Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 436 of 770
Found at i:134485177 original size:34 final size:33
Alignment explanation
Indices: 134485139--134485212 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
134485129 ATACCACATT
* * *
134485139 CTTACCAATTCCACAATTAATCACATACCAAAAA
1 CTTACCAACTCCA-AAATAAGCACATACCAAAAA
* * *
134485173 CTTACAAAACTCCAAAATAAGCACTTACCACAAA
1 CTTAC-CAACTCCAAAATAAGCACATACCAAAAA
134485207 CTTACC
1 CTTACC
134485213 CAAAATGACC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
34 26 0.81
35 6 0.19
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (33 bp):
CTTACCAACTCCAAAATAAGCACATACCAAAAA
Found at i:134486173 original size:329 final size:330
Alignment explanation
Indices: 134485553--134486216 Score: 1267
Period size: 329 Copynumber: 2.0 Consensus size: 330
134485543 AACTTATCAT
134485553 TCAAAACATGAAAGCATTATTTAAATTAAATATACTCCACGGCCAAATACTATCCCAAAATACAT
1 TCAAAACATGAAAGCATTATTTAAATTAAATATACTCCACGGCCAAATACTATCCCAAAATACAT
134485618 AGTTCATATACATTTCACATAATCCAATTCATTTACACATATAGCATATTTTCTCATACTTATAA
66 AGTTCATATACATTTCACATAATCCAATTCATTTACACATATAGCATATTTTCTCATACTTATAA
134485683 CTCATATCATCACTTGTACATATACGTACCTTTTATTTTCAAACATAGTATACATTTCGAACGTA
131 CTCATATCATCACTTGTACATATACGTACCTTTTATTTTCAAACATAGTATACATTTCGAACGTA
*
134485748 CCTAATTCGGATACACATCTCATATAATCATTCGTTTCTCAGAATGCTCATTGAACCACTTAGAA
196 CCTAATTCGGATACACATCTCATATAATCATTCATTTCTCAGAATGCTCATTGAACCACTTAGAA
134485813 TCATAAGGATACGCGGATAGCTCAAAAAGCTCGTACAATGCCAACGTCCCAGACGTGGTCTTACA
261 TCATAAGGATACGCGGATAGCTCAAAAAGCTCGTACAATGCCAACGTCCCAGACGTGGTCTTACA
134485878 TGTAA
326 TGTAA
134485883 TCAAAACATGAAAGCATTA-TTAAATTAAATATACTCCACGGCCAAATACTATCCCAAAATACAT
1 TCAAAACATGAAAGCATTATTTAAATTAAATATACTCCACGGCCAAATACTATCCCAAAATACAT
134485947 AGTTCATATACATTTCACATAATCCAATTCATTTACACATATAGCATATTTTCTCATACTTATAA
66 AGTTCATATACATTTCACATAATCCAATTCATTTACACATATAGCATATTTTCTCATACTTATAA
* *
134486012 CTCATATCATCACTTGTACATATACTTACCTTTTATTTTCGAACATAGTATACATTTCGAACGTA
131 CTCATATCATCACTTGTACATATACGTACCTTTTATTTTCAAACATAGTATACATTTCGAACGTA
*
134486077 CCTAATTCGGATACACATCTCATATAATCATTCATTTCTCAGAATGCTCATTGAACCACTTGGAA
196 CCTAATTCGGATACACATCTCATATAATCATTCATTTCTCAGAATGCTCATTGAACCACTTAGAA
**
134486142 TCATAAGGATACGCGGATAGCTCGGAAAGCTCGTACAATGCCAACGTCCCAGACGTGGTCTTACA
261 TCATAAGGATACGCGGATAGCTCAAAAAGCTCGTACAATGCCAACGTCCCAGACGTGGTCTTACA
134486207 TGTAA
326 TGTAA
134486212 TCAAA
1 TCAAA
134486217 TATCGATGCC
Statistics
Matches: 328, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
329 309 0.94
330 19 0.06
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (330 bp):
TCAAAACATGAAAGCATTATTTAAATTAAATATACTCCACGGCCAAATACTATCCCAAAATACAT
AGTTCATATACATTTCACATAATCCAATTCATTTACACATATAGCATATTTTCTCATACTTATAA
CTCATATCATCACTTGTACATATACGTACCTTTTATTTTCAAACATAGTATACATTTCGAACGTA
CCTAATTCGGATACACATCTCATATAATCATTCATTTCTCAGAATGCTCATTGAACCACTTAGAA
TCATAAGGATACGCGGATAGCTCAAAAAGCTCGTACAATGCCAACGTCCCAGACGTGGTCTTACA
TGTAA
Found at i:134486249 original size:43 final size:42
Alignment explanation
Indices: 134486187--134486311 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 42
134486177 CAATGCCAAC
* *
134486187 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACAG-GGTATTACACGTAATCAAATATCGATGCCA-T
* * *
134486230 GTCCTAGACAGGGTATTACACGAAATCAAATAT-GATGTCGAT
1 GTCCCAGACAGGGTATTACACGTAATCAAATATCGATG-CCAT
* *
134486272 GTCCCAGACATGGTCTTACACGTAAATCATAA-ATCGATGC
1 GTCCCAGACAGGGTATTACACGT-AATCA-AATATCGATGC
134486312 TAACGTCCCA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
42 24 0.35
43 37 0.54
44 7 0.10
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTATTACACGTAATCAAATATCGATGCCAT
Found at i:134487496 original size:27 final size:27
Alignment explanation
Indices: 134487474--134487657 Score: 262
Period size: 27 Copynumber: 6.8 Consensus size: 27
134487464 CAATTTGTAG
*
134487474 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTATAA
* *
134487501 AATTACCGTTTCACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
134487528 AATTATCGCTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* *
134487555 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
*
134487582 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAA
*
134487609 AATTACCATTTTACCCTC-AGTTTATAA
1 AATTACCGTTTTACCCTCGA-TTTATAA
134487636 AATTACCGTTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
134487658 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTATAA
Found at i:134487575 original size:81 final size:80
Alignment explanation
Indices: 134487461--134487657 Score: 295
Period size: 81 Copynumber: 2.4 Consensus size: 80
134487451 TACTGAAATG
*
134487461 CCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTAC
1 CCTC-ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTAC
* *
134487526 AAAATTATCGCTTTAC
65 AAAATTACCACTTTAC
* *
134487542 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 CCTC-ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTAC
*
134487607 AAAATTACCATTTTAC
65 AAAATTACCACTTTAC
* *
134487623 CCTCAGTTTATAAAATTACCGTTTTACCCTCGATT
1 CCTCA-TTTATAGAATTACCATTTTACCCTCGATT
134487658 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (80 bp):
CCTCATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCTCGATTTACA
AAATTACCACTTTAC
Found at i:134487679 original size:27 final size:26
Alignment explanation
Indices: 134487649--134487790 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 26
134487639 TACCGTTTTA
**
134487649 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
134487676 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCAAAATAC
*
134487703 CCCT-AGTTGTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCAAAATAC
* * *
134487729 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
134487755 CCCTAAATTTTTAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
*
134487783 CTCTGATT
1 CCCTGATT
134487791 TACAAAATTA
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.05
26 23 0.26
27 56 0.64
28 5 0.06
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:134487782 original size:54 final size:55
Alignment explanation
Indices: 134487712--134487867 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 55
134487702 CCCCTAGTTG
*** *
134487712 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTAAATTT-T
1 TAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTAAATTTCT
* * *
134487766 TAAAATTACCAAAATACCTCTGATTTACAAAATTACAGAAATACCCTTAACTTTCT
1 TAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCC-TAAATTTCT
* * * *
134487822 AAAAATTA-TAAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 TAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCT
134487868 TGGTTTGTAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 41 0.47
55 38 0.44
56 8 0.09
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (55 bp):
TAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAATACCCTAAATTTCT
Found at i:134487791 original size:27 final size:26
Alignment explanation
Indices: 134487689--134487812 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 26
134487679 TATAGGGTAG
*
134487689 AATTACCAAAATACCCCT-AGTTGTAA
1 AATTACCAAAATA-CCCTGATTTGTAA
* *
134487715 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGATTTGTAA
* * *
134487742 AATTACCGAAATACCCTAAATTTTTAA
1 AATTACCAAAATACCCT-GATTTGTAA
**
134487769 AATTACCAAAATACCTCTGATTTACAA
1 AATTACCAAAATACC-CTGATTTGTAA
134487796 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
134487813 TAACTTTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
25 2 0.02
26 21 0.26
27 56 0.69
28 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGTAA
Found at i:134487848 original size:55 final size:55
Alignment explanation
Indices: 134487713--134487868 Score: 183
Period size: 55 Copynumber: 2.9 Consensus size: 55
134487703 CCCTAGTTGT
* *** * *
134487713 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCC-TAAATTTTT
1 AAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTAAATTTTA
* *
134487767 AAAATTACCAAAATACC-TCTGATTTACAAAATTACAGAAATACCCTTAACTTTCTA
1 AAAATTACCAAAATACCAT-TGGTTTACAAAATTACAGAAATACCCTTAAATTT-TA
* *
134487823 AAAATTA-TAAAATACCATTGGTTTACAAAATTACTGAAATACCCTT
1 AAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTT
134487869 GGTTTGTAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
54 38 0.44
55 40 0.46
56 9 0.10
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (55 bp):
