Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 80 of 185
Found at i:25091872 original size:42 final size:42
Alignment explanation
Indices: 25091794--25091897 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
25091784 AACCCTACTG
*
25091794 GGTTTCCGTTCAGCTCTTTTGACCTTCAGCTTAACCCTTATA
1 GGTTTCCGTTCAGCTCTTATGACCTTCAGCTTAACCCTTATA
* * *
25091836 GGTTTTCGTTCAGCTCTTATGAGCTTTC-G-TTCAACCCTTATG
1 GGTTTCCGTTCAGCTCTTATGA-CCTTCAGCTT-AACCCTTATA
* * *
25091878 GGTTTCTGTTTAGCACTTAT
1 GGTTTCCGTTCAGCTCTTAT
25091898 ATGCTTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 46 0.88
43 4 0.08
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
GGTTTCCGTTCAGCTCTTATGACCTTCAGCTTAACCCTTATA
Found at i:25092636 original size:13 final size:13
Alignment explanation
Indices: 25092618--25092642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25092608 TAAGTTATAT
25092618 GTGTGAAAATTTC
1 GTGTGAAAATTTC
25092631 GTGTGAAAATTT
1 GTGTGAAAATTT
25092643 GATAGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:25094342 original size:41 final size:41
Alignment explanation
Indices: 25094297--25094483 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
25094287 CGTTTAAAAC
* * * *
25094297 CTAGCAGGCTTAAG-GCCGGTGAAGTTATTTGGACTTTATGT
1 CTAGCAGGCTT-TGTGCCGGTGAAATAATTCGGACTTTATGT
*
25094338 CTAGCAGGCTTTGTGCCAGTGAAATAATTCGGACTTTATGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
25094379 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
* * * ** *
25094420 CTAACAGGCTTTGTGCTGGTGAAATAATTTGGACGATAAGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
*
25094461 CTAGCAGGCTAAT-TGCCGGTGAA
1 CTAGCAGGCT-TTGTGCCGGTGAA
25094484 TTGAATCGGG
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.98
42 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATGT
Found at i:25101823 original size:41 final size:41
Alignment explanation
Indices: 25101764--25101909 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 41
25101754 TGTTTAAAAC
* * *
25101764 CTAGCAGGCTTAAG-GCCGGTGAAGTTATTCAGACTTTATGT
1 CTAGCAGGCTT-TGTGCCGGTGAAATAATTCAGACTTTATGT
* *
25101805 CTAGCAGGTTTTGTGCCGGTGAAATAATTCGGACTTTATGT
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCAGACTTTATGT
* * * *
25101846 CTAGCAGGCTTTGTGCTGGTGAAATAATTCGGACGATAAT-T
1 CTAGCAGGCTTTGTGCCGGTGAAATAATTCAGAC-TTTATGT
*
25101887 CTAGCAGGCTAAT-TGCCGGTGAA
1 CTAGCAGGCT-TTGTGCCGGTGAA
25101910 TTGAATCGGG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.01
41 86 0.95
42 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTTGTGCCGGTGAAATAATTCAGACTTTATGT
Found at i:25104440 original size:15 final size:15
Alignment explanation
Indices: 25104420--25104448 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25104410 AGACCCCGAC
25104420 TAAGATAATATATTA
1 TAAGATAATATATTA
25104435 TAAGATAATATATT
1 TAAGATAATATATT
25104449 TTTTATGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
TAAGATAATATATTA
Found at i:25106615 original size:21 final size:23
Alignment explanation
Indices: 25106589--25106639 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
25106579 AATCAAATTG
* *
25106589 ACACACATAAAACACTGAATATA
1 ACACACACAAGACACTGAATATA
*
25106612 ACACACACAAGATACTGAATATA
1 ACACACACAAGACACTGAATATA
25106635 ACACA
1 ACACA
25106640 AATAGAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.16
Consensus pattern (23 bp):
ACACACACAAGACACTGAATATA
Found at i:25107817 original size:9 final size:9
Alignment explanation
Indices: 25107803--25107997 Score: 71
Period size: 10 Copynumber: 20.7 Consensus size: 9
25107793 ATATAAACTT
25107803 TAAAAATTA
1 TAAAAATTA
25107812 TAAAAATTTA
1 TAAAAA-TTA
*
25107822 TAAGAAATCA
1 TAA-AAATTA
*
25107832 TACAAACTTA
1 TA-AAAATTA
*
25107842 TAAATATTA
1 TAAAAATTA
25107851 TAAAAAATTA
1 T-AAAAATTA
25107861 T-AAAATCTA
1 TAAAAAT-TA
*
25107870 -ATAAATT-
1 TAAAAATTA
25107877 TAAAAAATTA
1 T-AAAAATTA
25107887 T-AAAATTGA
1 TAAAAATT-A
*
25107896 TAAAACATATT
1 TAAAA-AT-TA
* *
25107907 TAAAATTTTG
1 TAAAA-ATTA
*
25107917 TAAAAACTCA
1 TAAAAA-TTA
**
25107927 -AAAATAAAA
1 TAAAA-ATTA
*
25107936 TAATAAATTC
1 TAA-AAATTA
25107946 TAATAAATTA
1 TAA-AAATTA
25107956 TAAAAATATA
1 TAAAAAT-TA
*
25107966 TATAAA-TA
1 TAAAAATTA
*
25107974 CTAAAAAAT-
1 -TAAAAATTA
*
25107983 TAGAAATTA
1 TAAAAATTA
25107992 TAAAAA
1 TAAAAA
25107998 ATAAAGTCTT
Statistics
Matches: 139, Mismatches: 26, Indels: 42
0.67 0.13 0.20
Matches are distributed among these distances:
8 20 0.14
9 45 0.32
10 59 0.42
11 14 0.10
12 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:25107842 original size:20 final size:19
Alignment explanation
Indices: 25107797--25107891 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 19
25107787 AAATTGATAT
*
25107797 AAACTT-TAAAAATTATAA
1 AAACTTATAAAAATCATAA
* *
25107815 AAATTTATAAGAAATCATAC
1 AAACTTATAA-AAATCATAA
* *
25107835 AAACTTATAAATATTATAA
1 AAACTTATAAAAATCATAA
*
25107854 AAAATTAT-AAAATC-TAA
1 AAACTTATAAAAATCATAA
* *
25107871 TAAATTTA-AAAAATTATAA
1 -AAACTTATAAAAATCATAA
25107890 AA
1 AA
25107892 TTGATAAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 3 0.05
18 22 0.37
19 19 0.32
20 16 0.27
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (19 bp):
AAACTTATAAAAATCATAA
Found at i:25107858 original size:29 final size:29
Alignment explanation
Indices: 25107809--25107892 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
25107799 ACTTTAAAAA
* *
25107809 TTATAAAAATTTATAAGAAATCATACAAA-C
1 TTATAAATA-TTATAAAAAATCATA-AAATC
*
25107839 TTATAAATATTATAAAAAATTATAAAATC
1 TTATAAATATTATAAAAAATCATAAAATC
* *
25107868 TAAT-AA-ATT-TAAAAAATTATAAAAT
1 TTATAAATATTATAAAAAATCATAAAAT
25107893 TGATAAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.33
27 3 0.06
28 5 0.10
29 17 0.35
30 8 0.16
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.35
Consensus pattern (29 bp):
TTATAAATATTATAAAAAATCATAAAATC
Found at i:25107995 original size:17 final size:18
Alignment explanation
Indices: 25107950--25108000 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
25107940 AAATTCTAAT
*
25107950 AAATTATAAAAATATATAT
1 AAATTATAAAAA-ATATAG
25107969 AAA-TACTAAAAAAT-TAG
1 AAATTA-TAAAAAATATAG
25107986 AAATTATAAAAAATA
1 AAATTATAAAAAATA
25108001 AAGTCTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 13 0.46
18 6 0.21
19 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATTATAAAAAATATAG
Found at i:25108332 original size:19 final size:19
Alignment explanation
Indices: 25108308--25108380 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
25108298 AATCTTCAAG
25108308 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25108327 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
25108346 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25108365 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
25108381 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25118103 original size:15 final size:15
Alignment explanation
Indices: 25118083--25118116 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25118073 TTCAAAAAAA
25118083 AAAAGAGAAA-GAAAG
1 AAAAGA-AAACGAAAG
25118098 AAAAGAAAACGAAAG
1 AAAAGAAAACGAAAG
25118113 AAAA
1 AAAA
25118117 AGGAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAGAAAACGAAAG
Found at i:25118106 original size:22 final size:21
Alignment explanation
Indices: 25118088--25118133 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
25118078 AAAAAAAAAG
25118088 AGAAAGAAAGAAAAGAAAACGAA
1 AGAAA-AAAGAAAAGAAAAC-AA
*
25118111 AGAAAAAGGAAAAGAAAAGCAA
1 AGAAAAAAGAAAAGAAAA-CAA
25118133 A
1 A
25118134 AGGAGAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.74, C:0.04, G:0.22, T:0.00
Consensus pattern (21 bp):
AGAAAAAAGAAAAGAAAACAA
Found at i:25119573 original size:44 final size:44
Alignment explanation
Indices: 25119393--25119797 Score: 152
Period size: 44 Copynumber: 9.2 Consensus size: 44
25119383 AAGATTGTAG
* * *
25119393 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATAGCAA
* * **
25119437 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CACA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGATAGCA-A
* * * * * ** * * * * * *
25119481 GTCTTGTCTCTCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATAGCAA
**
25119525 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATAGCAA
* * ** *
25119569 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGATAGCAA
** * * * * * * * * *
25119613 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATAGCAA
* * * * *
25119657 ATCTTATCTCCGTAAGTAGTAGTGGAGCAGATCAAAGATGGAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATAGCAA
* *
25119701 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-TCA-CAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGAT-AGCAA
* * * * *
25119744 ATCATTGTCTCTCTGAGCAGTAGTGGAGTAGATCAAAGATTA-CAA
1 ATC-TTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGA-TAGCAA
25119789 ATCTTATCT
1 ATCTTATCT
25119798 TTCCAAGATA
Statistics
Matches: 251, Mismatches: 86, Indels: 48
0.65 0.22 0.12
Matches are distributed among these distances:
42 12 0.05
43 24 0.10
44 182 0.73
45 25 0.10
46 8 0.03
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATAGCAA
Found at i:25119588 original size:132 final size:132
Alignment explanation
Indices: 25119351--25119763 Score: 668
Period size: 132 Copynumber: 3.1 Consensus size: 132
25119341 AACACCAAGC
25119351 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
*
25119416 GGAGCAAATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACACA
66 GGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACACA
25119481 GT
131 GT
* *
25119483 CTTGTCTCTCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
25119548 GGAGCAGATCGAAGATAGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC-CA
66 GGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACAC-
*
25119612 AGC
130 AGT
* * * *
25119615 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGATTGTAGATCTTATCTCCGTAAGTAGTAGT
1 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
25119680 GGAGCAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGTCACA-A
66 GGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACACA
*
25119744 AT
131 GT
*
25119746 CATTGTCTCTCTGAGCAG
1 C-TTGTCTCCCTGAGCAG
25119764 TAGTGGAGTA
Statistics
Matches: 259, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
131 3 0.01
132 256 0.99
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACACA
GT
Found at i:25119814 original size:220 final size:220
Alignment explanation
Indices: 25119528--25119994 Score: 677
Period size: 220 Copynumber: 2.1 Consensus size: 220
25119518 ATTGTAGATC
* * * *
