Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 57 of 131
Found at i:11635062 original size:147 final size:144
Alignment explanation
Indices: 11634750--11635163 Score: 395
Period size: 147 Copynumber: 2.9 Consensus size: 144
11634740 AACCTTGATT
** *
11634750 GCACCTCGGGAGGATTTAAATTATCAAAATGCCATTTAGGAAG-ATTTTCATAATTTGACTTTCC
1 GCACCTCAAGAGGATTTAAATTATCAAAATGCCCTTTAGG-AGTATTTTCATAATTTGACTTTCC
** * * * *
11634814 TAAGATCGATTTTTAGTAAAAAGCTCTAGATCATGATTAAACATTATTTTATGATTTTTAATACA
65 TAAGATCGATTTTTAAAAAAAAACTCCAAATCATGATTAAACATTATTTTATGACTTTTAATACA
* *
11634879 CTAAAAACCCTAATT
130 CTAAAAACCCCAATC
* * *
11634894 GCACCTCAAGAGGATTCAAATTATCAAAATGCCCTTTAGGAGTATTTTCGTTATTTGACCTTT-C
1 GCACCTCAAGAGGATTTAAATTATCAAAATGCCCTTTAGGAGTATTTTCATAATTTGA-CTTTCC
* **
11634958 TGAGATCGACTTTTTGCAAAAAAAAACTCCAAATCATGATTAAACATTATTTTATGACTTTTGGT
65 TAAGATCGA-TTTTT--AAAAAAAAACTCCAAATCATGATTAAACATTATTTTATGACTTTTAAT
** * *
11635023 GTATTAAAAACCCCGATC
127 ACACTAAAAACCCCAATC
* * * * * *
11635041 GCACCTTGAA-AGGGTTTAAATTATCAAAATGCCCTTTAAGTGTATTTTCATAATTTAACATTCT
1 GCACC-TCAAGAGGATTTAAATTATCAAAATGCCCTTTAGGAGTATTTTCATAATTTGACTTTC-
* * * * * ** * * * *
11635105 CGATGTTAG-TTTTTCATGAAAAACTCTAGATCATGATTAAATATTATTTTATGATTTTT
64 CTAAGATCGATTTTTAAAAAAAAACTCCAAATCATGATTAAACATTATTTTATGACTTTT
11635164 GGTGCATTGA
Statistics
Matches: 220, Mismatches: 42, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
143 2 0.01
144 96 0.44
145 9 0.04
146 8 0.04
147 98 0.45
148 7 0.03
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (144 bp):
GCACCTCAAGAGGATTTAAATTATCAAAATGCCCTTTAGGAGTATTTTCATAATTTGACTTTCCT
AAGATCGATTTTTAAAAAAAAACTCCAAATCATGATTAAACATTATTTTATGACTTTTAATACAC
TAAAAACCCCAATC
Found at i:11635818 original size:22 final size:22
Alignment explanation
Indices: 11635776--11635818 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11635766 GAACCTCCTA
* *
11635776 TTGTTTTGTTTATGTGGTTTTC
1 TTGTTTTGTTAATGTGATTTTC
11635798 TTGTTTTGATTAATGT-ATTTT
1 TTGTTTTG-TTAATGTGATTTT
11635819 GCTGGCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.12, C:0.02, G:0.19, T:0.67
Consensus pattern (22 bp):
TTGTTTTGTTAATGTGATTTTC
Found at i:11636539 original size:7 final size:7
Alignment explanation
Indices: 11636527--11636699 Score: 137
Period size: 7 Copynumber: 25.7 Consensus size: 7
11636517 ATCACTCATG
11636527 TAAACCC
1 TAAACCC
11636534 TAAA-CC
1 TAAACCC
*
11636540 AAAACCC
1 TAAACCC
* *
11636547 CAAACCT
1 TAAACCC
11636554 TAAA-CC
1 TAAACCC
*
11636560 AAAACCC
1 TAAACCC
*
11636567 CAAACCC
1 TAAACCC
*
11636574 TAAACCT
1 TAAACCC
11636581 TAAA--C
1 TAAACCC
*
11636586 TAAAATCC
1 T-AAACCC
11636594 TAAACCC
1 TAAACCC
*
11636601 CAAACCC
1 TAAACCC
11636608 TAAACCC
1 TAAACCC
11636615 TAAA-CC
1 TAAACCC
*
11636621 AAAACCC
1 TAAACCC
*
11636628 TAAATCC
1 TAAACCC
11636635 TAAACCC
1 TAAACCC
11636642 -AAACCC
1 TAAACCC
* *
11636648 CAAACCT
1 TAAACCC
*