AAAATTACCAAAATACCATTGGTTTACAAAATTACAGAAATACCCTTAAATTTTA
Found at i:134487855 original size:26 final size:27
Alignment explanation
Indices: 134487767--134487873 Score: 78
Period size: 27 Copynumber: 3.9 Consensus size: 27
134487757 CTAAATTTTT
* *
134487767 AAAATTACCAAAATACC-TCTGATTTAC
1 AAAATTACTAAAATACCAT-TGGTTTAC
* **
134487794 AAAATTAC-AGAAATACCCTTAACTTT-C
1 AAAATTACTA-AAATACCATT-GGTTTAC
134487821 TAAAAATTA-TAAAATACCATTGGTTTAC
1 --AAAATTACTAAAATACCATTGGTTTAC
* *
134487849 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTAAAATACCATTGGTTT
134487874 GTAGATTTGC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
26 8 0.12
27 35 0.54
28 14 0.22
29 8 0.12
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCATTGGTTTAC
Found at i:134487991 original size:27 final size:27
Alignment explanation
Indices: 134487926--134487991 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
134487916 TACCCCTAAT
*
134487926 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
134487953 AGGTAAAGTGACCGTAATA-CCCTTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
134487980 TGGTAAAATGAC
1 AGGTAAAATGAC
134487992 GAATATGCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:134489052 original size:42 final size:42
Alignment explanation
Indices: 134488993--134489126 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
134488983 TAGTCTCCCC
134488993 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
134489035 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
134489077 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
134489119 AAATGGGC
1 AAATGGGC
134489127 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:134489185 original size:31 final size:31
Alignment explanation
Indices: 134489150--134489233 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
134489140 CGTTTACAGT
134489150 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
134489181 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
134489212 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
134489234 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:134497790 original size:45 final size:45
Alignment explanation
Indices: 134497726--134497816 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
134497716 GAATTATATA
* *
134497726 ATCTGAACTCATTGAGTTGTGGTGTGAG-TCTATGATAAATGTGAC
1 ATCTGAACTCATTAAGTTGTGGTCTGAGTTC-ATGATAAATGTGAC
* *
134497771 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCGTGATATATGTGAC
1 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATAAATGTGAC
134497816 A
1 A
134497817 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 39 0.95
46 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.36
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTGTGGTCTGAGTTCATGATAAATGTGAC
Found at i:134500656 original size:73 final size:73
Alignment explanation
Indices: 134500519--134500710 Score: 280
Period size: 73 Copynumber: 2.6 Consensus size: 73
134500509 CTTTATCATC
* * * * *
134500519 TAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGTAAAAGCCC-TTTTAATAATTGGGGCTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAA
134500582 GCCCTTTTGA
64 GCCCTTTTGA
134500592 TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGC
1 TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGC
*
134500657 CTTTTTGA
66 CCTTTTGA
* *
134500665 TAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
134500711 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
72 27 0.25
73 82 0.75
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (73 bp):
TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGC
CCTTTTGA
Found at i:134500711 original size:24 final size:24
Alignment explanation
Indices: 134500519--134500710 Score: 260
Period size: 24 Copynumber: 7.9 Consensus size: 24
134500509 CTTTATCATC
*
134500519 TAACTGGAGGCCT-AGCCTCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAA
* *
134500544 TAACTGGGGTAAAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
* * *
134500568 TAATTGGGGCTTAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTAA
134500592 TAACTGGGGCATAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
134500616 TAACTGGGGCATAAGCCCTTTTTAA
1 TAACTGGGGCATAAGCCC-TTTTAA
* *
134500641 TAACTGGGGCATAAGCCTTTTTGA
1 TAACTGGGGCATAAGCCCTTTTAA
*
134500665 TAACTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTAA
*
134500689 TAATTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
134500711 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
24 116 0.77
25 34 0.23
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAA
Found at i:134500781 original size:16 final size:16
Alignment explanation
Indices: 134500760--134500792 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
134500750 TTATGAATAC
134500760 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
*
134500776 ATCATGTGCATTTCAT
1 ATCATGTGCATATCAT
134500792 A
1 A
134500793 CATACCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (16 bp):
ATCATGTGCATATCAT
Found at i:134503555 original size:40 final size:40
Alignment explanation
Indices: 134503462--134503612 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
134503452 AATTGAATGA
* * *
134503462 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
134503502 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
* *
134503543 -ATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
134503582 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
134503613 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 77 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:134503626 original size:40 final size:40
Alignment explanation
Indices: 134503499--134503628 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
134503489 ATGCTGGAAA
* * * *
134503499 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * * **
134503539 CTACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
134503579 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
134503619 TTATATCCGG
1 TTATATCCGG
134503629 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:134509564 original size:40 final size:40
Alignment explanation
Indices: 134509519--134509647 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
134509509 CGGAATACAA
134509519 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
134509559 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
134509599 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
134509639 CC-GATATAA
1 CCGGATATAA
134509648 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 8 0.11
40 68 0.89
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:134515763 original size:40 final size:40
Alignment explanation
Indices: 134515704--134515872 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
134515694 CGGGACTTTA
* * *
134515704 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
134515744 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
134515784 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
134515824 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
134515864 CCCGGATAT
1 CCCGGATAT
134515873 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:134523115 original size:39 final size:40
Alignment explanation
Indices: 134522938--134523119 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
134522928 CCGCACCAAG
* * * * * * *
134522938 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
134522977 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
134523017 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
134523057 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
134523096 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
134523120 CATTCAATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 43 0.35
40 77 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:134524688 original size:40 final size:40
Alignment explanation
Indices: 134524582--134524765 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
134524572 TGCTGGAAAT
* * * * * **
134524582 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
134524622 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
134524662 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
134524700 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
134524741 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