25119528 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTTCCAAGATAGTGGG
1 TTATCTCACTGAGCAGTAGTGGAGTAGATCAAAGATAGCAAATCTTATCTTTCCAAGATAGTGGG
* * *
25119593 AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGATTGTAGA
66 AAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAGA
* * **
25119658 TCTTATCTCCGTAAGTAGTAGTGGAGCAGATCAAAGAT-GGAAAATCTTATCTTTCCAAGATAGT
131 TCTTATCTCCCTAAGCAGTAGTAAAGCAGATCAAAG-TCGGAAAATCTTATCTTTCCAAGATAGT
* * *
25119722 GGGAAGCAGATTTAAGTCACAAATCA
195 AGGAAGCAGATTTAAGCCACAAAGCA
* *
25119748 TTGTCTCTCTGAGCAGTAGTGGAGTAGATCAAAGATTA-CAAATCTTATCTTTCCAAGATAGTGG
1 TTATCTCACTGAGCAGTAGTGGAGTAGATCAAAGA-TAGCAAATCTTATCTTTCCAAGATAGTGG
* * *
25119812 GAAGTAGATTTAAGCCACAAAGCCTTGTCTCTCTGAGCAGCAGCGAAGAAGGTTGAAGATTGTAG
65 GAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAG
* *
25119877 ATCTTATTTCCCTAAGCAGTAGTAAAGCAGATCAAAGTCGGCAAATCTTATCTTTCCAAGATAGT
130 ATCTTATCTCCCTAAGCAGTAGTAAAGCAGATCAAAGTCGGAAAATCTTATCTTTCCAAGATAGT
* *
25119942 AGGAAGCAGATTTAAGCCACCAAGCC
195 AGGAAGCAGATTTAAGCCACAAAGCA
* *
25119968 TTATCTCACTGAGCAGCAGCGGAGTAG
1 TTATCTCACTGAGCAGTAGTGGAGTAG
25119995 GTCGAAGTTG
Statistics
Matches: 219, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
219 1 0.00
220 216 0.99
221 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (220 bp):
TTATCTCACTGAGCAGTAGTGGAGTAGATCAAAGATAGCAAATCTTATCTTTCCAAGATAGTGGG
AAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTAAAGATTGTAGA
TCTTATCTCCCTAAGCAGTAGTAAAGCAGATCAAAGTCGGAAAATCTTATCTTTCCAAGATAGTA
GGAAGCAGATTTAAGCCACAAAGCA
Found at i:25119820 original size:44 final size:44
Alignment explanation
Indices: 25119685--25119820 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 44
25119675 GTAGTGGAGC
* *
25119685 AGATCAAAGATGGA-AAATCTTATCTTTCCAAGATAGTGGGAAGC
1 AGATCAAAGAT-CACAAATCTTATCTTTCCAAGATAGTGGGAAGT
** * * **
25119729 AGATTTAAG-TCACAAATCATTGTCTCTCTGAGCAGTAGT-GG-AGT
1 AGATCAAAGATCACAAATC-TTATCTTTCCAAG-A-TAGTGGGAAGT
*
25119773 AGATCAAAGATTACAAATCTTATCTTTCCAAGATAGTGGGAAGT
1 AGATCAAAGATCACAAATCTTATCTTTCCAAGATAGTGGGAAGT
25119817 AGAT
1 AGAT
25119821 TTAAGCCACA
Statistics
Matches: 70, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
42 5 0.07
43 9 0.13
44 41 0.59
45 11 0.16
46 4 0.06
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATCAAAGATCACAAATCTTATCTTTCCAAGATAGTGGGAAGT
Found at i:25119823 original size:88 final size:88
Alignment explanation
Indices: 25119674--25119851 Score: 286
Period size: 88 Copynumber: 2.0 Consensus size: 88
25119664 CTCCGTAAGT
*
25119674 AGTAGTGGAGCAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGT
1 AGTAGTGGAGCAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
*
25119739 CACAAATCATTGTCTCTCTGAGC
66 CACAAAGCATTGTCTCTCTGAGC
* * *
25119762 AGTAGTGGAGTAGATCAAAGAT-TACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAG
1 AGTAGTGGAGCAGATCAAAGATGGA-AAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
25119826 CCACAAAGCCTTGTCTCTCTGAGC
65 CCACAAAGCATTGTCTCTCTGAGC
25119850 AG
1 AG
25119852 CAGCGAAGAA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
87 1 0.01
88 82 0.99
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (88 bp):
AGTAGTGGAGCAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
CACAAAGCATTGTCTCTCTGAGC
Found at i:25120170 original size:44 final size:44
Alignment explanation
Indices: 25120073--25120233 Score: 129
Period size: 44 Copynumber: 3.8 Consensus size: 44
25120063 GAAGATGGCA
* * **
25120073 AATCTTATCTCCCCGAAGTTGCAGTGGAGCAGATTAGAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAGAAACGAT
* *
25120117 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCA-AAAC-ATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAGAAACGA-T
* * * *
25120160 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC-G---CGTCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAGAAACG-AT
* * *
25120201 AGTCTTATTTCCCTAAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
25120234 CTAAGTAAAC
Statistics
Matches: 93, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
40 20 0.22
41 8 0.09
42 1 0.01
43 11 0.12
44 53 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAGAAACGAT
Found at i:25120542 original size:17 final size:17
Alignment explanation
Indices: 25120520--25120571 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
25120510 ATGGAAACAT
* *
25120520 AATCTTCGAGGATATGC
1 AATCTTAGAAGATATGC
25120537 AATCTTAGATATGATATGC
1 AATCTTAGA-A-GATATGC
25120556 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
25120572 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.45
18 1 0.03
19 16 0.52
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:25120590 original size:22 final size:22
Alignment explanation
Indices: 25120530--25120587 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
25120520 AATCTTCGAG
25120530 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
25120549 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
25120571 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
25120588 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:25120789 original size:19 final size:21
Alignment explanation
Indices: 25120765--25120803 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
25120755 TGTTTTTTTT
*
25120765 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
25120784 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
25120804 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:25121033 original size:3 final size:3
Alignment explanation
Indices: 25121025--25121067 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
25121015 ATTAATTTTG
25121025 TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
25121068 ACCTACATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25123060 original size:6 final size:6
Alignment explanation
Indices: 25123045--25123094 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
25123035 TTTGCAACCC
* * *
25123045 AAGGGA AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG GAGAGG AATGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AA-GGGG
25123094 A
1 A
25123095 GAAGAAGGCG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:25123095 original size:12 final size:12
Alignment explanation
Indices: 25123051--25123102 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
25123041 ACCCAAGGGA
* *
25123051 AAGGGGAAGGGG
1 AAGGGGGAGAGG
* *
25123063 AAGGGGAAGGGG
1 AAGGGGGAGAGG
25123075 AAGGGGGAGAGG
1 AAGGGGGAGAGG
* *
25123087 AATGGGGAGAAG
1 AAGGGGGAGAGG
25123099 AAGG
1 AAGG
25123103 CGTCATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.62, T:0.02
Consensus pattern (12 bp):
AAGGGGGAGAGG
Found at i:25124734 original size:10 final size:10
Alignment explanation
Indices: 25124721--25124816 Score: 62
Period size: 10 Copynumber: 10.2 Consensus size: 10
25124711 AACTTATTAT
25124721 ATTTTTATAA
1 ATTTTTATAA
25124731 ATTTTTAT-A
1 ATTTTTATAA
*
25124740 ATATTTAT--
1 ATTTTTATAA
* *
25124748 GTTTTTATTA
1 ATTTTTATAA
* *
25124758 TTTTTTAT-G
1 ATTTTTATAA
25124767 ATTTTTATAA
1 ATTTTTATAA
25124777 ATTTTT-TATA
1 ATTTTTATA-A
* *
25124787 ATTTAT-TAG
1 ATTTTTATAA
25124796 ATTTTTATAA
1 ATTTTTATAA
*
25124806 A-GTTTATAA
1 ATTTTTATAA
25124815 AT
1 AT
25124817 CTTATGATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
8 6 0.09
9 30 0.44
10 32 0.47
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:25124739 original size:38 final size:37
Alignment explanation
Indices: 25124696--25124814 Score: 109
Period size: 38 Copynumber: 3.2 Consensus size: 37
25124686 ATTAAAAAAA
*
25124696 TTTATAATTTATTAGAACTTATTATATTTTTATAAATT
1 TTTATAATTT-TTAGAATTTATTATATTTTTATAAATT
* ** *
25124734 TTTATAATATTTATGTTTTTATTAT-TTTTTAT-GATT
1 TTTATAATTTTTA-GAATTTATTATATTTTTATAAATT
* * *
25124770 TTTATAAATTTTTTATAATTTATTAGATTTTTATAAA-G
1 TTTAT-AA-TTTTTAGAATTTATTATATTTTTATAAATT
25124808 TTTATAA
1 TTTATAA
25124815 ATCTTATGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
36 8 0.12
37 21 0.33
38 34 0.53
39 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (37 bp):
TTTATAATTTTTAGAATTTATTATATTTTTATAAATT
Found at i:25124752 original size:27 final size:27
Alignment explanation
Indices: 25124717--25124775 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
25124707 TTAGAACTTA
25124717 TTATATTTTTATAAATTTTTATAATAT
1 TTATATTTTTATAAATTTTTATAATAT
* * * * *
25124744 TTATGTTTTTATTATTTTTTATGATTT
1 TTATATTTTTATAAATTTTTATAATAT
25124771 TTATA
1 TTATA
25124776 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (27 bp):
TTATATTTTTATAAATTTTTATAATAT
Found at i:25124753 original size:18 final size:17
Alignment explanation
Indices: 25124732--25124780 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
25124722 TTTTTATAAA
25124732 TTTTTATAATATTTATG
1 TTTTTATAATATTTATG
* *
25124749 TTTTTATTATTTTTTATG
1 TTTTTA-TAATATTTATG
25124767 ATTTTTATAA-ATTT
1 -TTTTTATAATATTT
25124781 TTTATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.35
18 11 0.42
19 6 0.23
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTTTATAATATTTATG
Found at i:25124785 original size:27 final size:27
Alignment explanation
Indices: 25124750--25124829 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 27
25124740 ATATTTATGT
25124750 TTTTATTATTTTTTATGATTTTTATAAA
1 TTTT-TTATTTTTTATGATTTTTATAAA
25124778 TTTTTTATAATTTATTA-GATTTTTATAAA
1 TTTTTTAT--TTT-TTATGATTTTTATAAA
* * ** *
25124807 GTTTATAAATCTTATGATTTTTA
1 TTTTTTATTTTTTATGATTTTTA
25124830 ACAAGAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 4 0.09
29 20 0.47
30 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTTTTATTTTTTATGATTTTTATAAA
Found at i:25124798 original size:29 final size:30
Alignment explanation
Indices: 25124749--25124806 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
25124739 AATATTTATG
* *
25124749 TTTTTATTATTTTTTATGATTTTTATAAAT
1 TTTTTATAATTTATTATGATTTTTATAAAT
25124779 TTTTTATAATTTATTA-GATTTTTATAAA
1 TTTTTATAATTTATTATGATTTTTATAAA
25124807 GTTTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (30 bp):
TTTTTATAATTTATTATGATTTTTATAAAT
Found at i:25124821 original size:29 final size:27
Alignment explanation
Indices: 25124761--25124829 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
25124751 TTTATTATTT
* *
25124761 TTTATGATTTTTATAAATTTTTTATAA
1 TTTATGATTTTTATAAAGTTTATATAA
25124788 TTTATTAGATTTTTATAAAGTTTATA-AA
1 TTTA-T-GATTTTTATAAAGTTTATATAA
25124816 TCTTATGATTTTTA
1 T-TTATGATTTTTA
25124830 ACAAGAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 12 0.32
28 5 0.14
29 20 0.54
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.59
Consensus pattern (27 bp):
TTTATGATTTTTATAAAGTTTATATAA
Found at i:25139217 original size:27 final size:26
