Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 38 of 290
Found at i:12932077 original size:49 final size:49
Alignment explanation
Indices: 12932016--12932148 Score: 178
Period size: 49 Copynumber: 2.7 Consensus size: 49
12932006 ACACATCTAA
* *
12932016 GTCGATGTCATGTCCCAAATAGGTCTTACACTGACTTTCATATACCGAG-
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCG-GT
* * *
12932065 GTCGATGCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCGGT
* * *
12932114 GTCAATGCCATGTCCCATACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGAC
12932149 ACATGTCAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 1 0.01
49 73 0.99
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCGGT
Found at i:12936603 original size:13 final size:13
Alignment explanation
Indices: 12936582--12936612 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12936572 GAAGTAATCA
12936582 CACACGGGCGTGT
1 CACACGGGCGTGT
*
12936595 CACATGGGCGTGT
1 CACACGGGCGTGT
12936608 CACAC
1 CACAC
12936613 AGACGTGTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:12940788 original size:55 final size:55
Alignment explanation
Indices: 12940724--12940849 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
12940714 GAACCTACCA
* * * **
12940724 AAAC-AACACGAGCGTGCGACACGCCCGTGCCTTGAAACAGTGG-CTAAACCTGTC
1 AAACTAACACGGGCGTGCAACACGCCCATGCCGAGAAACAGTGGAC-AAACCTGTC
* * *
12940778 AAATTAACACGGGCGTGCAACACGCCCATGCCGAGCAACTGTGGACAAACCTGTC
1 AAACTAACACGGGCGTGCAACACGCCCATGCCGAGAAACAGTGGACAAACCTGTC
*
12940833 AGACTAACACGGGCGTG
1 AAACTAACACGGGCGTG
12940850 GGCCTACATA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 3 0.05
55 56 0.93
56 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (55 bp):
AAACTAACACGGGCGTGCAACACGCCCATGCCGAGAAACAGTGGACAAACCTGTC
Found at i:12950824 original size:36 final size:36
Alignment explanation
Indices: 12950777--12950848 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
12950767 TCAAATGTGC
12950777 GTCATAAATCGTAATCATTTCTTATGAGCTTGGCAT
1 GTCATAAATCGTAATCATTTCTTATGAGCTTGGCAT
12950813 GTCATAAATCGTAATCATTTCTTATGAGCTTGGCAT
1 GTCATAAATCGTAATCATTTCTTATGAGCTTGGCAT
12950849 ACATACCTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (36 bp):
GTCATAAATCGTAATCATTTCTTATGAGCTTGGCAT
Found at i:12951166 original size:49 final size:49
Alignment explanation
Indices: 12951107--12951376 Score: 193
Period size: 49 Copynumber: 5.7 Consensus size: 49
12951097 ACATCTAAGT
* * *
12951107 CGATGGCATGTCCCAGAAAAGTCTTACACTGAG-TTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAAGTCTTACACT-AGCTTTCATATATCGAAGC
* * * * * ** *
12951156 CGATGCCATGTCTCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGCTTTCATATATCGAAGC
* * * * *
12951205 TGATGCCATGCCCCAGACAAGTCTTACACTA----ACAAATGTC-AAGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGCTTTCATATATCGAAGC
* * * *
12951249 CGATACCATGTCCCAGATAAGTCTTACACTAGCTTGCATATCTCGAAGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGCTTTCATATATCGAAGC
* * * * * * *
12951298 AGATG-CATGTCCTAGACATGTCTTACACTAGCTCTCGTCT-T--AATGT
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGCTTTCATATATCGAA-GC
12951344 CGATGCCATGTCCCAGACATA-TCTTACACTAGC
1 CGATGCCATGTCCCAGACA-AGTCTTACACTAGC
12951377 ACACATCCAT
Statistics
Matches: 170, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
44 28 0.16
45 7 0.04
46 5 0.03
47 25 0.15
48 35 0.21
49 70 0.41
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTAGCTTTCATATATCGAAGC
Found at i:12955392 original size:13 final size:13
Alignment explanation
Indices: 12955370--12955402 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12955360 AAGGGTTTGT
12955370 TTAT-TAAACTAA
1 TTATCTAAACTAA
12955382 TTATCTAAACTAA
1 TTATCTAAACTAA
*
12955395 TTAACTAA
1 TTATCTAA
12955403 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:12958000 original size:40 final size:40
Alignment explanation
Indices: 12957945--12958023 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
12957935 AATGTACAAA
*
12957945 GATAGACTATTCAACATAATGAAAATC-ATAAGAGGGAAAG
1 GATAGACTATTCAACATAAAGAAAATCAAT-AGAGGGAAAG
12957985 GATAGACTATTCAACATAAAGAAAATCAATAGAGGGAAA
1 GATAGACTATTCAACATAAAGAAAATCAATAGAGGGAAA
12958024 AAGGTGAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (40 bp):
GATAGACTATTCAACATAAAGAAAATCAATAGAGGGAAAG
Found at i:12958354 original size:6 final size:6
Alignment explanation
Indices: 12958343--12958423 Score: 78
Period size: 6 Copynumber: 13.7 Consensus size: 6
12958333 AAGAAAATTG
* * * *
12958343 AAAAAT AAAAAT CAAAAG AAAAAT AAGAAT AAATAA- ATAAAAT AAGAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A-AAAAT AAAAAT
*
12958392 AAAAAT AAGAAT --AAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
12958424 TAGGAGGATT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
4 3 0.05
6 52 0.87
7 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:12958414 original size:22 final size:21
Alignment explanation
Indices: 12958343--12958425 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 21
12958333 AAGAAAATTG
*
12958343 AAAAATAAAAATCAAAAGAAA-
1 AAAAATAAAAAT-AAAATAAAT
* *
12958364 AATAAGAATAAAT-AAATAAAAT
1 AAAAATAA-AAATAAAAT-AAAT
*
12958386 AAGAATAAAAATAAGAATAAAT
1 AAAAATAAAAATAA-AATAAAT
12958408 AAAAATAAAAATAAAATA
1 AAAAATAAAAATAAAATA
12958426 GGAGGATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.06
21 17 0.33
22 28 0.55
23 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAATAAAATAAAT
Found at i:12961847 original size:19 final size:21
Alignment explanation
Indices: 12961812--12961854 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
12961802 AAATTACAAG
12961812 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
*
12961833 ATCATATC-T-AAGATTTCAT
1 ATCATATCTTCAAGATTGCAT
12961852 ATC
1 ATC
12961855 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.40
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:12962615 original size:206 final size:206
Alignment explanation
Indices: 12962257--12963603 Score: 2093
Period size: 206 Copynumber: 6.5 Consensus size: 206
12962247 CGATCTATTT
* *
12962257 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAACCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * * * * *
12962322 CAACTATGTCTTCGATTTGCTCCTTGTAAGAACAAGAATACCAAACCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * ** * *
12962387 TCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
12962452 TCAATTTGTTC
196 TCGATTTGTTC
* *
12962463 TCTAACAATACAGAGATTCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * *
12962528 CAGCTATGTCTTCGATTTTTTCTTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* *** * * * *
12962593 TATAAACATCTGAAGATTAGATCTACTATGTGTCTGCTCTCCTTCAAATATGGAGATGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
12962658 TTGATTTGTTC
196 TCGATTTGTTC
12962669 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* *
12962734 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTAGGATCTGCTTCAA
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * * * *
12962799 TATAAACAGATGAAGGCCAAATCTACTATGTGCCTGCCCTCCGTCGAATATGGAAACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
12962864 TCGATTTGTTC
196 TCGATTTGTTC
* *
12962875 TCTAACAATACAGAGATGGCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * *
12962940 CAACTATGTCTTCGATTTGTTCCTTGTAAGCAAAAGGATGCCAAATCACCTTGGGTCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * *
12963005 TATAAACATATGAAGGCTAGATCTGCTATGTGTCTGTTTTCCATCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
12963070 TCAATTTGTTC
196 TCGATTTGTTC
12963081 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
12963146 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
*
12963211 TATAAACATATAAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
* *
12963276 TTGTTTTGTTC
196 TCGATTTGTTC
* *
12963287 TATGACAGTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * *
12963352 CAGCTATGTCCTCGATTTGTTCCTTGTAAGTACAATGATGCCAAATCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
*
12963417 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACACCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
* *
12963482 TTGATTCGTTC
196 TCGATTTGTTC
* * * * *
12963493 TCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCAGCGTAAAC-CATGAAAGCCGAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
12963557 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
12963604 TGCTATCTTC
Statistics
Matches: 1049, Mismatches: 92, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
205 56 0.05
206 993 0.95
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (206 bp):
TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
TCGATTTGTTC
Found at i:12963678 original size:88 final size:88
Alignment explanation
Indices: 12963565--12964171 Score: 395
Period size: 88 Copynumber: 6.9 Consensus size: 88
12963555 ATCAGCTATG
* * * *
12963565 TCTTCGATTTG-TTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 TCTTCGATCTGTTTCCCTGTAAGCACAAGGATGCCAGATCTGCTATCTTCGACTTGTTCCCTATA
*
12963629 AACACAGGGATGCCGTGCTGAAA
66 AACACAGGGATGCCATGCTGAAA
* ** * * *
12963652 TCTTCGATCTGTTTCGCTGTAAGCAC-AGGAATTTCAGTTCTGCTATCTTTGATTTGTTCCCTAT
1 TCTTCGATCTGTTTCCCTGTAAGCACAAGG-ATGCCAGATCTGCTATCTTCGACTTGTTCCCTAT
**
12963716 AAACACAGGGATGCCAAAT-CTGCTA
65 AAACACAGGGATGCC--ATGCTGAAA
* * * * * ** * * *
12963741 TCTTC-AACT-TGTTCCCTATAAACATAGGGATGCC--ATGCTGAAATATTC-AATCTGCTTCGC
1 TCTTCGATCTGT-TTCCCTGTAAGCACAAGGATGCCAGAT-CTGCTATCTTCGACT-TG-TTCCC
* * * * **
12963801 TGTAAGCACAGGAATGTCA-GATCTGCTA
62 TATAAACACAGGGATGCCATG--CTGAAA
* * * * ** *
12963829 TCTTC-AACT-TGTTCCCTATAAACACAGGGATGCC-G-TGCTGAAATCTTCGA-TCTGTTTCGC
1 TCTTCGATCTGT-TTCCCTGTAAGCACAAGGATGCCAGAT-CTGCTATCTTCGACT-TG-TTCCC
* * * ** * **
12963889 TGTAAGCACAGGAATTTCAGTTCTGCTA
62 TATAAACACAGGGATGCCA-TGCTGAAA
* * * * * * *
12963917 TCTTTGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 TCTTCGATCTGTTTCCCTGTAAGCACAAGGATGCCAGATCTGCTATCTTCGACTTGTTCCCTATA
*
12963981 AACATAGGGATGCCATGCTGAAA
66 AACACAGGGATGCCATGCTGAAA
* * * * *
12964004 TATTCAATCTGCTTCGCTGTAAGCAC-AGGAATGTCAGATCTGCTATCTTCGACTTGTTCCCTAT