134524766 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:134532131 original size:40 final size:40
Alignment explanation
Indices: 134532025--134532208 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
134532015 TGCTGGAAAT
* * * * * **
134532025 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
134532065 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
134532105 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
134532143 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
134532184 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
134532209 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:134537078 original size:19 final size:19
Alignment explanation
Indices: 134537056--134537095 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
134537046 TTGAACTTTT
* *
134537056 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
134537075 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
134537094 AT
1 AT
134537096 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:134538263 original size:31 final size:31
Alignment explanation
Indices: 134538226--134538287 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
134538216 GTCTGCCACA
134538226 ATATATAATTGTTGGTATGAAAGAATTTTTT
1 ATATATAATTGTTGGTATGAAAGAATTTTTT
134538257 ATATATAATTGTTGGTATGAAAGAATTTTTT
1 ATATATAATTGTTGGTATGAAAGAATTTTTT
134538288 TGTAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (31 bp):
ATATATAATTGTTGGTATGAAAGAATTTTTT
Found at i:134538831 original size:14 final size:14
Alignment explanation
Indices: 134538812--134538840 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
134538802 TTTTTTACTT
134538812 TGTTATATAGATTA
1 TGTTATATAGATTA
134538826 TGTTATATAGATTA
1 TGTTATATAGATTA
134538840 T
1 T
134538841 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:134538941 original size:21 final size:21
Alignment explanation
Indices: 134538917--134538957 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
134538907 AGATTGATTA
* *
134538917 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
134538938 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
134538958 ATCAGTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:134538989 original size:21 final size:21
Alignment explanation
Indices: 134538965--134539004 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
134538955 TTTATCAGTA
*
134538965 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
134538986 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
134539005 TTGAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:134539610 original size:11 final size:11
Alignment explanation
Indices: 134539594--134539618 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
134539584 CTTTATATAC
134539594 ATATACAATAA
1 ATATACAATAA
134539605 ATATACAATAA
1 ATATACAATAA
134539616 ATA
1 ATA
134539619 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:134540343 original size:13 final size:15
Alignment explanation
Indices: 134540308--134540346 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
134540298 TCTCTTTATC
134540308 TTATTTATATTCTATT
1 TTATTTAT-TTCTATT
134540324 TTATTTATTTCT-TT
1 TTATTTATTTCTATT
134540338 TT-TTTATTT
1 TTATTTATTT
134540347 ATCCATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTCTATT
Found at i:134541038 original size:18 final size:18
Alignment explanation
Indices: 134541012--134541053 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
134541002 GCATAAAAAT
* *
134541012 AAAGCAAATAAATAAACG
1 AAAGAAAATAAACAAACG
*
134541030 AAAGAAAATAAACAAATG
1 AAAGAAAATAAACAAACG
134541048 AAAGAA
1 AAAGAA
134541054 GGGGGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.07, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAGAAAATAAACAAACG
Found at i:134552778 original size:27 final size:27
Alignment explanation
Indices: 134552748--134552835 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
134552738 TATTTACTTG
134552748 AAAATGATCGAAATACCCCTAAAGGGT
1 AAAATGATCGAAATACCCCTAAAGGGT
* *
134552775 AAAATGATCGAAATACCCC-AGTAGGAT
1 AAAATGATCGAAATACCCCTA-AAGGGT
* *
134552802 AAAATGA-CTGTAATACCCCTGTAA-GGT
1 AAAATGATC-GAAATACCCCT-AAAGGGT
134552829 AAAATGA
1 AAAATGA
134552836 ATATTTTGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 2 0.04
27 48 0.94
28 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.20
Consensus pattern (27 bp):
AAAATGATCGAAATACCCCTAAAGGGT
Found at i:134552858 original size:27 final size:27
Alignment explanation
Indices: 134552826--134552957 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
134552816 ACCCCTGTAA
134552826 GGTAAAATGAATATTTTGCCCTTATGT
1 GGTAAAATGAATATTTTGCCCTTATGT
* * * * *
134552853 GATAAACTGACTATTTTTCCCTCATGT
1 GGTAAAATGAATATTTTGCCCTTATGT
*
134552880 GGTAAAATG-ATGGTTTTGCCCTTATGT
1 GGTAAAATGAAT-ATTTTGCCCTTATGT
* *
134552907 GGTAAAAT-AACTAATTTGCCCTTAGGT
1 GGTAAAATGAA-TATTTTGCCCTTATGT
* * *
134552934 GGTAAGATGACTGTTTTGCCCTTA
1 GGTAAAATGAATATTTTGCCCTTA
134552958 CATGATGTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
26 1 0.01
27 80 0.96
28 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAAAATGAATATTTTGCCCTTATGT
Found at i:134552884 original size:54 final size:54
Alignment explanation
Indices: 134552826--134552957 Score: 158
Period size: 54 Copynumber: 2.4 Consensus size: 54
134552816 ACCCCTGTAA
* * * * * *
134552826 GGTAAAATGAATATTTTGCCCTTATGTGATAAACTGACTATTTTTCCCTCATGT
1 GGTAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTAATTTGCCCTCAGGT
* *
134552880 GGTAAAATG-ATGGTTTTGCCCTTATGTGGTAAAATAACTAATTTGCCCTTAGGT
1 GGTAAAATGAAT-GTTTTGCCCTTATGTGATAAAATAACTAATTTGCCCTCAGGT
* *
134552934 GGTAAGATGACTGTTTTGCCCTTA
1 GGTAAAATGAATGTTTTGCCCTTA
134552958 CATGATGTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
53 2 0.03
54 63 0.95
55 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTAAAATGAATGTTTTGCCCTTATGTGATAAAATAACTAATTTGCCCTCAGGT
Found at i:134557348 original size:43 final size:43
Alignment explanation
Indices: 134557300--134557385 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
134557290 GATATATGTG
* * *
134557300 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCCCGTTGAGACGTCTGAGTTCATAATGGATGCGA
* * *
134557343 GCATCCGAGCCCTTTGAGTCGTCTGAGTTCATAATGGGTGCGA
1 GCATCCGAGCCCGTTGAGACGTCTGAGTTCATAATGGATGCGA
134557386 TACATGTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCCCGTTGAGACGTCTGAGTTCATAATGGATGCGA
Found at i:134557824 original size:13 final size:13
Alignment explanation
Indices: 134557806--134557848 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
134557796 GGTTTGAGTG
134557806 ATGAATAATCTTT
1 ATGAATAATCTTT
*
134557819 ATGAAT-ATGTTGCT
1 ATGAATAATCTT--T
134557833 ATGAATAATCTTT
1 ATGAATAATCTTT
134557846 ATG
1 ATG
134557849 TATATGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 7 0.28
15 4 0.16
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (13 bp):
ATGAATAATCTTT
Found at i:134557844 original size:27 final size:27
Alignment explanation
Indices: 134557806--134557862 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
134557796 GGTTTGAGTG
134557806 ATGAATAATCTTTATGAATATGTTGCT
1 ATGAATAATCTTTATGAATATGTTGCT
*
134557833 ATGAATAATCTTTATGTATATGTTGCT
1 ATGAATAATCTTTATGAATATGTTGCT
134557860 ATG
1 ATG
134557863 TCCTTGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (27 bp):
ATGAATAATCTTTATGAATATGTTGCT
Found at i:134566902 original size:40 final size:40
Alignment explanation
Indices: 134566800--134566943 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 40
134566790 ACAACCACAA
* * * *
134566800 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACCATTGCCTTCGGGTCTTAGCCCAGATTTAGTAACTT
134566840 GCACCATTGCCTTCGGGTCTTAGCCCAGATTTAGTAACTT
1 GCACCATTGCCTTCGGGTCTTAGCCCAGATTTAGTAACTT
* * * * ** *
134566880 GCACCATTGCCTTTGGGTCTTAGCTCGGATATAACAACTC
1 GCACCATTGCCTTCGGGTCTTAGCCCAGATTTAGTAACTT
* *
134566920 GCACGAATGCCTTCGGGTCTTAGC
1 GCACCATTGCCTTCGGGTCTTAGC
134566944 TCGGACATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (40 bp):
GCACCATTGCCTTCGGGTCTTAGCCCAGATTTAGTAACTT
Found at i:134566944 original size:40 final size:40
Alignment explanation
Indices: 134566784--134566991 Score: 157
Period size: 40 Copynumber: 5.2 Consensus size: 40
134566774 CGGGATTTAA
* * * * *
134566784 CCGGATACAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* *** * * *
134566824 CCGGATTTGGTAACTTGCACCATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * ** * * * *