Alignment explanation
Indices: 25139179--25139247 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
25139169 GTGGAGGGTA
*
25139179 TCCCATGGGCGGCACCAAAGGTGCCTT
1 TCCCAT-GGCGGCACCAAAGGTGCCAT
* *
25139206 TCCCATAGGCGGCACCGATGGTGCCAT
1 TCCCAT-GGCGGCACCAAAGGTGCCAT
25139233 TCCCATGAGCGGCAC
1 TCCCATG-GCGGCAC
25139248 TGCCCATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (26 bp):
TCCCATGGCGGCACCAAAGGTGCCAT
Found at i:25139338 original size:5 final size:5
Alignment explanation
Indices: 25139310--25139383 Score: 55
Period size: 5 Copynumber: 15.4 Consensus size: 5
25139300 GAAAGAAGAA
* * * * *
25139310 GAAA- GAAAG AAAAA GAAAG AAAAG GAAAG GAGAG GAGAG GAAA- GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
* * *
25139358 AAAAA G-AAG GAAAG AAAAG GAAAG GA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GA
25139384 GAAGAGGAGA
Statistics
Matches: 53, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
4 11 0.21
5 42 0.79
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:25139371 original size:43 final size:41
Alignment explanation
Indices: 25139306--25139415 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 41
25139296 GAGGGAAAGA
25139306 AGAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGAGAGG
1 AGAAGAAAGAAA-AAAAAGAAAGAAAAGGAAAGGAGA--AGAGG
*
25139350 A-AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGG
1 AGAAGAAAGAAAAA-AAAGAAAGAAAAGGAAAGGAGAAGAGG
25139391 AGAAG-AAGAAAAAAAAGAAAGAAAA
1 AGAAGAAAGAAAAAAAAGAAAGAAAA
25139416 AGAAGGAAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
40 11 0.18
41 14 0.23
42 5 0.08
43 31 0.50
44 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (41 bp):
AGAAGAAAGAAAAAAAAGAAAGAAAAGGAAAGGAGAAGAGG
Found at i:25139410 original size:9 final size:10
Alignment explanation
Indices: 25139354--25139516 Score: 64
Period size: 10 Copynumber: 15.6 Consensus size: 10
25139344 GAGAGGAAAG
25139354 AAAGAAA-AA
1 AAAGAAAGAA
*
25139363 GAAGGAAAGAA
1 -AAAGAAAGAA
* *
25139374 AAGGAAAGGA
1 AAAGAAAGAA
* *
25139384 GAAGAGGAGAA
1 AAAGA-AAGAA
*
25139395 GAAGAAA-AA
1 AAAGAAAGAA
25139404 AAAGAAAGAA
1 AAAGAAAGAA
*
25139414 AAAGAAGGAA
1 AAAGAAAGAA
25139424 AGAA-AAAGGAA
1 A-AAGAAA-GAA
* *
25139435 AGGAGAAGAGGA
1 A-AAGAA-AGAA
* *
25139447 GAAGAAGAAAA
1 AAAGAA-AGAA
25139458 AAAGAAAGAA
1 AAAGAAAGAA
*
25139468 AAAGAAGGAA
1 AAAGAAAGAA
25139478 AGAA-AAAGGAA
1 A-AAGAAA-GAA
*
25139489 AGGAGAAGAGAA
1 A-AAGAA-AGAA
*
25139501 AAAAAAAGAA
1 AAAGAAAGAA
*
25139511 GAAGAA
1 AAAGAA
25139517 GAAGAGGGGA
Statistics
Matches: 117, Mismatches: 25, Indels: 22
0.71 0.15 0.13
Matches are distributed among these distances:
9 8 0.07
10 56 0.48
11 41 0.35
12 10 0.09
13 2 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:25139449 original size:22 final size:22
Alignment explanation
Indices: 25139383--25139449 Score: 53
Period size: 25 Copynumber: 2.9 Consensus size: 22
25139373 AAAGGAAAGG
* *
25139383 AGAAGAGGAGAAGAAGAAAAAAA
1 AGAA-AGGAGAAGAGGAGAAAAA
* *
25139406 AGAAAGAAAAAGAAGGAAAGAAAAA
1 AGAAAGGAGAAG-AGG--AGAAAAA
*
25139431 GGAAAGGAGAAGAGGAGAA
1 AGAAAGGAGAAGAGGAGAA
25139450 GAAGAAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
22 10 0.29
23 6 0.18
24 3 0.09
25 15 0.44
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AGAAAGGAGAAGAGGAGAAAAA
Found at i:25139476 original size:43 final size:43
Alignment explanation
Indices: 25139303--25139520 Score: 140
Period size: 46 Copynumber: 4.7 Consensus size: 43
25139293 GGAGAGGGAA
*
25139303 AGAAGAAGAAAGAAAGAAA-AAGAAAGAAAAGGAAAGGAGAGGAGAGG
1 AGAAGAAGAAAAAAAGAAAGAA-AAAG--AAGGAAAGGAGA--AGAGG
* *
25139350 A-AAGAA-AGAAAAAGAAGGAAAGAA-AAGGAAAGGAGAAGAGG
1 AGAAGAAGAAAAAAAGAAAGAAA-AAGAAGGAAAGGAGAAGAGG
25139391 AGAAGAAGAAAAAAAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGG
1 AGAAGAAG----AAAA-AAAG--AAAGAA--AAAG---AAGGAAAGGAGAAGAGG
* *
25139446 AGAAGAAGAAAAAAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGG
1 AGAAGAAGAAAAAAAGAAAGAAAAAGAAGGAAAGGAGAA-G--AGG
* *
25139492 AGAAG-AGAAAAAAAAAGAAGAAGAAGAAG
1 AGAAGAAGAAAAAAAGA-AAGAAAAAGAAG
25139521 AGGGGAGGAA
Statistics
Matches: 141, Mismatches: 9, Indels: 43
0.73 0.05 0.22
Matches are distributed among these distances:
41 6 0.04
42 5 0.04
43 23 0.16
44 1 0.01
45 19 0.13
46 32 0.23
47 4 0.03
48 10 0.07
50 9 0.06
51 6 0.04
52 1 0.01
55 25 0.18
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (43 bp):
AGAAGAAGAAAAAAAGAAAGAAAAAGAAGGAAAGGAGAAGAGG
Found at i:25139510 original size:55 final size:54
Alignment explanation
Indices: 25139350--25139498 Score: 282
Period size: 54 Copynumber: 2.8 Consensus size: 54
25139340 AGAGGAGAGG
25139350 AAAGAAAGAAAAAGAAGGAAAG-AAAAGGAAAGGAGAAGAGGAGAAGAAGAAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGGAGAAGAAG-AAAA
25139404 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGGAGAAGAAGAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGGAGAAGAAGAAAA
25139458 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAG
1 AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAG
25139499 AAAAAAAAAG
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
54 67 0.71
55 27 0.29
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (54 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAAGGAAAGGAGAAGAGGAGAAGAAGAAAA
Found at i:25140358 original size:284 final size:284
Alignment explanation
Indices: 25139909--25140766 Score: 1587
Period size: 284 Copynumber: 3.0 Consensus size: 284
25139899 TGAAACAAAG
* *
25139909 TAAAATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATGC-GAGAAAAAATACGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACAGAGAAAAAATACGAA
* * * *
25139973 GAAATGGCCGAAGTAAGAGTGTTTTAC-AATTTTTTTAAAAATTCAGAAATAATTAATACAAATA
66 GAAATGACTGAAGTAAGATTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
*
25140037 -TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
131 TTTTTAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
25140101 AAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTACACTAAATT
196 AAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTACACTAAATT
25140166 AATTTAAAAAACACACTAAATTAA
261 AATTTAAAAAACACACTAAATTAA
25140190 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACAGAGAAAAAATACGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACAGAGAAAAAATACGAA
25140255 GAAATGACTGAAGTAAGATTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
66 GAAATGACTGAAGTAAGATTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
25140320 TTTTTAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
131 TTTTTAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
25140385 AAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTACACTAAATT
196 AAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTACACTAAATT
25140450 AATTTAAAAAACACACTAAATTAA
261 AATTTAAAAAACACACTAAATTAA
25140474 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACAGAGAAAAAATACGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACAGAGAAAAAATACGAA
25140539 GAAATGACTGAAGTAAGATTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
66 GAAATGACTGAAGTAAGATTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
25140604 TTTTTAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
131 TTTTTAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
* * *
25140669 AAGTAACAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAA
196 AAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAGAATAAGGG-TTTTTT-ACACTAAA
25140734 TTAATTTAAAAAACACACTAAATTAA
259 TTAATTTAAAAAACACACTAAATTAA
25140760 TAAATTT
1 TAAATTT
25140767 CAAACATAAT
Statistics
Matches: 562, Mismatches: 10, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
281 47 0.08
282 39 0.07
283 36 0.06
284 393 0.70
285 6 0.01
286 41 0.07
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (284 bp):
TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACAGAGAAAAAATACGAA
GAAATGACTGAAGTAAGATTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
TTTTTAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
AAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAGAATAAGGGTTTTTTACACTAAATT
AATTTAAAAAACACACTAAATTAA
Found at i:25144499 original size:27 final size:27
Alignment explanation
Indices: 25144459--25144524 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
25144449 TAACACGAGT
*
25144459 GGTGCCGCCCATGGGAATGGCACCATC
1 GGTGCCGCCTATGGGAATGGCACCATC
* *
25144486 GGTGCCGCCTATGGGAATGGCACCTTT
1 GGTGCCGCCTATGGGAATGGCACCATC
25144513 GGTGCCGCCTAT
1 GGTGCCGCCTAT
25144525 CAGTATCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAATGGCACCATC
Found at i:25149671 original size:4 final size:4
Alignment explanation
Indices: 25149662--25149707 Score: 74
Period size: 4 Copynumber: 11.0 Consensus size: 4
25149652 AACTTAAGCC
25149662 TTTA TTTA TTTA TTTA TTTCA TTCTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTT-A TT-TA TTTA TTTA TTTA TTTA TTTA
25149708 CAAGCAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 33 0.82
5 6 0.15
6 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:25149719 original size:26 final size:26
Alignment explanation
Indices: 25149664--25149720 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
25149654 CTTAAGCCTT
** **
25149664 TATTTATTTATTTATTTCATTCTATT
1 TATTTATTTATTTATTTCAAGCTAAA
25149690 TATTTATTTATTTATTTACAAGC-AAA
1 TATTTATTTATTTATTT-CAAGCTAAA
25149716 TATTT
1 TATTT
25149721 TTTTCCAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTTATTTATTTATTTCAAGCTAAA
Found at i:25160162 original size:14 final size:14
Alignment explanation
Indices: 25160145--25160171 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25160135 TGTAAAATAT
25160145 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
25160159 TTTCTGGAAAATG
1 TTTCTGGAAAATG
25160172 TTTTACTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:25160189 original size:20 final size:20
Alignment explanation
Indices: 25160161--25160198 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25160151 GAAAATGATT
*
25160161 TCTGGAAAATGTTTTACTTC
1 TCTGGAAAATGATTTACTTC
*
25160181 TCTGTAAAATGATTTACT
1 TCTGGAAAATGATTTACT
25160199 GAAAAATATT
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:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (20 bp):
TCTGGAAAATGATTTACTTC
Found at i:25160313 original size:20 final size:20
Alignment explanation
Indices: 25160285--25160361 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
25160275 TCCGGAAAAG
25160285 TTATTTTTACATATATTAAA
1 TTATTTTTACATATATTAAA
* *
25160305 TTGTTTTTACATATATATTAA
1 TTATTTTTACATATAT-TAAA
* *
25160326 TAAATTTTT--ATATTTTAAA
