Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 105 of 203
Found at i:33243866 original size:13 final size:12
Alignment explanation
Indices: 33243848--33243886 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
33243838 TTTTTTAGAA
33243848 TTTTTATAAGATT
1 TTTTTATAA-ATT
33243861 TTTTTA-AAATT
1 TTTTTATAAATT
33243872 TTTTTATAAAATT
1 TTTTTAT-AAATT
33243885 TT
1 TT
33243887 AATAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
13 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (12 bp):
TTTTTATAAATT
Found at i:33243886 original size:11 final size:11
Alignment explanation
Indices: 33243835--33243891 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
33243825 GATTAATTTG
* *
33243835 AATTTTTTTAG
1 AATTTTTATAA
33243846 AATTTTTATAA
1 AATTTTTATAA
* *
33243857 GATTTTTTTAA
1 AATTTTTATAA
33243868 AATTTTTTTATAA
1 AA--TTTTTATAA
*
33243881 AATTTTAATAA
1 AATTTTTATAA
33243892 TTACTAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
11 27 0.73
13 10 0.27
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (11 bp):
AATTTTTATAA
Found at i:33250193 original size:7 final size:7
Alignment explanation
Indices: 33250181--33250205 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33250171 AAATTTATCA
33250181 TTCCAAT
1 TTCCAAT
33250188 TTCCAAT
1 TTCCAAT
33250195 TTCCAAT
1 TTCCAAT
33250202 TTCC
1 TTCC
33250206 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCCAAT
Found at i:33250815 original size:18 final size:18
Alignment explanation
Indices: 33250787--33250827 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33250777 TGATGTGAGC
33250787 TTATTGTCTTATGTGTAT
1 TTATTGTCTTATGTGTAT
*
33250805 TGTATTG-CTTATTTGTAT
1 T-TATTGTCTTATGTGTAT
33250823 TTATT
1 TTATT
33250828 AATTATTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.63
Consensus pattern (18 bp):
TTATTGTCTTATGTGTAT
Found at i:33261423 original size:48 final size:48
Alignment explanation
Indices: 33261352--33261444 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
33261342 ATAACAGAGC
33261352 AGATTATTATCTATTGCAACTTTAAAGGTCTATGACAAACAAGTGTCG
1 AGATTATTATCTATTGCAACTTTAAAGGTCTATGACAAACAAGTGTCG
33261400 AGATTATTATCTATTGCAACTTTAAAGGTCTATGACAAACAAGTG
1 AGATTATTATCTATTGCAACTTTAAAGGTCTATGACAAACAAGTG
33261445 CCGGCATTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (48 bp):
AGATTATTATCTATTGCAACTTTAAAGGTCTATGACAAACAAGTGTCG
Found at i:33262255 original size:27 final size:27
Alignment explanation
Indices: 33262234--33262313 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
33262224 ATGCTGATTG
33262234 CCAGGCTGGTGTTCAAATTGCTGCTGA
1 CCAGGCTGGTGTTCAAATTGCTGCTGA
* * *
33262261 CTAGGCTGGTGTTCGAATTGCTGCTGG
1 CCAGGCTGGTGTTCAAATTGCTGCTGA
** * * *
33262288 GTAGGCCGGTGATCGAATTGCTGCTG
1 CCAGGCTGGTGTTCAAATTGCTGCTG
33262314 GTTAGGCCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (27 bp):
CCAGGCTGGTGTTCAAATTGCTGCTGA
Found at i:33262314 original size:27 final size:27
Alignment explanation
Indices: 33262249--33262562 Score: 349
Period size: 27 Copynumber: 11.6 Consensus size: 27
33262239 CTGGTGTTCA
** * *
33262249 AATTGCTGCTGACTAGGCTGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
33262276 AATTGCTGCTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
33262303 AATTGCTGCTGGTTAGGCCGGTGCTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * * *
33262330 TATGGCTGTTGGTTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * * *
33262357 AATGGCTGTTGGTTAGGCCGTTGATCA
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
33262384 AATTGCTGTTGGGTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
33262411 AATGGCTGTTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
33262438 AATTGCTGCTGGTTAGGCCGGTGCTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* * * *
33262465 TATGGCTGTTGGGTAGGCCGGTGTTCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
* *
33262492 AATGGCTGTTGGGTAGGCCGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
** *
33262519 AATTGCTGCTGGGCCGGCAGGTGATCG
1 AATTGCTGCTGGGTAGGCCGGTGATCG
33262546 AATTGCTGCTGGGTAGG
1 AATTGCTGCTGGGTAGG
33262563 GCAATAGTCG
Statistics
Matches: 248, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 248 1.00
ACGTcount: A:0.13, C:0.17, G:0.40, T:0.30
Consensus pattern (27 bp):
AATTGCTGCTGGGTAGGCCGGTGATCG
Found at i:33262575 original size:81 final size:81
Alignment explanation
Indices: 33262262--33262562 Score: 413
Period size: 81 Copynumber: 3.7 Consensus size: 81
33262252 TGCTGCTGAC
* * * *
33262262 TAGGCTGGTGTTCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGTTAGGCCGGTGC
1 TAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGT
* *
33262327 TCGTATGGCTGTTGGT
66 TCGAATGGCTGTTGGG
* * * * * * *
33262343 TAGGCCGGTGTTCGAATGGCTGTTGGTTAGGCCGTTGATCAAATTGCTGTTGGGTAGGCCGGTGT
1 TAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGT
33262408 TCGAATGGCTGTTGGG
66 TCGAATGGCTGTTGGG
* * * * *
33262424 TAGGCCGGTGATCGAATTGCTGCTGGTTAGGCCGGTGCTCGTATGGCTGTTGGGTAGGCCGGTGT
1 TAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGT
33262489 TCGAATGGCTGTTGGG
66 TCGAATGGCTGTTGGG
** *
33262505 TAGGCCGGTGATCGAATTGCTGCTGGGCCGGCAGGTGATCGAATTGCTGCTGGGTAGG
1 TAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGG
33262563 GCAATAGTCG
Statistics
Matches: 193, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 193 1.00
ACGTcount: A:0.13, C:0.17, G:0.41, T:0.30
Consensus pattern (81 bp):
TAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGATCGAATTGCTGCTGGGTAGGCCGGTGT
TCGAATGGCTGTTGGG
Found at i:33264977 original size:46 final size:45
Alignment explanation
Indices: 33264924--33265012 Score: 160
Period size: 46 Copynumber: 2.0 Consensus size: 45
33264914 AAAGTTGTAC
*
33264924 AAGCCCAATTTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGA-CCAAAACAGACCCA
33264970 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCAAAACAGACC
33265013 TAACCCCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
45 12 0.29
46 30 0.71
ACGTcount: A:0.44, C:0.39, G:0.11, T:0.06
Consensus pattern (45 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCAAAACAGACCCA
Found at i:33269015 original size:9 final size:9
Alignment explanation
Indices: 33269003--33269035 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
33268993 GAATTATTCG
33269003 AATCGAGTT
1 AATCGAGTT
33269012 AATCGAGTT
1 AATCGAGTT
*
33269021 AATCGAATT
1 AATCGAGTT
33269030 AATCGA
1 AATCGA
33269036 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:33269036 original size:9 final size:9
Alignment explanation
Indices: 33269003--33269048 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
33268993 GAATTATTCG
*
33269003 AATCGAGTT
1 AATCGAATT
*
33269012 AATCGAGTT
1 AATCGAATT
33269021 AATCGAATT
1 AATCGAATT
*
33269030 AATCGAATC
1 AATCGAATT
33269039 AACTCGAATT
1 AA-TCGAATT
33269049 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:33269853 original size:5 final size:5
Alignment explanation
Indices: 33269843--33269873 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
33269833 CTCGAAAATT
*
33269843 TTCGA TTCGA TTCGA TTCGA TTTGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
33269874 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:33270110 original size:33 final size:33
Alignment explanation
Indices: 33270073--33270135 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
33270063 CTTTTACCTT
*
33270073 TTCAACATCACCCTCCCTAGCAGTTTCTACACC
1 TTCAACATCACCCTCCCTAGCAGCTTCTACACC
* *
33270106 TTCAACATCACCTTCCCTAGTAGCTTCTAC
1 TTCAACATCACCCTCCCTAGCAGCTTCTAC
33270136 CCCCTCCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.24, C:0.40, G:0.06, T:0.30
Consensus pattern (33 bp):
TTCAACATCACCCTCCCTAGCAGCTTCTACACC
Found at i:33270142 original size:54 final size:54
Alignment explanation
Indices: 33270083--33270232 Score: 176
Period size: 54 Copynumber: 2.8 Consensus size: 54
33270073 TTCAACATCA
*
33270083 CCCTCCCTAGCAGTTTCTACACC-TTCAACATCACCTTCCCTAGTAGCTTCTACC
1 CCCTCCCTAGCAGTTTCTAC-CCATTCAACATCACCCTCCCTAGTAGCTTCTACC
* ** * * * * * *
33270137 CCCTCCCTAGTAACTTCTACCCTTTCAAAAACACCCTCCTTAGTAGTTTGTACC
1 CCCTCCCTAGCAGTTTCTACCCATTCAACATCACCCTCCCTAGTAGCTTCTACC
* *
33270191 CCCTCCCCATCAGTTTCTACCCATTCAACATCACCCTCCCTA
1 CCCTCCCTAGCAGTTTCTACCCATTCAACATCACCCTCCCTA
33270233 TCAATTTCTT
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 2 0.03
54 75 0.97
ACGTcount: A:0.22, C:0.43, G:0.06, T:0.29
Consensus pattern (54 bp):
CCCTCCCTAGCAGTTTCTACCCATTCAACATCACCCTCCCTAGTAGCTTCTACC
Found at i:33270143 original size:21 final size:21
Alignment explanation
Indices: 33270119--33270158 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33270109 AACATCACCT
*
33270119 TCCCTAGTAGCTTCTACCCCC
1 TCCCTAGTAACTTCTACCCCC
33270140 TCCCTAGTAACTTCTACCC
1 TCCCTAGTAACTTCTACCC
33270159 TTTCAAAAAC
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:0.17, C:0.45, G:0.07, T:0.30
Consensus pattern (21 bp):
TCCCTAGTAACTTCTACCCCC
Found at i:33272340 original size:20 final size:21
Alignment explanation
Indices: 33272315--33272354 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33272305 TTAATTAACG
33272315 TTAATTAA-TTAACTTAATCT
1 TTAATTAATTTAACTTAATCT
*
33272335 TTAATTAATTTACCTTAATC
1 TTAATTAATTTAACTTAATC
33272355 ATCATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTAATTTAACTTAATCT
Found at i:33276365 original size:45 final size:45
Alignment explanation
Indices: 33276300--33276388 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
33276290 GCCGGAGTCA
*
33276300 AGCAGGAGACATTACAAAACTTATCTTAGCACTTAAACAGTTTTC
1 AGCAGGAGACATTACAAAACTTATCTTAACACTTAAACAGTTTTC
**
33276345 AGCAGGAGACATTATTAAACTTATCTTAACACTTAAACAGTTTT
1 AGCAGGAGACATTACAAAACTTATCTTAACACTTAAACAGTTTT
33276389 AGTAGTAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (45 bp):
AGCAGGAGACATTACAAAACTTATCTTAACACTTAAACAGTTTTC
Found at i:33277558 original size:47 final size:47
Alignment explanation
Indices: 33277449--33277559 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
33277439 CCGGGATAAG
* *
33277449 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
33277496 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
33277543 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
