTTCTCTGTATCTCATTAAGAAGCTAACCATTTTATTGTTTCGA
66 CAGAAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGCTAACCATGTTATTGTTTCGA
*
32916184 CCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTATGAAGATTGGCTCG-TGTTGAGCGTTGAATT
131 CCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACGAAGATTGGCTCGCT-TTGAGCGTTGAATT
32916248 GGTATT
195 GGTATT
* * * * *
32916254 CTTCTCTGCATCTCATTAGGAAGATAACCGCATCAATTGTTTTAATTCGCTTCTTTGGATCTCCT
1 CTTCTCTGTATCTCATAAGGAAGATAACCACATCAATTGTTTTAATTCGCTTCTCTAGATCTCCT
* *
32916319 CAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATGTTATTGTTTCGA
66 CAGAAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGCTAACCATGTTATTGTTTCGA
* * *
32916384 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTACGAAGATTTGCTCGCTTTGAGCGTTGATTTG
131 CCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACGAAGATTGGCTCGCTTTGAGCGTTGAATTG
32916449 GTATT
196 GTATT
32916454 CTTCTCTGTATCTCATAAGGAAGAT
1 CTTCTCTGTATCTCATAAGGAAGAT
32916479 GATCACCTCG
Statistics
Matches: 205, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
200 204 1.00
201 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (200 bp):
CTTCTCTGTATCTCATAAGGAAGATAACCACATCAATTGTTTTAATTCGCTTCTCTAGATCTCCT
CAGAAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGCTAACCATGTTATTGTTTCGA
CCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTACGAAGATTGGCTCGCTTTGAGCGTTGAATTG
GTATT
Found at i:32928772 original size:30 final size:30
Alignment explanation
Indices: 32928656--32928831 Score: 122
Period size: 29 Copynumber: 6.0 Consensus size: 30
32928646 TCTCGAGGGC
* * *
32928656 AAAAATGTAATTTTGACAAAATTTA-GGGTT
1 AAAAATGGAATTTTG-GAAAGTTTAGGGGTT
* *
32928686 -AAAATAGAATTTTGGAAAGTTTAAGGG-T
1 AAAAATGGAATTTTGGAAAGTTTAGGGGTT
*
32928714 -AAAATGGTAATTTTAGGTGAAA---TCGGGGTT
1 AAAAATGG-AATTTT--G-GAAAGTTTAGGGGTT
*
32928744 AAAAATGGAATTCTGGAAAGTTTAGGGG-T
1 AAAAATGGAATTTTGGAAAGTTTAGGGGTT
*
32928773 AAACA-GGATATTTTTGG-AAGTTTTA-GGGTT
1 AAAAATGGA-A-TTTTGGAAAG-TTTAGGGGTT
*
32928803 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAAATGGAATTTTGGAAAGTTTAGGGGT
32928832 AACACGGTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
27 4 0.03
28 18 0.16
29 46 0.40
30 33 0.28
31 11 0.09
32 4 0.03
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (30 bp):
AAAAATGGAATTTTGGAAAGTTTAGGGGTT
Found at i:32928786 original size:59 final size:58
Alignment explanation
Indices: 32928680--32928912 Score: 179
Period size: 59 Copynumber: 3.9 Consensus size: 58
32928670 GACAAAATTT
* *
32928680 AGGGTT-AAAATAGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTAGGTGAA-ATC
1 AGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT-GG-GAAGATC
* * * * *
32928738 GGGGTTAAAAATGGAATTCTGGAAAGTTTAGGGGTAAACA-GG-ATATTTTTGGAAGTTTT
1 AGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAA-ATGGTA-ATTTTGGGAAG-ATC
* * * * *
32928797 AGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAACACGGTAATTTTTGGAAGTTTC
1 AGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGGAAG-ATC
* * ** * * *