1 T-TATTTTTACATATATTAAA
25160345 TTATTTTTACATATATT
1 TTATTTTTACATATATT
25160362 GCAATGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.13
19 4 0.09
20 26 0.58
21 4 0.09
22 5 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
TTATTTTTACATATATTAAA
Found at i:25160400 original size:18 final size:18
Alignment explanation
Indices: 25160377--25160412 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25160367 GATTTATTTA
25160377 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
25160395 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
25160413 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:25162685 original size:21 final size:22
Alignment explanation
Indices: 25162651--25162696 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
25162641 GAGGATGTGG
25162651 AAGAAGATTTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
25162673 AAGAAGA-TTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
25162694 AAG
1 AAG
25162697 GAGAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAAGATTTGCTTAGAAGAGA
Found at i:25176091 original size:38 final size:38
Alignment explanation
Indices: 25176040--25176116 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
25176030 ATAGCAGCTC
25176040 AGTCTCAGAAATTTGGCCTCATACACGGCCACAGTTCT
1 AGTCTCAGAAATTTGGCCTCATACACGGCCACAGTTCT
25176078 AGTCTCAGAAATTTGGCCTCATACACGGCCACAGTTCT
1 AGTCTCAGAAATTTGGCCTCATACACGGCCACAGTTCT
25176116 A
1 A
25176117 TCCCCTTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (38 bp):
AGTCTCAGAAATTTGGCCTCATACACGGCCACAGTTCT
Found at i:25181843 original size:63 final size:63
Alignment explanation
Indices: 25181744--25181943 Score: 382
Period size: 63 Copynumber: 3.2 Consensus size: 63
25181734 GACTTCAGGT
* *
25181744 ATTATTTTGTAAAATATCTATGCCCTCATGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
1 ATTATTTTGTAAAATATCTATGCCTTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
25181807 ATTATTTTGTAAAATATCTATGCCTTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
1 ATTATTTTGTAAAATATCTATGCCTTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
25181870 ATTATTTTGTAAAATATCTATGCCTTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
1 ATTATTTTGTAAAATATCTATGCCTTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
25181933 ATTATTTTGTA
1 ATTATTTTGTA
25181944 GTTTTCTCCT
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 135 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (63 bp):
ATTATTTTGTAAAATATCTATGCCTTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGA
Found at i:25184954 original size:3 final size:3
Alignment explanation
Indices: 25184946--25184993 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
25184936 GAGAAGCTTA
25184946 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
25184994 CACCACCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:25188513 original size:26 final size:24
Alignment explanation
Indices: 25188437--25188515 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 24
25188427 CCTCTCAAAA
25188437 AATTCAAAATAATCTTAAAAAATATT
1 AATTCAAAA-AAT-TTAAAAAATATT
** * *
25188463 TTTTCAAAAAAAATTATAAATATATAT
1 AATTC-AAAAAATTTA-AAAAATAT-T
25188490 AATTCAAAAAATTTAAGAAAATATT
1 AATTCAAAAAATTTAA-AAAATATT
25188515 A
1 A
25188516 TTTGTGTAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
25 6 0.15
26 27 0.66
27 8 0.20
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (24 bp):
AATTCAAAAAATTTAAAAAATATT
Found at i:25191980 original size:18 final size:19
Alignment explanation
Indices: 25191953--25191989 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
25191943 GAGATAACAA
25191953 GGATGAGAAATGGA-TATG
1 GGATGAGAAATGGAGTATG
*
25191971 GGATGGGAAATGGAGTATG
1 GGATGAGAAATGGAGTATG
25191990 AAATGACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.43, T:0.22
Consensus pattern (19 bp):
GGATGAGAAATGGAGTATG
Found at i:25195164 original size:20 final size:20
Alignment explanation
Indices: 25195109--25195167 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
25195099 ATGTGTAATT
* * *
25195109 AGGAGCACCGTAATGCAAAC
1 AGGAGCACCATAGTGCTAAC
* *
25195129 AGGAGCA-CAAATGTGCTATC
1 AGGAGCACCATA-GTGCTAAC
25195149 AGGAGCACCATAGTGCTAA
1 AGGAGCACCATAGTGCTAA
25195168 TAGAGGTATT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.07
20 25 0.83
21 3 0.10
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.15
Consensus pattern (20 bp):
AGGAGCACCATAGTGCTAAC
Found at i:25196148 original size:324 final size:324
Alignment explanation
Indices: 25195559--25196219 Score: 1261
Period size: 324 Copynumber: 2.0 Consensus size: 324
25195549 GAACTAGAAT
* * * *
25195559 GTAGGGATTATTCTGTAGTTTTTTATTTCCTCGATTATCAACAACTTGATCTATATAATAGTTAA
1 GTAGGGACTATTCTGCAGTTTTTCATTTCCCCGATTATCAACAACTTGATCTATATAATAGTTAA
25195624 AATTCAAATTATCAATTCAAAAATCATTATATCACTCAAATACATGCATATGACCTTTTAATTTC
66 AATTCAAATTATCAATTCAAAAATCATTATATCACTCAAATACATGCATATGACCTTTTAATTTC
25195689 ATTTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTA
131 ATTTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTA
25195754 TAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACATCCTTCTACAGCCCTCTAA
196 TAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACATCCTTCTACAGCCCTCTAA
25195819 ACTCTAAATTTATATAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAGCTGAAAC
261 ACTCTAAATTTATATAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAGCTGAAAC
*
25195883 GTAGGGACTATTCTGCAGTTTTTCCTTTCCCCCGATTATCAACAACTTGATCTATATAATAGTTA
1 GTAGGGACTATTCTGCAGTTTTTCATTT-CCCCGATTATCAACAACTTGATCTATATAATAGTTA
25195948 AAATTCAAATTATCAATTCAAAAATCATTATATCACTCAAATACATGCATATGACCTTTTAATTT
65 AAATTCAAATTATCAATTCAAAAATCATTATATCACTCAAATACATGCATATGACCTTTTAATTT
25196013 CATTTTACATAATTTCCC-AAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATT
130 CATTTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATT
25196077 ATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACATCCTTCTACAGCCCTCTA
195 ATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACATCCTTCTACAGCCCTCTA
25196142 AACTCTAAATTTATATAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAGCTGAAAC
260 AACTCTAAATTTATATAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAGCTGAAAC
25196207 GTAGGGACTATTC
1 GTAGGGACTATTC
25196220 CATATGATCT
Statistics
Matches: 331, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
324 213 0.64
325 118 0.36
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (324 bp):
GTAGGGACTATTCTGCAGTTTTTCATTTCCCCGATTATCAACAACTTGATCTATATAATAGTTAA
AATTCAAATTATCAATTCAAAAATCATTATATCACTCAAATACATGCATATGACCTTTTAATTTC
ATTTTACATAATTTCCCTAAACTTTTATATTTTATTCAATTTAATCCCTAAAACCAAGACTATTA
TAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACATCCTTCTACAGCCCTCTAA
ACTCTAAATTTATATAATTTTCATGTCACTTTTATCATAACACAACCAACTAACGAGCTGAAAC
Found at i:25196389 original size:225 final size:225
Alignment explanation
Indices: 25195995--25196444 Score: 864
Period size: 225 Copynumber: 2.0 Consensus size: 225
25195985 CAAATACATG
25195995 CATATGACCTTTTAATTTCATTTTACATAATTTCCCAAACTTTTATATTTTATTCAATTTAATCC
1 CATATGACCTTTTAATTTCATTTTACATAATTTCCCAAACTTTTATATTTTATTCAATTTAATCC
25196060 CTAAAACCAAGACTATTATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACAT
66 CTAAAACCAAGACTATTATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACAT
*
25196125 CCTTCTACAGCCCTCTAAACTCTAAATTTATATAATTTTCATGTCACTTTTATCATAACACAACC
131 CCTTCTACAGCCCTCTAAACTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACC
*
25196190 AACTAACGAGCTGAAACGTAGGGACTATTC
196 AACTAACGAACTGAAACGTAGGGACTATTC
*
25196220 CATATGATCTTTTAATTTCATTTTACATAATTTCCCAAACTTTTATATTTTATTCAATTTAATCC
1 CATATGACCTTTTAATTTCATTTTACATAATTTCCCAAACTTTTATATTTTATTCAATTTAATCC
25196285 CTAAAACCAAGACTATTATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACAT
66 CTAAAACCAAGACTATTATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACAT
25196350 CCTTCTACAGCCCTCTAAACTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACC
131 CCTTCTACAGCCCTCTAAACTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACC
*
25196415 AACTAACGAACTGAAATGTAGGGACTATTC
196 AACTAACGAACTGAAACGTAGGGACTATTC
25196445 TGCAGTTTTT
Statistics
Matches: 221, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
225 221 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (225 bp):
CATATGACCTTTTAATTTCATTTTACATAATTTCCCAAACTTTTATATTTTATTCAATTTAATCC
CTAAAACCAAGACTATTATAACTTACACAATTAAACTCAATTTTTCATTCCAATTTCATTTACAT
CCTTCTACAGCCCTCTAAACTCTAAATTTATAGAATTTTCATGTCACTTTTATCATAACACAACC
AACTAACGAACTGAAACGTAGGGACTATTC
Found at i:25201343 original size:16 final size:16
Alignment explanation
Indices: 25201319--25201352 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25201309 TGAATTTTTC
*
25201319 TTATTTTTTCAAATTT
1 TTATATTTTCAAATTT
*
25201335 TTATATTTTTAAATTT
1 TTATATTTTCAAATTT
25201351 TT
1 TT
25201353 CTTCAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATATTTTCAAATTT
Found at i:25202342 original size:19 final size:20
Alignment explanation
Indices: 25202318--25202355 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25202308 AGAGAGTTCA
25202318 ACTTTAAT-TAAAATTAATC
1 ACTTTAATATAAAATTAATC
*
25202337 ACTTTAATATTAAATTAAT
1 ACTTTAATATAAAATTAAT
25202356 ATAAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTTTAATATAAAATTAATC
Found at i:25202395 original size:17 final size:18
Alignment explanation
Indices: 25202373--25202416 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
25202363 TATCAAGATA
25202373 AATATTAGAT-TAAATTT
1 AATATTAGATATAAATTT
*
25202390 AATATTAAGATAATCAATTT
1 AATATT-AGAT-ATAAATTT
25202410 AATATTA
1 AATATTA
25202417 AATTTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 1 0.04
20 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
AATATTAGATATAAATTT
Found at i:25202411 original size:68 final size:68
Alignment explanation
Indices: 25202332--25202462 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
25202322 TAATTAAAAT
* * * * *
25202332 TAATCACTTTAATATTAAATTAATATAAA-CTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCAATTTAATATTAAATTAATA-AAATATTATCAAAATAAATATTAAATTAAATTAAATATT
25202396 AAGA
65 AAGA
* *
25202400 TAATCAATTTAATATTAAATTTATAAAATATTATCAAAATAATTATTAAATTAAATTAAATAT
1 TAATCAATTTAATATTAAATTAATAAAATATTATCAAAATAAATATTAAATTAAATTAAATAT
25202463 GAAATTTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 3 0.05
68 52 0.95
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (68 bp):
TAATCAATTTAATATTAAATTAATAAAATATTATCAAAATAAATATTAAATTAAATTAAATATTA
AGA
Found at i:25203609 original size:16 final size:16
Alignment explanation
Indices: 25203581--25203623 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