33277560 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:33278332 original size:4 final size:4
Alignment explanation
Indices: 33278323--33278351 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
33278313 CCCTTTTCTA
33278323 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
33278352 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:33286182 original size:134 final size:134
Alignment explanation
Indices: 33285600--33286296 Score: 629
Period size: 134 Copynumber: 5.2 Consensus size: 134
33285590 TAAGTAGAAG
* * * *** * * *
33285600 GTCGTGATCGTAAATCAGGGAATTGTTTAAATGGAGTTGTGATTGTAAATTGACGAACTGTTTAA
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * * * * *
33285665 GAAGTGATCATGATCATAAATCGATGAACTAAAGCTGTGATCGTAAATCAGTGAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
*
33285730 TACA
131 GACA
* * * ** * * * * **
33285734 GTTGTGATCATAAATAAGCTTACTGTTTAGGTGAAGTCACGACCGTAAATCGATGAACTCTTTTT
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* ** * * * * * *
33285799 GAAGTGTTTGTGATCGTAAATCAATGAACCGAAACTGTTATTATAAATCAACAAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
*
33285864 AACA
131 GACA
* * * *
33285868 GTCGTGATCGTAAATCAGCTAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTATTTAA
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * ** * * *
33285933 AAAGTGATCATGATCGTAAGTGGATGAACTGAAGTTATAATTGTAAATCAACGAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
33285998 GACA
131 GACA
* * * * * * *
33286002 GTTGTGATCATAAATTAGTGAACTGTTTAAGTGGAGTCACAATCGTAAATCGGCGAACTCTTTAT
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * * * * ** *
33286067 GAAGTGTTCATGATCGTAAATTAATGAACTAAAACCGTAAACGTAAATCAGCGAGTTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
*
33286132 GGCA
131 GACA
* * *** * * *
33286136 GTCATGATCGTAAATCAGCGAACTGTTTAAGTGGGGTGTTGGTCGTAAATTGACGAACTCTTTAC
1 GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
* * * * * * ** *
33286201 GAAATGGTCATAATCATAAATTAATGAACTGAAGCTGTGATTGTAAATTTGCAAGCTTTAAAAAT
66 GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
33286266 GACA
131 GACA
* * * *
33286270 ATCATGATTGTAAATCAACGAACTGTT
1 GTCGTGATCGTAAATCAGCGAACTGTT
33286297 AGAAAATCGA
Statistics
Matches: 446, Mismatches: 117, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
134 446 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (134 bp):
GTCGTGATCGTAAATCAGCGAACTGTTTAAGTGGAGTCACGATCGTAAATCGACGAACTCTTTAA
GAAGTGATCATGATCGTAAATCAATGAACTGAAGCTGTAATTGTAAATCAGCGAGCTTTAAAAAT
GACA
Found at i:33286295 original size:268 final size:265
Alignment explanation
Indices: 33285604--33286296 Score: 711
Period size: 268 Copynumber: 2.6 Consensus size: 265
33285594 TAGAAGGTCG
* * * * * *
33285604 TGATCGTAAATCAGGGAATTGTTTAAATGGAGTTGTGATTGTAAATTGACGAACTGTTTAAGAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTT-TGATCGTAAATTGACGAACTATTT-AGAAA
* * * *
33285669 TGATCATGATCATAAATCGATGAACTAAAGCTGTGATCGTAAATCAGTGAGCTTTAAAAATTACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
** * * * *
33285734 GTTGTGATCATAAATAAGCTTACTGTTTAGGTGAAGTCACGACCGTAAATCGATGAACTCTTTTT
129 GTTGTGATCATAAATAA-CGAACTGTTTAAGTGAAGTCACAACCGTAAATCGACGAACTCTTTAT
** * * * **
33285799 GAAGTGTTTGTGATCGTAAATCAATGAACCGAAACTGTTATTATAAATCAACAAGCTTTAAAAAT
193 GAAGTGTTCATGATCGTAAATCAATGAACCAAAACCGTAAACATAAATCAACAAGCTTTAAAAAT
*
33285864 AACAGTCG
258 AACAGTCA
* *** * * *
33285872 TGATCGTAAATCAGCTAACTGTTTAAGTGGAGTCACAATCGTAAATCGATGAACTATTTAAAAAG
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGT-TTGATCGTAAATTGACGAACTATTTAGAAA-
* * * * * * *
33285937 TGATCATGATCGTAAGTGGATGAACTGAAGTTATAATTGTAAATCAACGAGCTTTAAAAATGACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
** * * *
33286002 GTTGTGATCATAAATTAGTGAACTGTTTAAGTGGAGTCACAATCGTAAATCGGCGAACTCTTTAT
129 GTTGTGATCATAAA-TAACGAACTGTTTAAGTGAAGTCACAACCGTAAATCGACGAACTCTTTAT
* * * * * *
33286067 GAAGTGTTCATGATCGTAAATTAATGAACTAAAACCGTAAACGTAAATCAGCGAGTTTTAAAAAT
193 GAAGTGTTCATGATCGTAAATCAATGAACCAAAACCGTAAACATAAATCAACAAGCTTTAAAAAT
**
33286132 GGCAGTCA
258 AACAGTCA
* * *
33286140 TGATCGTAAATCAGCGAACTGTTTAAGTGGGGTGTTGGTCGTAAATTGACGAACTCTTTACGAAA
1 TGATCGTAAATCAGCGAACTGTTTAAGTGGAGT-TTGATCGTAAATTGACGAACTATTTA-GAAA
* * ** ** *
33286205 TGGTCATAATCATAAATTAATGAACTGAAGCTGTGATTGTAAATTTGCAAGCTTTAAAAATGACA
64 TGATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACA
* ** **
33286270 ATCATGATTGTAAATCAACGAACTGTT
129 GTTGTGATCATAAAT-AACGAACTGTT
33286297 AGAAAATCGA
Statistics
Matches: 338, Mismatches: 82, Indels: 10
0.79 0.19 0.02
Matches are distributed among these distances:
267 4 0.01
268 329 0.97
269 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (265 bp):
TGATCGTAAATCAGCGAACTGTTTAAGTGGAGTTTGATCGTAAATTGACGAACTATTTAGAAATG
ATCATGATCATAAATCGATGAACTGAAGCTGTGATTGTAAATCAGCGAGCTTTAAAAATGACAGT
TGTGATCATAAATAACGAACTGTTTAAGTGAAGTCACAACCGTAAATCGACGAACTCTTTATGAA
GTGTTCATGATCGTAAATCAATGAACCAAAACCGTAAACATAAATCAACAAGCTTTAAAAATAAC
AGTCA
Found at i:33289776 original size:30 final size:30
Alignment explanation
Indices: 33289740--33289799 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
33289730 TAGCAAAAAA
33289740 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
*
33289770 CTCTTAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTTAAATTTCTCCCTAAATTTCTCAAAG
33289800 TTCTCTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (30 bp):
CTCTTAAATTTCTCCCTAAATTTCTCAAAG
Found at i:33290224 original size:4 final size:4
Alignment explanation
Indices: 33290204--33290246 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
33290194 GAGTTTACGA
* *
33290204 ATTT -TTT ATTT -TTT ATTT ATTT GTTT ATTT ATTT ATTT TTTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
33290247 GGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (4 bp):
ATTT
Found at i:33290325 original size:14 final size:14
Alignment explanation
Indices: 33290306--33290335 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33290296 TTATATCGAG
33290306 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
33290320 ACCAATCCAATTCA
1 ACCAATCCAAATCA
33290334 AC
1 AC
33290336 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:33296435 original size:98 final size:97
Alignment explanation
Indices: 33296320--33296509 Score: 247
Period size: 98 Copynumber: 1.9 Consensus size: 97
33296310 GGAAGTACTA
* * * ** * **
33296320 TAGAAAAAGAGCGTCCACGTGGGAGC-TTTCTTCATCAATTTTGTTGACAGTACATCTTGCTTGA
1 TAGAAAAAGAACATCCACATGGGAGCATTT-TTCATCAATTTTACTGACAGTACATCCTAATTGA
*
33296384 AGCATTTTTAACACTATTTTTTCAAGAACTATTG
65 AGCATTTTTAACACTATTTGTTC-AGAACTATTG
*
33296418 TAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACTGACAGTGCATCCTAATTGAA
1 TAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACTGACAGTACATCCTAATTGAA
**
33296483 GGGTTTTTAACACTATTTGTTCAGAAC
66 GCATTTTTAACACTATTTGTTCAGAAC
33296510 CGTCTTTTCA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
97 5 0.06
98 71 0.90
99 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (97 bp):
TAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACTGACAGTACATCCTAATTGAA
GCATTTTTAACACTATTTGTTCAGAACTATTG
Found at i:33296677 original size:126 final size:126
Alignment explanation
Indices: 33296398--33296676 Score: 373
Period size: 126 Copynumber: 2.2 Consensus size: 126
33296388 TTTTTAACAC
* *
33296398 TATTTTTTCAAGAACTATTGTAGAAAAAGAACATCCACATGGGAGCATTTTTCATCAATTTTACT
1 TATTTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGGGAACATTTTTCATCAATTTTACT
* * *
33296463 GACAGTGCATCCTAATTGAAGGGTTTTTAACACTATTTGTTCAGAACCGTCTTTTCAAATT
66 GACAATGCATCCTAATTGAAGGGTTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAAT
* * * * * * *
33296524 TATTTTTTCAGGACCTACTGTAGAAAAAGAGCATCCACGTGGGAACTTTTTTTAGT-AATTTTGC
1 TATTTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGGGAACATTTTTCA-TCAATTTTAC
** * * * *
33296588 TGACAATGCATCCTGCTTGAA-GTTTTTTGACATTATTTGTTCAGAATCGTCTTCTCAAAAT
65 TGACAATGCATCCTAATTGAAGGGTTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAAT
33296649 TATTTTTTCAAGAACTACTGTAGAAAAA
1 TATTTTTTCAAGAACTACTGTAGAAAAA
33296677 AACCAAAGTC
Statistics
Matches: 132, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
125 60 0.45
126 71 0.54
127 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (126 bp):
TATTTTTTCAAGAACTACTGTAGAAAAAGAACATCCACATGGGAACATTTTTCATCAATTTTACT
GACAATGCATCCTAATTGAAGGGTTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAAT
Found at i:33296793 original size:34 final size:33
Alignment explanation
Indices: 33296749--33296845 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 33
33296739 TTAAAAAAAC
*
33296749 TAAACCCAAATTTAATTAATTTTCTTAAAAAT-AA
1 TAAAACCAAATTTAATTAATTTT-TT-AAAATCAA
* * *
33296783 TAAAATCAAATTTAATTTATTTATTTAAAATCCA
1 TAAAACCAAATTTAATTAATTT-TTTAAAATCAA
* * *
33296817 TAAACCCTAATTTAATTAATTTTTAAAAA
1 TAAAACCAAATTTAATTAATTTTTTAAAA
33296846 AGAACACTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
33 11 0.21
34 40 0.77
35 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (33 bp):
TAAAACCAAATTTAATTAATTTTTTAAAATCAA
Found at i:33306438 original size:6 final size:6
Alignment explanation
Indices: 33306400--33306434 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33306390 AATCTTCTAG
* *
33306400 GGCTGT GGCTGT GGCTGT GGCTGT GACTGG GGCTG
1 GGCTGT GGCTGT GGCTGT GGCTGT GGCTGT GGCTG
33306435 GGGCCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.17, G:0.51, T:0.29
Consensus pattern (6 bp):
GGCTGT
Found at i:33306683 original size:22 final size:22
Alignment explanation
Indices: 33306656--33306697 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
33306646 AACATTTTCA
33306656 AATATAATTTTATTTAATCTGC
1 AATATAATTTTATTTAATCTGC
*
33306678 AATATAATTTTATTTTATCT
1 AATATAATTTTATTTAATCT
33306698 AATTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
AATATAATTTTATTTAATCTGC
Found at i:33306829 original size:15 final size:16
Alignment explanation
Indices: 33306793--33306847 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 16
33306783 TAAAACTAAT
33306793 ATAACTTTTCTTAAATA
1 ATAA-TTTTCTTAAATA
*
33306810 A-AATTTT-TTAACTA
1 ATAATTTTCTTAAATA
*
33306824 ATAATTGTCATTTAAATA
1 ATAATTTTC--TTAAATA
33306842 ATAATT