32928856 AAGGTCAAAAAATGGAATTTTCTAAAGTTTTGGGATCAAAAT-GCAATTTTTGGGAAG
1 AGGGT-TAAAAATGGAATTTTGGAAAGTTTAGGGGT-AAAATGGTAA-TTTTGGGAAG
32928913 TTTAGGGACT
Statistics
Matches: 143, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.02
58 8 0.06
59 90 0.63
60 30 0.21
61 12 0.08
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (58 bp):
AGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGGAAGATC
Found at i:32928794 original size:29 final size:30
Alignment explanation
Indices: 32928761--32928854 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 30
32928751 GAATTCTGGA
32928761 AAGTTTAGGGGTAAACA-GGATATTTTTGG
1 AAGTTTAGGGGTAAACACGGATATTTTTGG
* * *
32928790 AAGTTTTAGGGTTAAAAATGGA-A-TTTTGG
1 AAG-TTTAGGGGTAAACACGGATATTTTTGG
*
32928819 AAAGTTTGGGGGT-AACACGG-TAATTTTTGG
1 -AAGTTTAGGGGTAAACACGGAT-ATTTTTGG
32928849 AAGTTT
1 AAGTTT
32928855 CAAGGTCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
28 5 0.09
29 23 0.43
30 22 0.42
31 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.30, T:0.36
Consensus pattern (30 bp):
AAGTTTAGGGGTAAACACGGATATTTTTGG
Found at i:32930008 original size:24 final size:26
Alignment explanation
Indices: 32929981--32930028 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
32929971 CTTTTTTATA
32929981 TTATTAAT-AAATA-TCATTATTACT
1 TTATTAATAAAATATTCATTATTACT
*
32930005 TTATTATTAAAATATTCATTATTA
1 TTATTAATAAAATATTCATTATTA
32930029 TTAAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATTAATAAAATATTCATTATTACT
Found at i:32930035 original size:19 final size:19
Alignment explanation
Indices: 32930005--32930050 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
32929995 CATTATTACT
*
32930005 TTATTATT-AAAATATTCA
1 TTATTATTAAAAACATTCA
*
32930023 TTATTATTAAAAACATTTA
1 TTATTATTAAAAACATTCA
32930042 TTATTATTA
1 TTATTATTA
32930051 TTATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTATTAAAAACATTCA
Found at i:32930045 original size:3 final size:3
Alignment explanation
Indices: 32930039--32930064 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32930029 TTAAAAACAT
32930039 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
32930065 GATGCTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32933893 original size:42 final size:42
Alignment explanation
Indices: 32933814--32933938 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 42
32933804 AAGTTCTCCA
* * * * **
32933814 GGCCATCTATAAGACCTCCGGGCATGATGTACAAGTCC-TCTG
1 GGCCATTTATAAGACCTTCGAGCATGACGTTTAAGTCCTTC-G
* * * *
32933856 GGCGATTTCTAAGATCTTCGAGCGTGACGTTTAAGTCCTTCG
1 GGCCATTTATAAGACCTTCGAGCATGACGTTTAAGTCCTTCG
* * *
32933898 TGCCATTTATAAGACCTTCGGGCATGATGTTTAAGTCCTTC
1 GGCCATTTATAAGACCTTCGAGCATGACGTTTAAGTCCTTC
32933939 AGACTATCTG
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
42 63 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (42 bp):
GGCCATTTATAAGACCTTCGAGCATGACGTTTAAGTCCTTCG
Found at i:32934813 original size:27 final size:28
Alignment explanation
Indices: 32934774--32934834 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
32934764 CATTAGATTA
* *
32934774 AAAAATTATAAATAT-TTTTAA-TAAAAT