25203571 TCTTCAGGTG
*
25203581 AAGAAAGAATATGCTC
1 AAGAAAGAGTATGCTC
*
25203597 AATAAAGAGTATGCTC
1 AAGAAAGAGTATGCTC
25203613 AAGAAAGAGTA
1 AAGAAAGAGTA
25203624 CGCCTAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (16 bp):
AAGAAAGAGTATGCTC
Found at i:25205256 original size:18 final size:18
Alignment explanation
Indices: 25205233--25205268 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25205223 GTGTGGGCTT
*
25205233 CACGGGCGTGTGAGCCCA
1 CACGGGCATGTGAGCCCA
*
25205251 CACGGGCATGTGGGCCCA
1 CACGGGCATGTGAGCCCA
25205269 AAATTCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.33, G:0.39, T:0.11
Consensus pattern (18 bp):
CACGGGCATGTGAGCCCA
Found at i:25211678 original size:51 final size:50
Alignment explanation
Indices: 25211561--25211740 Score: 170
Period size: 51 Copynumber: 3.6 Consensus size: 50
25211551 GATGGTCATG
** * * * *
25211561 TGTGTAGTACTATGTGCAGGCTACTATTTGTACCAGA-A-TGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-AT-GATCACA
* *
25211611 TGTGTAGTACTATGTGCAAGCTACTATGCGT-TCCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTAT-CGGATAG-TAT-GATCACA
* * * *
25211662 TGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-ATGATCACA
25211713 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
25211741 TGAATCGATA
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
50 32 0.30
51 72 0.67
52 2 0.02
53 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTATGATCACA
Found at i:25211742 original size:26 final size:26
Alignment explanation
Indices: 25211662--25211742 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
25211652 TTCGATCACG
25211662 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
25211688 CGTGTATTGGA-TA-GTG-ATGG-TCAC-A
1 TGTGTA--GTACTATGTGCA-GGCT-ACTA
25211713 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
25211739 TGTG
1 TGTG
25211743 AATCGATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 15 0.36
26 19 0.45
27 2 0.05
28 2 0.05
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:25211825 original size:46 final size:44
Alignment explanation
Indices: 25211747--25211836 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 44
25211737 TATGTGAATC
* *
25211747 GATATCATTAATTATAAGGTGGTTGTTATGTGCTG-ATCCCACCG
1 GATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CCACCG
* *
25211791 GATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 GATATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCCACCG
25211837 TGTATCTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 13 0.33
45 2 0.05
46 22 0.56
47 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
GATATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCACCG
Found at i:25211987 original size:16 final size:16
Alignment explanation
Indices: 25211966--25211997 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25211956 TGATTGAAAG
*
25211966 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
25211982 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
25211998 GGAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:25216871 original size:25 final size:24
Alignment explanation
Indices: 25216843--25216927 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
25216833 TATTTGAATG
*
25216843 GCCTATGTGGCATATAATCTGGAAA
1 GCCTATGTGGCATATTATCT-GAAA
*
25216868 GCCTTTGTGG--TGAGTTATCTGAAA
1 GCCTATGTGGCAT-A-TTATCTGAAA
*
25216892 GGCTTATGTGGCATATTATCTAGAAA
1 -GCCTATGTGGCATATTATCT-GAAA
25216918 GCCT-TGTGGC
1 GCCTATGTGGC
25216928 GAGTTATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
23 1 0.02
24 11 0.22
25 31 0.63
26 5 0.10
27 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (24 bp):
GCCTATGTGGCATATTATCTGAAA
Found at i:25216884 original size:50 final size:50
Alignment explanation
Indices: 25216815--25216945 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
25216805 CAAACCACAC
* * * *
25216815 AAAGCCTTTTTGGCAAGTTATTTGAATGGCCTATGTGGCATATAATCTGG
1 AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATAATCTAG
* * * *
25216865 AAAGCCTTTGTGGTGAGTTATCTGAAAGGCTTATGTGGCATATTATCTAG
1 AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATAATCTAG
*
25216915 AAAGCC-TTGTGGCGAGTTATTTAAAAGGCCT
1 AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCT
25216946 TTATGACATA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 21 0.30
50 48 0.70
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGAGTTATTTGAAAGGCCTATGTGGCATATAATCTAG
Found at i:25225324 original size:147 final size:149
Alignment explanation
Indices: 25224939--25225336 Score: 520
Period size: 147 Copynumber: 2.7 Consensus size: 149
25224929 AGTTTTGATT
* *
25224939 TTTTAAAAAAAGAGATTTTAGATTTT-AACAAATAAAAATATGA-TTTTTTAGTTATTTTAAAGG
1 TTTTAAAAAAA-AGA--TTAGATTTTGAA-AAATAAAAATCTGATTTTTTTAGTCATTTTAAAGG
* * * * * *
25225002 AAAGATAAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTATTTCAAAGTAAAAGTTTTA
62 AAAGTTTAAAATTTTAAAACAAAGTTTTGA---TTTTTTTCAACTACTTAAAAATAAAAGCTTTA
25225067 ATCTTTAAGAAAAAATAGTGTTTTTC
124 ATCTTTAAGAAAAAATAGTGTTTTTC
** * * *
25225093 TTTTAAAAAAAATTTTAGATTTTGGAAAATAAAAATCTGCTTTTTTTAGTCATTTTAAAGAAAAG
1 TTTTAAAAAAAAGATTAGATTTTGAAAAATAAAAATCTGATTTTTTTAGTCATTTTAAAGGAAAG
* *
25225158 TTTAAAATTTTAAAGCAAAGTTTTGATTTTTTTCAATTACTTAAAAATAAAAGCTTTAATCTTTA
66 TTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTACTTAAAAATAAAAGCTTTAATCTTTA
25225223 AG-AAAAATAGTG-TTTT-
131 AGAAAAAATAGTGTTTTTC
*
25225239 TTTTAAAGGAGAAAGATTAGATTTTGAAAAATAAAAATCT-ATTTTTTTAGTCATTTTAAAGGAA
1 TTTTAAA--AAAAAGATTAGATTTTGAAAAATAAAAATCTGATTTTTTTAGTCATTTTAAAGGAA
*
25225303 AGTTTAAAGTTTTAAAACAAAGTTTTGATTTTTT
64 AGTTTAAAATTTTAAAACAAAGTTTTGATTTTTT
25225337 AACTATTTTG
Statistics
Matches: 217, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
146 7 0.03
147 58 0.27
148 37 0.17
149 36 0.17
151 21 0.10
152 46 0.21
153 1 0.00
154 11 0.05
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.43
Consensus pattern (149 bp):
TTTTAAAAAAAAGATTAGATTTTGAAAAATAAAAATCTGATTTTTTTAGTCATTTTAAAGGAAAG
TTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTACTTAAAAATAAAAGCTTTAATCTTTA
AGAAAAAATAGTGTTTTTC
Found at i:25225386 original size:147 final size:147
Alignment explanation
Indices: 25224937--25225420 Score: 504
Period size: 147 Copynumber: 3.3 Consensus size: 147
25224927 AAAGTTTTGA
* *
25224937 TTTTTTAAAAAAAGAGATTTTAGATTTT-AACAAATAAAAATATGA-TTTTTTAGTTATTTTAAA
1 TTTTTTAAAAAAA-AGA--TTAGATTTTGAA-AAATAAAAATCTGATTTTTTTAGTCATTTTAAA
* * *
25225000 GGAAAGATAAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTATTTCAAAGTAAAAGTTT
62 GGAAAGTTTAAAATTTTAAAACAAAGTTTTGA---TTTTTTTCAACTATTT-AAAATAAAAGTTT
*
25225065 TAATCTTTAAGAAAAAATAGTGTTTT
123 TAATCTTTAAG-AAAAATAATGTTTT
* ** * * *
25225091 TCTTTTAAAAAAAATTTTAGATTTTGGAAAATAAAAATCTGCTTTTTTTAGTCATTTTAAAGAAA
1 TTTTTTAAAAAAAAGATTAGATTTTGAAAAATAAAAATCTGATTTTTTTAGTCATTTTAAAGGAA
* * * *
25225156 AGTTTAAAATTTTAAAGCAAAGTTTTGATTTTTTTCAATTACTTAAAAATAAAAGCTTTAATCTT
66 AGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTA-TTTAAAATAAAAGTTTTAATCTT
*
25225221 TAAGAAAAAT-A-GTGTT
130 TAAGAAAAATAATGTTTT
*
25225237 TTTTTTAAAGGAGAAAGATTAGATTTTGAAAAATAAAAATCT-ATTTTTTTAGTCATTTTAAAGG
1 TTTTTTAAA--AAAAAGATTAGATTTTGAAAAATAAAAATCTGATTTTTTTAGTCATTTTAAAGG
* * * *
25225301 AAAGTTTAAAGTTTTAAAACAAAGTTTTGA-TTTTTT-AACTATTTTGAAAT-AAGGTTTTGAT-
64 AAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTA-TTTAAAATAAAAGTTTTAATC
* *
25225362 TTTAAAGAAAATTAATGATTT
128 TTT-AAGAAAAATAATGTTTT
* * * *
25225383 TTTTCTAAAGAAAA-CTTTGATTTTGTAAAAA-AAAAATC
1 TTTTTTAAAAAAAAGATTAGATTTTG-AAAAATAAAAATC
25225421 CAGCAACCAT
Statistics
Matches: 280, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
143 19 0.07
144 24 0.09
145 11 0.04
146 29 0.10
147 48 0.17
148 33 0.12
149 34 0.12
150 2 0.01
151 21 0.08
152 46 0.16
153 1 0.00
154 12 0.04
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.43
Consensus pattern (147 bp):
TTTTTTAAAAAAAAGATTAGATTTTGAAAAATAAAAATCTGATTTTTTTAGTCATTTTAAAGGAA
AGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTAAAATAAAAGTTTTAATCTTT
AAGAAAAATAATGTTTT
Found at i:25227838 original size:25 final size:25
Alignment explanation
Indices: 25227804--25227853 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25227794 CTTTTACTAA
25227804 AGCTACCTTTTTATTTCTCAATCCT
1 AGCTACCTTTTTATTTCTCAATCCT
25227829 AGCTACCTTTTTATTTCTCAATCCT
1 AGCTACCTTTTTATTTCTCAATCCT
25227854 TGCGTCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (25 bp):
AGCTACCTTTTTATTTCTCAATCCT
Found at i:25237248 original size:4 final size:4
Alignment explanation
Indices: 25237239--25237283 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
25237229 TGACCCAATA
* * * *
25237239 TCAT TCAT TCAT TCAT TCAT CCAT TCCT TCAC TCAT TCGT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
25237284 TGTTTATTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (4 bp):
TCAT
Found at i:25242523 original size:42 final size:41
Alignment explanation
Indices: 25242454--25242582 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 41
25242444 AAGGAAAACA
* *
25242454 TTCATTGAATTTAGAGGCTCATGTGTGGAGGTCCGTTTACTT
1 TTCATTGAATTTAGAGACCCA-GTGTGGAGGTCCGTTTACTT
* * * *
25242496 TTCATTGTATTTAGAGACCCAGATGTGGAGGTTCATTCACTT
1 TTCATTGAATTTAGAGACCCAG-TGTGGAGGTCCGTTTACTT
* *
25242538 TTCATTGCATCTAGAGACCCAG-GTGCGAAGGTCCGTTTACTT
1 TTCATTGAATTTAGAGACCCAGTGTG-G-AGGTCCGTTTACTT
25242580 TTC
1 TTC
25242583 TAGTTTACTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.04
41 2 0.03
42 68 0.93
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (41 bp):
TTCATTGAATTTAGAGACCCAGTGTGGAGGTCCGTTTACTT
Found at i:25242610 original size:16 final size:16
Alignment explanation
Indices: 25242589--25242619 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25242579 TTTCTAGTTT
*
25242589 ACTTTTCATTGCATTG
1 ACTTTTCATTACATTG
25242605 ACTTTTCATTACATT
1 ACTTTTCATTACATT
25242620 TAGAGACCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (16 bp):
ACTTTTCATTACATTG
Found at i:25243280 original size:73 final size:73
Alignment explanation
Indices: 25243161--25243304 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 73
25243151 CTTTCTTTCT
*
25243161 TTCTATCTTTTTTTTTTGGCCATAGGCATGTCATGAGAGATCGGATTTTGGGTTCTC-ATGAAGG
1 TTCTATCTTTTTTTTTTGGCCATAGGCATGTCATGAGAGATCGGATTTTGGGCTC-CAATGAAGG
25243225 GGACGTCAC
65 GGACGTCAC
* *
25243234 TTCTATCTTTTTTTTTTGGCCATAGGCATGTCATGAGGGATCGGATTTTGGGCTCCAATGAATGG
1 TTCTATCTTTTTTTTTTGGCCATAGGCATGTCATGAGAGATCGGATTTTGGGCTCCAATGAAGGG
25243299 GACGTC
66 GACGTC
25243305 TCCGGACCGT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 1 0.01
73 66 0.99