1 TCTTCGATCTGTTTCCCTGTAAGCACAAGG-ATGCCAGATCTGCTATCTTCGACTTGTTCCCTAT
12964068 AAACACAGGGATGCCATGCTGAAA
65 AAACACAGGGATGCCATGCTGAAA
* * *
12964092 TCTTCGATCTGCTTT-GCTGTAAGCAC-AGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 TCTTCGATCTG-TTTCCCTGTAAGCACAAGGA-TGCCAGATCTGCTATCTTCGACTTGTTCCCTA
12964155 TAAACACAGGGATGCCA
64 TAAACACAGGGATGCCA
12964172 AATCTTGTTT
Statistics
Matches: 425, Mismatches: 70, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
86 4 0.01
87 38 0.09
88 352 0.83
89 28 0.07
90 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (88 bp):
TCTTCGATCTGTTTCCCTGTAAGCACAAGGATGCCAGATCTGCTATCTTCGACTTGTTCCCTATA
AACACAGGGATGCCATGCTGAAA
Found at i:12963807 original size:132 final size:132
Alignment explanation
Indices: 12963565--12963862 Score: 470
Period size: 132 Copynumber: 2.3 Consensus size: 132
12963555 ATCAGCTATG
* * * *
12963565 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * * * *
12963630 ACACAGGGATGCCGTGCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGC
66 ACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
12963695 TA
131 TA
*
12963697 TCTTTGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
12963762 ACATAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
12963827 TA
131 TA
* *
12963829 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCC
12963863 GTGCTGAAAT
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 151 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
TA
Found at i:12963860 original size:220 final size:220
Alignment explanation
Indices: 12963581--12964176 Score: 1088
Period size: 220 Copynumber: 2.7 Consensus size: 220
12963571 ATTTGTTCCT
* *
12963581 TGTAAGCACAAGG-ATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGT
1 TGTAAGCAC-AGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGT
12963645 GCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTT
65 GCTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTT
12963710 CCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCC
130 CCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCC
12963775 ATGCTGAAATATTCAATCTGCTTCGC
195 ATGCTGAAATATTCAATCTGCTTCGC
12963801 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGTG
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGTG
12963866 CTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTTC
66 CTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTTC
12963931 CCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCCA
131 CCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCCA
12963996 TGCTGAAATATTCAATCTGCTTCGC
196 TGCTGAAATATTCAATCTGCTTCGC
* *
12964021 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGATGCCATG
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGTG
* * * *
12964086 CTGAAATCTTCGATCTGCTTT-GCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTT
66 CTGAAATCTTCGATCTG-TTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTT
12964150 CCCTATAAACACAGGGATGCCAAATCT
130 CCCTATAAACACAGGGATGCCAAATCT
12964177 TGTTTCTTTG
Statistics
Matches: 366, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
219 3 0.01
220 360 0.98
221 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (220 bp):
TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGTG
CTGAAATCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTTC
CCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCCA
TGCTGAAATATTCAATCTGCTTCGC
Found at i:12963943 original size:132 final size:132
Alignment explanation
Indices: 12963807--12964083 Score: 437
Period size: 132 Copynumber: 2.1 Consensus size: 132
12963797 TCGCTGTAAG
* * *
12963807 CACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCGTGCTGAAA
1 CACAGGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
* * * * * * *
12963872 TCTTCGATCTGTTTCGCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGATTTGTTCCCTATA
66 TATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGACTTGTTCCCTATA
12963937 AA
131 AA
* *
12963939 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACATAGGGATGCCATGCTGAAA
1 CACAGGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
12964004 TATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGACTTGTTCCCTATA
66 TATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGACTTGTTCCCTATA
12964069 AA
131 AA
*
12964071 CACAGGGATGCCA
1 CACAGGAATGCCA
12964084 TGCTGAAATC
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
CACAGGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
TATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGACTTGTTCCCTATA
AA
Found at i:12965042 original size:7 final size:7
Alignment explanation
Indices: 12965030--12965064 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
12965020 GGCCTCTCCA
12965030 TTTTTCT
1 TTTTTCT
12965037 TTTTTCAT
1 TTTTTC-T
12965045 TTTTCTCT
1 TTTT-TCT
12965053 TTTTTCT
1 TTTTTCT
12965060 TTTTT
1 TTTTT
12965065 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.54
8 10 0.38
9 2 0.08
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:12965055 original size:16 final size:14
Alignment explanation
Indices: 12965030--12965064 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
12965020 GGCCTCTCCA
12965030 TTTTTCTTTTTTCAT
1 TTTTTCTTTTTTC-T
12965045 TTTTCTCTTTTTTCT
1 TTTT-TCTTTTTTCT
12965060 TTTTT
1 TTTTT
12965065 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 9 0.47
16 9 0.47
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:12965080 original size:16 final size:16
Alignment explanation
Indices: 12965030--12965080 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
12965020 GGCCTCTCCA
12965030 TTTTTCTTTTTTCATT
1 TTTTTCTTTTTTCATT
* *
12965046 TTTCTCTTTTTTCTTTT
1 TTTTTCTTTTTTC-ATT
* *
12965063 TTTTTATTTTTTCCTT
1 TTTTTCTTTTTTCATT
12965079 TT
1 TT
12965081 CTTTTGAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTTCATT
Found at i:12970623 original size:22 final size:21
Alignment explanation
Indices: 12970598--12970638 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12970588 TTAAATCTCT
12970598 AAGATTACAAGATCATATCTTC
1 AAGATTAC-AGATCATATCTTC
* *
12970620 AAGATTGCATATCATATCT
1 AAGATTACAGATCATATCT
12970639 AAGATTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAGATTACAGATCATATCTTC
Found at i:12970644 original size:19 final size:19
Alignment explanation
Indices: 12970595--12970668 Score: 89
Period size: 17 Copynumber: 3.8 Consensus size: 19
12970585 AAGTTAAATC
* *
12970595 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
12970615 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
12970636 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
12970653 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12970669 CTTAAAGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
17 17 0.35
19 11 0.23
20 3 0.06
21 10 0.21
22 7 0.15
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12970858 original size:46 final size:47
Alignment explanation
Indices: 12970772--12970866 Score: 165
Period size: 46 Copynumber: 2.0 Consensus size: 47
12970762 TTGTAATTTT
* *
12970772 CTACTGGACTTGGACTTTGGTTTTTTTTTTTTACATTATTTCTGGGC
1 CTACTGGACTTGGACTTTGGTTTTTTTTTTTGAAATTATTTCTGGGC
12970819 CTACTGGACTTGGACTTT-GTTTTTTTTTTTGAAATTATTTCTGGGC
1 CTACTGGACTTGGACTTTGGTTTTTTTTTTTGAAATTATTTCTGGGC
12970865 CT
1 CT
12970867 GGGCAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 28 0.61
47 18 0.39
ACGTcount: A:0.14, C:0.15, G:0.19, T:0.53
Consensus pattern (47 bp):
CTACTGGACTTGGACTTTGGTTTTTTTTTTTGAAATTATTTCTGGGC
Found at i:12972359 original size:15 final size:15
Alignment explanation
Indices: 12972339--12972369 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12972329 CAATAAAGGG
12972339 TAAGTTATATGTAAT
1 TAAGTTATATGTAAT
12972354 TAAGTTATATGTAAT
1 TAAGTTATATGTAAT
12972369 T
1 T
12972370 TTTTTAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (15 bp):
TAAGTTATATGTAAT
Found at i:12974355 original size:13 final size:13
Alignment explanation
Indices: 12974333--12974365 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12974323 AAGGGTTTGT
12974333 TTAT-TAAACTAA
1 TTATCTAAACTAA
12974345 TTATCTAAACTAA
1 TTATCTAAACTAA
*
12974358 TTAACTAA
1 TTATCTAA
12974366 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:12975647 original size:47 final size:49
Alignment explanation
Indices: 12975564--12975689 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 49
12975554 GCATTTATCA
* *
12975564 CCATGTCCCAGACATGGTCTTACA-TTAGCTCTCACGT-TAAGTT-AATG
1 CCATGTCCCAGACATGGTCTTACACTGA-CTCCCACGTATAAGTTCAATG
** * *
12975611 CCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATCCGTTCCATTT
1 CCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATAAGTT-CAATG
* *
12975661 CCATGTCCCAAACATGGTCTTATACTGAC
1 CCATGTCCCAGACATGGTCTTACACTGAC
12975690 ACATCATATA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 32 0.48
48 6 0.09
50 29 0.43
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATAAGTTCAATG
Found at i:12975753 original size:46 final size:46
Alignment explanation
Indices: 12975700--12975833 Score: 157
Period size: 46 Copynumber: 2.9 Consensus size: 46
12975690 ACATCATATA
12975700 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATC-AAGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTAA-AG
* * *
12975746 GCCGATGCATG-CCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCC-AGACATGTCTTACACTAGCTCTCATCTAAAG
* *
12975792 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT
12975834 TTTTCCCTGG
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
45 3 0.04
46 41 0.54
47 12 0.16
48 20 0.26
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAAAG
Found at i:12979728 original size:20 final size:20
Alignment explanation
Indices: 12979703--12979743 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12979693 AGGAAAACAT
12979703 ATATTAA-AATAAAAATAAAA
1 ATATTAATAA-AAAAATAAAA
*
12979723 ATATTAATAAAAAACTAAAA
1 ATATTAATAAAAAAATAAAA
12979743 A
1 A
12979744 AATCATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
ATATTAATAAAAAAATAAAA
Found at i:12979933 original size:14 final size:14