134566864 CCAGATTTAGTAACTTGCACCATTGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
134566904 TCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
134566944 TCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGC
134566984 CCGGATAT
1 CCGGATAT
134566992 CATTCAAATG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
40 137 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:134577997 original size:19 final size:20
Alignment explanation
Indices: 134577973--134578013 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
134577963 ACGCGCAAAG
* *
134577973 TTTCCAA-AAAGTAAATGTT
1 TTTCCAAGAAAATAAATATT
134577992 TTTCCAAGAAAATAAATATT
1 TTTCCAAGAAAATAAATATT
134578012 TT
1 TT
134578014 AAGCAAACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (20 bp):
TTTCCAAGAAAATAAATATT
Found at i:134590549 original size:40 final size:40
Alignment explanation
Indices: 134590441--134590650 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
134590431 CGGGATTTAA
* * * * *
134590441 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
134590481 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
134590521 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
134590561 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
134590601 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
134590641 CCGGATATAT
1 CCGGATATAT
134590651 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:134595825 original size:43 final size:43
Alignment explanation
Indices: 134595764--134595909 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
134595754 AGATATCGTG
*
134595764 TAAGACCGTGTCTGGGACACAGGCCTCGATAATAATTTACGTA
1 TAAGACCATGTCTGGGACACAGGCCTCGATAATAATTTACGTA
* * *
134595807 TAAGACCATGTCTGGGACATC--GCCATTG-TATCTGATTT-CGTA
1 TAAGACCATGTCTGGGACA-CAGGCC-TCGATA-ATAATTTACGTA
* * * * * * *
134595849 TAAGACCCTGTCTGGGATAGAGGCATCGATATTGAA-TTACATG
1 TAAGACCATGTCTGGGACACAGGCCTCGATAAT-AATTTACGTA
134595892 TAAGACCATGTCTGGGAC
1 TAAGACCATGTCTGGGAC
134595910 GTCAGCATTG
Statistics
Matches: 80, Mismatches: 15, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
42 31 0.39
43 48 0.60
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACACAGGCCTCGATAATAATTTACGTA
Found at i:134599104 original size:50 final size:50
Alignment explanation
Indices: 134599045--134599185 Score: 230
Period size: 50 Copynumber: 2.8 Consensus size: 50
134599035 TTCAATATGA
* *
134599045 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATTTGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGT
134599095 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGT
* *
134599145 GAAT-CCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 G-ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
134599186 TTACTATGTG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
50 84 0.98
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGT
Found at i:134603635 original size:31 final size:31
Alignment explanation
Indices: 134603592--134603655 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
134603582 CCTTTTCATA
134603592 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* ***
134603623 TTTCATATTTCATATTGCTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
134603654 TT
1 TT
134603656 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:134604017 original size:24 final size:24
Alignment explanation
Indices: 134603863--134604016 Score: 263
Period size: 24 Copynumber: 6.4 Consensus size: 24
134603853 CTGGAGGCTT
* *
134603863 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTTATAACTGGGGCATA
*
134603888 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTTATAACTGGGGCATA
134603912 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTTATAACTGGGGCATA
134603936 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTTATAACTGGGGCATA
134603960 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTTATAACTGGGGCATA
*
134603984 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTTATAACTGGGGCATA
134604008 AGCCCTTTT
1 AGCCCTTTT
134604017 GCACTTCCTC
Statistics
Matches: 126, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
24 122 0.97
25 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTTATAACTGGGGCATA
Found at i:134604080 original size:11 final size:11
Alignment explanation
Indices: 134604065--134604120 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
134604055 TCATAAATAC
134604065 ATCATGTGCAT
1 ATCATGTGCAT
*
134604076 GTCAT-T-CAT
1 ATCATGTGCAT
134604085 ATCATGTGCAT
1 ATCATGTGCAT
*
134604096 ATCA--TACAT
1 ATCATGTGCAT
*
134604105 GTCATGTGCAT
1 ATCATGTGCAT
134604116 ATCAT
1 ATCAT
134604121 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:134604090 original size:20 final size:20
Alignment explanation
Indices: 134604065--134604131 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
134604055 TCATAAATAC
* *
134604065 ATCATGTGCATGTCATTCAT
1 ATCATGTGCATATCATACAT
134604085 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
134604105 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
134604125 ACCATGT
1 ATCATGT
134604132 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:134604196 original size:25 final size:25
Alignment explanation
Indices: 134604168--134604215 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
134604158 ATGTATAAAC
*
134604168 CCTAGGGGTATAAT-GGTCATTTTTA
1 CCTAGGGGCA-AATCGGTCATTTTTA
134604193 CCTAGGGGCAAATCGGTCATTTT
1 CCTAGGGGCAAATCGGTCATTTT
134604216 CATATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAATCGGTCATTTTTA
Found at i:134605125 original size:2 final size:2
Alignment explanation
Indices: 134605118--134605144 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
134605108 GAGACTAGTC
134605118 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
134605145 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:134606104 original size:29 final size:29
Alignment explanation
Indices: 134606062--134606119 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
134606052 TAACCTTACC
134606062 ACATCCTGGTCACTTAATGAACACATCAT
1 ACATCCTGGTCACTTAATGAACACATCAT
134606091 ACATCCTGGTCACTTAATGAACACATCAT
1 ACATCCTGGTCACTTAATGAACACATCAT
134606120 TCACATAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (29 bp):
ACATCCTGGTCACTTAATGAACACATCAT
Found at i:134607206 original size:30 final size:30
Alignment explanation
Indices: 134607172--134607232 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
134607162 TCCTTAACTC
134607172 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
134607202 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
134607232 A
1 A
134607233 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:134610572 original size:29 final size:29
Alignment explanation
Indices: 134610532--134610589 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
134610522 ATAACCTTAC
134610532 CACATCCTGGTCACTTAATGAACACATCA
1 CACATCCTGGTCACTTAATGAACACATCA
134610561 CACATCCTGGTCACTTAATGAACACATCA
1 CACATCCTGGTCACTTAATGAACACATCA
134610590 TTCACATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (29 bp):
CACATCCTGGTCACTTAATGAACACATCA
Found at i:134613436 original size:18 final size:17
Alignment explanation
Indices: 134613409--134613442 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
134613399 TAGGGAAGAA
134613409 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
134613426 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
134613443 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:134617703 original size:13 final size:13
Alignment explanation
Indices: 134617668--134617702 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
134617658 TTCGAAACAG
*
134617668 AGAAGGAAAAGAA
1 AGAAAGAAAAGAA
134617681 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
134617694 A-AAAGAAAA
1 AGAAAGAAAA
134617703 ATTAAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:134622836 original size:54 final size:54
Alignment explanation
Indices: 134622747--134622852 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
134622737 ACCCCTGGTT
* * *
134622747 TGTAAAATTACCAAAATACCCCAGATTTGTGAAATTACTGAAA-TACCCTCGACC
1 TGTAAAATTACCAAAATACCCCAGACTTGTAAAATTAC-CAAAGTACCCTCGACC
** *
134622801 TGTAAAATTACTGAAATACCATC-GACTTGTAAAATTACCAAAGTACCCTCGA
1 TGTAAAATTACCAAAATACC-CCAGACTTGTAAAATTACCAAAGTACCCTCGA
