Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 67 of 211
Found at i:17766127 original size:13 final size:14
Alignment explanation
Indices: 17766109--17766137 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17766099 CATACAAATT
17766109 AGAAAG-AAAAGAA
1 AGAAAGAAAAAGAA
17766122 AGAAAGAAAAAGAA
1 AGAAAGAAAAAGAA
17766136 AG
1 AG
17766138 GAGAAAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:17766587 original size:7 final size:7
Alignment explanation
Indices: 17766575--17766614 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
17766565 TAAAAATTGA
17766575 AATATTC
1 AATATTC
17766582 AATATTC
1 AATATTC
17766589 AATATTC
1 AATATTC
*
17766596 AAGATTC
1 AATATTC
*
17766603 AAGATTC
1 AATATTC
17766610 AATAT
1 AATAT
17766615 GAAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (7 bp):
AATATTC
Found at i:17779781 original size:24 final size:24
Alignment explanation
Indices: 17779745--17779798 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
17779735 AAAAATGATG
* *
17779745 CACACAGCTTGGGACACGAGTTGT
1 CACACGGCCTGGGACACGAGTTGT
*
17779769 CACACGGCCTGGGACACGGGTTGT
1 CACACGGCCTGGGACACGAGTTGT
17779793 CACACG
1 CACACG
17779799 ATCGTGTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (24 bp):
CACACGGCCTGGGACACGAGTTGT
Found at i:17810058 original size:11 final size:11
Alignment explanation
Indices: 17810027--17810052 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17810017 TTAATTTTGG
17810027 TTTTATATTTA
1 TTTTATATTTA
17810038 TTTTATATTTA
1 TTTTATATTTA
17810049 TTTT
1 TTTT
17810053 TGATTTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATATTTA
Found at i:17810900 original size:11 final size:11
Alignment explanation
Indices: 17810880--17810940 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
17810870 AGAAAATTAG
17810880 AAAAAGTATTTT
1 AAAAA-TATTTT
17810892 AAAAATATTTT
1 AAAAATATTTT
*
17810903 AAAAATA---A
1 AAAAATATTTT
17810911 AAAAAGTATTTT
1 AAAAA-TATTTT
17810923 -AAAATATTTTT
1 AAAAATA-TTTT
17810934 AAAAATA
1 AAAAATA
17810941 AAATATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 2 0.05
11 21 0.51
12 11 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17810915 original size:31 final size:31
Alignment explanation
Indices: 17810865--17810943 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
17810855 ACCAAATTTT
*
17810865 TTTTTAGAAAATTAGAAAAAGTATTTTAAAA-A
1 TTTTTA-AAAA-TAAAAAAAGTATTTTAAAATA
17810897 TATTTTAAAAATAAAAAAAGTATTTTAAAATA
1 T-TTTTAAAAATAAAAAAAGTATTTTAAAATA
17810929 TTTTTAAAAATAAAA
1 TTTTTAAAAATAAAA
17810944 TATATATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 32 0.73
32 7 0.16
33 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (31 bp):
TTTTTAAAAATAAAAAAAGTATTTTAAAATA
Found at i:17812078 original size:31 final size:32
Alignment explanation
Indices: 17812043--17812104 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17812033 CTTTTAACAT
*
17812043 TCCAGTGACTT-AAAT-AAAAGCTTTCGAATAG
1 TCCAGTGACTTAAAATGAAAA-CTTTCAAATAG
17812074 TCCAGTGACTTAAAATGAAAACTTTCAAATA
1 TCCAGTGACTTAAAATGAAAACTTTCAAATA
17812105 ATTCAGTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 11 0.39
32 13 0.46
33 4 0.14
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (32 bp):
TCCAGTGACTTAAAATGAAAACTTTCAAATAG
Found at i:17812112 original size:32 final size:31
Alignment explanation
Indices: 17812043--17812112 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
17812033 CTTTTAACAT
* *
17812043 TCCAGTGACTTAAATAAAAGCTTTCGAATAG
1 TCCAGTGACTTAAATAAAAGCTTTCAAATAA
17812074 TCCAGTGACTTAAAATGAAAA-CTTTCAAATAA
1 TCCAGTGACTT-AAAT-AAAAGCTTTCAAATAA
*
17812106 TTCAGTG
1 TCCAGTG
17812113 GCCATTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 11 0.32
32 19 0.56
33 4 0.12
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (31 bp):
TCCAGTGACTTAAATAAAAGCTTTCAAATAA
Found at i:17826686 original size:553 final size:553
Alignment explanation
Indices: 17825595--17827678 Score: 3131
Period size: 553 Copynumber: 3.8 Consensus size: 553
17825585 ATAAACCTTT
* *
17825595 ATTGTTGTTGTCGCCTAAACCTTCCATTTTACCATCTC--T-TTCTTCTTTTTGTATCAAGATTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
* *
17825657 TGCACCATCTTCTTTAATCTATTGCTTCCATTTATCCTCATTTAAATCAGCACCAAATCTGAAAT
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTGAAAT
* * * * *
17825722 CTTGACCTCCAAGATCGATTCTGAACATTGCCAAGAAAGTCCCATTATCATTTCTCTCAACTAGC
131 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAGC
* * *
17825787 TTGGGTAAGAACTATTATTTCTTCAAGTTTTTGATTAATCTTGCAAATTAAAAACCTAAATTTCC
196 TTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCC
*
17825852 AGATTTGGAATTTGGGAGCATTTTGATGATTTTTAATATATTTTTTTCAGTTTTTAATGGGT-TT
261 AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATA-TTTTTTCAGTTTTTAATGGGTCTT
* *
17825916 TAAATCGTATTTAAATTAGTCCCAAGTTCAAATCCCTTCTCTTTCAAATAATTTAATTTTTTGAC
325 TAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAC
* *
17825981 AAAAATCCCTTATTTTAATGTGTGTGTCATCCAACCCTAGTAAACCTAGGTATAAGTATTATTTT
390 AAAAATCCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTT
* * *
17826046 TTCACAAATAATAAGCCTTTGATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTTCTCTTATT
455 TT-ACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCATT
17826111 CTCTTTGATTTTAATG-TTTTTTTTCCTTTCCTCC
519 CTCTTTGATTTTAATGTTTTTTTTTCCTTTCCTCC
* *
17826145 ATTGTTGTTGTCGCCTACACCTCCCATTTTACTATCTCTTTCTT-TCTCTTTTTGTATCAAGAGT
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCT-TCTTTTTGTATCAAGATT
* * *
17826209 GTGCACCATCTCCTTTAATCTATTGCTTACATTTATCCTCATTTAAATCAGCACCAAATTTGAAA
65 GTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTG-AA
* *
17826274 AT-TTAAACTCCAAGATCGATTCTGAACATTGCCAAGAATGTGCCATTATCATTTCTTTCAACTA
129 ATCTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTA
* ** *
17826338 GCTTGGGTAAGAACTCTTCTTTCTTCAATTTTTTGATTAATCTTAACAACTAAAAACCTAAATTT
194 GCTTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTT
17826403 CCAGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTAATGGGTCT
259 CCAGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTAATGGGTCT
* * * * *
17826468 TTAAATCGTATTTAAATTAGTCCTAACTTCAAATCCTTTCTCTTGCAAATAATTTAATGTTTTGA
324 TTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGA
* * * * *
17826533 C-AAAATCCCCTTGTTTTAATGTATGCGTTGTCCAAGCCTAGTAAACTTAGGTATAAGTATTATT
389 CAAAAAT-CCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATT
* *
17826597 TTTTACAAATAATCAGCCTTTAATCCCCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCAT
453 TTTTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCAT
* *
17826662 TCACTTTGATTTTAATGTTTTTTTTTTCATTTCCTCC
518 TCTCTTTGATTTTAATG-TTTTTTTTTCCTTTCCTCC
* * *
17826699 ATTGTTGTTGTTGCCTACACCTCCCATTTTACCATCTCTTTCGTCTTCTTTTTGCATCAAGATTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
* * *
17826764 CGCATCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAAT
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTGAAAT
* * *
17826829 CTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATAATCGTTTCTTTCAACTAGC
131 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAGC
* * * **
17826894 TTGGGTAAGAGCTTTTATTTCTTCAATTTTTTGATTAATCTTGCCAATGAAAAACCTAAATTTTT
196 TTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCC
*
17826959 AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTT-ATTTTTTAATGGGTCTTT
261 AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTAATGGGTCTTT
* *
17827023 AAATCGCATTTAAATCAGTCCCAAGTTCAAATCCCTTCTATTGCAAATAATTTAATTTTTTGACA
326 AAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACA
* *
17827088 AAAATCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCAAGGTATAAGTATTAATTTT
391 AAAATCCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATT-A-TTT
*
17827153 TTTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCACTAGTCATTCCTCTCCTCCTCTCATT
454 TTTACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCATT
* *
17827218 CTCTTTGATTTTAATGTTTTTTTTCCCTTTCTTCC
519 CTCTTTGATTTTAATGTTTTTTTTTCCTTTCCTCC
*
17827253 ATTGTTGTTGTTGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
1 ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
* * * *
17827318 TGCACCATCTCCTTTAATATATTGCTTTCA-TT-T-GTCATCT-AA--AGCATCAAATCTGAAAT
66 TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTGAAAT
* *
17827377 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGTCATTATCGTTT-TTATCAACTAG
131 CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTT-TCAACTAG
** * * * *
17827441 CTTGGGTAAGAGTTCTTCTTTCTTAAATTTTTTGATTAATCTTGCCAATTAATAACCTAAATGTC
195 CTTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTC
* ** * * * *
17827506 TAGATTTGGAATTTGATAGAATTTCGATGATTTTAAATATATTTTTTCAATTTTTTACTGGGTCT
260 CAGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTC-AGTTTTTAATGGGTCT
* *
17827571 TTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTT-CTAAATAATTTAAATTTTTG
324 TTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGC-AAATAATTTAATTTTTTG
*
17827635 ACAAAAACCCCTTTATTTTAATGTGTGTGTCGTCCAAGCCTAGT
388 ACAAAAATCCC-TTATTTTAATGTGTGTGTCGTCCAAGCCTAGT
17827679 GATGGCCACT
Statistics
Matches: 1400, Mismatches: 115, Indels: 37
0.90 0.07 0.02
Matches are distributed among these distances:
547 2 0.00
548 173 0.12
549 1 0.00
550 120 0.09
551 37 0.03
552 101 0.07
553 479 0.34
554 406 0.29
555 81 0.06
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (553 bp):
ATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTG
TGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTGAAAT
CTTAAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCATTTCTTTCAACTAGC
TTGGGTAAGAACTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCC
AGATTTGGAATTTGGGAGAATTTTGATGATTTTTAATATATTTTTTCAGTTTTTAATGGGTCTTT
AAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACA
AAAATCCCTTATTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTT
TACAAATAATAAGCCTTTAATCCTCCTCCTCATTGCCCTAGTCATTCCTCTCCTCCTCTCATTCT
CTTTGATTTTAATGTTTTTTTTTCCTTTCCTCC
Found at i:17830326 original size:303 final size:304
Alignment explanation
Indices: 17829773--17830371 Score: 884
Period size: 303 Copynumber: 2.0 Consensus size: 304
17829763 TCATTATTGT
* * * *
17829773 TTCTCTCAACAAGTTTGGGTAAAAGCTCTTCTTTCTTCATTTTTTTGATTAATCTTGCTAATTAA
1 TTCTCCCAACAAGTTTAGGTAAAAGCTATTCTTTCTTCAATTTTTTGATTAATCTTGCTAATTAA
*
17829838 AAACCTAAATTTCAAGATTTGGAATTTGGGAGAATTGTGATGATTTTAATGGATATCTTTTCAAA
66 AAACCTAAATTTCAAGATTTGGAATTTGGGAAAATTGTGATGATTTTAAT-GATATCTTTTCAAA
* *
17829903 TTTTAATGGATATTTAAATTGTATTCAAATCAACCCCAACTTCAAATCCCTTTTCTTGCAAGTAA
130 TTTTAATGGATATTTAAATTGTATTCAAATCAACCCCAACTTCAAATCCCTTCTCTTGCAAATAA
* * * * *
17829968 TTTAATTTTTTGACAAAACCCCTTGTTTTAATGCGTGTGTCGTCCAAAGCTAGTAAACCTAGTTA
195 GTTAATTTTTTGACAAAACCCCTTGCTTTAATGCATGTATCGTCCAAAGCTAGTAAACCTAGGTA
*
17830033 TAAGTATTA-TTT-TCTCAAATAATCAGCCTTTAATACTTATACC
260 TAAGTATTATTTTGTCACAAATAATCAGCCTTTAATACTTATACC
* *
17830076 TTCTCCCAACAAGTTTAGGTAACAGCTATTCTTTTTTCAATTTTTTGATTAATCTTGCTAATTAA
1 TTCTCCCAACAAGTTTAGGTAAAAGCTATTCTTTCTTCAATTTTTTGATTAATCTTGCTAATTAA
* * *
17830141 AAACCTAAATTTCATGATTTTGAATTTGGGAAAATTGTGATGATTTTACAT-ATATTTTTTCAAT
66 AAACCTAAATTTCAAGATTTGGAATTTGGGAAAATTGTGATGATTTTA-ATGATATCTTTTCAA-
* * * * *
17830205 TTTTTAATAGG-TCTTTAAATTGTATTTAAATCAATCCCAACTTTAAATCCCTTCTCTTGCAAAT
129 ATTTTAAT-GGATATTTAAATTGTATTCAAATCAACCCCAACTTCAAATCCCTTCTCTTGCAAAT
* *
17830269 AAGTTAATTTTTTGACAAAACCCCTTGCTTTAATGTATGTATCGTCC-AAGCCTAGTAAAGCTAG
193 AAGTTAATTTTTTGACAAAACCCCTTGCTTTAATGCATGTATCGTCCAAAG-CTAGTAAACCTAG
*
17830333 GTATAAGTATTATTTTGTCACAAATAATCAGTCTTTAAT
257 GTATAAGTATTATTTTGTCACAAATAATCAGCCTTTAAT
17830372 CCTCCTCTTC
Statistics
Matches: 264, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
302 14 0.05
303 223 0.84
304 7 0.03
305 20 0.08
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (304 bp):
TTCTCCCAACAAGTTTAGGTAAAAGCTATTCTTTCTTCAATTTTTTGATTAATCTTGCTAATTAA
AAACCTAAATTTCAAGATTTGGAATTTGGGAAAATTGTGATGATTTTAATGATATCTTTTCAAAT
TTTAATGGATATTTAAATTGTATTCAAATCAACCCCAACTTCAAATCCCTTCTCTTGCAAATAAG
TTAATTTTTTGACAAAACCCCTTGCTTTAATGCATGTATCGTCCAAAGCTAGTAAACCTAGGTAT
AAGTATTATTTTGTCACAAATAATCAGCCTTTAATACTTATACC
Found at i:17832229 original size:538 final size:538
Alignment explanation
Indices: 17830093--17832481 Score: 2960
Period size: 535 Copynumber: 4.4 Consensus size: 538
17830083 AACAAGTTTA
* * * *
17830093 GGTAACAGCTATTCTTTTTTCAATTTTTTGATTAATCTTGCTAATTAAAAACCTAAATTT-CATG
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCA-G
* * * * *
17830157 ATTTTGAATTTGGGAAAATTGTGATGATTTTACATATATTTTTTCAATTTTTTAATAGGTCTTTA
65 ATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTCAGTTTTTTAATAGGTCTTTA
* * * * * *
17830222 AATTGTATTTAAATCAATCCCAACTTTAAATCCCTTCTCTTGCAAATAAGTTAATTTTTTGACAA
130 AATCGTATTTAAATCAGTCCCAAGTTTAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGAAAA
* * *
17830287 AACCCCTTGCTTTAATGTATGTATCGTCCAAGCCTAGTAAAGCTAGGTATAAGTATTATTTTGTC
195 AACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGTC
*
17830352 ACAAATAATCAGTCTTTAATCCTCCTCTTCATTGCTCTAATAATTCCTCTCCTCCTCTCATTTTC
260 ACAAATAATCAGTCTTTAA---T-C-C-T-A--G-TC-----ATTCCTCTCCTCCTCTCATTCTC
* * *
17830417 TTTAATTTTAATGTTTTTTTTCCTTTCCACCATTGTTGTTGTCGCCTACACCTCCCCTTTTGCCA