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (73 bp):
TTCTATCTTTTTTTTTTGGCCATAGGCATGTCATGAGAGATCGGATTTTGGGCTCCAATGAAGGG
GACGTCAC
Found at i:25243709 original size:152 final size:153
Alignment explanation
Indices: 25243432--25243713 Score: 394
Period size: 152 Copynumber: 1.8 Consensus size: 153
25243422 TTTTTTTAAC
* * *
25243432 AAATAAAAATCTGTTTTTGTTTTAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAATTTT
1 AAATAAAAATC-GTATTTGTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTT
* *
25243497 GATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAAAAAATAGTATTTTTTTTCTAAA
65 GATTTTTTTCAACTACTTCAAAGTAAAAGCTTTAATCTTTAAAAAAATAG-ATATTTTTTCTAAA
25243562 AAAAGGAGAAAGTTTAGATTTTGAA
129 AAAAGGAGAAAGTTTAGATTTTGAA
*
25243587 AAATAAAAATC-TATTT-TTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTG
1 AAATAAAAATCGTATTTGTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTG
* * *
25243650 ATTTTTTTTTCAACTACTTCAAA-T-AAGGTTTTAATTTTTAAGAAAAATA-ATGATTTTTTCTA
66 A--TTTTTTTCAACTACTTCAAAGTAAAAGCTTTAATCTTTAA-AAAAATAGAT-ATTTTTTCTA
25243712 AA
127 AA
25243714 GATTAGTCAT
Statistics
Matches: 114, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
151 2 0.02
152 70 0.61
153 12 0.11
154 19 0.17
155 11 0.10
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (153 bp):
AAATAAAAATCGTATTTGTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTG
ATTTTTTTCAACTACTTCAAAGTAAAAGCTTTAATCTTTAAAAAAATAGATATTTTTTCTAAAAA
AAGGAGAAAGTTTAGATTTTGAA
Found at i:25243732 original size:111 final size:112
Alignment explanation
Indices: 25243605--25243810 Score: 344
Period size: 111 Copynumber: 1.8 Consensus size: 112
25243595 ATCTATTTTT
*
25243605 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTCAACTACTTC
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGA-TTTTTTTTCAACTACTTC
*** *
25243670 -AAAT-AAGGTTTTAATTTTTAAGAAAAATAATGATTTTTTCTAAAGA
65 AAAATAAAAACTTTAATCTTTAAGAAAAATAATGATTTTTTCTAAAGA
25243716 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCA
25243781 AAATAAAAACTTTAATCTTTAAGAAAAATA
66 AAATAAAAACTTTAATCTTTAAGAAAAATA
25243811 GTTTTTTTTA
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 18 0.20
111 49 0.56
112 21 0.24
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (112 bp):
TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCA
AAATAAAAACTTTAATCTTTAAGAAAAATAATGATTTTTTCTAAAGA
Found at i:25243877 original size:147 final size:147
Alignment explanation
Indices: 25243718--25244103 Score: 600
Period size: 147 Copynumber: 2.6 Consensus size: 147
25243708 TCTAAAGATT
25243718 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
1 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
* * *
25243783 ATAAAAACTTTAATCTTTAAGAAAAATAGTTTTTTTT-AAAGGAGAAAGTTTAGATTTTTAAAAA
66 ATAAAAACTTTAATCTTTAAGAAAAATA-TTTTTTTTAAAAGAAGAAAGTTTAAATTTTAAAAAA
*
25243847 TAAAAATCTATTTTTTTA
130 AAAAAATCTATTTTTTTA
25243865 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
1 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
*
25243930 ATAAAAACTTTAATC-TTAAGGAAAAATATTTTTTTTAAAAGAAGAAATTTTAAATTTTAAAAAA
66 ATAAAAACTTTAATCTTTAA-GAAAAATATTTTTTTTAAAAGAAGAAAGTTTAAATTTTAAAAAA
25243994 AAAAAATCTATTTTTTTA
130 AAAAAATCTATTTTTTTA
* * * *
25244012 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTAAATTTTTTTT-AACTATTTCGA
1 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTT-GATTTTTTTTCAACTACTTCAA
*** *
25244076 AAT-AAGGTTTTAATTTTTAAGAAAAATA
65 AATAAAAACTTTAATCTTTAAGAAAAATA
25244104 ATGATTTTTT
Statistics
Matches: 222, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
146 28 0.13
147 185 0.83
148 9 0.04
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (147 bp):
AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
ATAAAAACTTTAATCTTTAAGAAAAATATTTTTTTTAAAAGAAGAAAGTTTAAATTTTAAAAAAA
AAAAATCTATTTTTTTA
Found at i:25243921 original size:257 final size:258
Alignment explanation
Indices: 25243453--25243929 Score: 791
Period size: 257 Copynumber: 1.8 Consensus size: 258
25243443 TGTTTTTGTT
* * *
25243453 TTAGTTATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTCAACTACTTCAA
* *
25243518 AGTAAAAGCTTTAATCTTTAAAAAAATAGTATTTTTTTTCTAAAAAAAGGAGAAAGTTTAGATTT
66 AATAAAAACTTTAATCTTTAAAAAAATAG--TTTTTTTTCT---AAAAGGAGAAAGTTTAGATTT
*
25243583 TGAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTT
126 TGAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTT
25243648 TGATTTTTTTTTCAACTACTTCAAATAAGGTTTTAATTTTTAAGAAAAATAATGATTTTTTCTAA
191 TGATTTTTTTTTCAACTACTTCAAATAAGGTTTTAATTTTTAAGAAAAATAATGATTTTTTCTAA
25243713 AGA
256 AGA
25243716 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGA-TTTTTTTCAACTACTTCA
*
25243781 AAATAAAAACTTTAATCTTTAAGAAAAATAG-TTTTTTT-T-AAAGGAGAAAGTTTAGATTTTTA
65 AAATAAAAACTTTAATCTTTAA-AAAAATAGTTTTTTTTCTAAAAGGAGAAAGTTTAGATTTTGA
25243843 AAAATAAAAATCTATTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTG
129 AAAATAAAAATCTATTTTTTT-AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTG
25243908 A-TTTTTTTTCAACTACTTCAAA
193 ATTTTTTTTTCAACTACTTCAAA
25243930 ATAAAAACTT
Statistics
Matches: 204, Mismatches: 7, Indels: 12
0.91 0.03 0.05
Matches are distributed among these distances:
257 64 0.31
258 43 0.21
261 1 0.00
262 7 0.03
263 44 0.22
264 37 0.18
265 8 0.04
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (258 bp):
TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTCAACTACTTCAA
AATAAAAACTTTAATCTTTAAAAAAATAGTTTTTTTTCTAAAAGGAGAAAGTTTAGATTTTGAAA
AATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATT
TTTTTTTCAACTACTTCAAATAAGGTTTTAATTTTTAAGAAAAATAATGATTTTTTCTAAAGA
Found at i:25244061 original size:21 final size:20
Alignment explanation
Indices: 25244016--25244060 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25244006 TTTTTAAGTC
**
25244016 ATTTTAAAGGAAAGTTTAAA
1 ATTTTAAAACAAAGTTTAAA
*
25244036 ATTTTAAAACAAAGTTTTAA
1 ATTTTAAAACAAAGTTTAAA
25244056 ATTTT
1 ATTTT
25244061 TTTTAACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (20 bp):
ATTTTAAAACAAAGTTTAAA
Found at i:25244140 original size:147 final size:146
Alignment explanation
Indices: 25243718--25244147 Score: 586
Period size: 147 Copynumber: 2.9 Consensus size: 146
25243708 TCTAAAGATT
25243718 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
1 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
* * *
25243783 ATAAAAACTTTAATCTTTAAGAAAAATA-GTTTTTTTTAAAGGAGAAAGTTTAGATTTTTAAAAA
66 ATAAAAACTTTAATTTTTAAGAAAAATATG-TTTTTTTAAA-GAGAAACTTTAGATTTTAAAAAA
*
25243847 TAAAAATCTATTTTTTTA
129 AAAAAATCTATTTTTTTA
25243865 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
1 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
* * *
25243930 ATAAAAACTTTAA-TCTTAAGGAAAAATAT-TTTTTTTAAAAGAAGAAATTTTAAATTTTAAAAA
66 ATAAAAACTTTAATTTTTAA-GAAAAATATGTTTTTTT-AAAG-AGAAACTTTAGATTTTAAAAA
25243993 AAAAAAATCTATTTTTTTA
128 AAAAAAATCTATTTTTTTA
* * * *
25244012 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTAAATTTTTTTT-AACTATTTCGA
1 AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTT-GATTTTTTTTCAACTACTTCAA
***
25244076 AAT-AAGGTTTTAATTTTTAAGAAAAATAATGATTTTTTCTAAAGA-AAACTTT-GATTTTGCAA
65 AATAAAAACTTTAATTTTTAAGAAAAAT-ATG-TTTTTT-TAAAGAGAAACTTTAGATTTT--AA
25244138 AAAAAAAAAA
125 AAAAAAAAAA
25244148 AATTGACCAC
Statistics
Matches: 255, Mismatches: 16, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
146 31 0.12
147 191 0.75
148 22 0.09
149 10 0.04
150 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (146 bp):
AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTACTTCAAA
ATAAAAACTTTAATTTTTAAGAAAAATATGTTTTTTTAAAGAGAAACTTTAGATTTTAAAAAAAA
AAAATCTATTTTTTTA
Found at i:25244584 original size:7 final size:6
Alignment explanation
Indices: 25244564--25244604 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
25244554 AATATACTAG
25244564 TTAGTT TTAGTT TTAAGTT TTAAGTTT TTAGTT TTAGTT TT
1 TTAGTT TTAGTT TT-AGTT TT-AG-TT TTAGTT TTAGTT TT
25244605 CAATTCCCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 18 0.55
7 11 0.33
8 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (6 bp):
TTAGTT
Found at i:25244591 original size:14 final size:13
Alignment explanation
Indices: 25244566--25244604 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
25244556 TATACTAGTT
25244566 AGTTTTAGTTTTA
1 AGTTTTAGTTTTA
*
25244579 AGTTTTAAGTTTTT
1 AGTTTT-AGTTTTA
25244593 AGTTTTAGTTTT
1 AGTTTTAGTTTT
25244605 CAATTCCCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (13 bp):
AGTTTTAGTTTTA
Found at i:25246546 original size:35 final size:35
Alignment explanation
Indices: 25246489--25246666 Score: 110
Period size: 35 Copynumber: 4.9 Consensus size: 35
25246479 GATTTTACTA
* *
25246489 ACAATTAATAATTTGATAATTTTACTAACAATTAAT
1 ACAATTAACAA-TTAATAATTTTACTAACAATTAAT
25246525 ACAATTAACAATTAATAATTTTACTAACAA--AAT
1 ACAATTAACAATTAATAATTTTACTAACAATTAAT
* * ** * ** *
25246558 GTCAAATTTTACAAAATGTTTTGACTGGTAGTAACAATTAAT
1 -AC-AA--TTA-ACAAT-TAAT-AATTTTACTAACAATTAAT
* * * *
25246600 A-ATTTGATATAATTTGATAATTTTATTAACAATTAAT
1 ACAATT-A-ACAA-TTAATAATTTTACTAACAATTAAT
25246637 ACAATTAACAATTAATAATTTTACTAACAA
1 ACAATTAACAATTAATAATTTTACTAACAA
25246667 AATGTTAAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 25
0.68 0.15 0.16
Matches are distributed among these distances:
33 3 0.03
34 1 0.01
35 37 0.35
36 13 0.12
37 22 0.21
38 13 0.12
39 4 0.04
40 10 0.09
42 3 0.03
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (35 bp):
ACAATTAACAATTAATAATTTTACTAACAATTAAT
Found at i:25246552 original size:19 final size:19
Alignment explanation
Indices: 25246504--25246554 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
25246494 TAATAATTTG
25246504 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
25246523 ATACA----ATTAACAATTA
1 ATA-ATTTTACTAACAATTA
25246539 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
25246555 AATGTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.04
16 13 0.52
19 10 0.40
20 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:25246641 original size:112 final size:111
Alignment explanation
Indices: 25246496--25246725 Score: 397
Period size: 112 Copynumber: 2.1 Consensus size: 111
25246486 CTAACAATTA
25246496 ATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTC
1 ATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTC
** * *
25246561 AAATTTTACAAAATGTTTTGACTGGTAGTAACAATTAATAATTTGAT
66 AAATTTTACAAAATGTTTTGACTGGTACAAAAAAAT-ATAATTTGAT
* *
25246608 ATAATTTGATAATTTTATTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTT
1 ATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTC
25246673 AAATTTTACAAAATGTTTTGACTGGTACAAAAAAATATAATTTGAT