1 AAAAATTAAAAATATATTATAAGT-AAAT
*
32934801 AAAACTTAAAAATATATTATAAGTAAAT
1 AAAAATTAAAAATATATTATAAGTAAAT
32934829 AAAAAT
1 AAAAAT
32934835 GATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.46
28 14 0.50
29 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAAATTAAAAATATATTATAAGTAAAT
Found at i:32937269 original size:18 final size:18
Alignment explanation
Indices: 32937237--32937288 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
32937227 CTGGAATGAG
32937237 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
32937253 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
*
32937271 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
32937289 CAACTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.28
17 5 0.16
18 18 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:32938338 original size:3 final size:3
Alignment explanation
Indices: 32938330--32938400 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
32938320 AATTAGTTGT
*
32938330 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
32938378 TTA TTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
32938401 GTCGAAATCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:32939582 original size:29 final size:28
Alignment explanation
Indices: 32939550--32939612 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
32939540 GTAAAATAGT
32939550 AATTTCGAAAGCTTCGGGGTCAAAAATGG
1 AATTTCGAAAGCTTCGGGGT-AAAAATGG
* * * *
32939579 AATTTTTGGAAGTTTGGGGGTAAAAATGG
1 AA-TTTCGAAAGCTTCGGGGTAAAAATGG
32939608 AATTT
1 AATTT
32939613 TTTGAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 12 0.41
30 14 0.48
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
AATTTCGAAAGCTTCGGGGTAAAAATGG
Found at i:32939613 original size:29 final size:29
Alignment explanation
Indices: 32939565--32939917 Score: 284
Period size: 29 Copynumber: 12.0 Consensus size: 29
32939555 CGAAAGCTTC
*
32939565 GGGGTCAAAAATGGAATTTTTGGAAGTTTG
1 GGGGT-AAAAATGGAATTTTTGGAAGTTTA
* *
32939595 GGGGTAAAAATGGAATTTTTTGAAATTTA
1 GGGGTAAAAATGGAATTTTTGGAAGTTTA
* * *
32939624 GGGGCAAAAATGGAATTCTTGGAAGTTTG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTA
* *
32939653 GGGGCAAAAATGAAATTTTTGGAAGTATTA
1 GGGGTAAAAATGGAATTTTTGGAAGT-TTA
* *
32939683 -GGGTAAAAATGTAATTTTAGGAAGTTTTA
1 GGGGTAAAAATGGAATTTTTGGAAG-TTTA
* * **
32939712 GGGTTAAAAATGGAATTTTTGGAAATTCG
1 GGGGTAAAAATGGAATTTTTGGAAGTTTA
* *
32939741 GGGGTAAAAATGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGGAATTTTTGGAAGTTTA
* * *
32939770 GAGGTCAAAAATGTATTTTTTGGAAGTTTTA
1 GGGGT-AAAAATGGAATTTTTGGAAG-TTTA
* * **
32939801 -GGGT-CAAATGTAATTTTTCAAAGTTTTA
1 GGGGTAAAAATGGAATTTTTGGAAG-TTTA
* * *
32939829 GGGTTAAAAATGTG-ATTTTAGAGAAG-TTC
1 GGGGTAAAAATG-GAATTTTTG-GAAGTTTA
* * * *
32939858 GGGGTCAAAATGTAATTTTGGAGAAGTTCA
1 GGGGTAAAAATGGAATTTTTG-GAAGTTTA
* **
32939888 GGGGTCAAAATACAATTTTTGGATAGTTTA
1 GGGGTAAAAATGGAATTTTTGGA-AGTTTA
32939918 AGAACCCAAA
Statistics
Matches: 261, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
28 20 0.08
29 151 0.58
30 84 0.32