Alignment explanation
Indices: 12979914--12979942 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12979904 AAAAATTGAC
12979914 AGTAATAACATAAA
1 AGTAATAACATAAA
12979928 AGTAATAACATAAA
1 AGTAATAACATAAA
12979942 A
1 A
12979943 AATGATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AGTAATAACATAAA
Found at i:12980100 original size:21 final size:20
Alignment explanation
Indices: 12980072--12980111 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
12980062 TTATTATCTT
12980072 AAATTTAA-ATTAAATAATAA
1 AAATTTAAGA-TAAATAATAA
12980092 AAATGTTAAGATAAATAATA
1 AAAT-TTAAGATAAATAATA
12980112 TATTTTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATTTAAGATAAATAATAA
Found at i:12981170 original size:26 final size:26
Alignment explanation
Indices: 12981139--12981189 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
12981129 TCTTGAATAC
12981139 TAGTTTTTCAAATGACTATTTGAATT
1 TAGTTTTTCAAATGACTATTTGAATT
12981165 TAGTTTTTCAAATGACTATTTGAAT
1 TAGTTTTTCAAATGACTATTTGAAT
12981190 GTATTGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (26 bp):
TAGTTTTTCAAATGACTATTTGAATT
Found at i:12984978 original size:20 final size:19
Alignment explanation
Indices: 12984955--12985047 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
12984945 TTTTTTGCAA
12984955 TTTTTATAAATTTTTAATAC
1 TTTTTATAAATTTTT-ATAC
* *
12984975 TTTTAATAAGTTTTTATAAC
1 TTTTTATAAATTTTTAT-AC
*
12984995 TTTTTAAATAAA-TTTTATAT
1 TTTTT--ATAAATTTTTATAC
** *
12985015 TTTTTATAGCTTTTTATAG
1 TTTTTATAAATTTTTATAC
* *
12985034 TATTTATATATTTT
1 TTTTTATAAATTTT
12985048 AAATTTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
18 3 0.05
19 20 0.34
20 25 0.43
21 6 0.10
22 4 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATAAATTTTTATAC
Found at i:12985019 original size:30 final size:31
Alignment explanation
Indices: 12984955--12985030 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
12984945 TTTTTTGCAA
* *
12984955 TTTTTATAAATTTTT-AATACTTTTAATAAG
1 TTTTTATAACTTTTTAAATAATTTTAATAAG
*
12984985 TTTTTATAACTTTTTAAATAAATTTT-AT-AT
1 TTTTTATAACTTTTTAAAT-AATTTTAATAAG
*
12985015 TTTTTATAGCTTTTTA
1 TTTTTATAACTTTTTA
12985031 TAGTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 30 0.75
31 5 0.12
32 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTTTATAACTTTTTAAATAATTTTAATAAG
Found at i:12985055 original size:8 final size:9
Alignment explanation
Indices: 12984953--12985077 Score: 63
Period size: 10 Copynumber: 13.0 Consensus size: 9
12984943 TTTTTTTTGC
12984953 AATTTTTAT
1 AATTTTTAT
12984962 AAATTTTTAAT
1 -AATTTTT-AT
* *
12984973 ACTTTTAAT
1 AATTTTTAT
12984982 AAGTTTTTAT
1 AA-TTTTTAT
12984992 AACTTTTTAAAT
1 AA-TTTTT--AT
*
12985004 AAATTTTAT
1 AATTTTTAT
*
12985013 ATTTTTTAT
1 AATTTTTAT
*
12985022 AGCTTTTTAT
1 A-ATTTTTAT
* *
12985032 AGTATTTAT
1 AATTTTTAT
*
12985041 ATATTTTAAAT
1 A-ATTTT-TAT
**
12985052 TTTTTTTAT
1 AATTTTTAT
*
12985061 AATTTCTA-
1 AATTTTTAT
12985069 AATTTTTAT
1 AATTTTTAT
12985078 TTTATTTATA
Statistics
Matches: 86, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 7 0.08
9 27 0.31
10 40 0.47
11 8 0.09
12 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:12985084 original size:19 final size:18
Alignment explanation
Indices: 12985040--12985084 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
12985030 ATAGTATTTA
12985040 TATATTTTAAATTTTTTT
1 TATATTTTAAATTTTTTT
12985058 TATAATTTCTAAATTTTTATT
1 TAT-ATTT-TAAATTTTT-TT
12985079 T-TATTT
1 TATATTT
12985085 ATATAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 10 0.42
21 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTAAATTTTTTT
Found at i:12985936 original size:126 final size:126
Alignment explanation
Indices: 12985631--12986156 Score: 660
Period size: 126 Copynumber: 4.2 Consensus size: 126
12985621 GGATTTTGTT
* * * * * * *
12985631 TTTTTCTATAGTAGTTTC-AAAAAAATTAATTTTGAGAAGACGATTTTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAA-TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAA
* * *
12985695 AACGCTTCAAGCAGGATACACTGTCACCAAAATTACTGAAAATAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCCCACGTGGACGCTC
* * *
12985758 TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAA
* * * * * *
12985823 ATGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * * * *
12985884 TTTTTCTATAGTAGTTCCTGAAAAAAT-ATTTTTATGAAGATGATTCTAAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-GAAGACGATTCTGAAAAAATAGTGTAAAA
* * * *
12985948 AACGCTTCAAGCAGGATGCACTATAAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* * *
12986010 TTTTTCTGCAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAA
* * * * * *
12986075 ATGCTTCATGCAGGATGCACTGTCAGCAAAATTAGCAAAAAAAAGGTCTCACGTGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA-CTAAAAAAAGCTCCCACGTGGACGCTC
*
12986137 TTTTTCTACAATAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
12986157 CTTGGCCTTA
Statistics
Matches: 338, Mismatches: 57, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
125 6 0.02
126 202 0.60
127 124 0.37
128 6 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
Found at i:12986075 original size:252 final size:255
Alignment explanation
Indices: 12985629--12986156 Score: 769
Period size: 253 Copynumber: 2.1 Consensus size: 255
12985619 AAGGATTTTG
* * * * *
12985629 TTTTTTTCTATAGTAGTTTC-AAAAAAATTAATTTTGAGAAGACGATTTTGAAAAGATAATGTCA
1 TTTTTTTCTATAGTAGTTCCTGAAAAAATTAATTTTGAGAAGACGATTCTAAAAAAATAATGTCA
* * *
12985693 AAAACGCTTCAAGCAGGATACACTGTCACCAAAATTACTGAAAATAAGCTCCCACGTGGACGCTC
66 AAAACGCTTCAAGCAGGATACACTATAACCAAAATTACTGAAAATAAGCTCCCACATGGACGCTC
12985758 TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
131 TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * *
12985823 ATGCTTAAAGTAGGATGCACTGTCAGCAAAATTA-CTAAAAAAAGCTCTCACGTGGATGC
196 ATGCTTAAAGCAGGATGCACTGTCAGCAAAATTAGCAAAAAAAAGCTCTCACGTGAACGC
* * *
12985882 TTTTTTTCTATAGTAGTTCCTGAAAAAA-T-ATTTTTATGAAGATGATTCTAAAAAAATAGTGTC
1 TTTTTTTCTATAGTAGTTCCTGAAAAAATTAATTTTGA-GAAGACGATTCTAAAAAAATAATGTC
* *
12985945 AAAAACGCTTCAAGCAGGATGCACTATAAGCAAAATTACTGAAAA-AAGCTCCCACATGGACGCT
65 AAAAACGCTTCAAGCAGGATACACTATAACCAAAATTACTGAAAATAAGCTCCCACATGGACGCT
** * *
12986009 CTTTTTCTGCAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTAAAA
130 CTTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * *
12986074 AATGCTTCATGCAGGATGCACTGTCAGCAAAATTAGCAAAAAAAAGGTCTCACGTGAACGC
195 AATGCTTAAAGCAGGATGCACTGTCAGCAAAATTAGCAAAAAAAAGCTCTCACGTGAACGC
* * *
12986135 TCTTTTTCTACAATAGTTCCTG
1 TTTTTTTCTATAGTAGTTCCTG
12986157 CTTGGCCTTA
Statistics
Matches: 245, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
252 117 0.48
253 122 0.50
254 6 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (255 bp):
TTTTTTTCTATAGTAGTTCCTGAAAAAATTAATTTTGAGAAGACGATTCTAAAAAAATAATGTCA
AAAACGCTTCAAGCAGGATACACTATAACCAAAATTACTGAAAATAAGCTCCCACATGGACGCTC
TTTTTCAACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ATGCTTAAAGCAGGATGCACTGTCAGCAAAATTAGCAAAAAAAAGCTCTCACGTGAACGC
Found at i:12989402 original size:21 final size:21
Alignment explanation
Indices: 12989377--12989419 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
12989367 TATTGGTTCA
12989377 GCTCTCGGC-GGGGTTGTGGTT
1 GCTCT-GGCGGGGGTTGTGGTT
12989398 GCTCTGGCGGGGGTTGTGGTT
1 GCTCTGGCGGGGGTTGTGGTT
12989419 G
1 G
12989420 TGGGTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (21 bp):
GCTCTGGCGGGGGTTGTGGTT
Found at i:12991818 original size:26 final size:26
Alignment explanation
Indices: 12991788--12991861 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
12991778 AGAGCTCTTA
*
12991788 ATTAAAGGCTCTTTGTGAGCTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCAG
*** *
12991814 ATTAAAATTTCTTTGTGAACTTCCAG
1 ATTAAAGGCTCTTTGTGAGCTTCCAG
* *
12991840 ATT-ATGGCTC-TTATGAGCTTCC
1 ATTAAAGGCTCTTTGTGAGCTTCC
12991862 CGTTATATAG
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
24 10 0.27
25 3 0.08
26 24 0.65
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (26 bp):
ATTAAAGGCTCTTTGTGAGCTTCCAG
Found at i:12991906 original size:23 final size:25
Alignment explanation
Indices: 12991880--12991935 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
12991870 AGCCCGGATA
12991880 AGCTTCCCGA-TAT-GCTCTTTGTG
1 AGCTTCCCGATTATGGCTCTTTGTG
*
12991903 AGCTTCCTGATTTATGGCTCTTTGTG
1 AGCTTCCCGA-TTATGGCTCTTTGTG
*
12991929 AGTTTCC
1 AGCTTCC
12991936 TGTTATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.32
25 3 0.11
26 16 0.57
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (25 bp):
AGCTTCCCGATTATGGCTCTTTGTG
Found at i:12991925 original size:26 final size:26
Alignment explanation
Indices: 12991889--12991947 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
12991879 AAGCTTCCCG
12991889 ATAT-GCTCTTTGTGAGCTTCCTGATT
1 ATATGGCTCTTTGTGAGCTTCCTG-TT
*
12991915 -TATGGCTCTTTGTGAGTTTCCTGTT
1 ATATGGCTCTTTGTGAGCTTCCTGTT
12991940 ATATGGCT
1 ATATGGCT
12991948 GGAGAAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (26 bp):
ATATGGCTCTTTGTGAGCTTCCTGTT
Found at i:13001276 original size:24 final size:25
Alignment explanation
Indices: 13001221--13001276 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
13001211 AGCTTATCCA
13001221 AGCTTAATAACAGGAAACTCATAAG
1 AGCTTAATAACAGGAAACTCATAAG
* **
13001246 AGTTTAA-AACA-GAAATCTCATTTG
1 AGCTTAATAACAGGAAA-CTCATAAG
13001270 AGCTTAA
1 AGCTTAA
13001277 CGGGATAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 16 0.62
25 6 0.23
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (25 bp):
AGCTTAATAACAGGAAACTCATAAG
Found at i:13006537 original size:25 final size:25
Alignment explanation
Indices: 13006509--13006567 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
13006499 TATCTCTCAT
13006509 GAGCTTACCATTAATCAGCTCAGAG
1 GAGCTTACCATTAATCAGCTCAGAG
* *
13006534 GAGCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCATTAATCAGCTCAGAG
13006559 GAGCTTACC
1 GAGCTTACC
13006568 GTTTACAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
GAGCTTACCATTAATCAGCTCAGAG
Found at i:13008013 original size:30 final size:30
Alignment explanation