11636655 TAGACCC
1 TAAACCC
11636662 -AAACCC
1 TAAACCC
*
11636668 CAAACCC
1 TAAACCC
*
11636675 TAGA-CC
1 TAAACCC
11636681 TAAACCC
1 TAAACCC
*
11636688 CAAACCC
1 TAAACCC
11636695 TAAAC
1 TAAAC
11636700 AAAACCTCAA
Statistics
Matches: 130, Mismatches: 27, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
5 1 0.01
6 33 0.25
7 94 0.72
8 2 0.02
ACGTcount: A:0.46, C:0.41, G:0.01, T:0.12
Consensus pattern (7 bp):
TAAACCC
Found at i:11636557 original size:20 final size:20
Alignment explanation
Indices: 11636528--11636705 Score: 189
Period size: 20 Copynumber: 8.9 Consensus size: 20
11636518 TCACTCATGT
11636528 AAACCCTAAACCAAAACCCC
1 AAACCCTAAACCAAAACCCC
*
11636548 AAACCTTAAACCAAAACCCC
1 AAACCCTAAACCAAAACCCC
* **
11636568 AAACCCTAAACCTTAAA-CTA
1 AAACCCTAAACC-AAAACCCC
* * *
11636588 AAATCCTAAACCCCAAACCCT
1 AAACCCTAAA-CCAAAACCCC
*
11636609 AAACCCTAAACCAAAACCCT
1 AAACCCTAAACCAAAACCCC
* *
11636629 AAATCCTAAACCCAAACCCC
1 AAACCCTAAACCAAAACCCC
* * *
11636649 AAACCTTAGACCCAAACCCC
1 AAACCCTAAACCAAAACCCC
* *
11636669 AAACCCTAGACCTAAACCCC
1 AAACCCTAAACCAAAACCCC
11636689 AAACCCTAAA-CAAAACC
1 AAACCCTAAACCAAAACC
11636706 TCAACTCCAA
Statistics
Matches: 134, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
19 6 0.04
20 113 0.84
21 15 0.11
ACGTcount: A:0.47, C:0.41, G:0.01, T:0.11
Consensus pattern (20 bp):
AAACCCTAAACCAAAACCCC
Found at i:11636571 original size:27 final size:27
Alignment explanation
Indices: 11636541--11636653 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
11636531 CCCTAAACCA
11636541 AAACCCCAAACCTTAAACCAAAACCCC
1 AAACCCCAAACCTTAAACCAAAACCCC
* * * *
11636568 AAACCCTAAACCTTAAACTAAAATCCT
1 AAACCCCAAACCTTAAACCAAAACCCC
* * *
11636595 AAACCCCAAACCCTAAACCCTAAA-CCA
1 AAACCCCAAACCTTAAA-CCAAAACCCC
* *
11636622 AAACCCTAAATCC-TAAACCCAAACCCC
1 AAACCCCAAA-CCTTAAACCAAAACCCC
11636649 AAACC
1 AAACC
11636654 TTAGACCCAA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.07
27 60 0.85
28 6 0.08
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.12
Consensus pattern (27 bp):
AAACCCCAAACCTTAAACCAAAACCCC
Found at i:11636681 original size:27 final size:27
Alignment explanation
Indices: 11636602--11636699 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
11636592 CCTAAACCCC
* * *
11636602 AAACCCTAAACCCTAAA-CCAAAACCCT
1 AAACCCCAAACCCCAAACCCCAAA-CCT
* *
11636629 AAATCCTAAA-CCCAAACCCCAAACCTT
1 AAACCCCAAACCCCAAACCCCAAACC-T
* * *
11636656 AGA-CCCAAACCCCAAACCCTAGACCT
1 AAACCCCAAACCCCAAACCCCAAACCT
*
11636682 AAACCCCAAACCCTAAAC
1 AAACCCCAAACCCCAAAC
11636700 AAAACCTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 15 0.26
27 43 0.74
ACGTcount: A:0.45, C:0.43, G:0.02, T:0.10
Consensus pattern (27 bp):
AAACCCCAAACCCCAAACCCCAAACCT
Found at i:11638626 original size:35 final size:35
Alignment explanation
Indices: 11638560--11638687 Score: 114
Period size: 35 Copynumber: 3.7 Consensus size: 35