310 TTTGATTTTAATGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCA
* * * * * * *
17830482 TCTCTTTCTTTTTCTTTTTGTATCAAGATTGTGCACTATTTGCTTTAATCTATTCCTTTCATTTG
375 TCTATTTCTTCTTCTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTA
*** * * *
17830547 TCCTCATCTAAATCAGTTTCAAATCTAAAATATTAAACTCC-A-A--GATCCTGAACATTACCAA
440 TCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAA
* * *
17830608 AAAAGTGCCATTATCGTTTCTCTCATCTAGCTTC
505 GAAAGTGCCATTATCGTTTCTCTCAACTAGCTTG
* * * * *
17830642 CGTAAAAGCTCTTATTTCTTCAATTTTTTGATTAATCTTGCCAATTCAAAATCTAAATTTCCAGA
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
* * * * * *
17830707 TTTGGAATCTGGAAGGATTTTTATGATTTTAACTATATTTTTTCAGTTTTTTAATGGGTCTTTAA
66 TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTCAGTTTTTTAATAGGTCTTTAA
* * *
17830772 ATCGTATTTAAATCAATCCCAAGTTAAAATCCCTTCTCTTGC-AACTAATTTAATTTTTTCATAA
131 ATCGTATTTAAATCAGTCCCAAGTTTAAATCCCTTCTCTTGCAAAC-AATTTAATTTTTTGA-AA
* * * * *
17830836 AAACCCCTTATTTTAATATGTGCGTCGTCCAACCCTAGTAAACCTAGGTATAAGTATTATTTTGT
194 AAACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGT
* *
17830901 CACAAAAAATCAGTCTTTAATCCTAGTCATTCCTCTCCTCCTCTTATTCTCTTTGATTTTAATGT
259 CACAAATAATCAGTCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGT
* * * * *
17830966 TTTTTTTTCTTTCCTTCATTGTTGTTGTCACCTACATCTCCCCTTTTACCATCTCTTTCTTCTTC
324 TTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCATCTATTTCTTCTTC
* * * *
17831031 TATTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATGGCTTCCATTTATCCTCATCTAAGTC
389 TTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATC
* * * * *
17831096 AGCACCAAATTTGAAATCTTGAACTCCACGATCGATCTTAAACATTGCCAAGAAAGTGCCATTAT
454 AGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTAT
17831161 CGTTTCTCTCAACTAGCTTG
519 CGTTTCTCTCAACTAGCTTG
* * *
17831181 AGTAAGAGCTCTTCTTTCTTCAATTTTTTAATTAATCTTGCCAAGTAAAAACCTAAATTTCCAGA
1 GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
* * * * * * * **
17831246 TTTTGAAGTTGGGATAATTTTGATGATGTTATATATATATTTTTAAGTTTTTTCATTTGTCTTTA
66 TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATAT-TTTTTCAGTTTTTTAATAGGTCTTTA
* * *
17831311 AATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGAGAA
130 AATCGTATTTAAATCAGTCCCAAGTTTAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGAAAA
* ** * *
17831376 AGCCTTTTGTTTTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTC
195 AACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGTC
* *
17831441 ACAAATAATCAGCCTTTCATCCTCCTCCTCATTGTCATAGTCAGTCCTCTCCTCCTCTCATTCTC
260 ACAAATAATCAGTCTTT-A-----ATCCT-A--GTC--A-T---TCCTCTCCTCCTCTCATTCTC
*
17831506 TTTGATTTTAATGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTACCCTTTTACCA
310 TTTGATTTTAATGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCA
* * * *
17831571 TC-ACATTATTCTTCTTTTTG-ATCAAGATTGTGCA-TCATATCCTTTAATATATTGCTTCCATT
375 TCTA-TTTCTTCTTCTTTTTGTATCAAGATTGTGCACT-ATCTCCTTTAATCTATTGCTTCCATT
* * * * *
17831633 TATCCTCGTCTAAATCAACACCAAATTTGAAATCTTGAACTCCAAGATAGATCCTGAACATTGCC
438 TATCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCC
17831698 AAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTG
503 AAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTG
* * * *
17831734 GGTTAGAGCTCTTCTCTCTTCAATTTTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCTA
1 GGTAAGAGCTCTTCTTTCTTCAA--TTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCA
* * *
17831799 GATTTGGAATTTGGGAGAATTTTGATGATTTGAAATATATTTTTTTAGTTTTTGAATAGGT-TTG
64 GATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTCAGTTTTTTAATAGGTCTT-
* *
17831863 TAAATCATATTTAAATCAGTCCCAAGTTTAAAACCCTTCTCTTGCAAACAATTTAATTTTTTGAC
128 TAAATCGTATTTAAATCAGTCCCAAGTTTAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGA-
* *
17831928 AAAAACCCCTTGTTTTAATGTATGTGTCATCCAAGGCTAGTAAACCTAGGTATAAGTATTATTTT
192 AAAAACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTT
* * * ** * *
17831993 GTCACAAATAATTA-TCCTTTAATCCTAGTCATTCCTCTCTTTCTCAAATTCCCTTTGATTTTAT
257 GTCACAAATAATCAGT-CTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAA
* *
17832057 TG-TTTTTTT-CTTTCCTCCATTGTTGTTGTCGCCCACACC-CCCCTTTTACCATGTATTTCTTC
321 TGTTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCATCTATTTCTTC
* * *
17832119 TTCTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGGTTCCATTTTTCATCATCTAA
386 TTCTTTTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAA
* * * *
17832184 ATTAGCACCAAATCTAAAATCTTGAATTTCAAGATCGATCCTGAACATTGCCAAGAAAGTTCCAT
451 ATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCAT
*
17832249 TATCGTTTCTCTCAACTAGCTTA
516 TATCGTTTCTCTCAACTAGCTTG
* * *
17832272 GGTCAGAGTTCTTCTTT-TTCAAATTTTTT-ATTAATCTTGCAAATTAAAAACCTAAATTTCCAG
1 GGTAAGAGCTCTTCTTTCTTC-AATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAG
*** * * *
17832335 ATTTGGAATTTGGGAGAATTGCAAAGATTTTAAATATA-GTTTTCAG-TTTTTAATGGGTCTTTA
65 ATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTCAGTTTTTTAATAGGTCTTTA
* *
17832398 AATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGAAAA
130 AATCGTATTTAAATCAGTCCCAAGTTTAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGAAAA
*
17832463 AACCCCATTGTATTAATGT
195 AACCCC-TTGTTTTAATGT
17832482 GCGCTTTCAA
Statistics
Matches: 1600, Mismatches: 203, Indels: 90
0.85 0.11 0.05
Matches are distributed among these distances:
532 9 0.01
533 81 0.05
534 8 0.00
535 233 0.15
536 6 0.00
537 30 0.02
538 172 0.11
539 214 0.13
540 108 0.07
541 3 0.00
543 2 0.00
544 2 0.00
545 5 0.00
546 5 0.00
547 1 0.00
548 6 0.00
549 164 0.10
550 80 0.05
551 1 0.00
553 153 0.10
554 172 0.11
555 145 0.09
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (538 bp):
GGTAAGAGCTCTTCTTTCTTCAATTTTTTGATTAATCTTGCCAATTAAAAACCTAAATTTCCAGA
TTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTCAGTTTTTTAATAGGTCTTTAA
ATCGTATTTAAATCAGTCCCAAGTTTAAATCCCTTCTCTTGCAAACAATTTAATTTTTTGAAAAA
ACCCCTTGTTTTAATGTATGTGTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTGTCA
CAAATAATCAGTCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGTTT
TTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCATCTATTTCTTCTTCTT
TTTGTATCAAGATTGTGCACTATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAG
CACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTGCCATTATCG
TTTCTCTCAACTAGCTTG
Found at i:17832657 original size:228 final size:230
Alignment explanation
Indices: 17832260--17832698 Score: 708
Period size: 228 Copynumber: 1.9 Consensus size: 230
17832250 ATCGTTTCTC
* * *
17832260 TCAACTAGCTTAGGTCAGAGTTCTTCTTTTTCAAATTTTTTATTAATCTTGCAAATTAAAAACCT
1 TCAACTAACTTAGGTAAGAGCTCTTCTTTTTCAAATTTTTTATTAATCTTGCAAATTAAAAACCT
17832325 AAATTTCCAGATTTGGAATTTGGGAGAATTGCAAAGATTTTAAATATAGTTTTCAGTTTTTAATG
66 AAATTTCCAGATTTGGAATTTGGGAGAATTGCAAAGATTTTAAATATAGTTTTCAGTTTTTAATG
*
17832390 GGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCTTGCAAACAATTTAA-TT
131 GGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCCTGCAAACAATTTAATTT
17832454 TTTTGA-AAAAACCCCATTGTATTAATGTGCGCTT
196 TTTTGACAAAAACCCCATTGTATTAATGTGCGCTT
* *
17832488 TCAACTAACTTGGGTAAGAGCTCTTTTTTCTTC-AA-TTTTTATTAATCTTGGC-AATTAAAAAC
1 TCAACTAACTTAGGTAAGAGCTCTTCTTT-TTCAAATTTTTTATTAATCTT-GCAAATTAAAAAC
* ** *
17832550 CTAAATTTCCATATTTGGAATTTGGGAGAATTGTGAAGATTTTAAATATATTTTTTCAGTTTTTA
64 CTAAATTTCCAGATTTGGAATTTGGGAGAATTGCAAAGATTTTAAATATA-GTTTTCAGTTTTTA
* *
17832615 ATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCCTGCAAATAATTTAA
128 ATGGGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCCTGCAAACAATTTAA
17832680 TTTTTTTGACAAAAACCCC
193 TTTTTTTGACAAAAACCCC
17832699 TAGTTTTAAT
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
227 71 0.37
228 103 0.53
229 11 0.06
230 9 0.05
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (230 bp):
TCAACTAACTTAGGTAAGAGCTCTTCTTTTTCAAATTTTTTATTAATCTTGCAAATTAAAAACCT
AAATTTCCAGATTTGGAATTTGGGAGAATTGCAAAGATTTTAAATATAGTTTTCAGTTTTTAATG
GGTCTTTAAATCGTATTTAAATAAGTCCCAAGTTCAAATCCCTTCTCCTGCAAACAATTTAATTT
TTTTGACAAAAACCCCATTGTATTAATGTGCGCTT
Found at i:17833750 original size:537 final size:535
Alignment explanation
Indices: 17832488--17834635 Score: 2784
Period size: 537 Copynumber: 4.0 Consensus size: 535
17832478 ATGTGCGCTT
* * *
17832488 TCAACTAACTTGGGTAAGAGCTCTTTTTTCTTCAA--TTTTTATTAATCTTGGCAATTAAAAACC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAAA-C
* * *
17832551 TAAATTTCCATATTTGGAATTTGGGAGAATTGTGAAGATTTTAAATATATTTTTTCAG-TTTTTA
65 TAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTT-AGTTTTTTA
* *
17832615 ATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCCTGCAAATAATTTAA
129 ATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAA
* * *
17832680 TTTTTTTGACAAAAACCCC-TAGTTTTAATGTCTG-AGTCGCCCAAGCCTAGTAAACCTTGGTAT
194 -TTTTTTGACAAAAACCCCTTA-TTTTAATGTGTGTA-TCGTCCAAGCCTAGTAAACCTAGGTAT
* * *
17832743 AAGCATTATTTTTTCACAAATAATCAAACTTTAATCCTCATCTTCATTGCCCTAGTCATTCCTCT
256 AAGTATTATTTTTTCACAAATAAT----C----A-GC-C-T-TT-AAT--CCTAGTCATTCCTCT
*
17832808 CCTCCTCTCATTCTCTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACAC
306 CCTCCTCTCATTCTCTTTGATTTTAATGTTTTTTT-CTTTCCTCCATTGTTGTTGTCGCCCACAC
* * * * *
17832873 CTCCCATTTTACCATCTCTTTCTTCTGCTTTTTATATCAAGATTTTGCACCATCTCCTCTAATCT
370 CTCCCCTTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCT
* * * *
17832938 ATTGCTTCCATTTATCCTCATATGAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCAATC
435 ATTGCTTCCATTTATCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATC
*
17833003 CTGAACATTGCCAAGAAA-TTGCCATTATCGTTTCTT
500 CTGAACATTGCCAAGAAAGTT-CCATTATCGTTTCTC
* *
17833039 TGAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTTATTAATCATGCCAATTAAAAAC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAA-TTTTTTTATTAATCTTGCCAATTAAAAAC
* * *
17833104 TGAAATTACTAGATTTGGAATTT-GGAGGAATTTTGATGATTTGAAATAT-TTTTTTAAGTCTTT
65 T-AAATTTCCAGATTTGGAATTTGGGA-GAATTTTGATGATTTTAAATATATTTTTT-AGT-TTT
* *
17833167 TT-ATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGATAAAATCCCTTCTCTTGCAAATAATT
126 TTAATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATT
*
17833231 TAATTTTTTGACAAAAACCCCTTATTTTAATGTGTGCATCGTCCAAGCCTAGTAAACCTAGGTAT
191 TAATTTTTTGACAAAAACCCCTTATTTTAATGTGTGTATCGTCCAAGCCTAGTAAACCTAGGTAT
*
17833296 AAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTTTCATTCTC
256 AAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTC
* * *
17833361 TTTGATTTTAATGTCTTTTTTCTTTCCTCCATTGTTGTTATCCCCCACACCTCCCCTTTTAGCAT
321 TTTGATTTTAATGT-TTTTTTCTTTCCTCCATTGTTGTTGTCGCCCACACCTCCCCTTTTACCAT
* *
17833426 CTCTTTCTTCTTCTTTTTGTATCAAGATTGTGTACCATCTCCTTTAATCTATGGCTTCCATTT-T
385 CTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTAT
** * * * *
17833490 TTTTATCTAAATCAGCACCAACTCTAAAATCTTGAACTACAAGATCGATCCTTAACATTGCCAAG
450 CCTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAG
*
17833555 AAAGTTCCATTATTGTTTCTC
515 AAAGTTCCATTATCGTTTCTC
* * *
17833576 TCAACTAGCCTGAGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAACCC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAA-AC
*** * * * * *
17833641 TAAAATTT-TTTATTTGTAATTTGTGAGAATTTTTATGACTTTAAATATATTTTATATGTTTTTT
65 T-AAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTA-GTTTTTT
**
17833705 AATGGGTCTTTAAATTGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTA
128 AATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTA
* * * *
17833770 AATTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCATCCAAGCCTAGTAAACCTAGGTATAA
193 ATTTTTTGACAAAAACCCCTTATTTTAATGTGTGTATCGTCCAAGCCTAGTAAACCTAGGTATAA
* * ** * *
17833835 GTATTATTTTGTCACAAATAATCAGCCTTTAATCCTAATCATTCCTCAACTCTTCTCATTCTTTT
258 GTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTT
* * *
17833900 TGATTTTAATGTTTTTTTCTTTTCCTCTATTGTTGTTGTTGCCTACACC-CGCCCATTTTACCAT
323 TGATTTTAATGTTTTTTTC-TTTCCTCCATTGTTGTTGTCGCCCACACCTC-CCC-TTTTACCAT
*
17833964 CTCTTTCTTCTT-TGTTTTGTATCAAGATTGTG-AGCTATCTCCTTTAATCTATTGCTTCCATTT
385 CTCTTTCTTCTTCT-TTTTGTATCAAGATTGTGCA-CCATCTCCTTTAATCTATTGCTTCCATTT
* * * *
17834027 ATCTTCATC-AGAATCAGGATCAAATCTAAAATCTTGTACTCCAAGATCGATCCTGAACATTGCC
448 ATCCTCATCTA-AATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCC
*
17834091 AAGAAAGTGCCATTATCGTTTCTC
512 AAGAAAGTTCCATTATCGTTTCTC
17834115 TCAACTAGCTTGGGT-AGAGCTCTTCTTTCTTCAATTTTTTTATTAAT-TATGCCAATTAAAAAC
1 TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCT-TGCCAATTAAAAAC
**
17834178 TTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAAATTTTTA
65 -TAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAGTTTTTTA
* * ** *
17834243 TTGGGTCTTTAAATCAAATTTAAATCAGTCCCAAGTTCAAATCTTATTCTC-TACTAAATAATTT
129 ATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATC-CCTTCTCTTGC-AAATAATTT
* * * *
17834307 AATTTTTTGACAAAATCCCCTTGTATTAATGTGTGTGTCGTCCAAGCCTAGTAAACCTAGGTATA
192 AATTTTTTGACAAAAACCCCTTATTTTAATGTGTGTATCGTCCAAGCCTAGTAAACCTAGGTATA
* * ** *
17834372 AGTATTATTTTTTCACAACTAATCAGCCTTTAATCCTAGTCATTCCTCTCTTCCTCAAATTCTTT
257 AGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCT
* * * * * * *
17834437 TTTATTTTATTACTTTTTTTCTTTCCTTCATTGTTATTGTCGTCCACACCTCCCCTTTTACCATA
322 TTGATTTTAAT-GTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCCACACCTCCCCTTTTACCATC
* * * * * *