1 ATAATT
33306848 ATCACAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.29
16 2 0.06
17 1 0.03
18 12 0.39
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (16 bp):
ATAATTTTCTTAAATA
Found at i:33307457 original size:21 final size:19
Alignment explanation
Indices: 33307423--33307467 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
33307413 TAAATAATCC
*
33307423 AAAAAATTTAAAAATTTAA
1 AAAAAATTTAAAAATATAA
*
33307442 ATAAAAATCTTGAAAATATAA
1 A-AAAAAT-TTAAAAATATAA
33307463 AAAAA
1 AAAAA
33307468 CTATAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 10 0.45
21 11 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATTTAAAAATATAA
Found at i:33307615 original size:20 final size:21
Alignment explanation
Indices: 33307562--33307616 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
33307552 CTTTGTGATT
* *
33307562 TGATGTGGTGGGATTACATGG
1 TGATGTGATGGGGTTACATGG
*
33307583 T-ATGTTAAT-GGGTTA-ATGG
1 TGATG-TGATGGGGTTACATGG
33307602 TGATGTGATGGGGTT
1 TGATGTGATGGGGTT
33307617 GTCCAACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 3 0.11
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (21 bp):
TGATGTGATGGGGTTACATGG
Found at i:33308379 original size:18 final size:17
Alignment explanation
Indices: 33308356--33308390 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33308346 AAACTGCCTA
33308356 CTATGTCGCAACATCGAC
1 CTATGTCGCAACA-CGAC
*
33308374 CTATGTTGCAACACGAC
1 CTATGTCGCAACACGAC
33308391 TTCTGCACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (17 bp):
CTATGTCGCAACACGAC
Found at i:33311269 original size:46 final size:47
Alignment explanation
Indices: 33311202--33311324 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 47
33311192 TATATGCGCT
*
33311202 AGTGTAAGACATGTTTGGGACACGCATCAGCAAC-AG-TA-TGAGAGCC
1 AGTGTAAGACATG-TTGGGACATGCATCAGCAACGAGATATTGA-AGCC
** *
33311248 AGTGTAAGACATGCTTGGGACATGCATCAGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATG-TTGGGACATGCATCAGCAACGAGATATTGAAGCC
33311296 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGT-TGGGACATGCATCA
33311325 ACATTGATAC
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 30 0.44
47 3 0.04
48 33 0.49
49 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTTGGGACATGCATCAGCAACGAGATATTGAAGCC
Found at i:33315071 original size:16 final size:17
Alignment explanation
Indices: 33315045--33315079 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
33315035 TAGAATTGGG
*
33315045 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
33315062 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
33315078 TT
1 TT
33315080 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:33321596 original size:24 final size:23
Alignment explanation
Indices: 33321569--33321627 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
33321559 TCTACTACAA
* *
33321569 GTAGGAGGAGTTGTGTTACTCTTT
1 GTAGGAGCA-TTGTCTTACTCTTT
*
33321593 GTAGGGAGCATTGTCTTACTGTTT
1 GTA-GGAGCATTGTCTTACTCTTT
33321617 GTAGAGAGCAT
1 GTAG-GAGCAT
33321628 CAAAAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 24 0.80
25 5 0.17
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.37
Consensus pattern (23 bp):
GTAGGAGCATTGTCTTACTCTTT
Found at i:33335365 original size:11 final size:10
Alignment explanation
Indices: 33335319--33335366 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
33335309 CCAAACGACC
33335319 AAGAAAGAAA
1 AAGAAAGAAA
*
33335329 AAGAAGGAAA
1 AAGAAAGAAA
*
33335339 AA-AGAGAAA
1 AAGAAAGAAA
33335348 AAG-AAGAAA
1 AAGAAAGAAA
33335357 AAGGAAAGAA
1 AA-GAAAGAA
33335367 GGGCCCAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 14 0.45
10 12 0.39
11 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:33339497 original size:19 final size:19
Alignment explanation
Indices: 33339473--33339517 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
33339463 CAACTTTTGG
33339473 AATTTTTATAAATATTTTA
1 AATTTTTATAAATATTTTA
* ** *
33339492 AATTTTAATATTTATTTTG
1 AATTTTTATAAATATTTTA
33339511 AATTTTT
1 AATTTTT
33339518 TGTTGAGAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTATAAATATTTTA
Found at i:33340930 original size:51 final size:56
Alignment explanation
Indices: 33340862--33340965 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 56
33340852 AAAAAACATA
* * *
33340862 ATTTCAAATATTATAAAA-T-A-AA-TTAAAAAATAT-TTAAATTTTAAAATAAAC
1 ATTTAAAATATTATAAAACTAATAATTTAAAAAATATATTAAATGTAAAAATAAAC
33340913 ATTTAAAATATTATAAAACTAATAATTTAAAAAATATATTAAATGTAAAAATA
1 ATTTAAAATATTATAAAACTAATAATTTAAAAAATATATTAAATGTAAAAATA
33340966 TGATTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 17 0.38
52 1 0.02
53 1 0.02
54 2 0.04
55 11 0.24
56 13 0.29
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.37
Consensus pattern (56 bp):
ATTTAAAATATTATAAAACTAATAATTTAAAAAATATATTAAATGTAAAAATAAAC
Found at i:33341566 original size:9 final size:9
Alignment explanation
Indices: 33341549--33341585 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33341539 TATAGTTTGA
*
33341549 TATTTGAAT
1 TATTCGAAT
33341558 TATTCGAAT
1 TATTCGAAT
*
33341567 TATTCGAGT
1 TATTCGAAT
33341576 TATTCGAAT
1 TATTCGAAT
33341585 T
1 T
33341586 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33341644 original size:9 final size:9
Alignment explanation
Indices: 33341627--33341666 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
33341617 CGAAAAAAAT
*
33341627 TCGATTAAC
1 TCGAATAAC
33341636 TCGAATAAC
1 TCGAATAAC
*
33341645 TCGATTAAC
1 TCGAATAAC
*
33341654 TCAAATAAC
1 TCGAATAAC
33341663 TCGA
1 TCGA
33341667 TTCATTTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:33341648 original size:18 final size:18
Alignment explanation
Indices: 33341627--33341668 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
33341617 CGAAAAAAAT
*
33341627 TCGATTAACTCGAATAAC
1 TCGATTAACTCAAATAAC
33341645 TCGATTAACTCAAATAAC
1 TCGATTAACTCAAATAAC
33341663 TCGATT
1 TCGATT
33341669 CATTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (18 bp):
TCGATTAACTCAAATAAC
Found at i:33349993 original size:21 final size:21
Alignment explanation
Indices: 33349967--33350007 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33349957 ATCTGCTCAA
* *
33349967 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
33349988 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
33350008 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:33353499 original size:2 final size:2
Alignment explanation
Indices: 33353492--33353517 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33353482 TAGTTAATCA
33353492 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
33353518 CAGACAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33353808 original size:29 final size:28
Alignment explanation
Indices: 33353720--33353851 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 28
33353710 GGTTGTCGAA
* *
33353720 TTTGGAGATTTTGATTTAAGGTTGTCGAA-
1 TTTGG-GATTTTG-TTTAAGGTTTTTGAAT
* * * * *
33353749 TTTGAGGATTTGGGTTAGGGGTTCT-AAT
1 TTTG-GGATTTTGTTTAAGGTTTTTGAAT
* **
33353777 TTTAGGGATTTTGTTTAGGGTTTTTTTAT
1 TTT-GGGATTTTGTTTAAGGTTTTTGAAT
* *
33353806 TTTCGAATTTTCGTTTAAGGTTTTTGAAT
1 TTTGGGATTTT-GTTTAAGGTTTTTGAAT
33353835 TTTGGGATTTCTGTTTA
1 TTTGGGATTT-TGTTTA
33353852 TTATTTTCAA
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
27 2 0.03
28 31 0.40
29 43 0.55
30 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.52
Consensus pattern (28 bp):
TTTGGGATTTTGTTTAAGGTTTTTGAAT
Found at i:33354757 original size:22 final size:23
Alignment explanation
Indices: 33354732--33354777 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
33354722 CAACCGAACC
33354732 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
33354754 AATTTATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
33354777 A
1 A
33354778 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 15 0.71
24 1 0.05
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:33358332 original size:24 final size:24
Alignment explanation
Indices: 33358300--33358348 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33358290 ACTAAGGGAG
33358300 ACACAAAGAAAGCTAGCTTCAGAA
1 ACACAAAGAAAGCTAGCTTCAGAA
33358324 ACACAAAGAAAGCTAGCTTCAGAA
1 ACACAAAGAAAGCTAGCTTCAGAA
33358348 A
1 A
33358349 TGCATGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.12
Consensus pattern (24 bp):
ACACAAAGAAAGCTAGCTTCAGAA
Found at i:33365253 original size:158 final size:158
Alignment explanation
Indices: 33364939--33365252 Score: 398
Period size: 158 Copynumber: 2.0 Consensus size: 158
33364929 GGTGAGAGTC
* * * *
33364939 ACAATAGAAGATCATGCATTCAACCTAACAGAAATAGATCATAGATATATCATTAACACTTTTTC
1 ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
* ** * **
33365004 ACTATCAAGTTCTTAAATATTTAAGTCTAATTTGGGGTTTTACATTTTTTTCTTAGTCTAGTGCC
66 ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAGTCTAGAACC
*
33365069 ATTACAAGAACTAAAAGCCAAAAAAAGA
131 AGTACAAGAACTAAAAGCCAAAAAAAGA
* * * * * *
33365097 ACAACAGAAGATCATGCAATCAACCTACCACAACTGGATCATAGGTATATCGTAAACACTTTTTT
1 ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
* *
33365162 ACTGTCAAGTT-TTAAAATATTTAAATCTAATAGGGGGTTGTGA-TTTTTTTGTCTTAGTCTAGA
66 ACTATCAAGTTCTT-AAATATTTAAATCTAATAGGGGGTT-TGACATTTTTT-TCTTAGTCTAGA
* *
33365225 ACGAGTACAAGAACTAGAAGCCAAAAAA
128 ACCAGTACAAGAACTAAAAGCCAAAAAA
33365253 GGATGGTATA
Statistics
Matches: 132, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
157 2 0.02
158 93 0.70
159 37 0.28
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (158 bp):
ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAGTCTAGAACC
AGTACAAGAACTAAAAGCCAAAAAAAGA
Found at i:33368209 original size:29 final size:30
Alignment explanation
Indices: 33368165--33368222 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
33368155 TTAGCCTTAT
* * *
33368165 TTGATCCTTTTTAATAATACATGGACTAAA
1 TTGATCCTATTTAATAACAAATGGACTAAA
33368195 TTGATCC-ATTTAATAACAAATGGACTAA
1 TTGATCCTATTTAATAACAAATGGACTAA
33368223 TTTAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (30 bp):
TTGATCCTATTTAATAACAAATGGACTAAA
Found at i:33382580 original size:18 final size:18
Alignment explanation
Indices: 33382559--33382594 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33382549 ACAACAGCAG