31 6 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTTA
Found at i:32939763 original size:117 final size:116
Alignment explanation
Indices: 32939566--32939910 Score: 376
Period size: 117 Copynumber: 2.9 Consensus size: 116
32939556 GAAAGCTTCG
* * * * * *
32939566 GGGTCAAAAATGGAATTTTTGGAAG-TTTGGGGGTAAAAATGGAATTTTTTGAAATTTAGGGGCA
1 GGGT-AAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAA-TTCGGGGTA
* * *
32939630 AAAATGGAATTCTTGGAAGTTTGGGGGCAAAAATGAAATTTTTGGAAGTATTA
64 AAAATGTAATTTTTGGAAGTTTGGGGTCAAAAATGAAATTTTTGGAAGTATTA
*
32939683 GGGTAAAAATGTAATTTTAGGAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAATTCGGGGGTAA
1 GGGTAAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAATTC-GGGGTAA
* * * *
32939748 AAATGTAATTTTTGGAAGTTTTGAGGTCAAAAATGTATTTTTTGGAAGTTTTA
65 AAATGTAATTTTTGGAAG-TTTGGGGTCAAAAATGAAATTTTTGGAAGTATTA
* ** * * *
32939801 GGGT-CAAATGTAATTTTTCAAAGTTTTAGGGTTAAAAATGTG-ATTTTAGAGAAGTTCGGGGTC
1 GGGTAAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAAATG-GAATTTTTG-GAAATTCGGGGTA
* *
32939864 AAAATGTAATTTTGGAGAAGTTCAGGGGTC-AAAAT-ACAATTTTTGGA
64 AAAATGTAATTTTTG-GAAGTT-TGGGGTCAAAAATGA-AATTTTTGGA
32939911 TAGTTTAAGA
Statistics
Matches: 194, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
116 20 0.10
117 125 0.64
118 49 0.25
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (116 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAATTCGGGGTAAA
AATGTAATTTTTGGAAGTTTGGGGTCAAAAATGAAATTTTTGGAAGTATTA
Found at i:32939898 original size:59 final size:58
Alignment explanation
Indices: 32939562--32939898 Score: 258
Period size: 59 Copynumber: 5.8 Consensus size: 58
32939552 TTTCGAAAGC
* * * *
32939562 TTCGGGGTCAAAAATGGAATTTTTGGAAG-TTTGGGGGTAAAAATG-GAATTTTTTGAAAT
1 TTCGGGGT-AAAAATGTAATTTTTGGAAGTTTTAGGGGTAAAAATGTG-A-TTTTTGGAAG
* * * * * * **
32939621 TTAGGGGCAAAAATGGAATTCTTGGAAG-TTTGGGGGCAAAAATGAAATTTTTGGAAG
1 TTCGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGGTAAAAATGTGATTTTTGGAAG
** * * *
32939678 TATTAGGGTAAAAATGTAATTTTAGGAAGTTTTAGGGTTAAAAATG-GAATTTTTGGAAA
1 T-TCGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGGTAAAAATGTG-ATTTTTGGAAG
*
32939737 TTCGGGGGTAAAAATGTAATTTTTGGAAGTTTT-GAGGTCAAAAATGT-ATTTTTTGGAAG
1 TTC-GGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGGT-AAAAATGTGA-TTTTTGGAAG
** * ** * *
32939796 TTTTAGGGT-CAAATGTAATTTTTCAAAGTTTTAGGGTTAAAAATGTGATTTTAGAGAAG
1 -TTCGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGGTAAAAATGTGATTTTTG-GAAG
* * * *
32939855 TTCGGGGTCAAAATGTAATTTTGGAGAAG-TTCAGGGGTCAAAAT
1 TTCGGGGTAAAAATGTAATTTTTG-GAAGTTTTAGGGGTAAAAAT
32939899 ACAATTTTTG
Statistics
Matches: 223, Mismatches: 41, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
57 9 0.04
58 100 0.45
59 109 0.49
60 5 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (58 bp):
TTCGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGGTAAAAATGTGATTTTTGGAAG
Found at i:32941577 original size:19 final size:19
Alignment explanation
Indices: 32941555--32941592 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32941545 TAGCAATGGC