134622853 TTTATAGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 40 0.91
55 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (54 bp):
TGTAAAATTACCAAAATACCCCAGACTTGTAAAATTACCAAAGTACCCTCGACC
Found at i:134622852 original size:27 final size:27
Alignment explanation
Indices: 134622719--134622852 Score: 114
Period size: 27 Copynumber: 5.0 Consensus size: 27
134622709 AGTGGATAAG
* * **
134622719 TTGTAGAATTACTAAAATACCC-CTGGT
1 TTGTAAAATTACTCAAATACCCTC-GAC
*
134622746 TTGTAAAATTAC-CAAAATACCC-CAGAT
1 TTGTAAAATTACTC-AAATACCCTC-GAC
* *
134622773 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTCAAATACCCTCGAC
* * *
134622800 CTGTAAAATTACTGAAATACCATCGAC
1 TTGTAAAATTACTCAAATACCCTCGAC
134622827 TTGTAAAATTAC-CAAAGTACCCTCGA
1 TTGTAAAATTACTCAAA-TACCCTCGA
134622853 TTTATAGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.03
27 86 0.96
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACTCAAATACCCTCGAC
Found at i:134622917 original size:27 final size:27
Alignment explanation
Indices: 134622887--134622940 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
134622877 TAATTTACAA
*
134622887 AATTACAGAAATACCCTTGTAAGGTAG
1 AATTACAGAAATACCCCTGTAAGGTAG
* * *
134622914 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACAGAAATACCCCTGTAAGGTAG
134622941 GACTACCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGTAAGGTAG
Found at i:134622947 original size:27 final size:27
Alignment explanation
Indices: 134622896--134622948 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
134622886 AAATTACAGA
* *
134622896 AATACCCTTGTAAGGTAGAATTACCGG
1 AATACCCCTGTAAGGTAGAACTACCGG
* *
134622923 AATACCCCTGTAGGGTAGGACTACCG
1 AATACCCCTGTAAGGTAGAACTACCG
134622949 ATTTACCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAAGGTAGAACTACCGG
Found at i:134623643 original size:27 final size:26
Alignment explanation
Indices: 134623599--134623650 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
134623589 CCTCGTGCAA
*
134623599 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
134623626 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
134623651 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:134623698 original size:2 final size:2
Alignment explanation
Indices: 134623693--134623718 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
134623683 ACACACACAC
134623693 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
134623719 TTCGTCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134623776 original size:84 final size:84
Alignment explanation
Indices: 134623635--134623802 Score: 282
Period size: 84 Copynumber: 2.0 Consensus size: 84
134623625 TTCTGGTGAC
* * *
134623635 TTCGTCACAATATCTGGCAGCCTCGCTGCAATCTGGTGGCTTCACCACACACACACACATATATA
1 TTCGTCACAATATCTGGCAGCCTCGCTGCAATCTGGTGGCTTCACCACACACACACACACACACA
* *
134623700 TATATATATATATATATAT
66 CACATATATATATATATAT
*
134623719 TTCGTCACAATATCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACACACACACACACACACA
1 TTCGTCACAATATCTGGCAGCCTCGCTGCAATCTGGTGGCTTCACCACACACACACACACACACA
134623784 CACATATATATATATATAT
66 CACATATATATATATATAT
134623803 ATATATATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (84 bp):
TTCGTCACAATATCTGGCAGCCTCGCTGCAATCTGGTGGCTTCACCACACACACACACACACACA
CACATATATATATATATAT
Found at i:134623792 original size:2 final size:2
Alignment explanation
Indices: 134623787--134623820 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
134623777 ACACACACAC
134623787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134623821 CTGTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134623869 original size:27 final size:26
Alignment explanation
Indices: 134623817--134623876 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
134623807 ATATATATAT
*
134623817 ATATCTGTTCTGGTGGCGTAGCCACA
1 ATATCTGTTCTGGTGACGTAGCCACA
*
134623843 ATATCTGTATCTGGTGAC-TACGTCACA
1 ATATCTGT-TCTGGTGACGTA-GCCACA
134623870 ATATCTG
1 ATATCTG
134623877 GCAGCATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACGTAGCCACA
Found at i:134629171 original size:27 final size:27
Alignment explanation
Indices: 134629133--134629266 Score: 137
Period size: 27 Copynumber: 5.0 Consensus size: 27
134629123 AGTGGATAAG
* * **
134629133 TTGTAGAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACTAAAATACCCTCGAC
* *
134629160 TTGTAAAATTACCAAAATACCC-CTGAT
1 TTGTAAAATTACTAAAATACCCTC-GAC
* *
134629187 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTAAAATACCCTCGAC
* *
134629214 TTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTACTAAAATACCCTCGAC
*
134629241 TTGTAAAATTA-TCAAAGTACCCTCGA
1 TTGTAAAATTACT-AAAATACCCTCGA
134629267 TTTACAGAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 90 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTCGAC
Found at i:134629315 original size:27 final size:27
Alignment explanation
Indices: 134629192--134629315 Score: 81
Period size: 27 Copynumber: 4.6 Consensus size: 27
134629182 CTGATTTGTG
* **
134629192 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACAGAAATACCCTCGACTTACA
** **
134629219 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACAGAAATACCCTCGACTTACA
* *
134629246 AAATTATCA-AAGTACCCTCGATTTACA
1 AAATTA-CAGAAATACCCTCGACTTACA
* *** * *
134629273 GAATTATC-GTTTTACCCTCAATTTACA
1 AAATTA-CAGAAATACCCTCGACTTACA
134629300 AAATTACAGAAATACC
1 AAATTACAGAAATACC
134629316 TTTGTAAGGT
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTCGACTTACA
Found at i:134630148 original size:27 final size:26
Alignment explanation
Indices: 134630096--134630155 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
134630086 ATATATATAT
*
134630096 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
134630122 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
134630149 ATATCTG
1 ATATCTG
134630156 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:134638610 original size:80 final size:80
Alignment explanation
Indices: 134638526--134638674 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
134638516 TATGGTAACC
* * * *
134638526 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
134638590 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
134638606 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
134638671 CCGG
66 CCGG
134638675 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:134638616 original size:40 final size:38
Alignment explanation
Indices: 134638567--134638674 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
134638557 ATCACGATTT
*
134638567 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
134638607 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
134638647 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
134638675 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:134642387 original size:29 final size:29
Alignment explanation
Indices: 134642355--134642457 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
134642345 GTGACGAGAT
* *
134642355 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
134642384 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
134642413 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
134642442 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
134642458 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:134650322 original size:29 final size:29
Alignment explanation
Indices: 134650290--134650392 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
134650280 GTGACGAGAT
* *
134650290 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
134650319 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
134650348 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
134650377 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
134650393 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:134653425 original size:40 final size:40
Alignment explanation
Indices: 134653366--134653573 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
134653356 CAATTGAATG
* * * *
134653366 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
134653406 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
134653446 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
134653486 AAATCCGGTCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * **
134653526 CTATCTGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
134653566 ATATCCGG
1 ATATCCGG
134653574 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:134653504 original size:80 final size:79