Indices: 13007979--13008058 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
13007969 AGCTAGACGG
* *
13007979 CTTGGCGACACGGCTGTGTGAGTCACACAA
1 CTTGGCCACAAGGCTGTGTGAGTCACACAA
* * *
13008009 CTTGGCCACATGGCTGTGTGAGTCGCACAG
1 CTTGGCCACAAGGCTGTGTGAGTCACACAA
*
13008039 CTTGGCCACAAGGCCGTGTG
1 CTTGGCCACAAGGCTGTGTG
13008059 GCCCCTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (30 bp):
CTTGGCCACAAGGCTGTGTGAGTCACACAA
Found at i:13009548 original size:18 final size:18
Alignment explanation
Indices: 13009511--13009548 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13009501 ATAAAATCAC
*
13009511 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
13009529 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
13009547 AT
1 AT
13009549 ATAGTGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:13012480 original size:22 final size:24
Alignment explanation
Indices: 13012438--13012482 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13012428 TCACTTATCG
*
13012438 TTTCTTCCACTACATTCTCTAATA
1 TTTCTTCCAATACATTCTCTAATA
13012462 TTTCTTCCAAT-C-TTCTCTAAT
1 TTTCTTCCAATACATTCTCTAAT
13012483 GGCTAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTCTTCCAATACATTCTCTAATA
Found at i:13013313 original size:24 final size:24
Alignment explanation
Indices: 13013281--13013345 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
13013271 TATTTTCTGA
13013281 TGCTGCTGAAGAGCCCACTCAAAC
1 TGCTGCTGAAGAGCCCACTCAAAC
* * * *
13013305 TGCTACTGAAGATCCTACTCAACC
1 TGCTGCTGAAGAGCCCACTCAAAC
* *
13013329 TGTTGCTAAAGAGCCCA
1 TGCTGCTGAAGAGCCCA
13013346 AACAGATGAC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (24 bp):
TGCTGCTGAAGAGCCCACTCAAAC
Found at i:13017335 original size:30 final size:30
Alignment explanation
Indices: 13017299--13017558 Score: 233
Period size: 29 Copynumber: 8.8 Consensus size: 30
13017289 GAATGCTAAA
* *
13017299 CGATGGTCAAAACCATCCCTTTTCTTTAAT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
* * * *
13017329 CGATGGTCGAAACCATTCCTTTTCTTTAAT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
* *
13017359 CGATGGTCAAAACCATCCCTTTTCTTTAAT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
* ** ***
13017389 CAATTTTCGTCACCATCCCTTTTC-ATATT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
* ***
13017418 CAATGGTCGTCACCATCCCTTTT-TATATT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
**
13017447 CGATGGTCGCAACCATCCCTTTTC-ATATT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
* * ** *
13017476 TGATGTTCATCACCCTCCCTTTTC-ATATT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
**
13017505 CGATGGTCATCACCATCCCTTTTC-ATATT
1 CGATGGTCAAAACCATCCCTTTTCTATATT
*
13017534 CGATGGTCAAAGCCATCCCTTTTCT
1 CGATGGTCAAAACCATCCCTTTTCT
13017559 TTAATCGGTG
Statistics
Matches: 198, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
29 124 0.63
30 74 0.37
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (30 bp):
CGATGGTCAAAACCATCCCTTTTCTATATT
Found at i:13017511 original size:87 final size:87
Alignment explanation
Indices: 13017310--13017564 Score: 287
Period size: 87 Copynumber: 2.9 Consensus size: 87
13017300 GATGGTCAAA
* * ** * * *
13017310 ACCATCCCTTTTCTTTAATCGATGGTCGAAACCATTCCTTTTCTTTAATCGATGGTCAAAACCAT
1 ACCATCCCTTTTC-ATATTCGATGGTCGTCACCATCCCTTTT-TATATTCGATGGTC-AAACCAT
* * *
13017375 CCCTTTTCTTTAATCAATTTTCGTC
63 CCCTTTTCTATAATCAATGTTCATC
* *
13017400 ACCATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTTATATTCGATGGTCGCAACCATCC
1 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATATTCGATGGTC-AAACCATCC
* **
13017465 CTTTTC-ATATTTGATGTTCATC
65 CTTTTCTATAATCAATGTTCATC
* * *
13017487 ACCCTCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATATTCGATGGTCAAAGCCATCC
1 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATATTCGATGGTCAAA-CCATCC
*
13017552 CTTTTCTTTAATC
65 CTTTTCTATAATC
13017565 GGTGGGCGTC
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
86 2 0.01
87 73 0.53
88 29 0.21
89 22 0.16
90 13 0.09
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.40
Consensus pattern (87 bp):
ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATATTCGATGGTCAAACCATCCC
TTTTCTATAATCAATGTTCATC
Found at i:13019287 original size:43 final size:42
Alignment explanation
Indices: 13019093--13019289 Score: 243
Period size: 43 Copynumber: 4.6 Consensus size: 42
13019083 CATAGGATTT
* *
13019093 TCGATATGTGATTACGTGTAAGAACACGTCTGGGACATTGGCA
1 TCGATATGTGATTACGTGTAAG-ACCCGTCTGGGACGTTGGCA
*
13019136 TCGATATGTGATTACGTATAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACC-CGTCTGGGACGTTGGCA
* * * * *
13019179 TTGATATGTGATTATGTGCAAGACCATGTCTGAGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACC-CGTCTGGGACGTTGGCA
*
13019222 TCGATATGTGATTACGTGTAAGACCCTGTATGGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCC-GTCTGGGAC-GTTGGCA
* *
13019265 TCGATATGTGATTACATATAAGACC
1 TCGATATGTGATTACGTGTAAGACC
13019290 ACAATTAAGA
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.01
43 131 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGATATGTGATTACGTGTAAGACCCGTCTGGGACGTTGGCA
Found at i:13039224 original size:27 final size:27
Alignment explanation
Indices: 13039186--13039240 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13039176 AATCATATTC
13039186 ATCAGAAATGCAATATTTAAGAATTTA
1 ATCAGAAATGCAATATTTAAGAATTTA
13039213 ATCAGAAATGCAATATTTAAGAATTTA
1 ATCAGAAATGCAATATTTAAGAATTTA
13039240 A
1 A
13039241 CACACAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (27 bp):
ATCAGAAATGCAATATTTAAGAATTTA
Found at i:13048722 original size:46 final size:46
Alignment explanation
Indices: 13048669--13048841 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
13048659 TGGTTGAGCA
*
13048669 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
13048715 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
13048762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
13048808 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13048842 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:13048825 original size:93 final size:93
Alignment explanation
Indices: 13048666--13048836 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
13048656 GGATGGTTGA
* * *
13048666 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
13048731 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
13048759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
13048824 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13048837 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13049103 original size:19 final size:20
Alignment explanation
Indices: 13049066--13049103 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13049056 ATAAGGTGGT
13049066 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
13049086 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
13049104 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:13059345 original size:11 final size:11
Alignment explanation
Indices: 13059329--13059387 Score: 72
Period size: 11 Copynumber: 5.7 Consensus size: 11
13059319 ACTTGATTTG
13059329 ACATGATATGC
1 ACATGATATGC
13059340 ACATGATATG-
1 ACATGATATGC
*
13059350 -TATGATATGC
1 ACATGATATGC
13059360 ACATGATATG-
1 ACATGATATGC
*
13059370 -TATGATATGC
1 ACATGATATGC
13059380 ACATGATA
1 ACATGATA
13059388 AATTCATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.40
11 24 0.60
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:13059356 original size:20 final size:20
Alignment explanation
Indices: 13059331--13059387 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
13059321 TTGATTTGAC
13059331 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
13059351 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
13059371 ATGATATGCACATGATA
1 ATGATATGCACATGATA
13059388 AATTCATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:13059497 original size:25 final size:25
Alignment explanation
Indices: 13059435--13059530 Score: 165
Period size: 25 Copynumber: 3.8 Consensus size: 25
13059425 GAGGAAGTGC
13059435 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
13059460 AAAAAGGGCTTTGCCCCAGTTTACCG
1 -AAAAGGGCTTTGCCCCAGTTTACCG
* *
13059486 AAAAGGGTTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
13059511 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
13059531 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 42 0.63
26 25 0.37
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:13059513 original size:51 final size:50
Alignment explanation
Indices: 13059435--13059530 Score: 165
Period size: 51 Copynumber: 1.9 Consensus size: 50
13059425 GAGGAAGTGC
13059435 AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG-AAAAGGGCTTTGCCCCAGTTTACCG
* *
13059486 AAAAGGGTTTTGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
13059531 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
50 20 0.47
51 23 0.53
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:13059554 original size:50 final size:51
Alignment explanation
Indices: 13059446--13059555 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 51
13059436 AAAGGGCTTT
* **
13059446 GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGTTTT
1 GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGGTAG
* **
13059497 GCCCCAGTTTATCG-AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGGTAG
1 GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGGTAG
13059546 GCCTCCAGTT
1 GCC-CCAGTT
13059556 ATGTGATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.10
49 9 0.18
50 24 0.47
51 13 0.25
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (51 bp):
GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGGTAG
Found at i:13059784 original size:30 final size:31
Alignment explanation
Indices: 13059750--13059823 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
13059740 CGTTTGCAGT
*
13059750 AAAGGCTTCGGCCCAATGATATG-ATAATGA
1 AAAGGCTTCGGCCCAATGACATGAATAATGA
* * *
13059780 AAAGGCTTCGGCCTAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAATGACATGAATAATGA
13059811 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