33382559 GGGTTCACATAATAACAT
1 GGGTTCACATAATAACAT
*
33382577 GGGTTCGCATAATAACAT
1 GGGTTCACATAATAACAT
33382595 AGTGTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (18 bp):
GGGTTCACATAATAACAT
Found at i:33383933 original size:23 final size:24
Alignment explanation
Indices: 33383884--33383933 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
33383874 TTTAAATCTA
* *
33383884 ATATTATTTTAATATTTATACTTC
1 ATATTATTTTAATAGTTATACTAC
33383908 ATATTATTTTAA-AGTTAT-CATAC
1 ATATTATTTTAATAGTTATAC-TAC
33383931 ATA
1 ATA
33383934 AGATTTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.04
23 10 0.43
24 12 0.52
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATTATTTTAATAGTTATACTAC
Found at i:33384190 original size:16 final size:18
Alignment explanation
Indices: 33384160--33384202 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
33384150 TGATAATATT
*
33384160 TTTATTATACTATTT-TG
1 TTTATTATACAATTTATG
33384177 TTTA-TATACAATTTATG
1 TTTATTATACAATTTATG
33384194 TTTAATTAT
1 TTT-ATTAT
33384203 TTTTATCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.41
17 9 0.41
18 1 0.05
19 3 0.14
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTATTATACAATTTATG
Found at i:33397113 original size:44 final size:44
Alignment explanation
Indices: 33396755--33397116 Score: 240
Period size: 44 Copynumber: 8.5 Consensus size: 44
33396745 GAATCTTAAT
*
33396755 TCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
* * * * *
33396799 -CCCTTGAAGTTGCAGTGGGGCAGA-T---GGC-A-GATCTTGTC
1 TCCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
*
33396837 TCCCTGAAGTTGCAGTGGAGCAGCTTAAAGCCAATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
* * ** * ** * *
33396881 TCTCTGAAGTTGCAGTAGAGTGGATTGAAGATAACAAGTCTTAT-
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAA-TCCTATC
* * * * *
33396925 TCCACTGAAGTTGCAGTGGGGCAGACTGAAGATGGC--GAATCTTATC
1 TCC-CTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAATAATCCTATC
** *
33396971 TCCCTGAAGTTTTAGTGGAGTAGATTAAAGCCAATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
* ** *
33397015 -CCCTTGAAGTTAG-AGTAGG-GCAGA-T---GGC-A-GGTCTTATC
1 TCCC-TGAAGTT-GCAGT-GGAGCAGATTAAAGCCAATAATCCTATC
* *
33397053 TCCTTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
33397097 TCCCTGAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAG
33397117 TGGATTGAAG
Statistics
Matches: 236, Mismatches: 54, Indels: 56
0.68 0.16 0.16
Matches are distributed among these distances:
37 2 0.01
38 45 0.19
39 9 0.04
40 4 0.02
42 6 0.03
43 11 0.05
44 103 0.44
45 47 0.20
46 7 0.03
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
Found at i:33397151 original size:45 final size:45
Alignment explanation
Indices: 33397098--33397186 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
33397088 AATCCTATCT
* * *
33397098 CCCTGAAGTTGCAGTGGAGTGGATTGAAGATAACAAGTCTTATTC
1 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTTATTC
* *
33397143 CCCTGAAGTTGCGGTGGAGTAGACTGAAGATAGCAAATCTTATT
1 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTTATT
33397187 TCCTTGGCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (45 bp):
CCCTGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTTATTC
Found at i:33397212 original size:216 final size:216
Alignment explanation
Indices: 33396703--33397217 Score: 789
Period size: 216 Copynumber: 2.4 Consensus size: 216
33396693 AAACTACAGA
* *
33396703 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTAATTCCCTGAAGTTGC
1 TCTTATTCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATTTCCCTGAAGTTGC
*
33396768 AGTGGAGTAGATTAAAGCCAATAATCCTATCCCCTTGAAGTTGCAGTGGGGCAGATGGCAGATCT
66 AGTGGAGTAGATTAAAGCCAATAATCCTATCCCCTTGAAGTTGCAGTAGGGCAGATGGCAGATCT
* * * *
33396833 TGTCTCCCTGAAGTTGCAGTGGAGCAGCTTAAAGCCAATAATCCTATCTCTCTGAAGTTGCAGTA
131 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTA
33396898 GAGTGGATTGAAGATAACAAG
196 GAGTGGATTGAAGATAACAAG
* * **
33396919 TCTTATTCCACTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTTT
1 TCTTATTCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATTTCCCTGAAGTTGC
*
33396984 AGTGGAGTAGATTAAAGCCAATAATCCTATCCCCTTGAAGTTAG-AGTAGGGCAGATGGCAGGTC
66 AGTGGAGTAGATTAAAGCCAATAATCCTATCCCCTTGAAGTT-GCAGTAGGGCAGATGGCAGATC
*
33397048 TTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
130 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
*
33397113 GGAGTGGATTGAAGATAACAAG
195 AGAGTGGATTGAAGATAACAAG
* * * * * * ** *
33397135 TCTTATTCCCCTGAAGTTGCGGTGGAGTAGACTGAAGATAGCAAATCTTATTTCCTTGGCGTGGC
1 TCTTATTCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATTTCCCTGAAGTTGC
* *
33397200 AGTGGTGTAGATTGAAGC
66 AGTGGAGTAGATTAAAGC
33397218 ACCAATTCCT
Statistics
Matches: 269, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
216 268 1.00
217 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (216 bp):
TCTTATTCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATTTCCCTGAAGTTGC
AGTGGAGTAGATTAAAGCCAATAATCCTATCCCCTTGAAGTTGCAGTAGGGCAGATGGCAGATCT
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTA
GAGTGGATTGAAGATAACAAG
Found at i:33398891 original size:29 final size:28
Alignment explanation
Indices: 33398818--33398912 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
33398808 TTTTTAAAAA
33398818 ATTTCTTTTATAT-ATATTTTTAGGTTTTAT
1 ATTT-TTTTATATAATATTTTTA--TTTTAT
** *
33398848 AGATTTATATGATAATATTTTTATTTTACT
1 ATTTTTTTAT-ATAATATTTTTATTTTA-T
* * *
33398878 ATTTTTTTATATAAAATTTTTCTTTAATT
1 ATTTTTTTATATAATATTTTTATTTTA-T
33398907 ATTTTT
1 ATTTTT
33398913 ATCTTGCATA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
29 31 0.60
30 12 0.23
31 9 0.17
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.64
Consensus pattern (28 bp):
ATTTTTTTATATAATATTTTTATTTTAT
Found at i:33402791 original size:27 final size:27
Alignment explanation
Indices: 33402719--33402797 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
33402709 ACGATAGATC
* *
33402719 AATAACATTTGTGGGGAACTCTAAAAG
1 AATAACCTTTGTGGCGAACTCTAAAAG
* * * *
33402746 AATAGCCATTGTGGTGAACTCTGAAAG
1 AATAACCTTTGTGGCGAACTCTAAAAG
* *
33402773 AATAACCTTTGAGGCGAACTTTAAA
1 AATAACCTTTGTGGCGAACTCTAAA
33402798 TGGACTACTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (27 bp):
AATAACCTTTGTGGCGAACTCTAAAAG
Found at i:33405597 original size:14 final size:15
Alignment explanation
Indices: 33405565--33405595 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33405555 TAGAGCTGCC
33405565 AACTAATCCAGAAAA
1 AACTAATCCAGAAAA
*
33405580 AACTAATCCATAAAA
1 AACTAATCCAGAAAA
33405595 A
1 A
33405596 CTGCAACAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.16
Consensus pattern (15 bp):
AACTAATCCAGAAAA
Found at i:33407469 original size:16 final size:18
Alignment explanation
Indices: 33407448--33407481 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
33407438 GTCAGGCAAC
33407448 AAAACT-TGAT-ATTTTT
1 AAAACTATGATAATTTTT
33407464 AAAACTATGATAATTTTT
1 AAAACTATGATAATTTTT
33407482 GTGTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
AAAACTATGATAATTTTT
Found at i:33419824 original size:25 final size:25
Alignment explanation
Indices: 33419784--33419840 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
33419774 AAATAATTCG
** *
33419784 AGAATTTGCCTTAAAGGGTTTCCAA
1 AGAATTTGCCACAAAGGCTTTCCAA
* *
33419809 AGAATTTGCCACAAAGGCTTTCTAG
1 AGAATTTGCCACAAAGGCTTTCCAA
33419834 AGAATTT
1 AGAATTT
33419841 TTGAGTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (25 bp):
AGAATTTGCCACAAAGGCTTTCCAA
Found at i:33425294 original size:19 final size:19
Alignment explanation
Indices: 33425270--33425323 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
33425260 AATCTTCAAG
33425270 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33425289 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33425308 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33425324 AGATTTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33428211 original size:47 final size:48
Alignment explanation
Indices: 33428149--33428244 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 48
33428139 TATGATTTTT
33428149 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATA-TTTTTATA
1 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATA
* *
33428196 AAAGCGACTATTACGCAGATTGGCAGTGTCTGGGAAATATTTTTTATA
1 AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATA
33428244 A
1 A
33428245 GGGGTTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 37 0.80
48 9 0.20
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (48 bp):
AAAGCGACTAGTACGCAGATTGGCAGTGTCTGAGAAATATTTTTTATA
Found at i:33430722 original size:59 final size:59
Alignment explanation
Indices: 33430649--33430765 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
33430639 TCAGACATAC
* * *
33430649 CCAAAACTGCCTTCAGGACGAGATATGGTCACTACGAGTTCTTAGTGATGCCTTTTGGG
1 CCAAAACTGCCTTCAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGG
*
33430708 CCAAAACTTCCTTCAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGG
1 CCAAAACTGCCTTCAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGG
33430766 ACTCACTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (59 bp):
CCAAAACTGCCTTCAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGG
Found at i:33431139 original size:68 final size:68
Alignment explanation
Indices: 33431030--33431161 Score: 219
Period size: 68 Copynumber: 1.9 Consensus size: 68
33431020 TTGACCCGAG
* *
33431030 CAAAATTTCAGCCATACTTAACTGGAAGCCTCCAAGAAATATTACCGAAGTTCGGAGCTTTTTGC
1 CAAAATTTCAGCCATACTTAACTGGAAACCTCCAAGAAATATTACCGAAGTTCGAAGCTTTTTGC
33431095 GAA
66 GAA
* * *
33431098 CAAAATTTCAGCCATACTTAACTGGAAACCTCCGAGAAATATTACTGAGGTTCGAAGCTTTTTG
1 CAAAATTTCAGCCATACTTAACTGGAAACCTCCAAGAAATATTACCGAAGTTCGAAGCTTTTTG
33431162 GGACTCGCCG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (68 bp):
CAAAATTTCAGCCATACTTAACTGGAAACCTCCAAGAAATATTACCGAAGTTCGAAGCTTTTTGC
GAA
Found at i:33431643 original size:84 final size:84
Alignment explanation
Indices: 33431502--33431670 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
33431492 GCTTTAAAAA
*
33431502 TATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTATTTTTGGATCACAAAAGTCTCAAATAT