66 AAATTTTACAAAATGTTTTGACTGGTACAAAAAAATATAATTTGAT
25246719 ATAATTT
1 ATAATTT
25246726 TAATAACAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
111 17 0.15
112 95 0.85
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (111 bp):
ATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTC
AAATTTTACAAAATGTTTTGACTGGTACAAAAAAATATAATTTGAT
Found at i:25246745 original size:22 final size:23
Alignment explanation
Indices: 25246735--25246796 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
25246725 TTAATAACAA
* **
25246735 TTAATTTTAATAACAAT-TTTTT
1 TTAATTTTAATAAAAATATAATT
25246757 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
25246780 TTAATTTTAATCAAAAA
1 TTAATTTTAAT-AAAAA
25246797 ACGGGTCGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 16 0.46
23 14 0.40
24 5 0.14
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:25246761 original size:16 final size:16
Alignment explanation
Indices: 25246720--25246752 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25246710 TAATTTGATA
25246720 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
25246736 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
25246752 T
1 T
25246753 TTTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:25247171 original size:25 final size:24
Alignment explanation
Indices: 25247143--25247189 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
25247133 TCACTTGCAT
25247143 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
25247168 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
25247190 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:25247232 original size:10 final size:10
Alignment explanation
Indices: 25247213--25247269 Score: 69
Period size: 10 Copynumber: 5.4 Consensus size: 10
25247203 CACTTGTATA
25247213 ATTTTTATTT
1 ATTTTTATTT
*
25247223 ATTCTTATTT
1 ATTTTTATTT
25247233 CATTTTTATTT
1 -ATTTTTATTT
*
25247244 ATTTTCATGTCT
1 ATTTTTAT-T-T
25247256 ATTTTTATTT
1 ATTTTTATTT
25247266 ATTT
1 ATTT
25247270 ATTTTTACGC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 21 0.52
11 11 0.28
12 8 0.20
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:25247237 original size:21 final size:22
Alignment explanation
Indices: 25247213--25247269 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
25247203 CACTTGTATA
*
25247213 ATTTTTATTTATTCTT-ATTTC-
1 ATTTTTATTTATT-TTCATGTCT
25247234 ATTTTTATTTATTTTCATGTCT
1 ATTTTTATTTATTTTCATGTCT
25247256 ATTTTTATTTATTT
1 ATTTTTATTTATTT
25247270 ATTTTTACGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 2 0.06
21 17 0.52
22 14 0.42
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTTTATTTATTTTCATGTCT
Found at i:25252097 original size:40 final size:40
Alignment explanation
Indices: 25252053--25252997 Score: 1702
Period size: 40 Copynumber: 23.6 Consensus size: 40
25252043 GCTACTAGTT
* *
25252053 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
25252093 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
25252133 CAAATGCCTTCGGG-CTTAGCCCGGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
25252173 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252213 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252253 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252293 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252333 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252373 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252413 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252453 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252493 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252533 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252573 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252613 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252653 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252693 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252733 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252773 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252813 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25252853 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
25252893 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
25252932 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25252973 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25252998 CATCATTCAA
Statistics
Matches: 883, Mismatches: 15, Indels: 14
0.97 0.02 0.02
Matches are distributed among these distances:
38 2 0.00
39 42 0.05
40 817 0.93
41 22 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25254902 original size:17 final size:17
Alignment explanation
Indices: 25254867--25254899 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25254857 TCAAGATAAG
*
25254867 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
25254884 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
25254900 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:25255211 original size:19 final size:20
Alignment explanation
Indices: 25255187--25255229 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25255177 TTCGACCAGT
25255187 TTTTGG-GTCTC-AGCCTCAA
1 TTTTGGAGTCTCGAGCC-CAA
*
25255206 TTTTGGATTCTCGAGCCCAA
1 TTTTGGAGTCTCGAGCCCAA
25255226 TTTT
1 TTTT
25255230 CAAATTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (20 bp):
TTTTGGAGTCTCGAGCCCAA
Found at i:25256116 original size:28 final size:26
Alignment explanation
Indices: 25256050--25256127 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 26
25256040 ATATTTTAGT
25256050 TAATATATATTATATTTATT-TACTTAA
1 TAATA-ATATTATA-TTATTATACTTAA
25256077 TAAATAAGTATTATATTAATTATA-TAATAA
1 T-AATAA-TATTATATT-ATTATACT--TAA
25256107 TAATAATATTATTATTATTAT
1 TAATAATATTA-TATTATTAT
25256128 TGTTGTTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
27 4 0.09
28 25 0.57
29 11 0.25
30 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
TAATAATATTATATTATTATACTTAA
Found at i:25257132 original size:22 final size:21
Alignment explanation
Indices: 25257104--25257171 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
25257094 CTCTCTGATA
25257104 TTTAGCACGTTAGTGCTCTCTG
1 TTTAGCAC-TTAGTGCTCTCTG
*
25257126 TTTAGCACATCT-GTGCTCTCTA
1 TTTAGCAC-T-TAGTGCTCTCTG
**
25257148 CATAGCACTTCAGTGCTCTCTG
1 TTTAGCACTT-AGTGCTCTCTG
25257170 TT
1 TT
25257172 CATTAGTGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 33 0.92
23 1 0.03
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (21 bp):
TTTAGCACTTAGTGCTCTCTG
Found at i:25257319 original size:31 final size:31
Alignment explanation
Indices: 25257261--25257319 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
25257251 AAGAATATGA
* *
25257261 GATAGTGAATTGAAAATAGAATGTGAAAAAC
1 GATAGTGAATTGAAAACAGAATATGAAAAAC
*
25257292 GATAGTGAATTGAAAACATAATATGAAA
1 GATAGTGAATTGAAAACAGAATATGAAA
25257320 TATGTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.24
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAGAATATGAAAAAC
Found at i:25264482 original size:27 final size:27
Alignment explanation
Indices: 25264452--25264629 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25264442 ATATTGAGTC
* * * *
25264452 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25264479 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25264506 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25264534 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25264561 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25264588 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25264615 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25264630 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25264591 original size:82 final size:81
Alignment explanation
Indices: 25264473--25264628 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25264463 TGCTATATAA
* *
25264473 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25264538 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25264555 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25264619 CACTTAGTGC
65 CACTTAGTGC
25264629 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25265015 original size:26 final size:27
Alignment explanation
Indices: 25264980--25265050 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
25264970 ATCCATTTAG
25264980 ATGTT-TGCCACAAAGGC-ATTCCTTC
1 ATGTTATGCCACAAAGGCTATTCCTTC
* *
25265005 ATGTTATGCCACAAAGGCTTTTCTTTC
1 ATGTTATGCCACAAAGGCTATTCCTTC
* * *
25265032 ATATTATACCATAAAGGCT
1 ATGTTATGCCACAAAGGCT
25265051 TTTTCTTTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.13
26 12 0.31
27 22 0.56
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (27 bp):
ATGTTATGCCACAAAGGCTATTCCTTC
Found at i:25265047 original size:27 final size:28
Alignment explanation
Indices: 25265002--25265059 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
25264992 AAGGCATTCC
* *
25265002 TTCATGTTATGCCACAAAGGC-TTTTCT
1 TTCATATTATACCACAAAGGCTTTTTCT
*
25265029 TTCATATTATACCATAAAGGCTTTTTCT
1 TTCATATTATACCACAAAGGCTTTTTCT
25265057 TTC
1 TTC
25265060 CTAACGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (28 bp):
TTCATATTATACCACAAAGGCTTTTTCT
Found at i:25265707 original size:23 final size:23
Alignment explanation
Indices: 25265677--25265725 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
25265667 AAAAGAACAA
25265677 AGAGAGTTGAATAACTCACAAAT
1 AGAGAGTTGAATAACTCACAAAT
25265700 AGAGAGTTGAATAACTCACAAAT
1 AGAGAGTTGAATAACTCACAAAT
25265723 AGA
1 AGA
25265726 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (23 bp):
AGAGAGTTGAATAACTCACAAAT
Found at i:25268001 original size:23 final size:23
Alignment explanation
Indices: 25267949--25268001 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
25267939 AACCTGGACA
* **
25267949 ACATTAAGACAATGTTTAAATGC
1 ACATTAAGACAAGGTTTAAACAC
25267972 ACATTAAGACAAGGTTTAAACAC
1 ACATTAAGACAAGGTTTAAACAC
*
25267995 ACTTTAA
1 ACATTAA
25268002 TTTGTAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
ACATTAAGACAAGGTTTAAACAC
Found at i:25268150 original size:38 final size:39
Alignment explanation
Indices: 25268069--25268177 Score: 157
Period size: 38 Copynumber: 2.8 Consensus size: 39
25268059 AAGTATTGAA
* *
25268069 GATGTTCAAACTATGACATAATTAAAGACCCATATTAAT
1 GATGTTCAAATTATGACATAATTAAAGACTCATATTAAT
*
25268108 GATGTTCAGATTATGACATAATTAAA-ACTCATATTAAT
1 GATGTTCAAATTATGACATAATTAAAGACTCATATTAAT
* * *
25268146 GATGTTAAAATTATGGCATAATTAAATACTCA
1 GATGTTCAAATTATGACATAATTAAAGACTCA
25268178 AACTAGAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 34 0.54
39 29 0.46