13059824 AAGTATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGACATGAATAATGA
Found at i:13067281 original size:11 final size:11
Alignment explanation
Indices: 13067265--13067303 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
13067255 ACATGATTCG
13067265 ACATGATATGC
1 ACATGATATGC
13067276 ACATGATATG-
1 ACATGATATGC
*
13067286 -TATGATATGC
1 ACATGATATGC
13067296 ACATGATA
1 ACATGATA
13067304 AATTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (11 bp):
ACATGATATGC
Found at i:13067407 original size:25 final size:25
Alignment explanation
Indices: 13067351--13067407 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
13067341 GAGGAAGTGC
* *
13067351 AAAAGGGCTTTGCCCCAGTTTATCC
1 AAAAGGGCTTTGCCCCAGGTTATCA
*
13067376 AAAAGGGCTTTGCCCC-GGTTATTA
1 AAAAGGGCTTTGCCCCAGGTTATCA
13067400 AAAGAGGG
1 AAA-AGGG
13067408 TAGGCCTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGGTTATCA
Found at i:13067661 original size:30 final size:31
Alignment explanation
Indices: 13067625--13067697 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
13067615 AAAGGATTCA
13067625 GCCCAGTGATATG-ATAATGAAAACGCTTCG
1 GCCCAGTGATATGAATAATGAAAACGCTTCG
* * *
13067655 GCCCAGTGACATGAATAATGCAAAGGCTTCG
1 GCCCAGTGATATGAATAATGAAAACGCTTCG
*
13067686 GCCAAGT-ATATG
1 GCCCAGTGATATG
13067698 TTGAGATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (31 bp):
GCCCAGTGATATGAATAATGAAAACGCTTCG
Found at i:13067684 original size:31 final size:30
Alignment explanation
Indices: 13067615--13067688 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
13067605 CGTTTACAGT
* * *
13067615 AAAGGATTCAGCCCAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGTGACATGATAATGA
* *
13067645 AAACGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATG-ATAATGA
13067676 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
13067689 AAGTATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGACATGATAATGA
Found at i:13068705 original size:20 final size:18
Alignment explanation
Indices: 13068658--13068706 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
13068648 CAAAATAAAC
13068658 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
13068675 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
13068695 ATTAAATTAATA
1 ATTAAATTAATA
13068707 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:13071431 original size:46 final size:46
Alignment explanation
Indices: 13071288--13071431 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
13071278 CTCGCCCATA
* *
13071288 AGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
13071337 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
13071380 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
13071427 AGTGA
1 AGTGA
13071432 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.44
47 28 0.36
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:13075076 original size:20 final size:20
Alignment explanation
Indices: 13075034--13075080 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13075024 TGGGAAATTG
* *
13075034 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATAA
*
13075054 AATCAAATTGATTAGAATAA
1 AATCAAATTGATTAAAATAA
13075074 AAT-AAAT
1 AATCAAAT
13075081 CAGAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (20 bp):
AATCAAATTGATTAAAATAA
Found at i:13077054 original size:22 final size:22
Alignment explanation
Indices: 13077029--13077112 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 22
13077019 CAGTTGATTT
13077029 ATTTAGTCTCCTTCTAAAATTA
1 ATTTAGTCTCCTTCTAAAATTA
* * ** * *
13077051 ATTTAATGTCAGT-T--GATTT
1 ATTTAGTCTCCTTCTAAAATTA
13077070 ATTTAGTCTCCTTCTAAAATTA
1 ATTTAGTCTCCTTCTAAAATTA
*
13077092 ATTTAGTCTGCTTCTAAAATT
1 ATTTAGTCTCCTTCTAAAATT
13077113 TGAAAGTTTA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
19 12 0.26
20 1 0.02
21 1 0.02
22 32 0.70
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (22 bp):
ATTTAGTCTCCTTCTAAAATTA
Found at i:13077073 original size:41 final size:41
Alignment explanation
Indices: 13077016--13077096 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
13077006 CTCTTGATAG
13077016 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
1 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
13077057 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTA
1 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTA
13077097 GTCTGCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.49
Consensus pattern (41 bp):
TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
Found at i:13080038 original size:21 final size:21
Alignment explanation
Indices: 13079998--13080335 Score: 141
Period size: 21 Copynumber: 16.2 Consensus size: 21
13079988 CATTGTTAAT
13079998 AGAAGCTCG-TA-AGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
*
13080017 AGAAGCTCGTTAGAGCTAAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * **
13080038 AGAAACTC-TTAAGAGTTGATT
1 AGAAGCTCGTT-AGAGCTGAAC
* * *
13080059 AGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * * * *
13080080 AAAAACTCATAAGAGTTTAAC
1 AGAAGCTCGTTAGAGCTGAAC
* **
13080101 ATAAGCTCAATAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * *
13080122 -GAAAACTC-ATATGAGTTAAAC
1 AG-AAGCTCGTTA-GAGCTGAAC
*
13080143 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * ** *
13080164 AAAAACTCGCGAGAGTTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
**
13080185 AGAAGCTCAATAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * * *
13080206 GGAAACTC-ATATGAGTTAAAC
1 AGAAGCTCGTTA-GAGCTGAAC
*
13080227 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * ** *
13080248 AAAAACTCGCGAGAGTTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
**
13080269 AGAAGCTCAATAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * * *
13080290 GGAAACTC-ATATGAGTTAAAC
1 AGAAGCTCGTTA-GAGCTGAAC
* *
13080311 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTTAGAGCTGAAC
13080332 AGAA
1 AGAA
13080336 AGTAAAACAT
Statistics
Matches: 235, Mismatches: 72, Indels: 22
0.71 0.22 0.07
Matches are distributed among these distances:
19 9 0.04
20 13 0.06
21 208 0.89
22 5 0.02
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
AGAAGCTCGTTAGAGCTGAAC
Found at i:13080076 original size:42 final size:42
Alignment explanation
Indices: 13080014--13080336 Score: 312
Period size: 42 Copynumber: 7.7 Consensus size: 42
13080004 TCGTAAGCTG
* * * * *
13080014 AACAGAAGCTCGTTAGAGCTAAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
** * * *
13080056 ATTAGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
* *
13080098 AACATAAGCTCA-ATAGAGCTGAAC-GAAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTGAACAG-AAACTCATAAGAGTTA
* * *** *
13080140 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCGCGAGAGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
* *
13080182 AACAGAAGCTCA-ATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTGAACAGAAACTCATAAGAGTTA
* * *** *
13080224 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCGCGAGAGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
* *
13080266 AACAGAAGCTCA-ATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTGAACAGAAACTCATAAGAGTTA
* *
13080308 AACAGAAGCTCGTAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAA
13080337 GTAAAACATG
Statistics
Matches: 224, Mismatches: 49, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
41 3 0.01
42 218 0.97
43 3 0.01
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTA
Found at i:13080165 original size:84 final size:84
Alignment explanation
Indices: 13080012--13080332 Score: 480
Period size: 84 Copynumber: 3.8 Consensus size: 84
13080002 GCTCGTAAGC
** * * * * * ** *
13080012 TGAACAGAAGCTCGTTAGAGCTAAACAGAAACTCTTAAGAGTTGATTAGAAGCTCATAAGAGCTA
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
***
13080077 AACAAAAACTCATAAGAGT
66 AACAAAAACTCGCGAGAGT
* * * *
13080096 TTAACATAAGCTCAATAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTG
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
13080161 AACAAAAACTCGCGAGAGT
66 AACAAAAACTCGCGAGAGT
*
13080180 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTG
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
13080245 AACAAAAACTCGCGAGAGT
66 AACAAAAACTCGCGAGAGT
13080264 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
1 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
13080329 AACA
66 AACA
13080333 GAAAGTAAAA
Statistics
Matches: 216, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 216 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (84 bp):
TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
AACAAAAACTCGCGAGAGT
Found at i:13085112 original size:12 final size:12
Alignment explanation
Indices: 13085095--13085119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13085085 GCCGACTACT
13085095 GTTACTGTTACC
1 GTTACTGTTACC
13085107 GTTACTGTTACC
1 GTTACTGTTACC
13085119 G
1 G
13085120 ATTCAGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:13085407 original size:18 final size:18
Alignment explanation
Indices: 13085344--13085414 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
13085334 TGGAAAGATC
13085344 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
13085363 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
13085381 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
13085399 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
13085415 CCGATCAGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:13085463 original size:18 final size:18
Alignment explanation
Indices: 13085431--13085494 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
13085421 AGTTGATTGA
*
13085431 TACTGAACAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
13085449 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
13085467 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
13085485 TACTGAATAA
1 TACTGAATAA
13085495 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:13085479 original size:36 final size:36
Alignment explanation
Indices: 13085423--13085503 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