32941555 GGTGCAACTTGCTGCTGGT
1 GGTGCAACTTGCTGCTGGT
*
32941574 GGTGTAACTTGCTGCTGGT
1 GGTGCAACTTGCTGCTGGT
32941593 CAATGCTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.37, T:0.34
Consensus pattern (19 bp):
GGTGCAACTTGCTGCTGGT
Found at i:32941806 original size:17 final size:17
Alignment explanation
Indices: 32941784--32941844 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
32941774 TTTTAATATC
*
32941784 AATTTAAATTTTAATTA
1 AATTTAAATTTAAATTA
**
32941801 AATTTAAATTTAAAGAA
1 AATTTAAATTTAAATTA
*
32941818 AATTTAAATTTAACAATA
1 AATTTAAATTTAA-ATTA
32941836 AATTTAAAT
1 AATTTAAAT
32941845 CTATTCAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
17 27 0.71
18 11 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAATTA
Found at i:32941807 original size:6 final size:6
Alignment explanation
Indices: 32941784--32941844 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
32941774 TTTTAATATC
* **
32941784 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GAA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
32941830 ACA-ATA AATTTA AAT
1 A-ATTTA AATTTA AAT
32941845 CTATTCAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
5 8 0.19
6 34 0.79
7 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:32942596 original size:92 final size:92
Alignment explanation
Indices: 32942485--32943009 Score: 935
Period size: 92 Copynumber: 5.7 Consensus size: 92
32942475 TGGTATCAAA
*
32942485 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAATACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
32942550 TCAAGAGGATAGGGATTGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
32942577 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
32942642 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
32942669 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
32942734 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
* *
32942761 GCTTCATCTTGATCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
32942826 TCAAGAGGATAGGAATTGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
* *
32942853 GCTTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
32942918 TCAAGAGGATAGGGATTGATGTTTAAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
* *
32942945 GCTTCATCTAGCTCTTACTACAACTT-AGAGAGATAAAGACTTGCTATCCAACTTCACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
32943009 T
66 T
32943010 TACTACAACT
Statistics
Matches: 419, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
91 37 0.09
92 382 0.91
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (92 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
TCAAGAGGATAGGAATTGATGTTTGAT
Found at i:32950591 original size:21 final size:21
Alignment explanation
Indices: 32950544--32950591 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
32950534 TGTTTGGAAA
* *
32950544 CTTCCAATTTTGTTTTCTCTT
1 CTTCCAATTTTGTGTTCTCTG
*
32950565 CCTCCAATTTTGTGTTCTCTG
1 CTTCCAATTTTGTGTTCTCTG
32950586 CTTCCA
1 CTTCCA
32950592 TTATACCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.08, T:0.52