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (39 bp):
GATGTTCAAATTATGACATAATTAAAGACTCATATTAAT
Found at i:25277328 original size:19 final size:21
Alignment explanation
Indices: 25277295--25277339 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
25277285 AAATTTTATT
*
25277295 CCCCAAAACTTTTTA-TTTTC
1 CCCCTAAACTTTTTACTTTTC
25277315 CCCCTAAAC-TTTTACTTTTC
1 CCCCTAAACTTTTTACTTTTC
*
25277335 ACCCT
1 CCCCT
25277340 TTACTCTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (21 bp):
CCCCTAAACTTTTTACTTTTC
Found at i:25277460 original size:9 final size:9
Alignment explanation
Indices: 25277446--25277474 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
25277436 AATTTCACAT
25277446 TTTATATTA
1 TTTATATTA
25277455 TTTATATTA
1 TTTATATTA
25277464 TTTATATTA
1 TTTATATTA
25277473 TT
1 TT
25277475 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:25285010 original size:61 final size:58
Alignment explanation
Indices: 25284903--25285014 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 58
25284893 ATCACTTTAA
* * *
25284903 TATTAAATTAATATAATACTTATTCAGATAAATATTAGATGAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATGAAATTTAATATTAAATC
* **
25284961 TATTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTTAATTTAATA
1 TATTAAATTAATAGAATACTTA--T-TAAGATAAATATTAAATGAAATTTAATA
25285015 CTAATAGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 20 0.44
60 1 0.02
61 24 0.53
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATGAAATTTAATATTAAATC
Found at i:25294070 original size:19 final size:19
Alignment explanation
Indices: 25294035--25294080 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
25294025 AAAGAAAGAC
*
25294035 AGAAAAATAAATC-AAAAA
1 AGAAAAAGAAATCAAAAAA
*
25294053 AGAAAAAGAGAATGAAAAAA
1 AGAAAAAGA-AATCAAAAAA
25294073 AGAAAAAG
1 AGAAAAAG
25294081 GAGATTGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 13 0.54
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (19 bp):
AGAAAAAGAAATCAAAAAA
Found at i:25299582 original size:22 final size:21
Alignment explanation
Indices: 25299551--25299592 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
25299541 TATTATGCAT
25299551 TATTAAACAGAAAACACTAAAG
1 TATTAAACAGAAAACA-TAAAG
*
25299573 TATTATACAGAAAACATAAA
1 TATTAAACAGAAAACATAAA
25299593 TGTGCTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (21 bp):
TATTAAACAGAAAACATAAAG
Found at i:25300339 original size:20 final size:20
Alignment explanation
Indices: 25300314--25300356 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
25300304 AATTTAACTT
*
25300314 CTTCTTTTCTTACTCT-CTTA
1 CTTCTTTACTTACT-TGCTTA
25300334 CTTCTTTACTTACTTGCTTA
1 CTTCTTTACTTACTTGCTTA
25300354 CTT
1 CTT
25300357 AAATAACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.12, C:0.28, G:0.02, T:0.58
Consensus pattern (20 bp):
CTTCTTTACTTACTTGCTTA
Found at i:25300677 original size:50 final size:50
Alignment explanation
Indices: 25300562--25300742 Score: 181
Period size: 50 Copynumber: 3.7 Consensus size: 50
25300552 AATAACATGA
* * *
25300562 CCAA-GCCATGTCCTAGACATAGTCTTACATGGGATGTTTTC-TATAC--TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTG
* ** * *
25300610 TCAATGCCATAACCCAGATATTGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
* ** ** *
25300660 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
*
25300710 CCAACGCCATGTCCCAGACATGGTCTTACATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
25300743 CTCACATATT
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
48 9 0.08
49 28 0.26
50 70 0.65
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
Found at i:25301213 original size:18 final size:18
Alignment explanation
Indices: 25301190--25301226 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25301180 TTTCTATTCA
*
25301190 TACCTTTTTAAATTTTGT
1 TACCTTTCTAAATTTTGT
*
25301208 TACCTTTCTATATTTTGT
1 TACCTTTCTAAATTTTGT
25301226 T
1 T
25301227 TCATCATAAA
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:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (18 bp):
TACCTTTCTAAATTTTGT
Found at i:25303419 original size:42 final size:42
Alignment explanation
Indices: 25303360--25303442 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
25303350 GACCATTTTT
*
25303360 CCCTTTATGATCTTTTAAAATTCCATCCTTGAGTCATCACTG
1 CCCTTCATGATCTTTTAAAATTCCATCCTTGAGTCATCACTG
25303402 CCCTTCATGATCTTTTAAAATTCCATCCTTGAGTCATCACT
1 CCCTTCATGATCTTTTAAAATTCCATCCTTGAGTCATCACT
25303443 TAATTTGGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (42 bp):
CCCTTCATGATCTTTTAAAATTCCATCCTTGAGTCATCACTG
Found at i:25308514 original size:45 final size:45
Alignment explanation
Indices: 25308450--25308592 Score: 241
Period size: 45 Copynumber: 3.2 Consensus size: 45
25308440 CATGAAATTA
25308450 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
25308495 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
25308540 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25308585 AGGAAGCA
1 AGGAAGCA
25308593 CCATGGCCGA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:25315424 original size:27 final size:28
Alignment explanation
Indices: 25315287--25315464 Score: 261
Period size: 28 Copynumber: 6.4 Consensus size: 28
25315277 GAGATTGGCG
* * * *
25315287 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
25315316 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
25315344 CTAAGTGTGCAAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
25315372 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
25315400 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
25315427 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
25315454 CTGAGTGTGCG
1 CTAAGTGTGCG
25315465 GACTTAATAT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 51 0.36
28 74 0.53
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:25318523 original size:40 final size:40
Alignment explanation
Indices: 25318425--25319367 Score: 1615
Period size: 40 Copynumber: 23.6 Consensus size: 40
25318415 TCCTCGTTCA
* * * * * *
25318425 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
* *
25318464 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
* *
25318504 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
* *
25318544 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318584 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
* *
25318624 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318664 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318704 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318744 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318784 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318824 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318864 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318904 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318944 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25318984 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25319024 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25319064 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25319104 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25319144 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25319184 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
25319224 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
* *
25319264 AATGCCTTCGGGACTTAACCCGGATTTAG-TATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGCAAT-TCGCACG
* * * * * *
25319304 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-GCAATTCGCACG
* *
25319344 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25319368 CAGCATTCAA
Statistics
Matches: 872, Mismatches: 26, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.04
40 825 0.95
41 8 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGCAATTCGCACG
Found at i:25322113 original size:45 final size:45
Alignment explanation
Indices: 25322049--25322953 Score: 1765
Period size: 45 Copynumber: 20.1 Consensus size: 45
25322039 CATGAAATTA
25322049 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322094 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322139 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322184 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322229 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322274 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322319 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322364 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322409 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322454 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322499 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322544 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322589 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322634 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322679 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322724 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322769 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322814 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
25322859 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
25322904 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAATAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
25322949 AGGAA
1 AGGAA
25322954 TCACCATGGC
Statistics
Matches: 854, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 854 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:25326164 original size:21 final size:22
Alignment explanation
Indices: 25326140--25326185 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
25326130 TTAAAAACAA
25326140 ATTAAACACTT-AACTAAATTT
1 ATTAAACACTTAAACTAAATTT
* *
25326161 ATTAAATACTTAAACTAATTTT
1 ATTAAACACTTAAACTAAATTT
25326183 ATT
1 ATT
25326186 CCAGCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAAACACTTAAACTAAATTT
Found at i:25330155 original size:18 final size:18
Alignment explanation
Indices: 25330134--25330168 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25330124 TTTTTCTTTT
25330134 TCAATTT-TTTTCTCAATC
1 TCAATTTATTTT-TCAATC
25330152 TCAATTTATTTTTCAAT
1 TCAATTTATTTTTCAAT
25330169 TTATTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTATTTTTCAATC
Found at i:25330167 original size:12 final size:12
Alignment explanation
Indices: 25330152--25330177 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25330142 TTTCTCAATC
25330152 TCAATTTATTTT
1 TCAATTTATTTT
25330164 TCAATTTATTTT
1 TCAATTTATTTT
25330176 TC
1 TC
25330178 TTCATTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (12 bp):
TCAATTTATTTT
Done.