11638550 TTGAGCTATG
* * * **
11638560 ATTCAATCCCGATCA-CTTTATTTTTTGACTTGTG
1 ATTCAATCTCGATCATCTTTATTTTCTAACTTGCA
* * *
11638594 ATTCAATCTTGGTCATTTTTATTTTCTAACTTGCA
1 ATTCAATCTCGATCATCTTTATTTTCTAACTTGCA
* * *
11638629 ATTCAGTCTCGATCATCTTTATTTTTTGACTTGCA
1 ATTCAATCTCGATCATCTTTATTTTCTAACTTGCA
* * * *
11638664 ATTCAGTCCCAATCATTTTTATTT
1 ATTCAATCTCGATCATCTTTATTT
11638688 CTTGACTTGT
Statistics
Matches: 76, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
34 12 0.16
35 64 0.84
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.49
Consensus pattern (35 bp):
ATTCAATCTCGATCATCTTTATTTTCTAACTTGCA
Found at i:11638693 original size:35 final size:35
Alignment explanation
Indices: 11638606--11638729 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 35
11638596 TCAATCTTGG
* * *
11638606 TCATTTTTATTT-TCTAACTTGCAATTCAGTCTCGA
1 TCATTTTTATTTCT-TGACTTGCAATTCAGTCCCAA
* *
11638641 TCATCTTTATTTTTTGACTTGCAATTCAGTCCCAA
1 TCATTTTTATTTCTTGACTTGCAATTCAGTCCCAA
** * *
11638676 TCATTTTTATTTCTTGACTTGTGATTCAGTCCTAG
1 TCATTTTTATTTCTTGACTTGCAATTCAGTCCCAA
11638711 TC-TTTTTAGTTTC-TGACTT
1 TCATTTTTA-TTTCTTGACTT
11638730 ACAGTTCAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
34 12 0.16
35 64 0.83
36 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.51
Consensus pattern (35 bp):
TCATTTTTATTTCTTGACTTGCAATTCAGTCCCAA
Found at i:11638703 original size:70 final size:69
Alignment explanation
Indices: 11638558--11638707 Score: 167
Period size: 70 Copynumber: 2.2 Consensus size: 69
11638548 TTTTGAGCTA
* ** ****
11638558 TGATTCAATCCCGATCACTTTATTTTTTGACTTGTGATTCAATCTTGGTCATTTTTATTTTCTAA
1 TGATTCAGTCCCGATCACTTTATTTTTTGACTTGCAATTCAATCCCAATCATTTTTATTTTCTAA
11638623 CTTG
66 CTTG
** * *
11638627 CAATTCAGTCTCGATCATCTTTATTTTTTGACTTGCAATTCAGTCCCAATCATTTTTA-TTTCTT
1 TGATTCAGTCCCGATCA-CTTTATTTTTTGACTTGCAATTCAATCCCAATCATTTTTATTTTC-T
*
11638691 GACTTG
64 AACTTG
11638697 TGATTCAGTCC
1 TGATTCAGTCC
11638708 TAGTCTTTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
69 17 0.27
70 47 0.73
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (69 bp):
TGATTCAGTCCCGATCACTTTATTTTTTGACTTGCAATTCAATCCCAATCATTTTTATTTTCTAA
CTTG
Found at i:11638952 original size:35 final size:36
Alignment explanation
Indices: 11638887--11638979 Score: 93
Period size: 35 Copynumber: 2.7 Consensus size: 36
11638877 ATTCCAGTAA
* * * *
11638887 TTTTTAGTTTCTAACTTA-CGATTTAGTCCCAATCG
1 TTTTTATTTTCTAACTTATAGATTCACTCCCAATCG
* *
11638922 TTTTTATTTTCTAACTTATAGA-TCACTCCCAGTTG
1 TTTTTATTTTCTAACTTATAGATTCACTCCCAATCG
* *
11638957 TTTTTGTTTTCTGACTTAT-GATT
1 TTTTTATTTTCTAACTTATAGATT
11638980 TAATCCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 2 0.04
35 44 0.92
36 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (36 bp):
TTTTTATTTTCTAACTTATAGATTCACTCCCAATCG
Found at i:11639532 original size:35 final size:35
Alignment explanation