Consensus pattern (21 bp):
CTTCCAATTTTGTGTTCTCTG
Found at i:32954531 original size:98 final size:98
Alignment explanation
Indices: 32954350--32954543 Score: 232
Period size: 98 Copynumber: 2.0 Consensus size: 98
32954340 TAAATTTTGA
** * * *
32954350 AAAAGGATGTTAGATTATCTCGATTTAAAGAAAGGTTGCACCTAGTAAGTTAAGGTGCAAAAATT
1 AAAAGGATGTTAGATTATCTCGATTTAAAGAAAAATCGCACCCAGTAAGTTAAGGCGCAAAAATT
32954415 TCAAAATCGAAGATAAGAAAACATTCCCTCGAT
66 TCAAAATCGAAGATAAGAAAACATTCCCTCGAT
* * * * *
32954448 AAAAGGGTGTTTGATTATTTTGATTTGAAGAAAAATCGCACCCAGTAAGTTAAGGCGC-AAAATT
1 AAAAGGATGTTAGATTATCTCGATTTAAAGAAAAATCGCACCCAGTAAGTTAAGGCGCAAAAATT
* * * *
32954512 TCGAACTCGAA-ATAA-AAGAATATTGCCTCGAT
66 TCAAAATCGAAGATAAGAA-AACATTCCCTCGAT
32954544 TTTAAAGTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 2 0.02
96 16 0.20
97 15 0.19
98 48 0.59
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (98 bp):
AAAAGGATGTTAGATTATCTCGATTTAAAGAAAAATCGCACCCAGTAAGTTAAGGCGCAAAAATT
TCAAAATCGAAGATAAGAAAACATTCCCTCGAT
Found at i:32954930 original size:29 final size:29
Alignment explanation
Indices: 32954898--32954958 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
32954888 AAAACAAGAC
* *
32954898 TTTTTGGACATCCTAGGGTAAAATGGTAA
1 TTTTTAGACATCCGAGGGTAAAATGGTAA
* *
32954927 -TTTTAGACTTTCGAGGGTAAAATGGTAA
1 TTTTTAGACATCCGAGGGTAAAATGGTAA
32954955 TTTT
1 TTTT
32954959 GGGAAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (29 bp):
TTTTTAGACATCCGAGGGTAAAATGGTAA
Found at i:32955104 original size:29 final size:29
Alignment explanation
Indices: 32955065--32955224 Score: 123
Period size: 29 Copynumber: 5.4 Consensus size: 29
32955055 ATCCGGGGGT
* *
32955065 AAAATAGAATTTCGAGAGTTTTGGGGTCA
1 AAAATGGAATTTTGAGAGTTTTGGGGTCA
** *
32955094 AAAATGGAATTATTG-GAAATTCGAGGG-CA
1 AAAATGGAATT-TTGAGAGTTTTG-GGGTCA
32955123 AAAATGGAATTTTTTGA-AGTTTTGGGGT-A
1 AAAATGGAA--TTTTGAGAGTTTTGGGGTCA
** * *
32955152 AAAATATAATTTTGAGAAATTTTTGGGTCA
1 AAAATGGAATTTTGAG-AGTTTTGGGGTCA
*
32955182 AAAATGGAATTTTTG-GAAGTTTTAGGGTCA
1 AAAATGGAA-TTTTGAG-AGTTTTGGGGTCA
*
32955212 AAAATGTAATTTT
1 AAAATGGAATTTT
32955225 TGGAAGTTTC
Statistics
Matches: 104, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
27 6 0.06
29 50 0.48
30 41 0.39
31 7 0.07
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTGAGAGTTTTGGGGTCA
Found at i:32955186 original size:59 final size:58
Alignment explanation
Indices: 32955081--32955229 Score: 192
Period size: 59 Copynumber: 2.5 Consensus size: 58
32955071 GAATTTCGAG
* *
32955081 AGTTTTGGGGTCAAAAATGGAATTATTGGAAATTCGAGGGCAAAAATGGAATTTTTTGA
1 AGTTTTGGGGTCAAAAATGTAATT-TTGGAAATTCGAGGGCAAAAATGGAATTTTTGGA
* ***
32955140 AGTTTTGGGGT-AAAAATATAATTTTGAGAAATTTTTGGGTCAAAAATGGAATTTTTGGA
1 AGTTTTGGGGTCAAAAATGTAATTTTG-GAAATTCGAGGG-CAAAAATGGAATTTTTGGA
*
32955199 AGTTTTAGGGTCAAAAATGTAATTTTTGGAA
1 AGTTTTGGGGTCAAAAATGTAA-TTTTGGAA
32955230 GTTTCAATGT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
57 3 0.04
58 19 0.24
59 39 0.50
60 12 0.15
61 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (58 bp):