1 TATGGCGACATTACTTATTTGGTGAAAAGTGCCATGGATTTTTGGATCACAAAAGTCTCAAATAT
33431567 TTGATGACACAAAGAGACT
66 TTGATGACACAAAGAGACT
*
33431586 TATGGCGACATTACTTATTTGGTGAAAAGTGCCATGGATTTTTTGATCACAAAAGTCTCAAATAT
1 TATGGCGACATTACTTATTTGGTGAAAAGTGCCATGGATTTTTGGATCACAAAAGTCTCAAATAT
* *
33431651 TTGATGACTCAACGAGACT
66 TTGATGACACAAAGAGACT
33431670 T
1 T
33431671 GAATCTGCGA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (84 bp):
TATGGCGACATTACTTATTTGGTGAAAAGTGCCATGGATTTTTGGATCACAAAAGTCTCAAATAT
TTGATGACACAAAGAGACT
Found at i:33434790 original size:18 final size:18
Alignment explanation
Indices: 33434769--33434812 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
33434759 ATTCTGGTGA
33434769 TTCTAATAAAAGCAACAG
1 TTCTAATAAAAGCAACAG
**
33434787 TTCTGAAT-TGAGCAACAG
1 TTCT-AATAAAAGCAACAG
33434805 TTCTAATA
1 TTCTAATA
33434813 GAATCCCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
TTCTAATAAAAGCAACAG
Found at i:33437016 original size:292 final size:292
Alignment explanation
Indices: 33436492--33437040 Score: 1098
Period size: 292 Copynumber: 1.9 Consensus size: 292
33436482 CAGTCTGCTG
33436492 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
33436557 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
33436622 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
33436687 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGTAGA
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGTAGA
33436752 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
261 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
33436784 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
33436849 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
33436914 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
33436979 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGT
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGT
33437041 TCGAACCGCT
Statistics
Matches: 257, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 257 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (292 bp):
CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGTAGA
CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
Found at i:33443250 original size:44 final size:44
Alignment explanation
Indices: 33443114--33443510 Score: 124
Period size: 44 Copynumber: 9.0 Consensus size: 44
33443104 GATAATAGAT
* *
33443114 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* **** * * * * ** * * * *
33443158 CTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
*
33443202 CTTGCCTTACTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* **** * ** * * * *
33443246 CTTGCCTCCCTGGGTTG-CAGC-AGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGA-AGCAGATCGAAGACACCAG-C
* *
33443290 CTTACCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* *** * ** * * * *
33443334 CTTGCCTCCCTAG-GTTG-CAGCGGAGCA-AGTTAAAAATAGCAGAT
1 CTTGCCTTCCT-GCACCGACAGCGAAGCAGA-TCGAAGACACCAG-C
* * *
33443378 CTTGCCTTCCTACACGGACAACGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* **** * * ** * * ** *
33443422 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAATAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
* *
33443466 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
33443510 C
1 C
33443511 CTATCTCTCT
Statistics
Matches: 221, Mismatches: 118, Indels: 28
0.60 0.32 0.08
Matches are distributed among these distances:
42 2 0.01
43 64 0.29
44 89 0.40
45 64 0.29
46 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:33443540 original size:88 final size:88
Alignment explanation
Indices: 33443110--33443510 Score: 649
Period size: 88 Copynumber: 4.6 Consensus size: 88
33443100 TGAAGATAAT
* *
33443110 AGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
33443175 TAGTGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
*
33443198 AGATCTTGCCTTACTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
33443263 CAGCAGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
33443286 AGATCTTACCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
33443351 CAGCGGAGCAAGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
33443374 AGATCTTGCCTTCCTACACGGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
**
33443439 CAGCGGAGCAGGTTAAAAATAAT
66 CAGCGGAGCAGGTTAAAAATAGC
* *
33443462 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
33443511 CTATCTCTCT
Statistics
Matches: 287, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 287 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
CAGCGGAGCAGGTTAAAAATAGC
Found at i:33443573 original size:44 final size:44
Alignment explanation
Indices: 33443525--33443631 Score: 164
Period size: 44 Copynumber: 2.4 Consensus size: 44
33443515 CTCTCTAGAT
33443525 AGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTG-GTC
1 AGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGAG-C
33443569 AGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGC
1 AGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGC
* *
33443613 AACAGTGGAGTAGGTTGAA
1 AGCAGTGGAATAGGTTGAA
33443632 AATAGCAGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 56 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (44 bp):
AGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGC
Found at i:33444361 original size:217 final size:217
Alignment explanation
Indices: 33443980--33444373 Score: 626
Period size: 217 Copynumber: 1.8 Consensus size: 217
33443970 GCAATTTAAA
* ** * * *
33443980 AGACTGAAGATGGCGAATCTTATCTCTCTGAAGTTACAGTGGAGCATATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTACACCGAAGCAGACTAAAGCCAATAATCCT
33444045 ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* ** * *
33444110 GCAGATCGCATCTAGTCTTAGCTCTTTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAACCTTAT
131 GCAGATCGCATCGAGTCTTAGCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAACCTTAT
33444175 CATCCTGAAGTTGTAGTGAGGC
196 CATCCTGAAGTTGTAGTGAGGC
*
33444197 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTACACCGAAGTAGACTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTACACCGAAGCAGACTAAAGCCAATAATCCT
* * *
33444262 ATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
33444327 GTAGATCGCATCGGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAC
131 GCAGATCGCATCGAGTCTTAGCTCCCTAAAGTTGCAGTGGAGCAGAC
33444374 CCAAGAAAGT
Statistics
Matches: 159, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
217 159 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTACACCGAAGCAGACTAAAGCCAATAATCCT
ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCGAGTCTTAGCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAACCTTAT
CATCCTGAAGTTGTAGTGAGGC
Found at i:33444392 original size:45 final size:45
Alignment explanation
Indices: 33444341--33444502 Score: 170
Period size: 45 Copynumber: 3.6 Consensus size: 45
33444331 ATCGCATCGG
*
33444341 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGT-GA
1 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAA-TCAA
* *
33444386 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAA
1 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAATCAA
* ** *
33444431 GTCTTATCCCCCTGAAA-TTGCAGTGG-GACAGACTAAATAAA-CAA
1 GTCTTATCTCCCT-AAAGTTGCAGTGGAG-CAGACCCAAGAAATCAA
* ** *
33444475 ATCCCATCTCCCTAAAGTTGTAGTGGAG
1 GTCTTATCTCCCTAAAGTTGCAGTGGAG
33444503 TGGATTAGAA
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.03
44 22 0.22
45 73 0.73
46 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (45 bp):
GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAATCAA
Found at i:33445074 original size:22 final size:22
Alignment explanation
Indices: 33445014--33445071 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
33445004 AATCTTCAAG
33445014 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
33445033 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33445055 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33445072 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33447786 original size:41 final size:41
Alignment explanation
Indices: 33447729--33447875 Score: 177
Period size: 41 Copynumber: 3.6 Consensus size: 41
33447719 TTATTCTATG
* *
33447729 AATTGCACATACGTGCCCCTATTTGTGCTCCGGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * *
33447770 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * * * ** *
33447811 AATTGCATATACATGTCCCTGTTTGTACTTTAGTACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
*
33447852 AATTGCACATACGTGCCGCTATTT
1 AATTGCACATACGTGCCCCTATTT
33447876 ACACTCCAGT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:33449534 original size:22 final size:22
Alignment explanation
Indices: 33449492--33449541 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
33449482 ATGATGATGA
**
33449492 TTGATATGTTGTGATTGATATT
1 TTGATATGTTGCAATTGATATT
33449514 TTGATATGTATGCAATT-ATATT
1 TTGATATGT-TGCAATTGATATT
33449536 TCTGAT
1 T-TGAT
33449542 GATCTCACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (22 bp):
TTGATATGTTGCAATTGATATT
Found at i:33452175 original size:102 final size:102
Alignment explanation
Indices: 33451946--33452281 Score: 446
Period size: 102 Copynumber: 3.3 Consensus size: 102
33451936 TATCATTCGA
* * * * * *
33451946 TACACGTAGTAGCATTCACATAGTACTACACACATGATC-AAG-TTTTACGGTTCACGTAGTAGC
1 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGTAGC
* *
33452009 CTTCACATAGTACTACACACGTGATCA-AATTT-TACGG
65 CTTCACTTAGTACTACACATGTGATCATAATTTAT-CGG
* *
33452046 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
1 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
* *
33452111 TTCACTTAGTACTACACATGTGTTCATCATTTATCGG
66 TTCACTTAGTACTACACATGTGATCATAATTTATCGG
* *
33452148 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGGTACACATAGTAGCC
1 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
* * * *
33452213 ATCACTTAGTACTACACATGTGACCATTATTTATCGA
66 TTCACTTAGTACTACACATGTGATCATAATTTATCGG
* *
33452250 TACACGTTGTAGCCTTCACACTGTACTACACA
1 TACACGTAGTAGCCTTCACACAGTACTACACA
33452282 TGTGTTCATC
Statistics
Matches: 211, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
100 35 0.17
101 41 0.19
102 134 0.64
103 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