Indices: 11639424--11639536 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
11639414 TTGACTTGTA
* * *
11639424 GTTCAATCCCAGTCATCTTTATTTTCTAACTTACA
1 GTTCAGTCCCAATCATCTTTATTTTCTAACTTACG
* * * * * * *
11639459 ATTTAGTCTCGATCATTTTTA-TTTCCAGACTTATG
1 GTTCAGTCCCAATCATCTTTATTTTCTA-ACTTACG
*
11639494 GTTCAGTCCCAATCATCTTTATTTTCTAACTTGCG
1 GTTCAGTCCCAATCATCTTTATTTTCTAACTTACG
11639529 GTTCAGTC
1 GTTCAGTC
11639537 TGGGTCATCT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
34 5 0.09
35 48 0.83
36 5 0.09
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (35 bp):
GTTCAGTCCCAATCATCTTTATTTTCTAACTTACG
Found at i:11639545 original size:35 final size:35
Alignment explanation
Indices: 11639436--11639553 Score: 121
Period size: 35 Copynumber: 3.4 Consensus size: 35
11639426 TCAATCCCAG
** *
11639436 TCATCTTTATTTTCTAACTTACAATTTAGTCTCGA
1 TCATCTTTATTTTCTAACTTACGGTTCAGTCTCGA
* * * * *
11639471 TCATTTTTA-TTTCCAGACTTATGGTTCAGTCCCAA
1 TCATCTTTATTTTCTA-ACTTACGGTTCAGTCTCGA
* * *
11639506 TCATCTTTATTTTCTAACTTGCGGTTCAGTCTGGG
1 TCATCTTTATTTTCTAACTTACGGTTCAGTCTCGA
11639541 TCATCTTTATTTT
1 TCATCTTTATTTT
11639554 TGGCTTGTGA
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
34 5 0.08
35 55 0.85
36 5 0.08
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (35 bp):
TCATCTTTATTTTCTAACTTACGGTTCAGTCTCGA
Found at i:11639664 original size:74 final size:74
Alignment explanation
Indices: 11639575--11639723 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
11639565 TTAAGCTCGA
* *
11639575 TCACTTTTATTTTTTTATTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAATC
1 TCACCTTTATTTTTTTACTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAATC
11639640 CTAGTCATT
66 CTAGTCATT
*
11639649 TCACCTTTATTTTTTTACTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAGTC
1 TCACCTTTATTTTTTTACTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAATC
11639714 CTAGTCATT
66 CTAGTCATT
11639723 T
1 T
11639724 TTATTTTTGA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.53
Consensus pattern (74 bp):
TCACCTTTATTTTTTTACTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAATC
CTAGTCATT
Found at i:11639692 original size:34 final size:34
Alignment explanation
Indices: 11639573--11639694 Score: 84
Period size: 34 Copynumber: 3.4 Consensus size: 34
11639563 ATTTAAGCTC
*
11639573 GATCACTTTTATTTTTTTATTTGCAGTTTAGTCT
1 GATCACTTTTATTTTTTTACTTGCAGTTTAGTCT
* ** * * *
11639607 GATCATTTTTATTTCCTGACTTATGATTCAATCCTAGTCAT
1 GATCACTTTTATTTTTTTAC-T-TG---CAGT-TTAGTC-T
* *
11639648 -TTCACCTTTATTTTTTTACTTGCAGTTTAGTCT
1 GATCACTTTTATTTTTTTACTTGCAGTTTAGTCT
*
11639681 GATCATTTTTATTT
1 GATCACTTTTATTT
11639695 CCTGACTTAT
Statistics
Matches: 62, Mismatches: 18, Indels: 16
0.65 0.19 0.17
Matches are distributed among these distances:
33 1 0.02
34 30 0.48
35 4 0.06
36 2 0.03
38 2 0.03
39 4 0.06
40 18 0.29
41 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.55