13085413 AACCGATCAG
* * * *
13085423 TTGATTGATACTGAACAACTGATTATTATTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
*
13085459 TTGATTGTTACCGAATAACTGACTATTACTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
* *
13085495 ATAATTGTT
1 TTGATTGTT
13085504 CTGATTGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGATTGTTACCGAACAACTGACTATTACTGAATAA
Found at i:13093273 original size:32 final size:32
Alignment explanation
Indices: 13093227--13093295 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
13093217 TTTAGGATTT
13093227 CCTATTAATGAAACGTTGAGTTTTACTATCAG
1 CCTATTAATGAAACGTTGAGTTTTACTATCAG
* *
13093259 TCTATTAATTAAACGTTGAGTTTTACTATCAG
1 CCTATTAATGAAACGTTGAGTTTTACTATCAG
13093291 CCTAT
1 CCTAT
13093296 GTAAACGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (32 bp):
CCTATTAATGAAACGTTGAGTTTTACTATCAG
Found at i:13097417 original size:139 final size:139
Alignment explanation
Indices: 13097167--13097586 Score: 840
Period size: 139 Copynumber: 3.0 Consensus size: 139
13097157 GTAACGCAAA
13097167 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
1 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
13097232 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
66 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
13097297 TAAGTGAGG
131 TAAGTGAGG
13097306 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
1 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
13097371 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
66 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
13097436 TAAGTGAGG
131 TAAGTGAGG
13097445 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
1 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
13097510 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
66 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
13097575 TAAGTGAGG
131 TAAGTGAGG
13097584 TTG
1 TTG
13097587 GGGCACAAAA
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 281 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (139 bp):
TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
TAAGTGAGG
Found at i:13097779 original size:21 final size:21
Alignment explanation
Indices: 13097753--13097792 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13097743 AAGAATGAGG
13097753 TTACATATGATGTTCTGTTGA
1 TTACATATGATGTTCTGTTGA
*
13097774 TTACATATGATGTTTTGTT
1 TTACATATGATGTTCTGTT
13097793 TTGGACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (21 bp):
TTACATATGATGTTCTGTTGA
Found at i:13105079 original size:47 final size:45
Alignment explanation
Indices: 13105011--13105183 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
13105001 GGATTGTTGT
* *
13105011 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GACGA
* * *
13105057 GAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGC-CTCAGACGA
* * **
13105105 GAGCTAGCGTAAGACATGTCTGGGACATGCATCAACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGACG-A
* *
13105152 -AGCCAGAGTAAGACATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
13105184 AACTATGAGT
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 51 0.48
47 31 0.29
48 22 0.21
49 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGACGA
Found at i:13106695 original size:16 final size:16
Alignment explanation
Indices: 13106676--13106706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13106666 CTTTTTAACT
13106676 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
13106692 TACTTACTTACTTAA
1 TACTCACTTACTTAA
13106707 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:13106712 original size:20 final size:20
Alignment explanation
Indices: 13106673--13106712 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13106663 AAACTTTTTA
* *
13106673 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
13106693 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
13106713 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:13106833 original size:5 final size:5
Alignment explanation
Indices: 13106823--13106850 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13106813 TATAACTCAT
13106823 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
13106851 GATATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTAC
Found at i:13107099 original size:55 final size:53
Alignment explanation
Indices: 13106968--13107163 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 53
13106958 CTTACCATTT
* *
13106968 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * *
13107021 CCAT-ACGTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
* ** * *
13107076 CCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCGATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACC-AATG
* * * *
13107131 TCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
13107164 AAACCCTAGT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
52 3 0.03
53 34 0.29
54 6 0.05
55 70 0.60
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:13122250 original size:46 final size:45
Alignment explanation
Indices: 13122192--13122410 Score: 200
Period size: 46 Copynumber: 4.7 Consensus size: 45
13122182 GGATTATTGT
13122192 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACGA
*
13122238 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGG--CATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATT---ACGA
* * * **
13122286 GAGCTAGTGTAAGGCATGTCTGGGACGTGCATCAGCCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACG-A
*
13122333 -AGCTAGAGTAAGACATGTCTGGGACATGCATCGG--C--TACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
*
13122373 GTTGAGCTAGTGTAAGACCATGTCCGGGACATGGCATC
1 ---GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
13122411 AGCATCCTAC
Statistics
Matches: 144, Mismatches: 14, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
43 1 0.01
44 12 0.08
45 17 0.12
46 58 0.40
47 26 0.18
48 24 0.17
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
Found at i:13124871 original size:40 final size:40
Alignment explanation
Indices: 13124795--13124872 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
13124785 GCTAAGTGCC
* * * * * *
13124795 ATGTATAGCCGAAGTTATTTCGATACGCACACTAAGTGTT
1 ATGTATAGCCGAAGCTATCTCAAAACACACAATAAGTGTT
*
13124835 ATGTATAGCCGAAGCTATCTCAAAATACACAATAAGTG
1 ATGTATAGCCGAAGCTATCTCAAAACACACAATAAGTG
13124873 CCGCACATAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (40 bp):
ATGTATAGCCGAAGCTATCTCAAAACACACAATAAGTGTT
Found at i:13131664 original size:20 final size:20
Alignment explanation
Indices: 13131639--13131709 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
13131629 GGTTGAGGGG
*
13131639 CACGGGCGTGTTCCCAAGCA
1 CACGGGCGTGTCCCCAAGCA
*
13131659 CACGGGTGTGTCCCCAAGCA
1 CACGGGCGTGTCCCCAAGCA
*
13131679 CACGGGCATGTCCCCAAGCA
1 CACGGGCGTGTCCCCAAGCA
*
13131699 CATGGGCGTGT
1 CACGGGCGTGT
13131710 GCTTTGCCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (20 bp):
CACGGGCGTGTCCCCAAGCA
Found at i:13134598 original size:40 final size:40
Alignment explanation
Indices: 13134543--13134678 Score: 177
Period size: 40 Copynumber: 3.4 Consensus size: 40
13134533 GGATGATAAC
*
13134543 CGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATATT
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATT
* *
13134583 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATT
* * * *
13134623 CGGGCTAGGACACGAAGGCATTTGTGTGAGTTGTTATA-T
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATT
*
13134662 CCGGCTAA-ATCCCGAAG
1 CGGGCTAAGA-CCCGAAG
13134679 ATACTTGGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 70 0.84
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATT
Found at i:13134947 original size:22 final size:22
Alignment explanation
Indices: 13134905--13134948 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13134895 AAAATGTGCA
* *
13134905 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
13134927 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
13134949 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:13137320 original size:28 final size:29
Alignment explanation
Indices: 13137289--13137349 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
13137279 AAAAAATCAA
* *
13137289 TTTTTG-AGCCTAGGGGTAAAATGGTTAT
1 TTTTTGAAGCCTAGGGGCAAAATGGTCAT
*
13137317 TTTTTGAAAGTCTAGGGGCAAAATGGTCAT
1 TTTTTG-AAGCCTAGGGGCAAAATGGTCAT
13137347 TTT
1 TTT
13137350 GCCAAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 6 0.21
30 22 0.79
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (29 bp):
TTTTTGAAGCCTAGGGGCAAAATGGTCAT
Found at i:13143002 original size:46 final size:46
Alignment explanation
Indices: 13142942--13143035 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
13142932 CAAGAGTAAG
13142942 GTTTTGAAGCTTAAAACTTTCAGCCATTCATCTCCCTCTCAAGAAA
1 GTTTTGAAGCTTAAAACTTTCAGCCATTCATCTCCCTCTCAAGAAA
*
13142988 GTTTTGAAGCTTAAAACTTTCAGCCATTCATCTCCCTCTCAAGTAA
1 GTTTTGAAGCTTAAAACTTTCAGCCATTCATCTCCCTCTCAAGAAA
13143034 GT
1 GT
13143036 GATTAAGATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (46 bp):
GTTTTGAAGCTTAAAACTTTCAGCCATTCATCTCCCTCTCAAGAAA
Found at i:13150757 original size:44 final size:42
Alignment explanation
Indices: 13150662--13150775 Score: 122
Period size: 44 Copynumber: 2.7 Consensus size: 42
13150652 TCGAAGCACT
* *
13150662 ATCCCAGACACGGTCTTACAC-AAATTCAAACACAATGCCAAT
1 ATCCCAGACATGGTCTTACACGAAA-TCAAACACAATGCCAAC
* * ** *
13150704 TTCCAAGACATGGTCTTACACGTAAATCATAAGTCGATGCCAAC
1 ATCCCAGACATGGTCTTACACG-AAATCA-AACACAATGCCAAC
*
13150748 ATCCCAGACATGGTCTTACATGAAATCA
1 ATCCCAGACATGGTCTTACACGAAATCA
13150776 CATATCGGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 18 0.31
43 9 0.15
44 32 0.54
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (42 bp):
ATCCCAGACATGGTCTTACACGAAATCAAACACAATGCCAAC
Found at i:13153366 original size:27 final size:27
Alignment explanation
Indices: 13153335--13153387 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
13153325 GTTATGTGAT
* *
13153335 ATTGAATGGCAAATTATTGTTACATGA
1 ATTGAATGGCAAATTACTATTACATGA
**
13153362 ATTGAATGTTAAATTACTATTACATG