Alignment explanation
Indices: 134653367--134653575 Score: 226
Period size: 80 Copynumber: 2.6 Consensus size: 79
134653357 AATTGAATGA
* * ** * *
134653367 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCC-GGTTAAGACCCGAAGG-CA
*
134653432 -TTGTGCTAGT-G-AC
64 TTTGTGCAAGTCGTAC
* * *
134653445 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGTCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGT-TAAGACCCGAAGGC
*
134653510 ATTTGTGCAAGTCGTTC
63 ATTTGTGCAAGTCGTAC
* * *
134653527 TATCTGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGGTT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGTT
134653576 GTATTCCGAA
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 6 0.05
80 100 0.91
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGTTAAGACCCGAAGGCATT
TGTGCAAGTCGTAC
Found at i:134655510 original size:17 final size:17
Alignment explanation
Indices: 134655484--134655519 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
134655474 GAGCTTGATA
134655484 GGCCACACGGGCGTGTG
1 GGCCACACGGGCGTGTG
*
134655501 GGCCATACGGGCGTGTG
1 GGCCACACGGGCGTGTG
134655518 GG
1 GG
134655520 ACTACTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.25, G:0.50, T:0.14
Consensus pattern (17 bp):
GGCCACACGGGCGTGTG
Found at i:134655877 original size:26 final size:26
Alignment explanation
Indices: 134655841--134655891 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
134655831 TTCGCCACAT
*
134655841 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCCTTGCTGCG
*
134655867 ATACTGTTACTGGCAGCCTTGCTGC
1 ATACTGATACTGGCAGCCTTGCTGC
134655892 AATATTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (26 bp):
ATACTGATACTGGCAGCCTTGCTGCG
Found at i:134658802 original size:29 final size:28
Alignment explanation
Indices: 134658770--134658876 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 28
134658760 ATAATATGAT
134658770 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* * *
134658799 TTGGGCCTATTGGGCTATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* *
134658828 CTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
* *
134658856 TTGGGCCTAGTCGGCCATATG
1 TTGGGCCTAATGGGCCATATG
134658877 CATGTATGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.02
28 18 0.29
29 43 0.69
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:134659946 original size:17 final size:18
Alignment explanation
Indices: 134659913--134659947 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
134659903 TGTGTAAGAA
134659913 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
134659931 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
134659948 TTCAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:134672713 original size:19 final size:20
Alignment explanation
Indices: 134672681--134672719 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
134672671 TATGACAACG
134672681 AATGATATGAATG-TATATA
1 AATGATATGAATGTTATATA
134672700 AATGA-ATGATATGTTATATA
1 AATGATATGA-ATGTTATATA
134672720 TGCTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGATATGAATGTTATATA
Found at i:134677476 original size:66 final size:68
Alignment explanation
Indices: 134677400--134677586 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
134677390 TAGTACCACT
*
134677400 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
134677462 CACG
65 CACG
134677466 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
134677531 ATCACG
63 ATCACG
134677537 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
134677587 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:134677511 original size:71 final size:71
Alignment explanation
Indices: 134677423--134677586 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
134677413 CGATTTGTCT
134677423 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
134677488 CTTTCA
66 CTTTCA
134677494 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
134677559 CTTTCA
66 CTTTCA
134677565 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
134677587 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:134677624 original size:71 final size:70
Alignment explanation
Indices: 134677423--134677620 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
134677413 CGATTTGTCT
* * *
134677423 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
134677488 CTTTCA
65 CTTTCA
* * *
134677494 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
134677559 CTTTCA
65 CTTTCA
* *
134677565 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
134677621 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:134685045 original size:66 final size:68
Alignment explanation
Indices: 134684969--134685155 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
134684959 TAGTACCACT
*
134684969 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
134685031 CACG
65 CACG
134685035 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
134685100 ATCACG
63 ATCACG
134685106 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
134685156 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:134685080 original size:71 final size:71
Alignment explanation
Indices: 134684992--134685155 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
134684982 CGATTTGTCT
134684992 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
134685057 CTTTCA
66 CTTTCA
134685063 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
134685128 CTTTCA
66 CTTTCA
134685134 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
134685156 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:134685193 original size:71 final size:70
Alignment explanation
Indices: 134684992--134685189 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
134684982 CGATTTGTCT
* * *
134684992 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
134685057 CTTTCA
65 CTTTCA
* * *
134685063 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
134685128 CTTTCA
65 CTTTCA
* *
134685134 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
134685190 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:134690444 original size:39 final size:39
Alignment explanation
Indices: 134690397--134690493 Score: 142
Period size: 38 Copynumber: 2.5 Consensus size: 39
134690387 GGACTAGGAT
*
134690397 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
* * * *
134690436 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGT
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
134690474 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
134690494 CGCTATAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 33 0.65
39 18 0.35
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
Found at i:134690467 original size:38 final size:39
Alignment explanation
Indices: 134690345--134690524 Score: 168
Period size: 40 Copynumber: 4.6 Consensus size: 39
134690335 TCGAATGATG
* * *
134690345 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
134690384 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCAAGTTACTAAA
*
134690424 TCCGGGCTAAGCCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
134690462 CCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTTACTA-AA
**
134690502 T-CGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
134690525 TGAGCGAGTT
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
38 33 0.29
39 37 0.32
40 38 0.33
41 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:134698438 original size:79 final size:82
Alignment explanation
Indices: 134698298--134698482 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
134698288 TCGAATGATG
* * *
134698298 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
134698362 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
134698378 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
134698440 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
134698458 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
134698483 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:134698490 original size:40 final size:40
Alignment explanation
Indices: 134698299--134698490 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
134698289 CGAATGATGT
* * * * *
134698299 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
134698339 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
134698379 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