TTCACTTAGTACTACACATGTGATCATAATTTATCGG
Found at i:33452285 original size:51 final size:50
Alignment explanation
Indices: 33451946--33452281 Score: 365
Period size: 51 Copynumber: 6.6 Consensus size: 50
33451936 TATCATTCGA
* * * *
33451946 TACACGTAGTAGCATTCACATAGTACTACACACATGATCAAGTTT-TACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTAT-CGG
* *
33451996 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAATTT-TACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTAT-CGG
*
33452046 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTT-TCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA--TTTATCGG
* * * ** *
33452097 TACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTTATCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTTATCGG
* * *
33452148 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAATTTATCGG
* * * * * *
33452199 TACACATAGTAGCCATCACTTAGTACTACACATGTGACCATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTTATCGG
*
33452250 TACACGTTGTAGCCTTCACACT-GTACTACACA
1 TACACGTAGTAGCCTTCACA-TAGTACTACACA
33452282 TGTGTTCATC
Statistics
Matches: 245, Mismatches: 34, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
50 91 0.37
51 147 0.60
52 7 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTATCGG
Found at i:33454738 original size:26 final size:25
Alignment explanation
Indices: 33454706--33454771 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
33454696 CAACAAATAC
33454706 TTCATATAACCATTCATATA-TCTAT
1 TTCATATAACCATTCATATAGTC-AT
* *
33454731 TTCTATATAAACATTTCGTATAGTCAT
1 TTC-ATATAACCA-TTCATATAGTCAT
*
33454758 TTCATAAAACCATT
1 TTCATATAACCATT
33454772 TATCACATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 5 0.15
26 15 0.44
27 12 0.35
28 2 0.06
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (25 bp):
TTCATATAACCATTCATATAGTCAT
Found at i:33460705 original size:26 final size:26
Alignment explanation
Indices: 33460527--33460705 Score: 180
Period size: 26 Copynumber: 6.9 Consensus size: 26
33460517 GTACATAGTA
** *
33460527 CCTGCTAAATATTCACCGACTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
* * *
33460553 CCTGCTAAATAAACGCCAGCTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
* *
33460579 CCTGCTAAATAATCACTGGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
*
33460605 CCTGCTAAATAAACACCAGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
* * * *
33460631 CCTACTAAGTAATCAACTGG-TCAAAG
1 CCTGCTAAATAAAC-ACCGGCTCAAAG
* * * *
33460657 CCTGCTAAACAAACACTGACTCAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
*
33460683 CCTGCTAAATAAACATCGGCTCA
1 CCTGCTAAATAAACACCGGCTCA
33460706 TGGCCTGATA
Statistics
Matches: 122, Mismatches: 29, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
25 4 0.03
26 115 0.94
27 3 0.02
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (26 bp):
CCTGCTAAATAAACACCGGCTCAAAG
Found at i:33460712 original size:52 final size:52
Alignment explanation
Indices: 33460527--33460694 Score: 214
Period size: 52 Copynumber: 3.2 Consensus size: 52
33460517 GTACATAGTA
* * * * *
33460527 CCTGCTAAATATTCACCGACTCAAAGCCTGCTAAATAAACGCCAGCTCAAGG
1 CCTGCTAAATAATCACTGGCTCAAAGCCTGCTAAACAAACACCAGCTCAAGG
* *
33460579 CCTGCTAAATAATCACTGGCTCAAAGCCTGCTAAATAAACACCAGCTCAAAG
1 CCTGCTAAATAATCACTGGCTCAAAGCCTGCTAAACAAACACCAGCTCAAGG
* * *
33460631 CCTACTAAGTAATCAACTGG-TCAAAGCCTGCTAAACAAACA-CTGACTCAAGG
1 CCTGCTAAATAATC-ACTGGCTCAAAGCCTGCTAAACAAACACCAG-CTCAAGG
33460683 CCTGCTAAATAA
1 CCTGCTAAATAA
33460695 ACATCGGCTC
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
51 2 0.02
52 95 0.93
53 5 0.05
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.20
Consensus pattern (52 bp):
CCTGCTAAATAATCACTGGCTCAAAGCCTGCTAAACAAACACCAGCTCAAGG
Found at i:33462204 original size:50 final size:50
Alignment explanation
Indices: 33462129--33462371 Score: 317
Period size: 50 Copynumber: 4.8 Consensus size: 50
33462119 ATTTGGGTAA
*
33462129 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
33462179 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGAGTTGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
33462229 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*** * * * *
33462279 AGAGGTCCCCCATAAGACCATGTCTGGGACATGCCATGGGCACTG-GTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG-ATG
** * *
33462329 AGAACATCCCATGTAAGACCATGTCTGGGACATGTCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
33462372 TGTTATTATC
Statistics
Matches: 168, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 135 0.80
51 32 0.19
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:33465353 original size:51 final size:51
Alignment explanation
Indices: 33465277--33465376 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
33465267 ATCAACTGTT
*
33465277 ACTTCGGGTTCCTCGTCAATAAACTAGTCGCTACCCTAACAGAATCTTCCG
1 ACTTCGGGTTCCTCGTCAATAAACTAGTCACTACCCTAACAGAATCTTCCG
* * * *
33465328 ACTTCGGGTTCCTTGTCAATCAACTAGTCACTACCCTAGCAGGATCTTC
1 ACTTCGGGTTCCTCGTCAATAAACTAGTCACTACCCTAACAGAATCTTC
33465377 TGATCTTCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (51 bp):
ACTTCGGGTTCCTCGTCAATAAACTAGTCACTACCCTAACAGAATCTTCCG
Found at i:33475724 original size:25 final size:25
Alignment explanation
Indices: 33475690--33475741 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
33475680 AAGCATTAAG
33475690 TAAATAACGAAATCTTCTCTGAACT
1 TAAATAACGAAATCTTCTCTGAACT
*
33475715 TAAATAACGAATTCTTCTCTGAACT
1 TAAATAACGAAATCTTCTCTGAACT
33475740 TA
1 TA
33475742 GGCTGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (25 bp):
TAAATAACGAAATCTTCTCTGAACT
Found at i:33494501 original size:12 final size:12
Alignment explanation
Indices: 33494486--33494528 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
33494476 GTGTCGTAGG
33494486 CCGTGTGCCAGA
1 CCGTGTGCCAGA
* *
33494498 CCGTGT-CGTAGG
1 CCGTGTGC-CAGA
33494510 CCGTGTGCCAGA
1 CCGTGTGCCAGA
33494522 CCGTGTG
1 CCGTGTG
33494529 TGTATTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.12, C:0.30, G:0.37, T:0.21
Consensus pattern (12 bp):
CCGTGTGCCAGA
Found at i:33494507 original size:24 final size:24
Alignment explanation
Indices: 33494475--33494527 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
33494465 ATCACACGAT
33494475 CGTGTCGTAGGCCGTGTGCCAGAC
1 CGTGTCGTAGGCCGTGTGCCAGAC
33494499 CGTGTCGTAGGCCGTGTGCCAGAC
1 CGTGTCGTAGGCCGTGTGCCAGAC
33494523 CGTGT
1 CGTGT
33494528 GTGTATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.11, C:0.28, G:0.38, T:0.23
Consensus pattern (24 bp):
CGTGTCGTAGGCCGTGTGCCAGAC
Found at i:33496239 original size:26 final size:26
Alignment explanation
Indices: 33496210--33496259 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
33496200 GTTCAAAGCT
33496210 TGCTAAAT-AAGCACAGGCTCAAGGCA
1 TGCTAAATCAA-CACAGGCTCAAGGCA
*
33496236 TGCTAAATCAACACCGGCTCAAGG
1 TGCTAAATCAACACAGGCTCAAGG
33496260 TCTGATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (26 bp):
TGCTAAATCAACACAGGCTCAAGGCA
Found at i:33500049 original size:27 final size:27
Alignment explanation
Indices: 33500011--33500266 Score: 256
Period size: 27 Copynumber: 9.5 Consensus size: 27
33500001 AGACTCCAAA
*
33500011 ATAGGGTAAAATGACTAAAATACCCTC
1 ATAGGGTAAAATGACTGAAATACCCTC
* *
33500038 ATAGGATAAAAT-AATCGAAATACCCTC
1 ATAGGGTAAAATGACT-GAAATACCCTC
*
33500065 ATAGGGTAAAAT-AATCGAAATACACCT-
1 ATAGGGTAAAATGACT-GAAATAC-CCTC
* * *
33500092 ATAAGGTAAAATGA-TCAAAATAACCCCC
1 ATAGGGTAAAATGACT-GAAAT-ACCCTC
*
33500120 ATAGGGTAAAATGACCGAAATACCCTC
1 ATAGGGTAAAATGACTGAAATACCCTC
* ** *
33500147 ATAAGGTAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGACTGAAATACCCTC
33500174 ATAGGGTAAAATGA-TCGAAATACCC-C
1 ATAGGGTAAAATGACT-GAAATACCCTC
**
33500200 ATAGGGTAAAATGACCAAAATACCC-C
1 ATAGGGTAAAATGACTGAAATACCCTC
*
33500226 TATAGGGTAAAATGACTGAAATACCCCC
1 -ATAGGGTAAAATGACTGAAATACCCTC
*
33500254 ATAGGATAAAATG
1 ATAGGGTAAAATG
33500267 GTTGTTATAC
Statistics
Matches: 197, Mismatches: 22, Indels: 20
0.82 0.09 0.08
Matches are distributed among these distances:
26 26 0.13
27 147 0.75
28 24 0.12
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCTC
Found at i:33500102 original size:54 final size:54
Alignment explanation
Indices: 33500011--33500266 Score: 317
Period size: 54 Copynumber: 4.7 Consensus size: 54
33500001 AGACTCCAAA
* * * * *
33500011 ATAGGGTAAAATGA-CTAAAATACCCTCAT-AGGATAAAATAATCGAAATACCCTC
1 ATAGGGTAAAATGATC-GAAATACCCTCATAAGG-TAAAATGACCAAAATACCCCC
* *
33500065 ATAGGGTAAAATAATCGAAATACACCT-ATAAGGTAAAATGATCAAAATAACCCCC
1 ATAGGGTAAAATGATCGAAATAC-CCTCATAAGGTAAAATGACCAAAAT-ACCCCC
*
33500120 ATAGGGTAAAATGACCGAAATACCCTCATAAGGTAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGATCGAAATACCCTCATAAGGTAAAATGACCAAAATACCCCC
* *
33500174 ATAGGGTAAAATGATCGAAATACCC-CATAGGGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGATCGAAATACCCTCATAAGGTAAAATGACCAAAATACCCCC
*
33500227 ATAGGGTAAAATGA-CTGAAATACCCCCAT-AGGATAAAATG
1 ATAGGGTAAAATGATC-GAAATACCCTCATAAGG-TAAAATG
33500267 GTTGTTATAC
Statistics
Matches: 182, Mismatches: 12, Indels: 16
0.87 0.06 0.08
Matches are distributed among these distances:
52 1 0.01
53 51 0.28
54 77 0.42
55 53 0.29
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (54 bp):
ATAGGGTAAAATGATCGAAATACCCTCATAAGGTAAAATGACCAAAATACCCCC
Found at i:33500155 original size:82 final size:81
Alignment explanation
Indices: 33500015--33500266 Score: 287
Period size: 82 Copynumber: 3.1 Consensus size: 81
33500005 TCCAAAATAG
* * * *
33500015 GGTAAAATGA-CTAAAATACCCTCATAGGATAAAATAATCGAAATACCCTCATAGGGTAAAATAA
1 GGTAAAATGATC-AAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATAA
* * *
33500079 TCGAAATACACCTATAA
65 CCAAAATACACCCATAA
* *
33500096 GGTAAAATGATCAAAATAACCCCCATAGGGTAAAATGACCGAAATACCCTCATAAGGTAAAATGA
1 GGTAAAATGATCAAAAT-ACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATAA
* *
33500161 CCAAAATACCCCCATAG
65 CCAAAATACACCCATAA
* * *
33500178 GGTAAAATGATCGAAATA-CCCCATAGGGTAAAATGACCAAAATACCC-CTATAGGGTAAAATGA
1 GGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTC-ATAGGGTAAAATAA
** *
33500241 CTGAAATACCCCCAT-A
65 CCAAAATACACCCATAA
33500257 GGATAAAATG
1 GG-TAAAATG
33500267 GTTGTTATAC
Statistics
Matches: 150, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.02