1 ATTGAATGGCAAATTACTATTACATG
13153388 TGTAATAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTGAATGGCAAATTACTATTACATGA
Found at i:13154235 original size:30 final size:30
Alignment explanation
Indices: 13154201--13154261 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13154191 TTCCCGAGCC
*
13154201 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
* * *
13154231 TAGGGGCAAAATTGTAATTTTACAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
13154261 T
1 T
13154262 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAAGTT
Found at i:13157380 original size:50 final size:49
Alignment explanation
Indices: 13157205--13157449 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
13157195 TCTATTGTAA
* * * *
13157205 GGTCACGCGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
13157254 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
13157304 CGATCACGTGAGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
13157354 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
13157404 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
13157450 GCCTTGTCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 80 0.49
50 47 0.29
51 37 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:13157479 original size:150 final size:150
Alignment explanation
Indices: 13157204--13157482 Score: 400
Period size: 150 Copynumber: 1.9 Consensus size: 150
13157194 ATCTATTGTA
* *
13157204 AGGTCACGCGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGT
* ** ** *
13157269 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGAGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGAGTAAAAATAAGTGCAGGCT
13157334 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
* * *
13157354 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGT
1 AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGT
* * *
13157419 ACTAAGTGCAGGCTACTATGCGTACCAGATAGCCTT-G-TCTACAAGTGTAAAAATATGTGCAGG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTCGATC-ACAAGAGTAAAAATAAGTGCAGG
13157482 C
129 C
13157483 AACTGAGTAT
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
149 2 0.02
150 108 0.96
151 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (150 bp):
AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGAGTAAAAATAAGTGCAGGCT
ACTACGTGTATCAGATGGTT
Found at i:13160989 original size:26 final size:27
Alignment explanation
Indices: 13160948--13161057 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
13160938 CCTTAATCGA
* *
13160948 TAAAATGACTACTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
13160975 T-AAATGTCTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* * *
13161001 TAAAATGATTGTTTTTCCCTTATGA-GG
1 TAAAATGACTATTTTGCCCTTAT-ATGG
* *
13161028 TAAAATAACTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
13161055 TAA
1 TAA
13161058 CCCTTATGAG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.34
27 45 0.64
28 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:13161074 original size:41 final size:41
Alignment explanation
Indices: 13161017--13161098 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
13161007 GATTGTTTTT
**
13161017 CCCTTATGAGGTAAAATAACTGTTTTGCCCTTATATGGTAA
1 CCCTTATGAGGTAAAATAACTGTTTCACCCTTATATGGTAA
* *
13161058 CCCTTATGAGGTAAAATGACTGTTTCACCCTTTTATGGTAA
1 CCCTTATGAGGTAAAATAACTGTTTCACCCTTATATGGTAA
13161099 AACGACTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (41 bp):
CCCTTATGAGGTAAAATAACTGTTTCACCCTTATATGGTAA
Found at i:13161097 original size:27 final size:27
Alignment explanation
Indices: 13161067--13161141 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
13161057 ACCCTTATGA
13161067 GGTAAAATGACTGTTTCACCCTTTTAT
1 GGTAAAATGACTGTTTCACCCTTTTAT
* *
13161094 GGTAAAACGACTGTTTCGCCCTTTTAT
1 GGTAAAATGACTGTTTCACCCTTTTAT
*
13161121 GGTAAAATGACTGTTTTACCC
1 GGTAAAATGACTGTTTCACCC
13161142 CTATGTGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAAAATGACTGTTTCACCCTTTTAT
Found at i:13161099 original size:68 final size:68
Alignment explanation
Indices: 13160990--13161125 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 68
13160980 GTCTATTTTG
* ** * *
13160990 CCCTTATATGGTAAAATGATTGTTTTTCCCTTATGAGGTAAAATAACTGTTTTGCCCTTATATGG
1 CCCTTATATGGTAAAATGACTGTTTCACCCTTATGAGGTAAAACAACTGTTTCGCCCTTATATGG
13161055 TAA
66 TAA
* * *
13161058 CCCTTATGA-GGTAAAATGACTGTTTCACCCTT-TTATGGTAAAACGACTGTTTCGCCCTTTTAT
1 CCCTTAT-ATGGTAAAATGACTGTTTCACCCTTATGA-GGTAAAACAACTGTTTCGCCCTTATAT
13161121 GGTAA
64 GGTAA
13161126 AATGACTGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 2 0.03
68 55 0.95
69 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (68 bp):
CCCTTATATGGTAAAATGACTGTTTCACCCTTATGAGGTAAAACAACTGTTTCGCCCTTATATGG
TAA
Found at i:13161126 original size:95 final size:94
Alignment explanation
Indices: 13160964--13161137 Score: 215
Period size: 95 Copynumber: 1.8 Consensus size: 94
13160954 GACTACTTTG
* * ** * * **
13160964 CCCTTATGTGGTAAATGTCTATTTTGCCCTTATATGGTAAAATGATTGTTTTTCCCTTATGAGGT
1 CCCTTATGAGGTAAATGACTATTTCACCCTTATATGGTAAAACGACTGTTTCGCCCTTATGAGGT
13161029 AAAATAACTGTTTTGCCCTTATATGGTAA
66 AAAATAACTGTTTTGCCCTTATATGGTAA
* * *
13161058 CCCTTATGAGGTAAAATGACTGTTTCACCCTTTTATGGTAAAACGACTGTTTCGCCCTT-TTATG
1 CCCTTATGAGGT-AAATGACTATTTCACCCTTATATGGTAAAACGACTGTTTCGCCCTTATGA-G
*
13161122 GTAAAATGACTGTTTT
64 GTAAAATAACTGTTTT
13161138 ACCCCTATGT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
94 13 0.20
95 53 0.80
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (94 bp):
CCCTTATGAGGTAAATGACTATTTCACCCTTATATGGTAAAACGACTGTTTCGCCCTTATGAGGT
AAAATAACTGTTTTGCCCTTATATGGTAA
Found at i:13165250 original size:15 final size:15
Alignment explanation
Indices: 13165227--13165256 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13165217 TCCTACTGCT
*
13165227 AACAGATATAAATCC
1 AACAAATATAAATCC
13165242 AACAAATATAAATCC
1 AACAAATATAAATCC
13165257 CCAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (15 bp):
AACAAATATAAATCC
Found at i:13165581 original size:34 final size:33
Alignment explanation
Indices: 13165524--13165601 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
13165514 CAGAAACAGT
*
13165524 ACAGTATCAGTTAGGCATTAGCCCAATACAATA
1 ACAGTATCAGTTAGGCATGAGCCCAATACAATA
* * * * *
13165557 ATAGTAGCAGTCTAGGCCTGAGCCCATTACAGTA
1 ACAGTATCAGT-TAGGCATGAGCCCAATACAATA
13165591 ACAGTATCAGT
1 ACAGTATCAGT
13165602 GGGGCCCAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 9 0.25
34 27 0.75
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (33 bp):
ACAGTATCAGTTAGGCATGAGCCCAATACAATA
Found at i:13172814 original size:34 final size:33
Alignment explanation
Indices: 13172758--13172834 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 33
13172748 AGAACCAGTC
*
13172758 CAGTATCAGTTAGGCCTTAGCCCAATACAATAA
1 CAGTATCAGTTAGGCCTGAGCCCAATACAATAA
* * *
13172791 CAGTAGCAGTCTAGGCCTGAGCCCATTACAGTAA
1 CAGTATCAGT-TAGGCCTGAGCCCAATACAATAA
13172825 CAGTATCAGT
1 CAGTATCAGT
13172835 GGGGCCTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 9 0.24
34 29 0.76
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (33 bp):
CAGTATCAGTTAGGCCTGAGCCCAATACAATAA
Found at i:13173341 original size:18 final size:18
Alignment explanation
Indices: 13173304--13173344 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13173294 CCATAATGAG
*
13173304 GCCCATGTGGGCCCATAA
1 GCCCATGTGGGCCCAAAA
13173322 GCCCATGT-GGCCCACAAA
1 GCCCATGTGGGCCCA-AAA
13173340 GCCCA
1 GCCCA
13173345 AAAATGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCAAAA
Found at i:13176523 original size:43 final size:44
Alignment explanation
Indices: 13176455--13176583 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 44
13176445 TTTTTATTCA
* *
13176455 TTCACCGGCATT-TCGCCTGCTAGGCTCG-AGGC-CTGATATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCAC-GA-ATAATG
13176497 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCACGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCG-AAGGCACGAATAATG
* * * *
13176542 TCTCACCGGCATAATAGTCTGCTAGGCTCAAAGGCCCGAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCACGAATA
13176584 TAATACCAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 12 0.16
43 15 0.20
44 4 0.05
45 18 0.24
46 26 0.35
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (44 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCACGAATAATG
Found at i:13176644 original size:38 final size:38
Alignment explanation
Indices: 13176581--13176774 Score: 307
Period size: 38 Copynumber: 5.1 Consensus size: 38
13176571 AAAGGCCCGA
* *
13176581 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
* *
13176619 ATATAATACCAGTACGAAGCATGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
*
13176657 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
* *
13176695 ATATAATACCAGTACGAAGCATGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
* *
13176733 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
13176771 ATAT
1 ATAT
13176775 CATATTTCGA
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 142 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
Found at i:13176707 original size:76 final size:76
Alignment explanation
Indices: 13176581--13176774 Score: 352
Period size: 76 Copynumber: 2.6 Consensus size: 76
13176571 AAAGGCCCGA
* * *
13176581 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCTGGATATAATACCAGTACGAAGCATGCGGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAATACCAGTACGAAGCATGCGGG
13176646 ATTTAACCTGG
66 ATTTAACCTGG
13176657 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAATACCAGTACGAAGCATGCGGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAATACCAGTACGAAGCATGCGGG
13176722 ATTTAACCTGG
66 ATTTAACCTGG
*
13176733 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
13176775 CATATTTCGA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 114 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (76 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAATACCAGTACGAAGCATGCGGG
ATTTAACCTGG
Found at i:13184783 original size:27 final size:27
Alignment explanation
Indices: 13184183--13184783 Score: 701