134698418 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
134698458 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
134698491 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:134698513 original size:79 final size:79
Alignment explanation
Indices: 134698298--134698515 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
134698288 TCGAATGATG
* * * * ** *
134698298 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
134698361 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
134698378 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
134698443 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
134698458 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
134698516 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:134702839 original size:24 final size:24
Alignment explanation
Indices: 134702798--134702919 Score: 150
Period size: 24 Copynumber: 5.2 Consensus size: 24
134702788 CATGAAATTC
134702798 TTATCATGAAACATTTACCTAACCA
1 TTATCATG-AACATTTACCTAACCA
134702823 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAA-CCA
* *
134702848 TTATCATGGA-ATTTACCTAA-TA
1 TTATCATGAACATTTACCTAACCA
134702870 TTATCATG--CA-TTA-CTAACCA
1 TTATCATGAACATTTACCTAACCA
134702890 TTATCATGGAACATTTACCTAACC-
1 TTATCAT-GAACATTTACCTAACCA
134702914 TTATCA
1 TTATCA
134702920 ATTTGTATCA
Statistics
Matches: 86, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.05
20 11 0.13
21 2 0.02
22 9 0.10
23 2 0.02
24 32 0.37
25 26 0.30
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (24 bp):
TTATCATGAACATTTACCTAACCA
Found at i:134707717 original size:12 final size:12
Alignment explanation
Indices: 134707700--134707730 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
134707690 AGTACTACCT
134707700 CGGCCTCGACCA
1 CGGCCTCGACCA
134707712 CGGCCTCGACCA
1 CGGCCTCGACCA
134707724 CGGCCTC
1 CGGCCTC
134707731 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:134709089 original size:64 final size:64
Alignment explanation
Indices: 134709016--134709226 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
134709006 CTGGGCCAGA
*
134709016 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
134709080 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
134709142 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
134709153 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
134709217 GCCCATTTCA
1 GCCCATTTCA
134709227 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:134709228 original size:137 final size:137
Alignment explanation
Indices: 134708982--134709268 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
134708972 CATTGGGCCT
**
134708982 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
134709047 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
134709112 CATATGC
131 CATATGC
134709119 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
134709184 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
134709249 CATATGC
131 CATATGC
134709256 AAGCCCATTTGGG
1 AAGCCCATTTGGG
134709269 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:134711080 original size:26 final size:25
Alignment explanation
Indices: 134711044--134711179 Score: 200
Period size: 26 Copynumber: 5.2 Consensus size: 25
134711034 CATGAAATTC
134711044 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
134711070 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
134711096 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
*
134711122 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
134711148 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
134711174 TTATCA
1 TTATCA
134711180 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.04
26 94 0.93
27 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:134711125 original size:52 final size:52
Alignment explanation
Indices: 134711044--134711179 Score: 238
Period size: 52 Copynumber: 2.6 Consensus size: 52
134711034 CATGAAATTC
*
134711044 TTATCATGAAACATTTACCTAA-CTCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCT-ATTATCATGAAACATTTACCTAACCCA
*
134711096 TTATCATGGAACATTTACCTAACCTATTATCATGAAGCATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
134711148 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
134711180 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
52 79 0.98
53 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:134713475 original size:21 final size:21
Alignment explanation
Indices: 134713451--134713490 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
134713441 AAATTAATTC
*
134713451 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
134713472 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
134713491 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:134714791 original size:20 final size:20
Alignment explanation
Indices: 134714766--134714803 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
134714756 GTTTATTCGC
*
134714766 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
134714786 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
134714804 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:134716464 original size:28 final size:28
Alignment explanation
Indices: 134716432--134716500 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
134716422 GCGTAGATCA
134716432 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
134716460 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
134716488 CGATA-TACCCCTA
1 CGAAATTACCCCTA
134716501 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:134722799 original size:20 final size:20
Alignment explanation
Indices: 134722774--134722811 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
134722764 GTTTATTCGC
*
134722774 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
134722794 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
134722812 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:134724472 original size:28 final size:28
Alignment explanation
Indices: 134724440--134724508 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
134724430 GCGTAGATCA
134724440 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
134724468 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
134724496 CGATA-TACCCCTA
1 CGAAATTACCCCTA
134724509 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:134729984 original size:25 final size:25
Alignment explanation
Indices: 134729949--134730000 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
134729939 TTTCTAGCTA
134729949 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
134729974 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
134729999 AT
1 AT
134730001 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:134730200 original size:36 final size:38
Alignment explanation
Indices: 134730159--134730230 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 38
134730149 CTTCAAATAC
* *
134730159 TAGTTAACTCCTAAACC-G-TAAATCTTAAACCATATA
1 TAGTTAACTCATAAACCTGCTAAATCCTAAACCATATA
134730195 TAGTTAACTCATAAACCTGCTTAAATCCTAAACCAT
1 TAGTTAACTCATAAACCTGC-TAAATCCTAAACCAT
134730231 TTATCTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 16 0.52
37 1 0.03
39 14 0.45
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.31
Consensus pattern (38 bp):
TAGTTAACTCATAAACCTGCTAAATCCTAAACCATATA
Found at i:134730469 original size:41 final size:41
Alignment explanation
Indices: 134730412--134730712 Score: 433
Period size: 41 Copynumber: 7.4 Consensus size: 41
134730402 GGTTTATGAC
* * *
134730412 TTTTAGCTGCGTTTTACCAAAAGCGCCACTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
134730453 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
* *
134730494 TTTTAGCGGCGTTTAACCCACAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
134730535 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
* * *
134730576 TTTTAGCGGCGTTTTACCTAAAGGGCCGCTAATGATCTGGG
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
* * *
134730617 TTTTACCGGCATTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
* * ** ** *
134730658 TTTTAGCGGTGTTTTACCTAAAGTTCCGCTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
134730698 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
134730713 TTACTAAAAC
Statistics
Matches: 237, Mismatches: 23, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
40 15 0.06
41 222 0.94
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