80 61 0.41
81 16 0.11
82 70 0.47
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (81 bp):
GGTAAAATGATCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATAAC
CAAAATACACCCATAA
Found at i:33507786 original size:18 final size:20
Alignment explanation
Indices: 33507763--33507805 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33507753 AATAACTAAG
33507763 ATAAATAAAA-A-AAGAACA
1 ATAAATAAAAGATAAGAACA
*
33507781 ATAAATAAAAGATTAGAACA
1 ATAAATAAAAGATAAGAACA
33507801 ATAAA
1 ATAAA
33507806 GAAGATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (20 bp):
ATAAATAAAAGATAAGAACA
Found at i:33508000 original size:27 final size:27
Alignment explanation
Indices: 33507970--33508021 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
33507960 AAAGACTGTT
*
33507970 AAAACTCTTCTAAAAG-AAAACTCAAGA
1 AAAACTCTT-AAAAAGAAAAACTCAAGA
*
33507997 AAAATTCTTAAAAAGAAAAACTCAA
1 AAAACTCTTAAAAAGAAAAACTCAA
33508022 AGAGAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.60, C:0.15, G:0.06, T:0.19
Consensus pattern (27 bp):
AAAACTCTTAAAAAGAAAAACTCAAGA
Found at i:33511759 original size:32 final size:32
Alignment explanation
Indices: 33511720--33511781 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
33511710 AGGTACGTAA
33511720 ATTGAAGTCAACACCTCC-AGGAGCCAACTTTG
1 ATTGAAGTCAAC-CCTCCAAGGAGCCAACTTTG
*
33511752 ATTGAAGTCAACCCTCCAAGGTGCCAACTT
1 ATTGAAGTCAACCCTCCAAGGAGCCAACTT
33511782 CACCTCTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (32 bp):
ATTGAAGTCAACCCTCCAAGGAGCCAACTTTG
Found at i:33526689 original size:69 final size:69
Alignment explanation
Indices: 33526614--33526925 Score: 403
Period size: 69 Copynumber: 4.5 Consensus size: 69
33526604 ACTAAATGTC
* ** * * * *
33526614 TTGGAGGTTGTGGTTCTTCATCTTCGAACCTTTATATGATAACTGGGAGCTTTGCTCTCGCTAAT
1 TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATATGACAACTGGGAGCTTTGCTCTCGCTAAC
*
33526679 TTTT
66 TATT
* *
33526683 TTGGAGGTTGC-GTTCTTCGCCTGCAAACCTTAATATGACAATTGGGAGCTTTGCTCTCAG-TAA
1 TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATATGACAACTGGGAGCTTTGCTCTC-GCTAA
33526746 CTATT
65 CTATT
** ** * * *
33526751 TTGGAGGTTGCGACTCTTCGCCTATGAACCTTAATATGACAACTAGAAGCTTTGCTCTCACTAAC
1 TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATATGACAACTGGGAGCTTTGCTCTCGCTAAC
*
33526816 TGTT
66 TATT
* * * *
33526820 TTGGAGGTTGTGGCTCTTCACCTGCGAACCTTAATATGACAGCTGGGAGCTTTGCTCTCGCTAAC
1 TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATATGACAACTGGGAGCTTTGCTCTCGCTAAC
33526885 TATT
66 TATT
33526889 TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATAT
1 TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATAT
33526926 TTCATGCATT
Statistics
Matches: 207, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
68 57 0.28
69 150 0.72
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (69 bp):
TTGGAGGTTGCGGTTCTTCGCCTGCGAACCTTAATATGACAACTGGGAGCTTTGCTCTCGCTAAC
TATT
Found at i:33530722 original size:17 final size:17
Alignment explanation
Indices: 33530700--33530749 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
33530690 ATAGAAAGTC
33530700 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
33530717 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
33530734 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
33530750 AAATCTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:33545545 original size:17 final size:17
Alignment explanation
Indices: 33545523--33545572 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
33545513 ATAGAAAGTC
33545523 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
33545540 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
33545557 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
33545573 AAATATGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:33545849 original size:20 final size:20
Alignment explanation
Indices: 33545824--33545863 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33545814 AATTCTTGTG
33545824 TTCTTTATTGCATTATTCTA
1 TTCTTTATTGCATTATTCTA
33545844 TTCTTTATTGCATTATTCTA
1 TTCTTTATTGCATTATTCTA
33545864 CATGAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (20 bp):
TTCTTTATTGCATTATTCTA
Found at i:33549461 original size:305 final size:305
Alignment explanation
Indices: 33548910--33549517 Score: 1018
Period size: 305 Copynumber: 2.0 Consensus size: 305
33548900 ATTTGAAACT
*
33548910 GTTGCTCTCACTGAAGGGTGAACAACAATGTTGATGAATAAATTACCTCTAAAGTTGAATGACCC
1 GTTGCTCTCACTGAAGGGTGAACAACAATGTTGATGAATAAATTACCTCCAAAGTTGAATGACCC
**
33548975 AGGGAGTTTCACTATCTTATGTTCAATTGGAAATCATTATGTTGGTAAGGCATTATGTGATTTAA
66 AGGGAGTTTCACTATCCCATGTTCAATTGGAAATCATTATGTTGGTAAGGCATTATGTGATTTAA
* *
33549040 AAGTGAGTTTAAATCTAATGCCTACGTCTATTTTCAAGAAGTTAGAAAAATAAGACCTACTACGG
131 AAGTGAGTGTAAATCTAATGCCTACGTCTATTTTCAAGAAGTTAGAAAAATAAGACCAACTACGG
* *
33549105 TTACGTTACAACTAGCTGATCGATCCTACACACATCCGGAAGGTAAAATTGAATATGTGTTGGTA
196 TTACGTTACAACTAACTGATCGATCCTACACACATCCGGAAGGTAAAATTGAATATGTGCTGGTA
*
33549170 AGAGTAGATAAATTTATTTTTCTGAAAATTTTCTTATTTTAGACA
261 AGAGTAGATAAATTTATTTTTCTGAAAATTTCCTTATTTTAGACA
*
33549215 GTTGCTCTCATTGAAGGGTGAACAACAATGTTGATGAATAAATTACCTCCAAAGTTGAATGACCC
1 GTTGCTCTCACTGAAGGGTGAACAACAATGTTGATGAATAAATTACCTCCAAAGTTGAATGACCC
*
33549280 AGGGAGTTTCACTATCCCATGTTCAATTGGAAATCATTATGTTGGTAAGGCATTATGTGATTTAG
66 AGGGAGTTTCACTATCCCATGTTCAATTGGAAATCATTATGTTGGTAAGGCATTATGTGATTTAA
* * * *
33549345 AAGTGAGTGTAAATCTAATGCCTACGTCTATTTTCAGGAAGTTAGGAAAGTAAGACCAACTACTG
131 AAGTGAGTGTAAATCTAATGCCTACGTCTATTTTCAAGAAGTTAGAAAAATAAGACCAACTACGG
* * * * *
33549410 TTACGTTGCAACTAACTGATTGATCCTACGCACATTCGGAAGGTAAAATTGACTATGTGCTGGTA
196 TTACGTTACAACTAACTGATCGATCCTACACACATCCGGAAGGTAAAATTGAATATGTGCTGGTA
***
33549475 AGAGTAGATAAATTTATTTTTCTGTGGATTTCCTTATTTTAGA
261 AGAGTAGATAAATTTATTTTTCTGAAAATTTCCTTATTTTAGA
33549518 ATGTGAAGCT
Statistics
Matches: 281, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
305 281 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (305 bp):
GTTGCTCTCACTGAAGGGTGAACAACAATGTTGATGAATAAATTACCTCCAAAGTTGAATGACCC
AGGGAGTTTCACTATCCCATGTTCAATTGGAAATCATTATGTTGGTAAGGCATTATGTGATTTAA
AAGTGAGTGTAAATCTAATGCCTACGTCTATTTTCAAGAAGTTAGAAAAATAAGACCAACTACGG
TTACGTTACAACTAACTGATCGATCCTACACACATCCGGAAGGTAAAATTGAATATGTGCTGGTA
AGAGTAGATAAATTTATTTTTCTGAAAATTTCCTTATTTTAGACA
Found at i:33553266 original size:53 final size:53
Alignment explanation
Indices: 33553186--33553291 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
33553176 CCATGAAGAG
* * * *
33553186 GAAGCTGCGGTTTAAAGTCAGTGTCCGTAAATCCACTCGTAGGGCTGAATAAA
1 GAAGCTACGGTATAAAGTCAGTGTCCGTAAATCCACTCGCAGGGCTAAATAAA
33553239 GAAGCTACGGTATAAAGTCAGTGTCCGTAAATCCACTCGCAGGGCTAAATAAA
1 GAAGCTACGGTATAAAGTCAGTGTCCGTAAATCCACTCGCAGGGCTAAATAAA
33553292 ATAACTACAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (53 bp):
GAAGCTACGGTATAAAGTCAGTGTCCGTAAATCCACTCGCAGGGCTAAATAAA
Found at i:33564268 original size:33 final size:33
Alignment explanation
Indices: 33564226--33564300 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
33564216 ACATGTTTTC
33564226 TTTTAAATATATATGTATATGTTAATTTAAGTA
1 TTTTAAATATATATGTATATGTTAATTTAAGTA
33564259 TTTTAAATATATATGTATATGTTAATTTAAGTA
1 TTTTAAATATATATGTATATGTTAATTTAAGTA
*
33564292 TTTTTAATA
1 TTTTAAATA
33564301 GATTCTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (33 bp):
TTTTAAATATATATGTATATGTTAATTTAAGTA
Found at i:33564462 original size:16 final size:16
Alignment explanation
Indices: 33564441--33564473 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33564431 ATAAAACGAG
33564441 TACCATATTGATAGAC
1 TACCATATTGATAGAC
33564457 TACCATATTGATAGAC
1 TACCATATTGATAGAC
33564473 T
1 T
33564474 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (16 bp):
TACCATATTGATAGAC
Found at i:33574422 original size:23 final size:22
Alignment explanation
Indices: 33574379--33574436 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
33574369 AAAGGGTATC
* *
33574379 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
33574400 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
33574423 TGCATATCATATCT
1 TACAAATCATATCT
33574437 AAGATTGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33577086 original size:11 final size:11
Alignment explanation
Indices: 33577070--33577094 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33577060 AAAAATTCAG
33577070 TTAAATTGAAA
1 TTAAATTGAAA
33577081 TTAAATTGAAA
1 TTAAATTGAAA
33577092 TTA
1 TTA
33577095 TTTCTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
TTAAATTGAAA
Found at i:33577742 original size:16 final size:16
Alignment explanation
Indices: 33577721--33577753 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33577711 TTCGCTGTAT
33577721 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
33577737 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
33577753 T
1 T
33577754 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:33577797 original size:45 final size:44
Alignment explanation
Indices: 33577733--33577829 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
33577723 GAATAGAGGC
33577733 GTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* *
33577778 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
*
33577822 GGAATGGA
1 GTAATGGA
33577830 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:33578009 original size:18 final size:18
Alignment explanation
Indices: 33577986--33578137 Score: 126
Period size: 18 Copynumber: 8.9 Consensus size: 18
33577976 TTATTATTAA
33577986 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
33578004 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
33578022 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
33578039 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
33578057 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
33578073 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
33578092 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
33578104 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
33578122 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
33578138 TTCTTAGTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 3 0.03
16 8 0.08
17 22 0.21