17834502 TCTTTCTTCTTATTTTTGTATAAAGATTGTGCACTATCTCCTTTAATCTACTGCTTCAATTTGTC
386 TCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATC
* * * * *
17834567 CTTATCTAAATCAGCACCAAATCTGACATCTTGAATTCCAAGATCGATCCTGAACATTGCCAGGA
451 CTCATCTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAGA
17834632 AAGT
516 AAGT
17834636 GCTTGTAAAA
Statistics
Matches: 1413, Mismatches: 151, Indels: 80
0.86 0.09 0.05
Matches are distributed among these distances:
536 70 0.05
537 518 0.37
538 461 0.33
539 103 0.07
540 2 0.00
541 2 0.00
542 1 0.00
543 1 0.00
544 1 0.00
545 1 0.00
549 1 0.00
551 32 0.02
553 90 0.06
554 125 0.09
555 5 0.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (535 bp):
TCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTATTAATCTTGCCAATTAAAAACT
AAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATATTTTTTAGTTTTTTAAT
GGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATT
TTTTGACAAAAACCCCTTATTTTAATGTGTGTATCGTCCAAGCCTAGTAAACCTAGGTATAAGTA
TTATTTTTTCACAAATAATCAGCCTTTAATCCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTGA
TTTTAATGTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCCACACCTCCCCTTTTACCATCTCTTT
CTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCAT
CTAAATCAGCACCAAATCTAAAATCTTGAACTCCAAGATCGATCCTGAACATTGCCAAGAAAGTT
CCATTATCGTTTCTC
Found at i:17849166 original size:18 final size:18
Alignment explanation
Indices: 17849145--17849181 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17849135 TGAATTTTCG
*
17849145 AATTCGAATAACTCAAAT
1 AATTCGAATAAATCAAAT
*
17849163 AATTTGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
17849181 A
1 A
17849182 TCAAACTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:17849259 original size:18 final size:19
Alignment explanation
Indices: 17849236--17849275 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17849226 TTCTTTTCAT
**
17849236 TTCCCC-CAAAAGTTTTAC
1 TTCCCCTCAAAAAATTTAC
17849254 TTCCCCTCAAAAAATTTAC
1 TTCCCCTCAAAAAATTTAC
17849273 TTC
1 TTC
17849276 TCTTCAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.35
Consensus pattern (19 bp):
TTCCCCTCAAAAAATTTAC
Found at i:17849430 original size:17 final size:17
Alignment explanation
Indices: 17849374--17849432 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
17849364 TTATGTCTAC
17849374 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* *
17849391 TAAATTTCACATT-TT-ATAC
1 T--ATTT-ATATTATTGA-AT
17849410 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
17849427 TATTTA
1 TATTTA
17849433 ATCATACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 2 0.06
19 8 0.25
20 4 0.12
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:17854282 original size:39 final size:39
Alignment explanation
Indices: 17854228--17854404 Score: 121
Period size: 39 Copynumber: 4.5 Consensus size: 39
17854218 CTCTGGGGTT
17854228 AACTGAGATTTTTCTTCAGTGCA-TTTTATCGGTGCCAGC
1 AACTGAGATTTTTCTTCAGTGCACTTTTAT-GGTGCCAGC
* * * *
17854267 AACTGAGATTTTTCTTCA--GCAAGTTCTATAGGCGTCAGC
1 AACTGAGATTTTTCTTCAGTGC-ACTTTTAT-GGTGCCAGC
* * * * *
17854306 GAGTGAGATTTTTCTTCTGTGTACTCTTT-TAGTGCCAGC
1 AACTGAGATTTTTCTTCAGTGCACT-TTTATGGTGCCAGC
* * * * *
17854345 AACTGGGATTTTTCTTCAATGTACTCTTT-TGGTGTCATC
1 AACTGAGATTTTTCTTCAGTGCACT-TTTATGGTGCCAGC
* * *
17854384 AGCTGAGGTTTCTCTTCAGTG
1 AACTGAGATTTTTCTTCAGTG
17854405 TACTGAACAG
Statistics
Matches: 107, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 98 0.92
40 3 0.03
41 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (39 bp):
AACTGAGATTTTTCTTCAGTGCACTTTTATGGTGCCAGC
Found at i:17870751 original size:12 final size:12
Alignment explanation
Indices: 17870734--17870767 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17870724 TTGCACTTGT
* *
17870734 AATTTTGTGAGA
1 AATTTTCTGAAA
17870746 AATTTTCTGAAA
1 AATTTTCTGAAA
17870758 AATTTTCTGA
1 AATTTTCTGA
17870768 TTCGAAGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (12 bp):
AATTTTCTGAAA
Found at i:17873989 original size:39 final size:39
Alignment explanation
Indices: 17873946--17874046 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
17873936 ATTCACTTTT
* * * *
17873946 AAGCATATATCAT-ATTACACATATAATCACCTAATATAC
1 AAGCATATATC-TCAATACACAAATAATCACATAACATAC
* *
17873985 AAGCATATATCTCAATACTCAAATAATCACATAACATTC
1 AAGCATATATCTCAATACACAAATAATCACATAACATAC
* *
17874024 AAGCATATATCCCAATACTCAAA
1 AAGCATATATCTCAATACACAAA
17874047 AACACCTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.02
39 53 0.98
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (39 bp):
AAGCATATATCTCAATACACAAATAATCACATAACATAC
Found at i:17874113 original size:27 final size:27
Alignment explanation
Indices: 17874078--17874135 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
17874068 CATAATGGTT
17874078 ACATGTCATGTAAACACATCACAATAC
1 ACATGTCATGTAAACACATCACAATAC
17874105 ACATGTCATGTAAACACATCACAATAC
1 ACATGTCATGTAAACACATCACAATAC
17874132 ACAT
1 ACAT
17874136 ATAATCTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.45, C:0.26, G:0.07, T:0.22
Consensus pattern (27 bp):
ACATGTCATGTAAACACATCACAATAC
Found at i:17879441 original size:19 final size:19
Alignment explanation
Indices: 17879413--17879457 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17879403 TGTTAATTTC
*
17879413 ATGAATTATATAATGTA-TG
1 ATGAAATATAT-ATGTATTG
*
17879432 ATGAAATATATATTTATTG
1 ATGAAATATATATGTATTG
17879451 ATGAAAT
1 ATGAAAT
17879458 GAGAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
ATGAAATATATATGTATTG
Found at i:17879605 original size:46 final size:46
Alignment explanation
Indices: 17879538--17879739 Score: 356
Period size: 46 Copynumber: 4.5 Consensus size: 46
17879528 TGATCAGTGA
17879538 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
17879584 CAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
17879630 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
17879676 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
17879721 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
17879740 ATCATACGTA
Statistics
Matches: 152, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 19 0.12
46 116 0.76
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:17882468 original size:2 final size:2
Alignment explanation
Indices: 17882461--17882490 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17882451 CCGCTAGCTT
17882461 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
17882491 CCTTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17891783 original size:16 final size:18
Alignment explanation
Indices: 17891757--17891789 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17891747 TAGAATTTGG
17891757 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
17891774 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
17891790 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:17896354 original size:26 final size:26
Alignment explanation
Indices: 17896322--17896409 Score: 122
Period size: 26 Copynumber: 3.4 Consensus size: 26
17896312 TTTTACTCTA
*
17896322 GTAAAATTTTGATGATTTTACCCCTG
1 GTAAAATTTTAATGATTTTACCCCTG
*
17896348 GTAAAATTTTAATGATTTTACCCTTG
1 GTAAAATTTTAATGATTTTACCCCTG
* * *
17896374 TTAAAATTTTAACGATTTTACCCCTA
1 GTAAAATTTTAATGATTTTACCCCTG
*
17896400 ATAAAATTTT
1 GTAAAATTTT
17896410 GAGAAATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (26 bp):
GTAAAATTTTAATGATTTTACCCCTG
Found at i:17910306 original size:45 final size:43
Alignment explanation
Indices: 17910231--17910382 Score: 125
Period size: 42 Copynumber: 3.5 Consensus size: 43
17910221 ATATATGTTA
* * *
17910231 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTGGGAC-ATGGCATCGATATTGAGATT
* *
17910274 TATGTATAAAGACCATGTCTGGGACATCGGCATC-ATATT-TGATT
1 T-CGTAT-AAGACCATGTCTGGGACAT-GGCATCGATATTGAGATT
* *
17910318 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT--GATT
1 TCGTATAAGACCATGTCTGGGACA-TGGCATCGATATTGAGATT
* * * *
17910360 ACATGTAAGACCACGTCTGGGAC
1 TCGTATAAGACCATGTCTGGGAC
17910383 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
42 46 0.51
43 10 0.11
44 11 0.12
45 24 0.26
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TCGTATAAGACCATGTCTGGGACATGGCATCGATATTGAGATT
Found at i:17910339 original size:42 final size:42
Alignment explanation
Indices: 17910282--17910390 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
17910272 TTTATGTATA
* * *
17910282 AAGACCATGTCTGGGACA-TCGGCATC-ATATTTGATTTCGTGT
1 AAGACCCTGTCTGGGACAGT-GGCATCGATA-TTGATTACATGT
17910324 AAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATGT
17910366 AAGACCAC-GTCTGGGAC-GTTGGCAT
1 AAGACC-CTGTCTGGGACAG-TGGCAT
17910391 TGTACAATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
41 1 0.02
42 54 0.90
43 5 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATGT
Found at i:17917722 original size:42 final size:41
Alignment explanation
Indices: 17917568--17917723 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
17917558 TATGTTATCG
*
17917568 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
17917610 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
17917654 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
17917696 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
17917724 TGTCATTTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:17927855 original size:23 final size:22
Alignment explanation
Indices: 17927812--17927855 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17927802 TTCTAAGTCG
17927812 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
17927835 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
17927856 TTTGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:17927951 original size:45 final size:45
Alignment explanation
Indices: 17927902--17927988 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
17927892 CAGATACTCG
* *
17927902 GTGGAGTCAACACATAGCAACCACCTTATTAATCAATAATGTCGA
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATAATGTCGA
* *
17927947 GTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATAATGT
17927989 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATAATGTCGA
Found at i:17928057 original size:51 final size:50
Alignment explanation
Indices: 17927988--17928184 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 50
17927978 ATCAATGATG
* * *
17927988 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTTACCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCA
* * * * * * *
17928039 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCA
* * * *
17928090 TCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA
*
17928139 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA
17928185 CCACTTTCAC
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 40 0.34
51 73 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA
Found at i:17928180 original size:101 final size:101
Alignment explanation
Indices: 17927997--17928181 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
17927987 GTTCGGTTCA
* *
17927997 CATAGTAGCCTGCACATAGTACTACACATGTTACCATTACCATTCGATACACGTAGTAGCCTTCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATTCGATACACGTAGTAGCCTGCA
*
17928062 CATAGTACTACATACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* *
17928099 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATT-CGATACACGTAGTAGCCTGCA
17928163 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
17928182 CCACCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 37 0.48
102 34 0.44
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:17934083 original size:32 final size:32
Alignment explanation
Indices: 17934043--17934108 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
17934033 TTACCTTGGC
17934043 ATTTATTTCATACTTAATTATATCAACTAACT
1 ATTTATTTCATACTTAATTATATCAACTAACT
17934075 ATTTATTTCATACTTAATTATATCAACTAACT
1 ATTTATTTCATACTTAATTATATCAACTAACT
17934107 AT
1 AT
17934109 CCAACAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTTATTTCATACTTAATTATATCAACTAACT
Found at i:17936471 original size:39 final size:39
Alignment explanation
Indices: 17936407--17936596 Score: 265
Period size: 39 Copynumber: 4.9 Consensus size: 39
17936397 CAGCCTGTTA
* * * *
17936407 GGCACAAAGCCTGCTAAGCATTTAGCCAGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
*
17936446 GGCACAAAGCCTGTTAGGCACTTAGCCTGAATAATCACT
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
* * *
17936485 AGCACAATA-CCTGCTAGGCACTTAGCCTGAACATTCACT
1 GGCACAA-AGCCTGCTAGGCACTTAGCCTGAATAATCACT
17936524 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
** *
17936563 GATACAAAGCCTGCTAGGCACTTAGCCCGAATAA
1 GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAA
17936597 GCACCGTATT
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 132 0.99
40 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (39 bp):
GGCACAAAGCCTGCTAGGCACTTAGCCTGAATAATCACT
Found at i:17941671 original size:25 final size:25
Alignment explanation
Indices: 17941623--17941671 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17941613 CTAAGTTAAT
* *
17941623 TAGATTTTAAGTGGGAAAGTAAAAA
1 TAGAGTTTAAGTAGGAAAGTAAAAA
17941648 TAGAGTTTAAGTAGGAGAAG-AAAA
1 TAGAGTTTAAGTAGGA-AAGTAAAA
17941672 TCCAAAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (25 bp):