Found at i:134734609 original size:26 final size:26
Alignment explanation
Indices: 134734576--134734683 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
134734566 TGATACAAAT
134734576 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
134734602 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
134734628 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
134734654 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
134734680 TGAT
1 TGAT
134734684 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:134739111 original size:23 final size:23
Alignment explanation
Indices: 134739080--134739126 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
134739070 ATGCCAAATG
* *
134739080 CCTTTTAGAAATTGCTGACTAGA
1 CCTTCTAGAAATTACTGACTAGA
*
134739103 CCTTCTAGAAATTACTGATTAGA
1 CCTTCTAGAAATTACTGACTAGA
134739126 C
1 C
134739127 GCCACGTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (23 bp):
CCTTCTAGAAATTACTGACTAGA
Found at i:134746829 original size:28 final size:28
Alignment explanation
Indices: 134746762--134746821 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
134746752 GGTTTGTTTG
* *
134746762 AAGTAAAGT-AAATGATTGAAATTAAAC
1 AAGTAAATTAAAAAGATTGAAATTAAAC
134746789 AAGTAAATTAAAAAGATTGAAATTGAAATC
1 AAGTAAATTAAAAAGATTGAAATT-AAA-C
134746819 AAG
1 AAG
134746822 AGATAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 13 0.46
29 3 0.11
30 4 0.14
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (28 bp):
AAGTAAATTAAAAAGATTGAAATTAAAC
Found at i:134750567 original size:25 final size:25
Alignment explanation
Indices: 134750539--134750586 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
134750529 TTATACTATG
* * *
134750539 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
134750564 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
134750587 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:134750689 original size:20 final size:20
Alignment explanation
Indices: 134750629--134750689 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
134750619 ATAAATATGG
*
134750629 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
134750649 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
134750669 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
134750689 T
1 T
134750690 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:134750765 original size:24 final size:24
Alignment explanation
Indices: 134750738--134750880 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
134750728 GGAGAAGTGA
134750738 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
134750762 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
134750786 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
134750809 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
134750833 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
134750857 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
134750881 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:134750831 original size:47 final size:47
Alignment explanation
Indices: 134750738--134750880 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
134750728 GGAGAAGTGA
134750738 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
134750786 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
134750833 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
134750881 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:134750854 original size:71 final size:72
Alignment explanation
Indices: 134750738--134750881 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
134750728 GGAGAAGTGA
*
134750738 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
134750801 CCAGTTAT
65 CCAGTTAT
** * *
134750809 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
134750874 CAGTTAT
66 CAGTTAT
134750881 A
1 A
134750882 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:134751107 original size:31 final size:31
Alignment explanation
Indices: 134751072--134751135 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
134751062 CGTTTACAGT
134751072 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
134751103 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
134751134 AA
1 AA
134751136 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:134757286 original size:25 final size:25
Alignment explanation
Indices: 134757258--134757305 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
134757248 CCTTATAATG
* * *
134757258 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
134757283 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
134757306 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:134757408 original size:20 final size:20
Alignment explanation
Indices: 134757348--134757408 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
134757338 ATAAATATGG
*
134757348 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
134757368 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
134757388 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
134757408 T
1 T
134757409 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:134757484 original size:24 final size:24
Alignment explanation
Indices: 134757457--134757599 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
134757447 GGAGGAAGTG
*
134757457 AAAAAGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
134757481 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
134757505 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
134757528 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
134757552 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
134757576 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
134757600 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:134757534 original size:47 final size:47
Alignment explanation
Indices: 134757457--134757599 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
134757447 GGAGGAAGTG
*
134757457 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
134757505 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
134757552 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
134757600 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.49
48 33 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:134757580 original size:71 final size:72
Alignment explanation
Indices: 134757457--134757600 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
134757447 GGAGGAAGTG
*
134757457 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
134757520 CCAGTTAT
65 CCAGTTAT
* ** * *
134757528 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
134757593 CAGTTAT
66 CAGTTAT
134757600 A
1 A
134757601 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAAGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:134757851 original size:30 final size:31
Alignment explanation
Indices: 134757791--134757853 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
134757781 CGTTTACAGT
134757791 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
134757822 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
134757852 AA
1 AA
134757854 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:134759915 original size:37 final size:37
Alignment explanation
Indices: 134759862--134759952 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
134759852 TATAAAAGAA
134759862 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
134759899 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
134759936 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
134759953 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:134760086 original size:40 final size:41
Alignment explanation
Indices: 134760042--134760177 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 41
134760032 CATATATTTT
134760042 ACATT-AGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
* * *
134760082 ACATTCA-CCACATCGGCCATTAGGC-C-T-TACATACACTTTC
1 ACATTCAGCCA-TTAGGCC-TTA-TCACATATACATACACTTTC
134760122 ACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATT-----CA---GCCATTAGGCCTTATCACATATACATACACTTTC
134760171 ACATTCA
1 ACATTCA
134760178 TCGCATTGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
40 26 0.35
41 7 0.09
42 4 0.05
43 1 0.01
44 2 0.03
45 2 0.03
46 1 0.01
47 4 0.05
48 6 0.08
49 21 0.28
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (41 bp):
ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
Done.