AGTTTTGGGGTCAAAAATGTAATTTTGGAAATTCGAGGGCAAAAATGGAATTTTTGGA
Found at i:32955193 original size:30 final size:29
Alignment explanation
Indices: 32955081--32955316 Score: 158
Period size: 30 Copynumber: 8.0 Consensus size: 29
32955071 GAATTTCGAG
*
32955081 AGTTTTGGGGTCAAAAATGGAATTATTGGA
1 AGTTTTAGGGTCAAAAATGGAATT-TTGGA
* ** *
32955111 AATTCGAGGG-CAAAAATGGAATTTTTTGA
1 AGTTTTAGGGTCAAAAATGGAA-TTTTGGA
* **
32955140 AGTTTTGGGGT-AAAAATATAATTTTGAGA
1 AGTTTTAGGGTCAAAAATGGAATTTTG-GA
* *
32955169 AATTTTTGGGTCAAAAATGGAATTTTTGGA
1 AGTTTTAGGGTCAAAAATGGAA-TTTTGGA
*
32955199 AGTTTTAGGGTCAAAAATGTAATTTTTGGA
1 AGTTTTAGGGTCAAAAATGGAA-TTTTGGA
* ** * * ***
32955229 AGTTTCAATGT-TAAAATGTAATTTCCAAA
1 AGTTTTAGGGTCAAAAATGGAATTT-TGGA
* *
32955258 AGTTTTAGGGTTAAAAATGTAATTTTGGAGA
1 AGTTTTAGGGTCAAAAATGGAATTTT-G-GA
*
32955289 AGTTTTAGAGTCAAAATAT--AATTTTGGA
1 AGTTTTAGGGTCAAAA-ATGGAATTTTGGA
32955317 GAAGTTAATT
Statistics
Matches: 161, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
28 9 0.06
29 59 0.37
30 71 0.44
31 20 0.12
32 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.37
Consensus pattern (29 bp):
AGTTTTAGGGTCAAAAATGGAATTTTGGA
Found at i:32955245 original size:59 final size:60
Alignment explanation
Indices: 32955081--32955293 Score: 175
Period size: 59 Copynumber: 3.6 Consensus size: 60
32955071 GAATTTCGAG
* * * * * * *
32955081 AGTTTTGGGGTCAAAAATGGAATTATTG-GAA-ATTCGAGGGCAAAAATGGAATTTTTTGA
1 AGTTTTAGGGT-AAAAATGTAATTTTTGAGAAGTTTCAAGGTCAAAAATGGAATTTTTAGA
* * * *** *
32955140 AGTTTTGGGGTAAAAATATAA-TTTTGAGAAATTTTTGGGTCAAAAATGGAATTTTTGGA
1 AGTTTTAGGGTAAAAATGTAATTTTTGAGAAGTTTCAAGGTCAAAAATGGAATTTTTAGA
* * * ** *
32955199 AGTTTTAGGGTCAAAAATGTAATTTTTG-GAAGTTTCAATGT-TAAAATGTAATTTCCAAA
1 AGTTTTAGGGT-AAAAATGTAATTTTTGAGAAGTTTCAAGGTCAAAAATGGAATTTTTAGA
*
32955258 AGTTTTAGGGTTAAAAATGTAATTTTGGAGAAGTTT
1 AGTTTTAGGG-TAAAAATGTAATTTTTGAGAAGTTT
32955294 TAGAGTCAAA
Statistics
Matches: 125, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
57 4 0.03
58 11 0.09
59 80 0.64
60 25 0.20
61 5 0.04
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (60 bp):
AGTTTTAGGGTAAAAATGTAATTTTTGAGAAGTTTCAAGGTCAAAAATGGAATTTTTAGA
Found at i:32956816 original size:29 final size:29
Alignment explanation
Indices: 32956784--32956863 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
32956774 TGTTTTGGGT
*
32956784 TTTCAAAAAGGTTTGTAACTGTATATTGA
1 TTTCAAAAGGGTTTGTAACTGTATATTGA
* *
32956813 TTTCAAAAGGGATTCGT-ACTGTGTATTGA
1 TTTCAAAAGGG-TTTGTAACTGTATATTGA
32956842 TTTCCATAAATGGGTTTGTAAC
1 TTT-CA-AAA-GGGTTTGTAAC
32956864 CCTGTTTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 24 0.57
30 6 0.14
31 7 0.17
32 5 0.12
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTCAAAAGGGTTTGTAACTGTATATTGA
Found at i:32957218 original size:11 final size:11
Alignment explanation
Indices: 32957204--32957275 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 11
32957194 TAATATCAAT
*
32957204 TTAAATTTTAA
1 TTAAATTTAAA
32957215 TTAAATTTAAA
1 TTAAATTTAAA
**
32957226 TTTAAA-GCAAA
1 -TTAAATTTAAA
32957237 TTTAAATTTAAAAA
1 -TTAAATTT--AAA