TAGAGTTTAAGTAGGAAAGTAAAAA
Found at i:17942206 original size:26 final size:27
Alignment explanation
Indices: 17942177--17942249 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
17942167 CGATTACAAG
17942177 TGGAATATAAGATTACCT-TGTTTGGT
1 TGGAATATAAGATTACCTGTGTTTGGT
* * *
17942203 TGGAATGTAAAATT-CATGTGTTTGGT
1 TGGAATATAAGATTACCTGTGTTTGGT
*
17942229 TGACAAAATATAAGATTACCT
1 TG---GAATATAAGATTACCT
17942250 AAAAGTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.06
26 22 0.63
29 9 0.26
30 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
TGGAATATAAGATTACCTGTGTTTGGT
Found at i:17946885 original size:28 final size:29
Alignment explanation
Indices: 17946853--17946911 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
17946843 TACAGTCAGT
17946853 TGTTCTTACTCTC-AAAGAGACATTAACA
1 TGTTCTTACTCTCGAAAGAGACATTAACA
*
17946881 TGTTCTTACTCTCGAAAGAGATATTAACA
1 TGTTCTTACTCTCGAAAGAGACATTAACA
17946910 TG
1 TG
17946912 ATTTAGGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (29 bp):
TGTTCTTACTCTCGAAAGAGACATTAACA
Found at i:17956336 original size:25 final size:25
Alignment explanation
Indices: 17956292--17956427 Score: 98
Period size: 25 Copynumber: 5.4 Consensus size: 25
17956282 GGCAATCACA
* * *
17956292 AGCTTCTCATTATTTAGCTCTCATG
1 AGCTTCCCATTATATGGCTCTCATG
*
17956317 AGCTTCCCGATTA-ATGGCTCTCTTG
1 AGCTTCCC-ATTATATGGCTCTCATG
* * * * *
17956342 AGCTTCTCAATATTTGGCTCGCAAG
1 AGCTTCCCATTATATGGCTCTCATG
* *
17956367 AGCTTCCCGTTAT-TCAGCTCAT-ATG
1 AGCTTCCCATTATAT-GGCTC-TCATG
** *
17956392 AGCTTCCCATTATATGGCTCGGAAG
1 AGCTTCCCATTATATGGCTCTCATG
17956417 AGCTTCCCATT
1 AGCTTCCCATT
17956428 TACATGAATT
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.05
25 76 0.89
26 5 0.06
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (25 bp):
AGCTTCCCATTATATGGCTCTCATG
Found at i:17956394 original size:50 final size:50
Alignment explanation
Indices: 17956292--17956424 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 50
17956282 GGCAATCACA
* * * * *
17956292 AGCTTCTCATTATTTAGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTG
1 AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCCGATTAATAGCTCTCATG
* *
17956342 AGCTTCTCAATATTTGGCTCGCAAGAGCTTCCCG-TTATTCAGCTCAT-ATG
1 AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCCGATTAAT-AGCTC-TCATG
* * *
17956392 AGCTTCCCATTATATGGCTCGGAAGAGCTTCCC
1 AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCC
17956425 ATTTACATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.06
50 65 0.93
51 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (50 bp):
AGCTTCTCATTATTTGGCTCGCAAGAGCTTCCCGATTAATAGCTCTCATG
Found at i:17963419 original size:25 final size:25
Alignment explanation
Indices: 17963391--17963457 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
17963381 CCAATATTTG
17963391 GCTCGCAAGAGCTTCCCGTTATACA
1 GCTCGCAAGAGCTTCCCGTTATACA
* * * **
17963416 GCTCACATGAGCTTCTCGTTATATG
1 GCTCGCAAGAGCTTCCCGTTATACA
*
17963441 GCTCGGAAGAGCTTCCC
1 GCTCGCAAGAGCTTCCC
17963458 ATTTATATGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (25 bp):
GCTCGCAAGAGCTTCCCGTTATACA
Found at i:17963425 original size:75 final size:75
Alignment explanation
Indices: 17963298--17963444 Score: 190
Period size: 75 Copynumber: 2.0 Consensus size: 75
17963288 AAAATTCTTG
* * ** *
17963298 TGAGCGTCCCAATACTTGGCTCTCACAAGCTTCCTGATATTTAGCTCCCATGAGCTTCTCGATTA
1 TGAGCGTCCCAATACTTGGCTCGCACAAGCTTCCCGATATACAGCTCACATGAGCTTCTCG-TTA
17963363 -ATGGCTCTCT
65 TATGGCTCTCT
* * *
17963373 TGAGCTTCCCAATATTTGGCTCGCA-AGAGCTTCCCGTTATACAGCTCACATGAGCTTCTCGTTA
1 TGAGCGTCCCAATACTTGGCTCGCACA-AGCTTCCCGATATACAGCTCACATGAGCTTCTCGTTA
17963437 TATGGCTC
65 TATGGCTC
17963445 GGAAGAGCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 4 0.06
75 58 0.94
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (75 bp):
TGAGCGTCCCAATACTTGGCTCGCACAAGCTTCCCGATATACAGCTCACATGAGCTTCTCGTTAT
ATGGCTCTCT
Found at i:17967863 original size:25 final size:25
Alignment explanation
Indices: 17967835--17967891 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
17967825 ACATTAAAGT
*
17967835 AATTTAACGGAAATATGTTAATTCA
1 AATTTAAAGGAAATATGTTAATTCA
*
17967860 AATTTAAAGGAGATATGTTAATTCA
1 AATTTAAAGGAAATATGTTAATTCA
17967885 AATTTAA
1 AATTTAA
17967892 GCAAAATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (25 bp):
AATTTAAAGGAAATATGTTAATTCA
Found at i:17968246 original size:22 final size:22
Alignment explanation
Indices: 17968221--17968271 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
17968211 GGTAAGACAA
17968221 AGAACAGATT-AGATACAGATGC
1 AGAACA-ATTCAGATACAGATGC
*
17968243 AGAACAATTCATATACAGATGC
1 AGAACAATTCAGATACAGATGC
*
17968265 AAAACAA
1 AGAACAA
17968272 ATCAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (22 bp):
AGAACAATTCAGATACAGATGC
Found at i:17973323 original size:311 final size:312
Alignment explanation
Indices: 17972755--17973363 Score: 983
Period size: 311 Copynumber: 2.0 Consensus size: 312
17972745 AAAGTAGCTG
* *
17972755 AGTTATATGTATTAGAGATTGTCAGATTAAACAGAGTATTATTGTCTATTATTTTCGAACAAGAT
1 AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTCGAACAAGAT
*
17972820 CTGGGATTCACCTCGAGATTTTGGGGAAACTCTATGAGGCTTTAGGGTAGATTTGATTAGTGAAA
66 CTGGGATTCACCTCGAGATTCTGGGGAAACTCTATGAGGCTTTAGGGTAGATTTGATTAGTGAAA
** * * * *
17972885 CTGAGGATAAATTTTGCATTATTCGAGATTAACATTTGATCATTATCTTTTATATTCCGTATTAC
131 CTGAGGATAAATTTTAAATTATTCGAGATTAACAGTAGATCATTATCTTTCATATTACGTATTAC
* *
17972950 ATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACCAGATTGTCTTCTCAAGTAAAT
196 ATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACCAGATTGTCTTCACAAGTAAAA
* *
17973015 ATTTCGTGGATGAAATTTCCTAAG-GGGGAGAGTTGTAGCAACCTATTTTCC
261 ATTTCGAGGACGAAATTTCCTAAGAGGGGAGAGTTGTAGCAACCTATTTTCC
* *
17973066 AGTTATATGTATTAGAGACTGTTAGATTAAACAGAGTATCATTGTCTATTATTTTCGAATAAGAT
1 AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTCGAACAAGAT
17973131 CTGGGATTCACCTCGAGA-TCTGAGGGAAACTCTATGAGGCTTT-GGGATAGATTTGATTAGTGA
66 CTGGGATTCACCTCGAGATTCTG-GGGAAACTCTATGAGGCTTTAGGG-TAGATTTGATTAGTGA
* **
17973194 AACTGAGGGTAAATTTTAAATTATTCGAGATTGTCAGTAGATCATTATCTTTCATATTACGTATT
129 AACTGAGGATAAATTTTAAATTATTCGAGATTAACAGTAGATCATTATCTTTCATATTACGTATT
*
17973259 AGATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACTCA-ATTGTCTTCACAAGTA
194 ACATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATAC-CAGATTGTCTTCACAAGTA
*
17973323 AAAATTTCGAGGACGAAATTTCCTAAGAGTGGAGAGTTGTA
258 AAAATTTCGAGGACGAAATTTCCTAAGAGGGGAGAGTTGTA
17973364 ACAATCTGTT
Statistics
Matches: 274, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
310 6 0.02
311 254 0.93
312 14 0.05
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (312 bp):
AGTTATATGTATTAGAGACTGTCAGATTAAACAGAGTATCATTGTCTATTATTTTCGAACAAGAT
CTGGGATTCACCTCGAGATTCTGGGGAAACTCTATGAGGCTTTAGGGTAGATTTGATTAGTGAAA
CTGAGGATAAATTTTAAATTATTCGAGATTAACAGTAGATCATTATCTTTCATATTACGTATTAC
ATAAGCTACATGGGGAACTGAGGAATTGAAGAAGTCACAATACCAGATTGTCTTCACAAGTAAAA
ATTTCGAGGACGAAATTTCCTAAGAGGGGAGAGTTGTAGCAACCTATTTTCC
Found at i:17982415 original size:18 final size:19
Alignment explanation
Indices: 17982371--17982416 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
17982361 TCACAATCGC
*
17982371 CATATTTCAAGTCATGCAAA
1 CATA-TTCAATTCATGCAAA
17982391 -A-ATTCAATTCATG-AAA
1 CATATTCAATTCATGCAAA
17982407 CATATTCAAT
1 CATATTCAAT
17982417 AAGCACACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 8 0.35
19 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (19 bp):
CATATTCAATTCATGCAAA
Found at i:17987765 original size:10 final size:9
Alignment explanation
Indices: 17987737--17987763 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
17987727 TATTTTAGTT
17987737 TTTTAAAAA
1 TTTTAAAAA
17987746 TTTTAAAAA
1 TTTTAAAAA
17987755 TTTTAAAAA
1 TTTTAAAAA
17987764 ATAAACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:17987829 original size:28 final size:27
Alignment explanation
Indices: 17987779--17987843 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
17987769 CCAATTATAA
* *
17987779 AAATTATTTAAAATTACTGAAATTATT
1 AAATTATTTAAAAGTACTAAAATTATT
17987806 AAACTTATTTAAAAAGTAC-AAAATTA-T
1 AAA-TTATTT-AAAAGTACTAAAATTATT
17987833 AAATT-TTTAAA
1 AAATTATTTAAA
17987844 TATTTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 2 0.06
27 7 0.21
28 12 0.35
29 7 0.21
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (27 bp):
AAATTATTTAAAAGTACTAAAATTATT
Found at i:17987871 original size:19 final size:18
Alignment explanation
Indices: 17987825--17987873 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
17987815 TAAAAAGTAC
*
17987825 AAAATTA-TAAATTTTTA
1 AAAATTATTAATTTTTTA
* *
17987842 AATATTTTTAATTTTTTA
1 AAAATTATTAATTTTTTA
17987860 AAAATTAATTAATT
1 AAAATT-ATTAATT
17987874 GCTAACGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTATTAATTTTTTA
Found at i:17989349 original size:42 final size:42
Alignment explanation
Indices: 17989248--17989410 Score: 245
Period size: 42 Copynumber: 3.8 Consensus size: 42
17989238 GTTTACGAAC
*
17989248 AAAACCGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG--AA
* *
17989292 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCACTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
17989334 AAAAGCGCCGCTAAAGACCATGTACTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
17989376 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
17989411 TTTATTCTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 71 0.66
44 37 0.34
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:17989429 original size:42 final size:42
Alignment explanation
Indices: 17989253--17989494 Score: 128
Period size: 42 Copynumber: 5.7 Consensus size: 42
17989243 CGAACAAAAC
* * * ** **
17989253 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAAA
1 CGCCGCTAAAGAACATGTACTTTAGCGGCG-TT-TATTATTAAA
* * * ** * **
17989297 CGCCTCTAAAGACCATGTTCTTTAGCGGCACTTA-GAAAAAA
1 CGCCGCTAAAGAACATGTACTTTAGCGGCGTTTATTATTAAA
* * ** **
17989338 GCGCCGCTAAAGACCATGTACTTTAGCGGCGCTTAGAAAAAAA
1 -CGCCGCTAAAGAACATGTACTTTAGCGGCGTTTATTATTAAA
* * * * *
17989381 CACCGCTAAAGATCATGTTCTTTAGCGGCGTTTATTCTTAAG
1 CGCCGCTAAAGAACATGTACTTTAGCGGCGTTTATTATTAAA
* *** * *
17989423 CGCCGCTAAAGAACATGAAAAATAGTGGCGTTT-TTTTTAAAA
1 CGCCGCTAAAGAACATGTACTTTAGCGGCGTTTATTATT-AAA
* *
17989465 CCCCGCTAAAGAACATGTTCTTTAGCGGCG
1 CGCCGCTAAAGAACATGTACTTTAGCGGCG
17989495 CTTTTATACA
Statistics
Matches: 159, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
41 10 0.06
42 114 0.72
43 7 0.04
44 28 0.18
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTACTTTAGCGGCGTTTATTATTAAA
Found at i:17989434 original size:84 final size:85
Alignment explanation
Indices: 17989248--17989409 Score: 263
Period size: 86 Copynumber: 1.9 Consensus size: 85
17989238 GTTTACGAAC
* * * *
17989248 AAAACCGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAAACGCCTCTAAAGACCAT
1 AAAAGCGCCGCTAAAGACCATGTACTTTAGCGGCGCTTAG-AAAAAAAACACCGCTAAAGACCAT
17989313 GTTCTTTAGCGGCACTTAGAA
65 GTTCTTTAGCGGCACTTAGAA
*
17989334 AAAAGCGCCGCTAAAGACCATGTACTTTAGCGGCGCTTAG-AAAAAAACACCGCTAAAGATCATG
1 AAAAGCGCCGCTAAAGACCATGTACTTTAGCGGCGCTTAGAAAAAAAACACCGCTAAAGACCATG
17989398 TTCTTTAGCGGC
66 TTCTTTAGCGGC
17989410 GTTTATTCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
84 33 0.46
86 38 0.54
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (85 bp):
AAAAGCGCCGCTAAAGACCATGTACTTTAGCGGCGCTTAGAAAAAAAACACCGCTAAAGACCATG
TTCTTTAGCGGCACTTAGAA
Found at i:17989842 original size:21 final size:21
Alignment explanation
Indices: 17989817--17989866 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
17989807 TTTTGGCTTG
*
17989817 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
17989838 TTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
17989859 CTCTGCTT
1 CTCTGCTT
17989867 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:17995387 original size:7 final size:7
Alignment explanation
Indices: 17995377--17995413 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17995367 TGATATATTT
17995377 TTATGTA
1 TTATGTA
17995384 TTATGTAA
1 TTATGT-A
17995392 GTTATGTA
1 -TTATGTA
17995400 TTATGTA
1 TTATGTA
17995407 TTATGTA
1 TTATGTA
17995414 AGTACTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:17995398 original size:9 final size:9
Alignment explanation
Indices: 17995384--17996087 Score: 614
Period size: 9 Copynumber: 79.2 Consensus size: 9
17995374 TTTTTATGTA
17995384 TTATGTAAG
1 TTATGTAAG
17995393 TTATGT-A-
1 TTATGTAAG
17995400 TTATGT-A-
1 TTATGTAAG
17995407 TTATGTAAG
1 TTATGTAAG
17995416 -TACTGTAAG
1 TTA-TGTAAG
*
17995425 TAATGTAAG
1 TTATGTAAG
*
17995434 TAATGTAAG
1 TTATGTAAG
17995443 TTATGTAAG
1 TTATGTAAG
* * *
17995452 -AAAGTTA-
1 TTATGTAAG
17995459 TTATGTAAG
1 TTATGTAAG
*
17995468 TTGTGTATA-
1 TTATGTA-AG
*
17995477 ATAT-TAA-
1 TTATGTAAG
*
17995484 TTATGTGAG
1 TTATGTAAG
**
17995493 TCGTGT-A-
1 TTATGTAAG
*
17995500 TAATGTAAG
1 TTATGTAAG
*
17995509 TTAAG-AAGG
1 TTATGTAA-G
17995518 TTATGT-A-
1 TTATGTAAG
*
17995525 TAATGTAAG
1 TTATGTAAG
17995534 TTATGTAAG
1 TTATGTAAG
* * *
17995543 TAATTTAAT
1 TTATGTAAG
17995552 TTATGTAAG
1 TTATGTAAG
*
17995561 TTATGTATG
1 TTATGTAAG
* *
17995570 TTATTTAAT
1 TTATGTAAG
*