Period size: 27 Copynumber: 22.3 Consensus size: 27
13184173 CCAAAGTACT
*
13184183 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
13184210 CTC-AGTTTATAAAATTACCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
13184237 CTTGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
13184264 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * *
13184291 CTCGATTTTTAAAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
13184318 CTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
13184345 CTC-AGTTTAAAGAATTATCGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
13184372 CTCAATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * *
13184399 CTCGATTTTTAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
13184426 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
13184453 CTC-AGTTTACAGAATTACTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* * *
13184480 CTCGATTTATATAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
13184507 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
13184534 CTCTATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
**
13184561 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
13184588 CTCGATTTACAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
13184615 CTC-AGTTTACAGAATTACTGCTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
13184642 TTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** * *
13184669 CTCGATTTGTAAAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * * * *
13184696 CTTGATTTATAGAATTGCTGGTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
13184723 CTC-AGTTTACAAAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
13184750 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
13184777 CTTGATT
1 CTCGATT
13184784 GTGCAATTAC
Statistics
Matches: 489, Mismatches: 73, Indels: 24
0.83 0.12 0.04
Matches are distributed among these distances:
26 6 0.01
27 477 0.98
28 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:13184818 original size:27 final size:27
Alignment explanation
Indices: 13184788--13184982 Score: 198
Period size: 27 Copynumber: 7.2 Consensus size: 27
13184778 TTGATTGTGC
13184788 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
13184815 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
13184842 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
13184869 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
13184896 AATTA-TCAAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
13184923 AAATACCGAAATACCACTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
13184950 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
13184977 AATTAC
1 AATTAC
13184983 CATTTTGCCC
Statistics
Matches: 138, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:13184856 original size:54 final size:54
Alignment explanation
Indices: 13184795--13184983 Score: 245
Period size: 54 Copynumber: 3.5 Consensus size: 54
13184785 TGCAATTACT
* ** *
13184795 GAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTA-C
1 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * *
13184848 TGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTATC
1 -GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * *
13184903 AAAATACCCTTGTAGGGTAGAAATACCGAAATACCACTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
* * *
13184957 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
13184984 ATTTTGCCCC
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
54 115 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC
Found at i:13184890 original size:81 final size:81
Alignment explanation
Indices: 13184796--13184981 Score: 230
Period size: 81 Copynumber: 2.3 Consensus size: 81
13184786 GCAATTACTG
* * * *
13184796 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACC-CTT
1 AAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCAC-T
13184860 ATAGGATAGAATTACCA
65 ATAGGATAGAATTACCA
* * *
13184877 AAATACCCCTGTAGGGTAGAATTATCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCACTG
1 AAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCACTA
* * *
13184942 TAGGGTAGAATTATCG
66 TAGGATAGAATTACCA
* * * *
13184958 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
13184982 CCATTTTGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 89 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCACTA
TAGGATAGAATTACCA
Found at i:13185220 original size:27 final size:26
Alignment explanation
Indices: 13185182--13185236 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
13185172 CGGAGGAAGC
13185182 GTTCTGATGGCTATGCCACAAATATCT
1 GTTCTGATGGCTATGCCAC-AATATCT
* * *
13185209 GTTCTGGTGGCTCTGCTACAATATCT
1 GTTCTGATGGCTATGCCACAATATCT
13185235 GT
1 GT
13185237 ATTTGGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGATGGCTATGCCACAATATCT
Found at i:13185243 original size:27 final size:26
Alignment explanation
Indices: 13185202--13185261 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
13185192 CTATGCCACA
*
13185202 AATATCTGTTCTGGTGGCTCTG-CTAC
1 AATATCTGTTCTGGTGACTCTGTC-AC
*
13185228 AATATCTGTATTTGGTGACTCTGTCAC
1 AATATCTGT-TCTGGTGACTCTGTCAC
13185255 AATATCT
1 AATATCT
13185262 ATTGACCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 9 0.30
27 20 0.67
28 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (26 bp):
AATATCTGTTCTGGTGACTCTGTCAC
Found at i:13185384 original size:22 final size:22
Alignment explanation
Indices: 13185352--13185410 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
13185342 CCCATTATTA
*
13185352 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
13185374 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
13185396 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
13185411 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:13185605 original size:27 final size:25
Alignment explanation
Indices: 13185575--13185648 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
13185565 TAGTTGGGTT
*
13185575 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACA-TATCTG-TTCTGGTGACTC
13185602 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCAC-ATATCTGT-TCTGGTGACTC
*
13185629 TGTCACGATATCTGTTCTGG
1 TGCCAC-ATATCTGTTCTGG
13185649 CAGCCATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 35 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TGCCACATATCTGTTCTGGTGACTC
Found at i:13185798 original size:6 final size:6
Alignment explanation
Indices: 13185789--13185919 Score: 137
Period size: 6 Copynumber: 21.8 Consensus size: 6
13185779 CTGTCACCTA
* * *
13185789 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
13185837 ATTCTG -TTACTG A-TCTG ATTCTG AATTCTG -TTACTA ATACTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG -ATTCTG ATT-CTG ATTCTG ATTCTG
13185885 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
13185920 CATTTTGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
5 12 0.11
6 83 0.79
7 10 0.10
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:13185826 original size:30 final size:30
Alignment explanation
Indices: 13185764--13185919 Score: 198
Period size: 30 Copynumber: 5.4 Consensus size: 30
13185754 TTGCATTCAC
* * *
13185764 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
13185795 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
13185825 ATTCTGATTTTGATTCTGTTACTGAT-CTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
13185854 ATTCTGA-----ATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
13185879 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
13185909 ATTCTGATTCT
1 ATTCTGATTCT
13185920 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
24 13 0.12
25 10 0.09
29 10 0.09
30 59 0.53
31 19 0.17
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:13187293 original size:116 final size:116
Alignment explanation
Indices: 13187058--13187293 Score: 296
Period size: 116 Copynumber: 2.0 Consensus size: 116
13187048 AATACTTTTC
* *
13187058 AAAATATATTGATACCTATTGAATTTTATCGATATCATCTTTTTAAATCGATACCACTTTTGCAT
1 AAAACATATTGATACCTATTGAATTTTATCGATATCATCTTTTTAAATCGAAACCACTTTTGCAT
* ** * * *
13187123 TCTAACTTCGAGACTTTTGACCAATGACAAAAAGTATAGATACTTTTTAAA
66 TCTAACTTCGAGACTTTTAAAAAATCACAAAAAGTATAGATACCTATTAAA
* * *
13187174 AAAACATATTGATACCTATTGTATTTTATCTATA-CTATCTTTTTATATCGAAACCACTTTTGCA
1 AAAACATATTGATACCTATTGAATTTTATCGATATC-ATCTTTTTAAATCGAAACCACTTTTGCA
* * * *
13187238 TTCTGACTT-GATGATTTTTCAAAAAATCACAAAAAGTATCGATACCTATTCAA
65 TTCTAACTTCGA-GACTTTT-AAAAAATCACAAAAAGTATAGATACCTATTAAA
13187291 AAA
1 AAA
13187294 TATCGAGACA
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
115 3 0.03
116 71 0.70
117 28 0.27
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (116 bp):
AAAACATATTGATACCTATTGAATTTTATCGATATCATCTTTTTAAATCGAAACCACTTTTGCAT
TCTAACTTCGAGACTTTTAAAAAATCACAAAAAGTATAGATACCTATTAAA
Found at i:13188680 original size:13 final size:13
Alignment explanation
Indices: 13188662--13188686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13188652 TAATTAAGAT
13188662 TCAATCCAAATTA
1 TCAATCCAAATTA
13188675 TCAATCCAAATT
1 TCAATCCAAATT
13188687 TAACACATGT
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
TCAATCCAAATTA
Found at i:13189396 original size:17 final size:17
Alignment explanation
Indices: 13189374--13189420 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
13189364 AATAAACTCT
13189374 GTACAATCACATACCTC
1 GTACAATCACATACCTC
*
13189391 GTACAATCACATACTTC
1 GTACAATCACATACCTC
*
13189408 GTACCATCACATA
1 GTACAATCACATA
13189421 TAACCTGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.32, G:0.06, T:0.26
Consensus pattern (17 bp):
GTACAATCACATACCTC
Found at i:13194704 original size:6 final size:6
Alignment explanation
Indices: 13194693--13194736 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
13194683 TGCACTTCCC
13194693 AAAAAT AAAAAT AAAAAT CCAAAATAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT ---AAA-AAT AAAAAT AAAAAT AAAA
13194737 CTAATAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 25 0.74
7 3 0.09
9 3 0.09
10 3 0.09
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Done.