32957251 TTTAAATTTAAA
1 -TTAAATTTAAA
*
32957263 ATAAATTTAAA
1 TTAAATTTAAA
32957274 TT
1 TT
32957276 TAACAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 30 0.60
12 8 0.16
14 12 0.24
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:32957223 original size:17 final size:17
Alignment explanation
Indices: 32957191--32957276 Score: 88
Period size: 17 Copynumber: 5.2 Consensus size: 17
32957181 TTATTTGAGT
*
32957191 TTTTAATATCAATTTAAA
1 TTTTAAT-TAAATTTAAA
32957209 TTTTAATTAAATTTAAA
1 TTTTAATTAAATTTAAA
* **
32957226 TTTAAAGCAAATTTAAA
1 TTTTAATTAAATTTAAA
32957243 -TTTAA--AAATTTAAA
1 TTTTAATTAAATTTAAA
* *
32957257 TTTAAAATAAATTTAAA
1 TTTTAATTAAATTTAAA
32957274 TTT
1 TTT
32957277 AACAATAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.15
15 4 0.07
16 4 0.07
17 35 0.59
18 7 0.12
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (17 bp):
TTTTAATTAAATTTAAA
Found at i:32957224 original size:6 final size:6
Alignment explanation
Indices: 32957201--32957278 Score: 81
Period size: 6 Copynumber: 13.2 Consensus size: 6
32957191 TTTTAATATC
* **
32957201 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTAAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT--A
*
32957249 AATTTA AATTTA AA-ATA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA AATTTA AATTTA A
32957279 CAATAAATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 11 0.19
6 42 0.71
8 6 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:32957277 original size:17 final size:17
Alignment explanation
Indices: 32957201--32957289 Score: 112
Period size: 17 Copynumber: 5.4 Consensus size: 17
32957191 TTTTAATATC
* *
32957201 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAATA
**
32957218 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAATA
32957235 AATTTAAATTT--AA-A
1 AATTTAAATTTAAAATA
32957249 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
32957266 AATTTAAATTTAACAATA
1 AATTTAAATTTAA-AATA
32957284 AATTTA
1 AATTTA
32957290 TATCTATTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
14 12 0.19
15 1 0.02
16 2 0.03
17 39 0.61
18 10 0.16
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:32959238 original size:31 final size:31
Alignment explanation
Indices: 32959203--32959268 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
32959193 GGAAAAAAAT
*
32959203 ATTTCAATCTGATTTTATTCCAATCAAATTA
1 ATTTCAATCTGATTTGATTCCAATCAAATTA
* * * *
32959234 ATTTCGATTTGATTTGATTCTAATCAAATTG
1 ATTTCAATCTGATTTGATTCCAATCAAATTA
32959265 ATTT
1 ATTT
32959269 GAAGGTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTTCAATCTGATTTGATTCCAATCAAATTA
Found at i:32964724 original size:15 final size:15
Alignment explanation
Indices: 32964704--32964755 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
32964694 TCAATCTGAT
32964704 TTGATTCTAATCAAA
1 TTGATTCTAATCAAA
* * ** *
32964719 TTGATTTTGATTTGAT
1 TTGATTCT-AATCAAA
32964735 TTGATTCTAATCAAA
1 TTGATTCTAATCAAA
32964750 TTGATT
1 TTGATT
32964756 TGAAGGTACT
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (15 bp):
TTGATTCTAATCAAA
Done.