17995579 TTATGCAAG
1 TTATGTAAG
17995588 TTATGTAAG
1 TTATGTAAG
* *
17995597 TTATTTAAT
1 TTATGTAAG
* *
17995606 TTGTGTAGG
1 TTATGTAAG
*
17995615 TTATGTGAG
1 TTATGTAAG
17995624 TTATGTAAG
1 TTATGTAAG
* *
17995633 TTATTTAAT
1 TTATGTAAG
17995642 TTATGTAAG
1 TTATGTAAG
17995651 TTATGTAAG
1 TTATGTAAG
* *
17995660 TTATTTAAT
1 TTATGTAAG
*
17995669 TTATGTAGG
1 TTATGTAAG
17995678 TTATGTAAG
1 TTATGTAAG
17995687 TTATGTAAG
1 TTATGTAAG
* *
17995696 TTATTTAAT
1 TTATGTAAG
* *
17995705 TTGTGTAGG
1 TTATGTAAG
17995714 TTATGTAAG
1 TTATGTAAG
17995723 TTATGTAAG
1 TTATGTAAG
*
17995732 TTATTTAAG
1 TTATGTAAG
* *
17995741 TTATTTAAT
1 TTATGTAAG
17995750 TTATGTAAG
1 TTATGTAAG
*
17995759 TTACGTAAG
1 TTATGTAAG
* *
17995768 TTATTTAAT
1 TTATGTAAG
*
17995777 TTATGTAGG
1 TTATGTAAG
17995786 TTATGTAAG
1 TTATGTAAG
* *
17995795 TTATTTAAT
1 TTATGTAAG
*
17995804 TTATGTAGG
1 TTATGTAAG
17995813 TTATGTAAG
1 TTATGTAAG
* * * *
17995822 TCCACGGAAT
1 T-TATGTAAG
17995832 TTATGTAAG
1 TTATGTAAG
17995841 TTATGTAAG
1 TTATGTAAG
* *
17995850 TTATTTAAT
1 TTATGTAAG
*
17995859 TTATGTTAG
1 TTATGTAAG
17995868 TTATGTAAG
1 TTATGTAAG
* *
17995877 TTATTTAAT
1 TTATGTAAG
*
17995886 TTATGTAGG
1 TTATGTAAG
17995895 TTATGTAAG
1 TTATGTAAG
17995904 TTATGTAAG
1 TTATGTAAG
* *
17995913 TTATTTAAT
1 TTATGTAAG
*
17995922 TTATGCAAG
1 TTATGTAAG
17995931 TTTATGTAAG
1 -TTATGTAAG
17995941 TTATGTAAG
1 TTATGTAAG
*
17995950 TTACT-TAAT
1 TTA-TGTAAG
17995959 TTATGTAAG
1 TTATGTAAG
17995968 TTATGTAAG
1 TTATGTAAG
* *
17995977 TTATTTAAT
1 TTATGTAAG
17995986 TTATGTAAG
1 TTATGTAAG
17995995 TTATGTAAG
1 TTATGTAAG
* *
17996004 TTATTTAAT
1 TTATGTAAG
*
17996013 TTATGCAAG
1 TTATGTAAG
17996022 TTTATGTAAG
1 -TTATGTAAG
17996032 TTATGTAAG
1 TTATGTAAG
*
17996041 TTACT-TAAT
1 TTA-TGTAAG
17996050 TTATGTAAG
1 TTATGTAAG
17996059 TTATGTAAG
1 TTATGTAAG
* *
17996068 TTATTTAAT
1 TTATGTAAG
*
17996077 TTATGTCAG
1 TTATGTAAG
17996086 TT
1 TT
17996088 TCTATATATG
Statistics
Matches: 546, Mismatches: 127, Indels: 44
0.76 0.18 0.06
Matches are distributed among these distances:
7 26 0.05
8 23 0.04
9 472 0.86
10 25 0.05
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17996212 original size:8 final size:7
Alignment explanation
Indices: 17996194--17996231 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
17996184 ATAATATAAG
17996194 TTATGTA
1 TTATGTA
17996201 TTATGTTA
1 TTATG-TA
17996209 TTATGTA
1 TTATGTA
17996216 TTATGTA
1 TTATGTA
17996223 --ATGTA
1 TTATGTA
17996228 TTAT
1 TTAT
17996232 CAGATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TTATGTA
Found at i:17996212 original size:27 final size:26
Alignment explanation
Indices: 17996179--17996251 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
17996169 AAGTTATGCA
*
17996179 AGATTATAATATAAGTTATGTATTATG
1 AGATTAT-ATATAAGTTATGTATTATC
** * * *
17996206 TTATTATGTATTATGTAATGTATTATC
1 AGATTATATA-TAAGTTATGTATTATC
17996233 AGATTATATATAAGTTATG
1 AGATTATATATAAGTTATG
17996252 AAAGTTATTA
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (26 bp):
AGATTATATATAAGTTATGTATTATC
Found at i:17996244 original size:53 final size:52
Alignment explanation
Indices: 17996179--17996349 Score: 175
Period size: 53 Copynumber: 3.4 Consensus size: 52
17996169 AAGTTATGCA
17996179 AGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATGTATTATC
1 AGATTAT-ATATAAGTTATGTATTATGTTATTATGTATTATGTAAT-TATTATC
*
17996233 AGATTATATATAAGTTATG-A--AAGTTATTATGTA--A-G---TTA-TA-C
1 AGATTATATATAAGTTATGTATTATGTTATTATGTATTATGTAATTATTATC
* *
17996274 AAGCTTATATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG
1 -AGATTATATATAAGTTATGTATTATGTTATTATGTATTATGTAA-TTATTATC
** *
17996328 TTATTATATATACGTTATGTAT
1 AGATTATATATAAGTTATGTAT
17996350 GCTGTAAAAT
Statistics
Matches: 96, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 20 0.21
43 3 0.03
44 1 0.01
45 12 0.12
47 2 0.02
48 2 0.02
50 12 0.12
52 4 0.04
53 32 0.33
54 7 0.07
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (52 bp):
AGATTATATATAAGTTATGTATTATGTTATTATGTATTATGTAATTATTATC
Found at i:17996268 original size:21 final size:22
Alignment explanation
Indices: 17996243--17996328 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 22
17996233 AGATTATATA
17996243 TAAGTTATGA-AAGTTATTATG
1 TAAGTTATGATAAGTTATTATG
* *
17996264 TAAGTTAT-ACAAGCTTA-TATA
1 TAAGTTATGATAAG-TTATTATG
*
17996285 TAAGTTATGTATTATGTTATTATG
1 TAAGTTATG-A-TAAGTTATTATG
*
17996309 T-A-TTATG-TAATTTATTATG
1 TAAGTTATGATAAGTTATTATG
17996328 T
1 T
17996329 TATTATATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
19 11 0.21
20 1 0.02
21 22 0.42
22 8 0.15
23 5 0.09
24 6 0.11
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TAAGTTATGATAAGTTATTATG
Found at i:17996307 original size:8 final size:7
Alignment explanation
Indices: 17996289--17996334 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
17996279 TATATATAAG
17996289 TTATGTA
1 TTATGTA
17996296 TTATGTTA
1 TTATG-TA
17996304 TTATGTA
1 TTATGTA
17996311 TTATGTA
1 TTATGTA
*
17996318 --ATTTA
1 TTATGTA
17996323 TTATGTTA
1 TTATG-TA
17996331 TTAT
1 TTAT
17996335 ATATACGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:17996309 original size:15 final size:15
Alignment explanation
Indices: 17996289--17996334 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
17996279 TATATATAAG
17996289 TTATGTATTATGTTA
1 TTATGTATTATGTTA
17996304 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
17996318 --ATTTATTATGTTA
1 TTATGTATTATGTTA
17996331 TTAT
1 TTAT
17996335 ATATACGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:17996334 original size:95 final size:96
Alignment explanation
Indices: 17996147--17996346 Score: 312
Period size: 95 Copynumber: 2.1 Consensus size: 96
17996137 AGTGGTGTAT
* * *
17996147 TAAGCTATGGAAGTTATTATGTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTA
1 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGTTATTA
17996212 TGTATTATGTAATGTATTATCAGATTATATA
66 TGTATTATGTAATGTATTATCAGATTATATA
*
17996243 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGCTTAT-ATATAAGTTATGTATTATGTTATTA
1 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGTTATTA
* ***
17996307 TGTATTATGTAATTTATTATGTTATTATATA
66 TGTATTATGTAATGTATTATCAGATTATATA
*
17996338 TACGTTATG
1 TAAGTTATG
17996347 TATGCTGTAA
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 60 0.63
96 35 0.37
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.47
Consensus pattern (96 bp):
TAAGTTATGAAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGTTATTA
TGTATTATGTAATGTATTATCAGATTATATA
Found at i:17996476 original size:19 final size:20
Alignment explanation
Indices: 17996440--17996481 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
17996430 TTATATAAAT
*
17996440 AAAATATTTAAATTTTTA-A
1 AAAATATATAAATTTTTACA
17996459 AAAATATAT-AATTATTTACA
1 AAAATATATAAATT-TTTACA
17996479 AAA
1 AAA
17996482 CGTGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATATATAAATTTTTACA
Found at i:17996559 original size:61 final size:61
Alignment explanation
Indices: 17996468--17996615 Score: 176
Period size: 61 Copynumber: 2.4 Consensus size: 61
17996458 AAAAATATAT
* * * *
17996468 AATTATTTACAAAACGTGTAAAATTGATACTTA-TAAA-TTTTATTAATAATAAATCTAGAAC
1 AATTATTTACAAAACTTATAAATTTAATAC-TACTAAATTTTTA-TAATAATAAATCTAGAAC
* * * *
17996529 ACATT-TTTAGAAAACTTATAAATTTAATACTACTAAATTTTTATACTAATAAATTTAGAAT
1 A-ATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
17996590 AATTATTTACAAAACTTATAAATTTA
1 AATTATTTACAAAACTTATAAATTTA
17996616 GAAAACTTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
60 5 0.07
61 61 0.82
62 8 0.11
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (61 bp):
AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
Found at i:17996567 original size:15 final size:15
Alignment explanation
Indices: 17996546--17996585 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
17996536 TAGAAAACTT
17996546 ATAAATTTAATACTA
1 ATAAATTTAATACTA
* *
17996561 CTAAATTTTTATACTA
1 ATAAA-TTTAATACTA
17996577 ATAAATTTA
1 ATAAATTTA
17996586 GAATAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:17996620 original size:17 final size:17
Alignment explanation
Indices: 17996594--17996626 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17996584 TAGAATAATT
17996594 ATTTACAAAACTTATAA
1 ATTTACAAAACTTATAA
*
17996611 ATTTAGAAAACTTATA
1 ATTTACAAAACTTATA
17996627 TAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTACAAAACTTATAA
Found at i:17998297 original size:20 final size:20
Alignment explanation
Indices: 17998272--17998311 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17998262 AATAGATGAA
17998272 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
17998292 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
17998312 AAGAAAGACT
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:0.40, C:0.05, G:0.45, T:0.10
Consensus pattern (20 bp):
GAAAGGATGAGGGGAAATCG
Found at i:17998326 original size:22 final size:19
Alignment explanation
Indices: 17998272--17998350 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 19
17998262 AATAGATGAA
17998272 GAAAGGATGAGGGGAAATCG
1 GAAA-GATGAGGGGAAATCG
17998292 GAAAGGATGAGGGGAAATCG
1 GAAA-GATGAGGGGAAATCG
* * *
17998312 AAGAAAGACTTA-GGG-ATTTG
1 --GAAAGA-TGAGGGGAAATCG
*
17998332 GAAGGATGAGGGGAAATCG
1 GAAAGATGAGGGGAAATCG
17998351 CAGAAAGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
17 2 0.04
18 8 0.17
19 3 0.06
20 23 0.49
21 5 0.11
22 6 0.13
ACGTcount: A:0.39, C:0.05, G:0.42, T:0.14
Consensus pattern (19 bp):
GAAAGATGAGGGGAAATCG
Found at i:17998340 original size:39 final size:39
Alignment explanation
Indices: 17998294--17998371 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
17998284 GGAAATCGGA
17998294 AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
1 AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
* *
17998333 AAGGATGAGGGGAAATCGCAGAAAGACTTAGGGGTTTGG
1 AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
17998372 CTGAAAAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.40, T:0.18
Consensus pattern (39 bp):
AAGGATGAGGGGAAATCGAAGAAAGACTTAGGGATTTGG
Found at i:18001665 original size:115 final size:113
Alignment explanation
Indices: 18001462--18001670 Score: 260
Period size: 115 Copynumber: 1.8 Consensus size: 113
18001452 CCCACGAACT
* * * ** *
18001462 CTAATCTACCTCAAGACCAAACGGTGCATTTTGGTTAAGATATTGGCGGCGCTTTTTGTAATACG
1 CTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGATATTGGCGGCGCTTCATATAATACG
* *
18001527 CCGCTAATACTGTTCTTTAGCGGCGTTTTCTCGTAAACGCCACTAATA
66 CCACTAATACTGTTCTTTAGCGGCATTTTCTCGTAAACGCCACTAATA
* * *
18001575 CTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTTGCGGCGCTTACATATAA-
1 CTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAA-G-ATATTGGCGGCGCTT-CATATAAT
*
18001639 ACGCCACTAATGA-TGTTCTTTTGCGGCATTTT
63 ACGCCACTAAT-ACTGTTCTTTAGCGGCATTTT
18001671 TTAGAAAATG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
113 34 0.43
114 1 0.01
115 40 0.50
116 5 0.06
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (113 bp):
CTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGATATTGGCGGCGCTTCATATAATACG
CCACTAATACTGTTCTTTAGCGGCATTTTCTCGTAAACGCCACTAATA
Found at i:18003061 original size:5 final size:5
Alignment explanation
Indices: 18003051--18003080 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
18003041 AGTTATACTA
*
18003051 GTTTT GTTTT GTTTT GTTTT TTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
18003081 TCTTAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
GTTTT
Found at i:18004426 original size:25 final size:26
Alignment explanation
Indices: 18004376--18004426 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
18004366 GTTATAACTT
18004376 TTTTTTATTTACCAAAAAATATATAAC
1 TTTTTTATTTACC-AAAAATATATAAC
*
18004403 TTTTTTATTTATC-AAAATATATAA
1 TTTTTTATTTACCAAAAATATATAA
18004427 AAAAACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
27 12 0.52
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTTTATTTACCAAAAATATATAAC
Found at i:18004771 original size:3 final size:3
Alignment explanation
Indices: 18004765--18004826 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
18004755 ATTATTATTA
18004765 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
18004813 TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TT
18004827 AGTATTAAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:18005048 original size:36 final size:35
Alignment explanation
Indices: 18004977--18005053 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
18004967 AGTTAGTTAG
* *
18004977 TTAGT-TATTATTTTTAGTAAAATTAATAATTTTA
1 TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
*
18005011 TT-GTGTATTATTTTGAGTATAAAATTATTAATATTA
1 TTAGTGTATTATTTTGAG--TAAAATTAATAATATTA
18005047 TTAGTGT
1 TTAGTGT
18005054 GTTGGTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.06
34 13 0.36
36 17 0.47
37 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (35 bp):
TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
Found at i:18007062 original size:670 final size:670
Alignment explanation
Indices: 18005782--18007120 Score: 2408
Period size: 670 Copynumber: 2.0 Consensus size: 670
18005772 GACGATGAAG
*