18 60 0.57
19 5 0.05
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:33578033 original size:36 final size:36
Alignment explanation
Indices: 33577986--33578137 Score: 126
Period size: 35 Copynumber: 4.4 Consensus size: 36
33577976 TTATTATTAA
33577986 ATATAATTTAATAAAAATATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAATATATAATTTAATAAAAAT
*
33578022 ATATAATTTAAT-AAAATATATGAATTTACT-AAAAT
1 ATATAATTTAATAAAAATATAT-AATTTAATAAAAAT
* * * * * *
33578057 -TATAATAT-ATAATATTATAAAATATAATTTAAAAT
1 ATATAATTTAATAAAAATATATAATTTAA-TAAAAAT
* * *
33578092 A-ATTA-TT-AT--TAA-ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAATATATAATTTAATAAAAAT
33578122 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
33578138 TTCTTAGTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 21
0.71 0.13 0.17
Matches are distributed among these distances:
30 6 0.07
31 12 0.13
32 4 0.04
33 9 0.10
34 17 0.19
35 23 0.26
36 19 0.21
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (36 bp):
ATATAATTTAATAAAAATATATAATTTAATAAAAAT
Found at i:33578066 original size:24 final size:22
Alignment explanation
Indices: 33578031--33578084 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
33578021 TATATAATTT
*
33578031 AATAAAATATATGAAT-TTACTAA
1 AATATAATATAT-AATATTA-TAA
33578054 AATTATAATATATAATATTATAA
1 AA-TATAATATATAATATTATAA
33578077 AATATAAT
1 AATATAAT
33578085 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.21
23 10 0.36
24 12 0.43
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATAATATATAATATTATAA
Found at i:33578075 original size:15 final size:15
Alignment explanation
Indices: 33578055--33578110 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
33578045 ATTTACTAAA
*
33578055 ATTATAATATATAAT
1 ATTATAAAATATAAT
33578070 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
33578083 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
33578096 ATTATTAAATATAAT
1 ATTATAAAATATAAT
33578111 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:33578105 original size:26 final size:25
Alignment explanation
Indices: 33578065--33578243 Score: 85
Period size: 26 Copynumber: 7.3 Consensus size: 25
33578055 ATTATAATAT
*
33578065 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATTAAATATAATTTAAA
33578090 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATTAAATATAATTTAA-A
* *
33578117 AAAATA-TA-T-AATTTAA--TAAA
1 ATAATATTATTAAATATAATTTAAA
** * *
33578137 ATTCTTAGTATTAAATAT--TCTT-AT
1 A-TAATATTATTAAATATAAT-TTAAA
* *
33578161 ATGAAT-TTACTAAAATCATAA--T-AT
1 AT-AATATTA-TTAAAT-ATAATTTAAA
* *
33578185 ATAATACTATAAAATATAATTTAAA
1 ATAATATTATTAAATATAATTTAAA
33578210 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATTAAATATAATTTAA-A
*
33578237 AAAATAT
1 ATAATAT
33578244 ATAATTTAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 39
0.68 0.10 0.23
Matches are distributed among these distances:
20 2 0.02
21 5 0.04
22 6 0.05
23 19 0.16
24 21 0.18
25 14 0.12
26 42 0.36
27 8 0.07
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (25 bp):
ATAATATTATTAAATATAATTTAAA
Found at i:33578187 original size:61 final size:61
Alignment explanation
Indices: 33578119--33578335 Score: 223
Period size: 61 Copynumber: 3.6 Consensus size: 61
33578109 ATTTAACAAA
*
33578119 AATATATAAT-TTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** *
33578180 AATATATAATACTATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-CAAA
1 AATATATAATACTATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
*
33578239 AATATATAAT-TTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
* *
33578300 AATATATAATACTATAAAATTATTATTATTAAATAT
1 AATATATAATACTATAAAATTCTTAGTATTAAATAT
33578336 AATTTAACAA
Statistics
Matches: 122, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
58 4 0.03
59 33 0.27
60 16 0.13
61 64 0.52
62 5 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:33578206 original size:120 final size:120
Alignment explanation
Indices: 33577966--33578319 Score: 588
Period size: 120 Copynumber: 3.0 Consensus size: 120
33577956 TTAATCATAT
* * * *
33577966 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAAT-ATA-TAAT
1 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGT-AT
* *** * *
33578029 TTAATA-AAATATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
33578084 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
33578149 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
33578204 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
1 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
33578269 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAT
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAT
33578320 TATTATTATT
Statistics
Matches: 223, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 53 0.24
119 9 0.04
120 161 0.72
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:33582804 original size:20 final size:22
Alignment explanation
Indices: 33582765--33582804 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33582755 AATAGAGAGC
*
33582765 GATGTTGTGACCTTAAATTTCT
1 GATGTTGTGACCTGAAATTTCT
33582787 GATGTTGTGA-C-GAAATTT
1 GATGTTGTGACCTGAAATTT
33582805 ACTGTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (22 bp):
GATGTTGTGACCTGAAATTTCT
Found at i:33587191 original size:21 final size:21
Alignment explanation
Indices: 33587167--33587236 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
33587157 AAGAGTAAGA
33587167 ACATAGTTGAAAGACGTTATG
1 ACATAGTTGAAAGACGTTATG
* **
33587188 ACATCATGAATT-AAATAAATTA-G
1 ACAT-A-G--TTGAAAGACGTTATG
33587211 ACCATAGTTGAAAGACGTTATG
1 A-CATAGTTGAAAGACGTTATG
33587233 ACAT
1 ACAT
33587237 CATGAATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 4 0.11
23 4 0.11
24 10 0.28
25 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (21 bp):
ACATAGTTGAAAGACGTTATG
Found at i:33587191 original size:45 final size:45
Alignment explanation
Indices: 33587072--33587270 Score: 183
Period size: 45 Copynumber: 4.4 Consensus size: 45
33587062 AGGAAATGAT
* * *
33587072 TAAGACCATAGTTGAAAGACATTATGTCA-C-TGTATCGGAAATAAA
1 TAAGACCATAGTTGAAAGACGTTATGACATCATGAAT--GAAATAAA
* ** * *
33587117 TAAGACCATAATTGAAAGACACTACGACATCAT-ACCA-GAAA-AGAG
1 TAAGACCATAGTTGAAAGACGTTATGACATCATGA--ATGAAATA-AA
* *
33587162 TAAGAACATAGTTGAAAGACGTTATGACATCATGAATTAAATAAA
1 TAAGACCATAGTTGAAAGACGTTATGACATCATGAATGAAATAAA
* * **
33587207 TTAGACCATAGTTGAAAGACGTTATGACATCATGAATCAAACGAA
1 TAAGACCATAGTTGAAAGACGTTATGACATCATGAATGAAATAAA
*
33587252 TAAGACCGTAGTTGAAAGA
1 TAAGACCATAGTTGAAAGA
33587271 ATCTATGGCA
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
44 2 0.02
45 119 0.94
46 3 0.02
47 1 0.01
48 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACGTTATGACATCATGAATGAAATAAA
Found at i:33593441 original size:16 final size:16
Alignment explanation
Indices: 33593422--33593452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33593412 GTAATTTTAA
*
33593422 TGTTAAAGGATTAAAT
1 TGTTAAAGGAGTAAAT
33593438 TGTTAAAGGAGTAAA
1 TGTTAAAGGAGTAAA
33593453 ATTCATGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (16 bp):
TGTTAAAGGAGTAAAT
Found at i:33593948 original size:45 final size:44
Alignment explanation
Indices: 33593884--33594090 Score: 159
Period size: 45 Copynumber: 4.6 Consensus size: 44
33593874 AGGAAATGAT
* *
33593884 TAAGACCATAATTGAAAGACACTATGGCATCATACCAGAAGCGAG
1 TAAGACCATATTTGAAAGACACTATGGCATCATACCAGAA-CGAA
** * * * * *
33593929 TAAGACCATATTTGAAAGACGTTATGGCATCACGATTC-TATCGAG
1 TAAGACCATATTTGAAAGACACTATGGCATCA-TA-CCAGAACGAA
* * * * * *
33593974 TAAAACCATATTTGAAAGACGCCATGGTATCACAAATCA-AACGAA
1 TAAGACCATATTTGAAAGACACTATGGCAT--CATACCAGAACGAA
* *
33594019 TAAGACCATATTTGAAAGACACTATGGCAACATGA-CAGAAAATGAA
1 TAAGACCATATTTGAAAGACACTATGGCATCAT-ACCAG--AACGAA
*
33594065 TAAGACCATAGTTGAAAGACACTATG
1 TAAGACCATATTTGAAAGACACTATG
33594091 ACAACACGAT
Statistics
Matches: 131, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 90 0.69
46 33 0.25
47 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (44 bp):
TAAGACCATATTTGAAAGACACTATGGCATCATACCAGAACGAA
Found at i:33594080 original size:46 final size:46
Alignment explanation
Indices: 33594016--33594131 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
33594006 CAAATCAAAC
* * *
33594016 GAATAAGACCATATTTGAAAGACACTATGGCAACATGACAGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACAACACGACAGAAAAT
**
33594062 GAATAAGACCATAGTTGAAAGACACTATGACAACACGATGGAAAAT
1 GAATAAGACCATAGTTGAAAGACACTATGACAACACGACAGAAAAT
* *
33594108 GATTAAGACCATGGTTGAAAGACA
1 GAATAAGACCATAGTTGAAAGACA
33594132 ATTTGGCATC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.19
Consensus pattern (46 bp):
GAATAAGACCATAGTTGAAAGACACTATGACAACACGACAGAAAAT
Found at i:33595073 original size:20 final size:20
Alignment explanation
Indices: 33595032--33595074 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
33595022 AGATAGATAT
*
33595032 TTATAAATTTATTATAAATA
1 TTATAAATTTACTATAAATA
*
33595052 TTATAATATTTACT-TAAGTA
1 TTATAA-ATTTACTATAAATA
33595072 TTA
1 TTA
33595075 AGTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATAAATTTACTATAAATA
Found at i:33595196 original size:28 final size:30
Alignment explanation
Indices: 33595144--33595202 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
33595134 AAAAAAAAAG
*
33595144 AAAGAAAGAACAAATGAAACAAAAGG-GAA
1 AAAGAAAGAACAAAGGAAACAAAAGGAGAA
* *
33595173 AAAGAAAG-AGAAAGGAAAGAAAAGGAGAA
1 AAAGAAAGAACAAAGGAAACAAAAGGAGAA
33595202 A
1 A
33595203 GACCAAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.69, C:0.03, G:0.25, T:0.02
Consensus pattern (30 bp):
AAAGAAAGAACAAAGGAAACAAAAGGAGAA
Found at i:33613549 original size:80 final size:79
Alignment explanation
Indices: 33613465--33613636 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
33613455 GGACTAAGAT
*
33613465 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
33613529 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
33613545 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
33613610 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
33613624 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33613637 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Done.