18005782 ATGTCAACAACGATGAAGGCATTAACGCTTCTTCGGTCGGGGAGCAGATGCGGCGTATTTTGATA
1 ATGTCAACAACGATGAAGGCATTAACGCTTCTTCGGTCGGGGAGCAGATGCAGCGTATTTTGATA
*
18005847 CACAATAATCTTGGGCAACACATGTCGCTCAGAGACCCCGACGCAGCGTATGTAGCTGAGTTTCC
66 CACAATAATCTTGGGCAACACATGTCACTCAGAGACCCCGACGCAGCGTATGTAGCTGAGTTTCC
*
18005912 GGAGTACCCTGAAATAGTTCATTGTCACGGGCTGGCCGTAACATCTGATGATGATGAGTTATTCA
131 GGAGTACCCTGAAATAGTTCATTGTCACAGGCTGGCCGTAACATCTGATGATGATGAGTTATTCA
*
18005977 TTGGCCAGAGATTCAGTTGTAAAGAAGAATGCGTATATGCCATTAAACAGTACAGCATGAAGATA
196 TTGGCCAGAGATTCAGTTGTAAAGAAGAATGCGTATATACCATTAAACAGTACAGCATGAAGATA
* *
18006042 TCGGTGGATTATAAAGTCTCCGTGTCTACTCCGATAATATATGTTGGGGAGTGTTGAAAGGTAGC
261 TCGGTGGATTATAAAGTCTCCGTGTCTACTCCGATAATATATATTGGGAAGTGTTGAAAGGTAGC
*
18006107 GGAAGGCTGCAATTGGCGGGTACGAGTTGCATTCATTAGAAGTTCTCAGATGTGGGAGATACGAA
326 GGAAGGCTGCAATTGGCGGGTACGAGCTGCATTCATTAGAAGTTCTCAGATGTGGGAGATACGAA
* *
18006172 AATTTATTGGTCCTCATACATGCACATCAACACATATGACAGAAGATCATGGAAAACTTGATTCG
391 AATTTATTAGTCCTCATACATGCACATAAACACATATGACAGAAGATCATGGAAAACTTGATTCG
*
18006237 AAAACTATTTGTACGTGTATCATGCCGATGGTGAAGGACATGCCGACCATTAAAGTTTTGGTACT
456 AAAACTATTTGTACGTGTATCATACCGATGGTGAAGGACATGCCGACCATTAAAGTTTTGGTACT
*
18006302 CATTACGGAAATGCAAGCACAATTGCAGTATCGAGTCTAATATCGAAAGGCATGGATAGCTAAAC
521 CATTACAGAAATGCAAGCACAATTGCAGTATCGAGTCTAATATCGAAAGGCATGGATAGCTAAAC
*
18006367 AGATGGCGATGGAGCAACTGTATGGGGATTACGATTCGTCGTATAACGAGCTTCAAGGTTGGATA
586 AGATGGCGATGGAGCAACTGTATGGGGATTACGATTCGTCGTATAACGAGCTTCAAAGTTGGATA
*
18006432 GTTGCTATGCGGGAGTACGC
651 GCTGCTATGCGGGAGTACGC
*
18006452 ATGTCAACAACGATGAAGGCATTAATGCTTCTTCGGTCGGGGAGCAGATGCAGCGTATTTTGATA
1 ATGTCAACAACGATGAAGGCATTAACGCTTCTTCGGTCGGGGAGCAGATGCAGCGTATTTTGATA
* * * *
18006517 CACAATAATCTTGGGCCATACATGTCACTCATAGACTCCGACGCAGCGTATGTAGCTGAGTTTCC
66 CACAATAATCTTGGGCAACACATGTCACTCAGAGACCCCGACGCAGCGTATGTAGCTGAGTTTCC
18006582 GGAGTACCCTGAAATAGTTCATTGTCACAGGCTGGCCGTAACATCTGATGATGATGAGTTATTCA
131 GGAGTACCCTGAAATAGTTCATTGTCACAGGCTGGCCGTAACATCTGATGATGATGAGTTATTCA
* *
18006647 TTGGCCAGAGATTCAGTTGTAAAGAAGAGTGCGTATATACCATTAAACGGTACAGCATGAAGATA
196 TTGGCCAGAGATTCAGTTGTAAAGAAGAATGCGTATATACCATTAAACAGTACAGCATGAAGATA
* * *
18006712 TCGGTGGATTATAAAGTCTTCGTGTCTACTTCGATAATATATATTGGGAAGTGTTGGAAGGTAGC
261 TCGGTGGATTATAAAGTCTCCGTGTCTACTCCGATAATATATATTGGGAAGTGTTGAAAGGTAGC
18006777 GGAAGGCTGCAATTGGCGGGTACGAGCTGCATTCATTAGAAGTTCTCAGATGTGGGAGATACGAA
326 GGAAGGCTGCAATTGGCGGGTACGAGCTGCATTCATTAGAAGTTCTCAGATGTGGGAGATACGAA
* *
18006842 AATTTGTTAGTCCTCATACATGCACATAAACACGTATGACAGAAGATCATGGAAAACTTGATTCG
391 AATTTATTAGTCCTCATACATGCACATAAACACATATGACAGAAGATCATGGAAAACTTGATTCG
*
18006907 AAAACTATTTGTACGTGTATCATACCGATGGTGAATGACATGCCGACCATTAAAGTTTTGGTACT
456 AAAACTATTTGTACGTGTATCATACCGATGGTGAAGGACATGCCGACCATTAAAGTTTTGGTACT
* * *
18006972 TATTGCAGAAATGCAAGCACAATTGCAGTATCGAGTCTCATATCGAAAGGCATGGATAGCTAAAC
521 CATTACAGAAATGCAAGCACAATTGCAGTATCGAGTCTAATATCGAAAGGCATGGATAGCTAAAC
*
18007037 AGATGGCGATGGAGCAACTGTATGGGGATTACGATTTGTCGTATAACGAGCTTCAAAGTTGGATA
586 AGATGGCGATGGAGCAACTGTATGGGGATTACGATTCGTCGTATAACGAGCTTCAAAGTTGGATA
18007102 GCTGCTATGCGGGAGTACG
651 GCTGCTATGCGGGAGTACG
18007121 TACCGGGGAC
Statistics
Matches: 639, Mismatches: 30, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
670 639 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (670 bp):
ATGTCAACAACGATGAAGGCATTAACGCTTCTTCGGTCGGGGAGCAGATGCAGCGTATTTTGATA
CACAATAATCTTGGGCAACACATGTCACTCAGAGACCCCGACGCAGCGTATGTAGCTGAGTTTCC
GGAGTACCCTGAAATAGTTCATTGTCACAGGCTGGCCGTAACATCTGATGATGATGAGTTATTCA
TTGGCCAGAGATTCAGTTGTAAAGAAGAATGCGTATATACCATTAAACAGTACAGCATGAAGATA
TCGGTGGATTATAAAGTCTCCGTGTCTACTCCGATAATATATATTGGGAAGTGTTGAAAGGTAGC
GGAAGGCTGCAATTGGCGGGTACGAGCTGCATTCATTAGAAGTTCTCAGATGTGGGAGATACGAA
AATTTATTAGTCCTCATACATGCACATAAACACATATGACAGAAGATCATGGAAAACTTGATTCG
AAAACTATTTGTACGTGTATCATACCGATGGTGAAGGACATGCCGACCATTAAAGTTTTGGTACT
CATTACAGAAATGCAAGCACAATTGCAGTATCGAGTCTAATATCGAAAGGCATGGATAGCTAAAC
AGATGGCGATGGAGCAACTGTATGGGGATTACGATTCGTCGTATAACGAGCTTCAAAGTTGGATA
GCTGCTATGCGGGAGTACGC
Found at i:18010837 original size:152 final size:152
Alignment explanation
Indices: 18010561--18010870 Score: 584
Period size: 152 Copynumber: 2.0 Consensus size: 152
18010551 CTACTGACAC
*
18010561 AAATCCTGCTAGCTCCAGGTACGGCAGCAATCGATCATCCGGAGCTATCTTTAAAACACTCACAC
1 AAATCCGGCTAGCTCCAGGTACGGCAGCAATCGATCATCCGGAGCTATCTTTAAAACACTCACAC
* *
18010626 GGCCCCTTAATACTCGGAACGAGTCTTGATAGTGTTAAATTACAGAAATAATATTACGATAACAT
66 GGCCCCTTAATACTCGGAACGAGTCCTGATAGTGTTAAATTACAGAAACAATATTACGATAACAT
18010691 AATTTATTTGTATATACTGCGT
131 AATTTATTTGTATATACTGCGT
18010713 AAATCCGGCTAGCTCCAGGTACGGCAGCAATCGATCATCCGGAGCTATCTTTAAAACACTCACAC
1 AAATCCGGCTAGCTCCAGGTACGGCAGCAATCGATCATCCGGAGCTATCTTTAAAACACTCACAC
18010778 GGCCCCTTAATACTCGGAACGAGTCCTGATAGTGTTAAATTACAGAAACAATATTACGATAACAT
66 GGCCCCTTAATACTCGGAACGAGTCCTGATAGTGTTAAATTACAGAAACAATATTACGATAACAT
18010843 AATTTATTTGTATATACTGCGT
131 AATTTATTTGTATATACTGCGT
*
18010865 ATATCC
1 AAATCC
18010871 TTTTTAAATA
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 154 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (152 bp):
AAATCCGGCTAGCTCCAGGTACGGCAGCAATCGATCATCCGGAGCTATCTTTAAAACACTCACAC
GGCCCCTTAATACTCGGAACGAGTCCTGATAGTGTTAAATTACAGAAACAATATTACGATAACAT
AATTTATTTGTATATACTGCGT
Found at i:18011037 original size:15 final size:15
Alignment explanation
Indices: 18011017--18011048 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18011007 AAAAAATATC
18011017 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
18011032 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
18011047 AT
1 AT
18011049 TAGCCGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATTTCTAAATTT
Found at i:18011365 original size:23 final size:23
Alignment explanation
Indices: 18011339--18011385 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
18011329 CAATTTTTTT
18011339 ATATATTTTGGTAAATAAAAAAA
1 ATATATTTTGGTAAATAAAAAAA
*
18011362 ATATTTTTTGGTAAATAAAAAAA
1 ATATATTTTGGTAAATAAAAAAA
18011385 A
1 A
18011386 CTTATGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
ATATATTTTGGTAAATAAAAAAA
Found at i:18012163 original size:4 final size:4
Alignment explanation
Indices: 18012147--18012285 Score: 101
Period size: 4 Copynumber: 34.0 Consensus size: 4
18012137 TTCCTTTCCT
*
18012147 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * * *
18012193 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTCCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TT-TC -TTTC TTTC TTTC TTTC
*
18012240 TTTC TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
18012286 CCTCTCCTTC
Statistics
Matches: 112, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
3 13 0.12
4 76 0.68
5 17 0.15
6 6 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:18012183 original size:44 final size:42
Alignment explanation
Indices: 18012114--18012284 Score: 177
Period size: 37 Copynumber: 4.3 Consensus size: 42
18012104 ACCTTTTTTT
*
18012114 TTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCTTTCCTTC
1 TTTCTTTCTTTTT-TCTT-T-CTTTCCTTTCCTTTTCTTTCCTTC
18012159 TTTCTTTCTTTTTTC-TTC--TCCTTTCCTTTTC-TT-CTTC
1 TTTCTTTCTTTTTTCTTTCTTTCCTTTCCTTTTCTTTCCTTC
* *
18012196 TTTCTTTCTTTTTT-TCTCTTCTCCTTCCCTTTTCTTTCCTTC
1 TTTCTTTCTTTTTTCTTTCTT-TCCTTTCCTTTTCTTTCCTTC
* *
18012238 -TT-TTTC---TTTCTTTCTTTCCTCTCC-TTTCTTTCTTTC
1 TTTCTTTCTTTTTTCTTTCTTTCCTTTCCTTTTCTTTCCTTC
18012274 TTTCTTTCTTT
1 TTTCTTTCTTT
18012285 CCCTCTCCTT
Statistics
Matches: 107, Mismatches: 7, Indels: 28
0.75 0.05 0.20
Matches are distributed among these distances:
36 11 0.10
37 31 0.29
38 11 0.10
39 13 0.12
40 16 0.15
41 5 0.05
42 5 0.05
43 1 0.01
44 2 0.02
45 12 0.11
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (42 bp):
TTTCTTTCTTTTTTCTTTCTTTCCTTTCCTTTTCTTTCCTTC
Found at i:18012193 original size:34 final size:36
Alignment explanation
Indices: 18012113--18012294 Score: 160
Period size: 39 Copynumber: 4.9 Consensus size: 36
18012103 TACCTTTTTT
*
18012113 TTTTCTTT-TTT-TTTCTCTTC-TCCTT-TCCTTTCC
1 TTTTCTTTCTTTCTTTCT-TTCTTTCTTCTCCTTTCC
*
18012146 TTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCCTTTCC
1 TTTTCTTTCTTTCTTTCTTTC---TTTCTTCTCCTTTCC
* *
18012185 TTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTCCC
1 TTTTC-T-TTCTTTCTTTC-TTTCTT-TCTTCTCCTTTCC
* *
18012225 TTTTCTTTCCTTCTTTTTCTTTCTTTCTT-TCCTCTCC
1 TTTTCTTT-CTT-TCTTTCTTTCTTTCTTCTCCTTTCC
*
18012262 -TTTCTTTCTTTCTTTCTTTCTTTCCCTCTCCTT
1 TTTTCTTTCTTTCTTTCTTTCTTT-CTTCTCCTT
18012295 CTGGTCTCCC
Statistics
Matches: 122, Mismatches: 12, Indels: 27
0.76 0.07 0.17
Matches are distributed among these distances:
33 8 0.07
34 17 0.14
35 10 0.08
36 11 0.09
37 6 0.05
38 10 0.08
39 24 0.20
40 23 0.19
41 10 0.08
42 3 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (36 bp):
TTTTCTTTCTTTCTTTCTTTCTTTCTTCTCCTTTCC
Found at i:18012197 original size:45 final size:42
Alignment explanation
Indices: 18012114--18012285 Score: 194
Period size: 40 Copynumber: 4.1 Consensus size: 42
18012104 ACCTTTTTTT
* *
18012114 TTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCTTTCCTTC
1 TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTC-TTTCTTT-CTTC
18012159 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTC-TTC-TTCTTTC
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCTTTC-TTC
* * *
18012200 TTTCTTT-TTTTCTCTTCTCCTTCCCTTTTCTTTCCTTCTT-
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCTTTCTTC
*
18012240 TTTCTTTCTTTCTTTCCTCTCCTTT-C-TTTCTTTCTTTCTTTC
1 TTTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTCTTTC-TTC
18012282 TTTC
1 TTTC
18012286 CCTCTCCTTC
Statistics
Matches: 112, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
40 40 0.36
41 23 0.21
42 20 0.18
44 17 0.15
45 12 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (42 bp):
TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCTTTCTTC
Found at i:18012227 original size:40 final size:40
Alignment explanation
Indices: 18012120--18012284 Score: 171
Period size: 44 Copynumber: 4.1 Consensus size: 40
18012110 TTTTTTTCTT
* *
18012120 TTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCTTTCCTTCTTTC
1 TTTTTTTCTCTTCTCCTTTCCTTT--TCTTC-TTCTTTCTTTC
*
18012163 TTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTC
1 TTT-TTTTCTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTC
*
18012204 TTTTTTTCTCTTCTCCTTCCCTTTTCTTTCCTTCTTTTTCTTTC
1 TTTTTTTCTCTTCTCCTTTCCTTTTC-TT-CTTC--TTTCTTTC
*
18012248 TTTCTTTC-C-TCTCCTTT-C-TTTC-T-TTCTTTCTTTC
1 TTTTTTTCTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTC
18012282 TTT
1 TTT
18012285 CCCTCTCCTT
Statistics
Matches: 110, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
34 11 0.10
36 3 0.03
38 1 0.01
40 25 0.23
41 16 0.15
42 15 0.14
43 4 0.04
44 35 0.32
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (40 bp):
TTTTTTTCTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTC
Found at i:18012365 original size:27 final size:27
Alignment explanation
Indices: 18012327--18012396 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
18012317 CCCTAATATG
18012327 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCT-TTGGCAC
18012354 CATTGGTGCCGCCAATGGCTTTGGCAC
1 CATTGGTGCCGCCAATGGCTTTGGCAC
*
18012381 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
18012397 CCCATTGGCG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTTTGGCAC
Found at i:18012404 original size:27 final size:27
Alignment explanation
Indices: 18012327--18012405 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
18012317 CCCTAATATG
*
18012327 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
*
18012354 CATTGGTGCCGCCAATGGCTTTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
* **
18012381 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
18012406 GTGACCAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:18012497 original size:28 final size:27
Alignment explanation
Indices: 18012462--18012521 Score: 111
Period size: 28 Copynumber: 2.2 Consensus size: 27
18012452 TTTTGTTTTT
18012462 TTATATATTTTGGTAAATAAAAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAAG
18012489 TATATATATTTTGGTAAATAAAAAAAAG
1 T-TATATATTTTGGTAAATAAAAAAAAG
18012517 TTATA
1 TTATA
18012522 ACATTTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
TTATATATTTTGGTAAATAAAAAAAAG
Found at i:18012527 original size:28 final size:28
Alignment explanation
Indices: 18012463--18012529 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
18012453 TTTGTTTTTT
*
18012463 TATATATTTTGGTAAATAAAAAAAAGTA
1 TATACATTTTGGTAAATAAAAAAAAGTA
*
18012491 TATATATTTTGGTAAATAAAAAAAAGT-
1 TATACATTTTGGTAAATAAAAAAAAGTA
18012518 TATAACATTTTG
1 TAT-ACATTTTG
18012530 ATTATTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 3 0.08
28 34 0.92
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (28 bp):
TATACATTTTGGTAAATAAAAAAAAGTA
Found at i:18016615 original size:273 final size:275
Alignment explanation
Indices: 18016152--18016693 Score: 919
Period size: 273 Copynumber: 2.0 Consensus size: 275
18016142 ATACTCGTGT
*
18016152 GAACTTAGTAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATCAGTT
1 GAACTTAGTAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATAAGTT
*
18016217 ATTAACATAATAGTATGAGATCTAATATTTTTTTGTAGATTGTCAAGTTATACGTATCATTGGTT
66 ATTAACATAATAGTATGAGATCTAATATTTTGTTGTAGATTGTC-----A-ACGTATCATTGGTT
*
18016282 TAACCTTGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACGTTCCTGTGTATCCAA
125 TAACCTGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACGTTCCTGTGTATCCAA
* *
18016347 TTTTGTTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGTAAGTGGAAATCTTAAAATGATT
190 TTTCGTTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATT
18016412 TGGATGTGGCATGTCATTAGG
255 TGGATGTGGCATGTCATTAGG
* *
18016433 GAACTTAGTAAAATATTATGATACATATGGCATGTCATTAGGGTTATACACATAATTGATAAGTT
1 GAACTTAGTAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATAAGTT
18016498 ATGT-ACATAATAGTATGAGATCTAATA-TTTGTTGTAGATTGTC-ACGTATCATTGGTTTAACC
66 AT-TAACATAATAGTATGAGATCTAATATTTTGTTGTAGATTGTCAACGTATCATTGGTTTAACC
*
18016560 TGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACGTTCTTGTGTATCCAATTTCG
130 TGGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACGTTCCTGTGTATCCAATTTCG
*
18016625 TTGTACTATAGTTCTATTAGTTGAAACTAATCTAATGGAAGTGGAAATCTTAAAATGATTTGGAT
195 TTGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATTTGGAT
18016690 GTGG
260 GTGG
18016694 ATTACATATG
Statistics
Matches: 251, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
273 148 0.59
280 15 0.06
281 87 0.35
282 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (275 bp):
GAACTTAGTAAAAGATTAGGATACATATGGCATGTCATTAGGGTTATACACATAATTGATAAGTT
ATTAACATAATAGTATGAGATCTAATATTTTGTTGTAGATTGTCAACGTATCATTGGTTTAACCT
GGAATGGTAACCTCGATATGATGTTAGCTTGTGTGAGCAAAACGTTCCTGTGTATCCAATTTCGT
TGTACTATAGTTCTATTAGTTGAAACTAATCCAATGGAAGTGGAAATCTTAAAATGATTTGGATG
TGGCATGTCATTAGG
Found at i:18019810 original size:3 final size:3
Alignment explanation
Indices: 18019795--18019848 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
18019785 ATTGTTTGGT
* **
18019795 TTA TTA TCT- TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA CGA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18019840 TTA TTA TTA
1 TTA TTA TTA
18019849 GTAGTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18019856 original size:12 final size:12
Alignment explanation
Indices: 18019804--18019856 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
18019794 TTTATTATCT
*
18019804 TTATTATTATTA
1 TTATTATTAGTA
* *
18019816 TCATTATTATTA
1 TTATTATTAGTA
18019828 TTATTATTACG-A
1 TTATTATTA-GTA
18019840 TTATTATTAGTA
1 TTATTATTAGTA
*
18019852 GTATT
1 TTATT
18019857 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 34 0.97
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (12 bp):
TTATTATTAGTA
Found at i:18020282 original size:16 final size:18
Alignment explanation
Indices: 18020261--18020298 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
18020251 CCCCTTTTAC
18020261 ATATATTA-TTATA-TAA
1 ATATATTATTTATATTAA
18020277 ATATATTATTTATATTAA
1 ATATATTATTTATATTAA
18020295 ATAT
1 ATAT
18020299 TTCATTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATATTATTTATATTAA
Found at i:18032382 original size:13 final size:13
Alignment explanation
Indices: 18032364--18032389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18032354 TATGAATTTG
18032364 GCCCATTGTAATT
1 GCCCATTGTAATT
18032377 GCCCATTGTAATT
1 GCCCATTGTAATT
18032390 AGACTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
GCCCATTGTAATT
Found at i:18032830 original size:44 final size:45
Alignment explanation
Indices: 18032762--18032847 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 45
18032752 GCAGTAAGAT
** * *
18032762 TTGCTATTCTCAATTTGCCCCACTGCAACTTCAGGGGGATAAAAC
1 TTGCTATTCTCAACCTGCCCCACTGCAACCTCAGGGAGATAAAAC
* *
18032807 TTGCT-TTCTCAACCTGCTCCACTGTAACCTCAGGGAGATAA
1 TTGCTATTCTCAACCTGCCCCACTGCAACCTCAGGGAGATAA
18032848 GACCTGATGC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 30 0.86
45 5 0.14
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (45 bp):
TTGCTATTCTCAACCTGCCCCACTGCAACCTCAGGGAGATAAAAC
Found at i:18033143 original size:129 final size:129
Alignment explanation
Indices: 18032971--18033383 Score: 517
Period size: 129 Copynumber: 3.2 Consensus size: 129
18032961 ATCCTCAGGG
* * * * *
18032971 AGATGAGATTTGCCATCTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTTA
1 AGATAAGATTCGCCGTCTTCGATCTGACCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTTA
* * * *
18033036 GCTTGCTCCACTGCAACCGCAGGGAGAAATGACTTGTGGCTTAAATCTGCTTCTTTACACTTGA
66 GCCTGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
*
18033100 AGATAAGATTCGCCGTCTTCGATCTGTCCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTTA
1 AGATAAGATTCGCCGTCTTCGATCTGACCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTTA
* *
18033165 GCCTGCTCCACTGCAACCTCAGGGATAAAGGACTTGTGGCTTAAGTCTGCTTCCTTACACTTGA
66 GCCTGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * **** * * * * * ** *
18033229 AGATAAGATTCACCGTCTTTGATCT-ACTTTGTCGTCAGTACAGGAAGG-CAAGATTTAC-TATC
1 AGATAAGATTCGCCGTCTTCGATCTGACCCACT-GTAACTTCAGG-GGGATAAGACCTGCTTA-C
* *
18033291 TTCAACCTGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAACTCTGCTTCCTTACACT
63 TT-AGCCTGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACT
18033356 TGA
127 TGA
18033359 AGATAAGATTCGCCGTCTTCGATCT
1 AGATAAGATTCGCCGTCTTCGATCT
18033384 ACTTTGCCGT
Statistics
Matches: 249, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
128 4 0.02
129 158 0.63
130 87 0.35
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (129 bp):
AGATAAGATTCGCCGTCTTCGATCTGACCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTTA
GCCTGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
Found at i:18033337 original size:130 final size:129
Alignment explanation
Indices: 18033039--18033442 Score: 528
Period size: 130 Copynumber: 3.1 Consensus size: 129
18033029 TTACTTAGCT
* * *
18033039 TGCTCCACTGCAACCGCAGGGAGAAATGACTTGTGGCTTAAATCTGCTTCTTTACACTTGAAGAT
1 TGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* *** * * * ** *
18033104 AAGATTCGCCGTCTTCGATCT-GTCCCACTGT-AACTTCAGG-GGGATAAGACCTGCT-TACTTA
66 AAGATTCGCCGTCTTCGATCTACTTTGAC-GTCAA-TACAGGAAGG-CAAGATTTACTAT-CTTA
*
18033165 GCC
127 ACC
* *
18033168 TGCTCCACTGCAACCTCAGGGATAAAGGACTTGTGGCTTAAGTCTGCTTCCTTACACTTGAAGAT
1 TGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* * * *
18033233 AAGATTCACCGTCTTTGATCTACTTTGTCGTCAGTACAGGAAGGCAAGATTTACTATCTTCAACC
66 AAGATTCGCCGTCTTCGATCTACTTTGACGTCAATACAGGAAGGCAAGATTTACTATCTT-AACC
*
18033298 TGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAACTCTGCTTCCTTACACTTGAAGAT
1 TGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
*
18033363 AAGATTCGCCGTCTTCGATCTACTTTGCCGTCAATACAGGAAGGCAAGATTTACTATCTTTAACC
66 AAGATTCGCCGTCTTCGATCTACTTTGACGTCAATACAGGAAGGCAAGATTTACTATC-TTAACC
18033428 TGCTCCACTGCAACC
1 TGCTCCACTGCAACC
18033443 GAGGGAGGCG
Statistics
Matches: 243, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
129 96 0.40
130 145 0.60
131 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (129 bp):
TGCTCCACTGCAACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
AAGATTCGCCGTCTTCGATCTACTTTGACGTCAATACAGGAAGGCAAGATTTACTATCTTAACC
Found at i:18033671 original size:87 final size:87
Alignment explanation
Indices: 18033376--18033859 Score: 614
Period size: 87 Copynumber: 5.5 Consensus size: 87
18033366 ATTCGCCGTC
* * * * *
18033376 TTCGATCTACTTTGCCGTCAATACAGGAAGGCAAGATTTACTATCTTTAACCTGCTCCACTGCAA
1 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
* * * *
18033441 CCGAGGGAGGCGAGGCTGGTGTC
66 CCGAGGGAGGCAAGGCT-TTATT
* * * *
18033464 TTCGATCTACTTCGCTGTCTACGCAGGAAGGTAAGATCTGCTAT-TTTAAACCTACTCCACTGCA
1 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT-AACCTGCTCCACTGCA
* * *
18033528 ACCGAGGGGGGAAAGG--TTAGGGTC
65 ACCGAGGGAGGCAAGGCTTTA---TT
* * * *
18033552 TTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAATATCTGCTATCTTTAACCTGCTCCACTACAA
1 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
18033617 CCGAGGGAGGCAAGGCTTTATT
66 CCGAGGGAGGCAAGGCTTTATT
*
18033639 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
1 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
* *
18033704 CCGATGGAGGCAAGGCTTTGTT
66 CCGAGGGAGGCAAGGCTTTATT
* * * *
18033726 TTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTGCAA
1 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
* * *
18033791 CCGATGAAGGCAAGGCTTTACT
66 CCGAGGGAGGCAAGGCTTTATT
* *
18033813 TTCGATCTACTTCGCTGTCGATGTAGGAAGGCAAGATCTGCTATCTT
1 TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
18033860 CACTGATCTG
Statistics
Matches: 349, Mismatches: 40, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.00
87 208 0.60
88 134 0.38
89 3 0.01
90 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (87 bp):
TTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
CCGAGGGAGGCAAGGCTTTATT
Found at i:18033802 original size:44 final size:44
Alignment explanation
Indices: 18033665--18033804 Score: 135
Period size: 44 Copynumber: 3.2 Consensus size: 44
18033655 GTCAATGCAG
*
18033665 GAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGAT
1 GAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTGCAACCGAT
* * * * * * * * *
18033709 GGAGGCAAGGCTTTG-T-T-TTTGATCTGCTTCGCTGTCAA-TGCAG
1 GAAGGCAA-GATCTGCTATCTTTAACCCGCTTCACTG-CAACCG-AT
18033752 GAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTGCAACCGAT
1 GAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTGCAACCGAT
18033796 GAAGGCAAG
1 GAAGGCAAG
18033805 GCTTTACTTT
Statistics
Matches: 70, Mismatches: 19, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
42 17 0.24
43 13 0.19
44 22 0.31
45 18 0.26
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTGCAACCGAT
Found at i:18037710 original size:13 final size:13
Alignment explanation
Indices: 18037692--18037720 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18037682 CTTTCAATGT
18037692 ATTAATAAAAAGC
1 ATTAATAAAAAGC
18037705 ATTAATAAAAAGC
1 ATTAATAAAAAGC
18037718 ATT
1 ATT
18037721 GTCATTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (13 bp):
ATTAATAAAAAGC
Found at i:18042575 original size:13 final size:13
Alignment explanation
Indices: 18042557--18042583 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18042547 TATGAATTTC
18042557 GCCCATTGTAATT
1 GCCCATTGTAATT
18042570 GCCCATTGTAATT
1 GCCCATTGTAATT
18042583 G
1 G
18042584 GACTTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (13 bp):
GCCCATTGTAATT
Found at i:18047010 original size:306 final size:302
Alignment explanation
Indices: 18046585--18047291 Score: 668
Period size: 306 Copynumber: 2.3 Consensus size: 302
18046575 CCATTTGCAA
* *
18046585 ATTTGTTATTGGGTTT-TGTT-AAATAAAAAGA-TAAAAGTACCTTTGAATAATATAACTTAATT
1 ATTT-TTATT-GGTTTATGTTAAAAGAAAAAGACT-AAAGTACC-TTAAATAATATAACTT-ATT
* * * **
18046647 TCATTACAGAATGACATTTCTATAATTTTCCTAACCGAGTTGGTACTTGACTGACTCGTGACATT
61 TTATTACAGAAGGACATTTCTATAATTTTCCTAACCGAGTTGGTACTCGACTGACTCGTGACAAC
* *
18046712 AATTCACTTAGAAACTTAAATAATAG-TAT-A-A-ATA-CACAATTG-GTAGAGATAATAAATTG
126 AACTCAATTAGAAACTTAAATAATAGATATAATATATAGCACAATTGAGTAGAGATAATAAATTG
* *
18046771 TGCATATTAAAATAAAAACGTATAAAATTA-ATCAAAATGAAGTTTTTGGTTAAGTGGTAAATTT
191 TGCATAATAAAATAAAAACGTAT-AAATTATATCAAAATGAAG-TTTTGATTAAGTGGTAAATTT
* * ** * *
18046835 TAGGATTTA-CCAACACAATTGGTGT-GTGTTTAAATCCTATCATATGCAT
254 AAGGATTTATCCAAC-CAATTAGCATAG-GTTCAAATCCTATCATATACAT
**
18046884 ATTTTTATTTTTATTATTTTTTGTTAAAAGAAAAAAGACTAAAGTACTCTTAAATAATATAACTT
1 ATTTTTATTGGT-TTA-----TGTTAAAAG-AAAAAGACTAAAGTAC-CTTAAATAATATAACTT
** ** **
18046949 ATTTTAGTTACAGAAGGACATTTCTATAATTTTTTTAATTGAGTTAGTGT-C-CGGTTGACTCGT
58 ATTTTA-TTACAGAAGGACATTTCTATAATTTTCCTAACCGAGTT-G-GTACTCGACTGACTCGT
**** * * *
18047012 GACAACAACTCAATTAGGGTTTTAAATAATAGTAAATATAGATATATATGTACAATTGATTGGAG
120 GACAACAACTCAATTAGAAACTTAAATAATAG---ATATA-ATATATA-GCACAATTGAGTAGAG
* * *
18047077 ATAATAAATTGTGCATAATAAAATAAAAATGTATAAATTATATTAAAATGAAGTTTTGATTGAGT
180 ATAATAAATTGTGCATAATAAAATAAAAACGTATAAATTATATCAAAATGAAGTTTTGATTAAGT
* ** * *
18047142 GGTAAATTTAAGGTTTTATTGATCTAATTAGCATAGGTTCAAATCCTATCATATACAT
245 GGTAAATTTAAGGATTTATCCAACCAATTAGCATAGGTTCAAATCCTATCATATACAT
* *
18047200 ATTTTTATTGGTTTATGTTAAAAGAAAAAGACTAAAGTACCCTCAAATAATATAATTTATTTTAA
1 ATTTTTATTGGTTTATGTTAAAAGAAAAAGACTAAAGTA-CCTTAAATAATATAACTTATTTT-A
* * *
18047265 TTACAAAAGAACATTTTTATAATTTTC
64 TTACAGAAGGACATTTCTATAATTTTC
18047292 TAATCAAATT
Statistics
Matches: 330, Mismatches: 48, Indels: 50
0.77 0.11 0.12
Matches are distributed among these distances:
297 1 0.00
298 7 0.02
299 4 0.01
304 4 0.01
305 8 0.02
306 95 0.29
307 4 0.01
308 2 0.01
309 58 0.18
310 14 0.04
312 1 0.00
313 1 0.00
314 3 0.01
315 3 0.01
316 75 0.23
317 50 0.15
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (302 bp):
ATTTTTATTGGTTTATGTTAAAAGAAAAAGACTAAAGTACCTTAAATAATATAACTTATTTTATT
ACAGAAGGACATTTCTATAATTTTCCTAACCGAGTTGGTACTCGACTGACTCGTGACAACAACTC
AATTAGAAACTTAAATAATAGATATAATATATAGCACAATTGAGTAGAGATAATAAATTGTGCAT
AATAAAATAAAAACGTATAAATTATATCAAAATGAAGTTTTGATTAAGTGGTAAATTTAAGGATT
TATCCAACCAATTAGCATAGGTTCAAATCCTATCATATACAT
Found at i:18052878 original size:25 final size:25
Alignment explanation
Indices: 18052844--18052915 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
18052834 ACGAATTTTC
18052844 TCAAAATTTTACCAAGGATAAATCG
1 TCAAAATTTTACCAAGGATAAATCG
*
18052869 TCAAAATTTTACCAA-GAGTAAAATTG
1 TCAAAATTTTACCAAGGA-T-AAATCG
*
18052895 TCAAAATTTTACTAAGG-TAAA
1 TCAAAATTTTACCAAGGATAAA
18052916 ATTGAGGTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.12
25 17 0.40
26 19 0.45
27 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (25 bp):
TCAAAATTTTACCAAGGATAAATCG
Found at i:18052899 original size:26 final size:25
Alignment explanation
Indices: 18052844--18052919 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 25
18052834 ACGAATTTTC
*
18052844 TCAAAATTTTACCAAGG-ATAAATCG
1 TCAAAATTTTACCAAGGTA-AAATTG
18052869 TCAAAATTTTACCAAGAGTAAAATTG
1 TCAAAATTTTACCAAG-GTAAAATTG
*
18052895 TCAAAATTTTACTAAGGTAAAATTG
1 TCAAAATTTTACCAAGGTAAAATTG
18052920 AGGTGAGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
25 25 0.53
26 21 0.45
27 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACCAAGGTAAAATTG
Found at i:18063249 original size:16 final size:17
Alignment explanation
Indices: 18063228--18063259 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18063218 AAATATGCAA
18063228 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
18063244 TCACATAACTTCATAT
1 TCACATAACTTCATAT
18063260 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:18063479 original size:43 final size:43
Alignment explanation
Indices: 18063418--18063588 Score: 201
Period size: 43 Copynumber: 4.0 Consensus size: 43
18063408 AAGACTCGTA
*
18063418 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
*
18063461 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * * *
18063502 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATA-T
*
18063545 CGATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATAT
18063588 C
1 C
18063589 GGAAATCCTA
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
41 27 0.25
42 16 0.15
43 62 0.56
44 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:18063561 original size:84 final size:84
Alignment explanation
Indices: 18063420--18063577 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
18063410 GACTCGTACA
* * *
18063420 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGAC-GTGG
18063484 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* *
18063504 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAGACGTG
18063567 GTCTTACACGA
64 GTCTTACACGA
18063578 TAACACATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.94
85 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:18070610 original size:16 final size:17
Alignment explanation
Indices: 18070589--18070620 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18070579 AAATATGCAA
18070589 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
18070605 TCACATAACTTCATAT
1 TCACATAACTTCATAT
18070621 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:18070840 original size:43 final size:42
Alignment explanation
Indices: 18070779--18070949 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 42
18070769 AAGACTCGTA
*
18070779 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCC-ACGTCCCAGACGTGGTCTTACACGTAATCACATAT
*
18070822 CAATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * * * *
18070863 CGATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCC-ACGTCCCAGACGTGGTCTTACACGTAATCACATA-T
* *
18070906 CGATGGCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAAT-GCCACGTCCCAGACGTGGTCTTACACG-TAATCACATAT
18070949 C
1 C
18070950 GGAAATCCTA
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
41 26 0.25
42 16 0.15
43 57 0.54
44 7 0.07
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
CAATGCCACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:18070924 original size:84 final size:84
Alignment explanation
Indices: 18070781--18070938 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
18070771 GACTCGTACA
* * * *
18070781 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCAACTGTCCCAGAC-GTGG
18070845 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* * *
18070865 ATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATGGCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAAT-GCAACTGTCCCAGACGTG
18070928 GTCTTACACGA
64 GTCTTACACGA
18070939 TAACACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.03
84 58 0.91
85 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCAACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:18077976 original size:16 final size:17
Alignment explanation
Indices: 18077955--18077986 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18077945 AAATATGCAA
18077955 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
18077971 TCACATAACTTCATAT
1 TCACATAACTTCATAT
18077987 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:18078213 original size:43 final size:43
Alignment explanation
Indices: 18078145--18078315 Score: 192
Period size: 43 Copynumber: 4.0 Consensus size: 43
18078135 AAGACTCGTA
*
18078145 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* *
18078188 CAATGCC-ACTGTCCCAAACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * * *
18078229 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATA-T
*
18078272 CGATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATAT
18078315 C
1 C
18078316 GGAAATCCTA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
41 26 0.24
42 16 0.15
43 61 0.56
44 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:18078297 original size:84 final size:84
Alignment explanation
Indices: 18078147--18078304 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
18078137 GACTCGTACA
* * *
18078147 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAAACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAAACAGGGT
18078212 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* * *
18078231 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAAACAG-
18078293 GGTCTTACACGA
63 GGTCTTACACGA
18078305 TAACACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAAACAGGGT
CTTACACGAATCAAATACG
Found at i:18097866 original size:89 final size:88
Alignment explanation
Indices: 18097715--18098299 Score: 785
Period size: 89 Copynumber: 6.6 Consensus size: 88
18097705 GCTATCTTTA
* * * ** *
18097715 ATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTACTGTCTTTGATCTAC
1 ATCTG-TTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18097780 TTCACGCCAATA-AGTGAAGACAAG
65 TTCACGCCAGTACA-TGAAGACAAG
* * *
18097804 ATCTGTTCTCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTCGATCTAC
1 ATCTGTT-TCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
* *
18097869 TTAATGCCAGTACATGAAGACAAG
65 TTCACGCCAGTACATGAAGACAAG
* *
18097893 ATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTTGATCTAC
1 ATCT-GTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
18097958 TTCACGCCAGTACATGAAGACAAG
65 TTCACGCCAGTACATGAAGACAAG
*
18097982 ATCTGTTTTCTTCGATCTACTCTACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
1 ATCTG-TTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18098047 TTCACCCCAGTACATGAAGACAAG
65 TTCACGCCAGTACATGAAGACAAG
* * * *
18098071 ATCTGTTTTCTTCGATCTACTCCACCACTAGTATGGGGAGACAAGATCTGATATCTTTAATCTAC
1 ATCTG-TTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18098136 TTCACGCCAGTACGTGAAGACAAG
65 TTCACGCCAGTACATGAAGACAAG
* * * * * * *
18098160 ATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATTTGTTATCTTTGATCTAC
1 ATCTG-TTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTAC
*
18098225 TTCACGCTAGTACATGAAGACAAG
65 TTCACGCCAGTACATGAAGACAAG
* * * * *
18098249 ATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGG
1 ATCTG-TTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGG
18098300 GTCAAAGATA
Statistics
Matches: 449, Mismatches: 43, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
88 2 0.00
89 444 0.99
90 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (88 bp):
ATCTGTTTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACT
TCACGCCAGTACATGAAGACAAG
Found at i:18098600 original size:44 final size:45
Alignment explanation
Indices: 18098528--18098613 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
18098518 TCGATCAAAG
** *
18098528 AAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGGAA
1 AAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGGAA
* *
18098572 AAAGTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
1 AAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCG
18098614 AAGATACAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 23 0.64
45 13 0.36
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (45 bp):
AAAGCAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCGGAA
Found at i:18100181 original size:22 final size:23
Alignment explanation
Indices: 18100154--18100196 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
18100144 CTCCTATTGT
18100154 TGTTTTTTTATTT-GTTTATTTG
1 TGTTTTTTTATTTGGTTTATTTG
18100176 T-TTTTTTTATTTGGTTTATTT
1 TGTTTTTTTATTTGGTTTATTT
18100197 TTTGTTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (23 bp):
TGTTTTTTTATTTGGTTTATTTG
Found at i:18100209 original size:17 final size:16
Alignment explanation
Indices: 18100160--18100209 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
18100150 TTGTTGTTTT
18100160 TTTATTTGTTTATTT-G
1 TTTATTT-TTTATTTGG
18100176 -TT-TTTTTTATTTGG
1 TTTATTTTTTATTTGG
*
18100190 TTTATTTTTTGTTTGTG
1 TTTATTTTTTATTTG-G
18100207 TTT
1 TTT
18100210 TTGGGCTCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 4 0.14
16 10 0.34
17 4 0.14
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTATTTGG
Found at i:18100338 original size:17 final size:16
Alignment explanation
Indices: 18100316--18100357 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
18100306 AGAGTAATGC
18100316 ATAATATATTAGTTATT
1 ATAATATATTA-TTATT
18100333 ATAATATATTATTATT
1 ATAATATATTATTATT
*
18100349 -TATTATATT
1 ATAATATATT
18100358 GGTTGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATAATATATTATTATT
Found at i:18104252 original size:25 final size:25
Alignment explanation
Indices: 18104222--18104277 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
18104212 TTAAAGGGGC
* *
18104222 AATCAAATCAATTTGATTAAAATAA
1 AATCAAATCAATTAGAATAAAATAA
** *
18104247 AATCAAATTGATTAGAATCAAATAA
1 AATCAAATCAATTAGAATAAAATAA
18104272 AATCAA
1 AATCAA
18104278 GATATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (25 bp):
AATCAAATCAATTAGAATAAAATAA
Found at i:18104269 original size:20 final size:20
Alignment explanation
Indices: 18104222--18104274 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
18104212 TTAAAGGGGC
*
18104222 AATCAAATCAATTTGATTAA
1 AATCAAATCAAATTGATTAA
* *
18104242 AATAAAATCAAATTGATTAG
1 AATCAAATCAAATTGATTAA
*
18104262 AATCAAATAAAAT
1 AATCAAATCAAAT
18104275 CAAGATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.30
Consensus pattern (20 bp):
AATCAAATCAAATTGATTAA
Found at i:18107895 original size:82 final size:81
Alignment explanation
Indices: 18107783--18108086 Score: 385
Period size: 82 Copynumber: 3.7 Consensus size: 81
18107773 AGTCTTCTTG
* **
18107783 TTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGATTGGAATAAATCCTAAAACAGATT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTAAAACAGATT
18107848 ATTCAATTTAATTCTA
66 ATTCAATTTAATTCTA
* *
18107864 TTTTGGAAACAAAATTAAAATCAAATAAAATATGTTAAACGGCTGGAATAAATCCCAAAACAGAT
1 -TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTAAAACAGAT
*
18107929 TATTCAATTTAATTTTA
65 TATTCAATTTAATTCTA
* * *
18107946 TTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGCAGGAATAAATCCTGAAACAGATT
1 TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTAAAACAGA--
*
18108011 TTATTTAATTTTAATTTCTCA
64 TTATTCAA-TTTAA-TTCT-A
* * * * * *
18108032 TTTGGAAACAAAATAAAAAATGGAATCAAATCTGTTGATCGG-TGGGAATAAATCC
1 TTTGGAAACAAAAT-TAAAATCGAATAAAATATGTTAAACGGCT-GGAATAAATCC
18108087 CGAAATAGAT
Statistics
Matches: 196, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
81 58 0.30
82 75 0.38
83 7 0.04
84 5 0.03
85 3 0.02
86 15 0.08
87 33 0.17
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (81 bp):
TTTGGAAACAAAATTAAAATCGAATAAAATATGTTAAACGGCTGGAATAAATCCTAAAACAGATT
ATTCAATTTAATTCTA
Found at i:18108776 original size:20 final size:20
Alignment explanation
Indices: 18108733--18108776 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18108723 AGAGGCAATT
*
18108733 AAATCAATTTGATTAAAATC
1 AAATCAATTTGATTAAAATA
*
18108753 AAATCAAATTT-ATTAGAATA
1 AAATC-AATTTGATTAAAATA
18108773 AAAT
1 AAAT
18108777 AAAACCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATA
Found at i:18110321 original size:27 final size:27
Alignment explanation
Indices: 18110291--18110403 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
18110281 GGTATAATAG
18110291 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
*
18110318 TCATTTTACCTTAT-AGGGGTATTTCGA
1 TCATTTTACCCTATGA-GGGTATTTCGA
* * * *
18110345 TCATTCTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
** * *
18110372 TTGTTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
18110399 TCATT
1 TCATT
18110404 ATTTTAGTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 73 0.99
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Done.