Consensus pattern (34 bp):
GATCACTTTTATTTTTTTACTTGCAGTTTAGTCT
Found at i:11639801 original size:70 final size:69
Alignment explanation
Indices: 11639580--11639806 Score: 197
Period size: 74 Copynumber: 3.2 Consensus size: 69
11639570 CTCGATCACT
* * * * * * *
11639580 TTTATTTTTTTATTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAATCCTAGT
1 TTTATTTTTTGACTTACAATTTAGTCTGATAATTTTTATTTCCTAACTCATGATTCAATCCTAG-
*
11639645 CATTTCACC
65 C----CATC
* * * * * * * *
11639654 TTTATTTTTTTACTTGCAGTTTAGTCTGATCATTTTTATTTCCTGACTTATGATTCAGTCCTAGT
1 TTTATTTTTTGACTTACAATTTAGTCTGATAATTTTTATTTCCTAACTCATGATTCAATCCTAGC
*
11639719 CATT
66 CATC
* * *
11639723 TTTA-TTTTTGACTTACAATTTAGTCTTGATAATCTTTTGTTTCCTAACTCATGGTTCAATCTTA
1 TTTATTTTTTGACTTACAATTTAGTC-TGATAAT-TTTTATTTCCTAACTCATGATTCAATCCTA
11639787 -CCATC
64 GCCATC
11639792 TTTATTTTTTGACTT
1 TTTATTTTTTGACTT
11639807 GCAGCTCAAC
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
68 18 0.14
69 19 0.14
70 34 0.26
74 62 0.47
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (69 bp):
TTTATTTTTTGACTTACAATTTAGTCTGATAATTTTTATTTCCTAACTCATGATTCAATCCTAGC
CATC
Found at i:11640927 original size:140 final size:141
Alignment explanation
Indices: 11640610--11640941 Score: 318
Period size: 140 Copynumber: 2.3 Consensus size: 141
11640600 TTGGTTCCTT
* * * *
11640610 AAAATGCTCCAGATCATGTCTTTAATATTATTTCATGAATTTTGATACATTCAAAACCTTGATTG
1 AAAA-GCTCCAAATCATGT-GTTAGTATTATTTCATGAATTTTGATGCATTCAAAACCTTGATTG
* * * *
11640675 CACCTGGAAGGTGAAATTACCAAAAAGCCCTTTATAAGTGTTTTGGTAATTTGATCTTCTCAAGG
64 CACCTGAAAGGTGAAATTACCAAAAAGCCCTTTATAAGTATTTTGGTAATTTGACCTTCTCAAGA
*
11640740 TTAGTTTTTTACG
129 TTAGTTTTTCACG
* * *
11640753 AAAAGCTCCAAATCATGTTTTAGTATCATTTCATGAATTTTGATGCATTGAAAACCTTGATTGCA
1 AAAAGCTCCAAATCATGTGTTAGTATTATTTCATGAATTTTGATGCATTCAAAACCTTGATTGCA
* * * * * * * *
11640818 CCTCAGAAAGG-G-CA-TACCAAAATGCCCTTTA-AGGGTATTTTTGTAGTTTTACCTTTTCGAG
66 CCT--GAAAGGTGAAATTACCAAAAAGCCCTTTATA-AGTATTTTGGTAATTTGACCTTCTCAAG
*
11640879 ATT-GATTTTTCATG
128 ATTAG-TTTTTCACG
* * * *
11640893 AAAAGTTCTAGATCAT-TGTTAGGTATTATTTCATG-ATTTTTACTGCATT
1 AAAAGCTCCAAATCATGTGTTA-GTATTATTTCATGAATTTTGA-TGCATT
11640942 AAAGTCATGA
Statistics
Matches: 158, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
139 12 0.08
140 76 0.48
141 47 0.30
142 14 0.09
143 9 0.06
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (141 bp):
AAAAGCTCCAAATCATGTGTTAGTATTATTTCATGAATTTTGATGCATTCAAAACCTTGATTGCA
CCTGAAAGGTGAAATTACCAAAAAGCCCTTTATAAGTATTTTGGTAATTTGACCTTCTCAAGATT
AGTTTTTCACG
Found at i:11641818 original size:19 final size:18
Alignment explanation
Indices: 11641796--11641943 Score: 95
Period size: 19 Copynumber: 7.9 Consensus size: 18
11641786 CCCAAACCAA
*
11641796 AACCGTAAACCTTAAAATC
1 AACC-TAAACCTTAAAACC
* *
11641815 AACCTCAAACCCTAAACCC
1 AACCT-AAACCTTAAAACC
*
11641834 TAAGCTAAACCTT-AAACC
1 -AACCTAAACCTTAAAACC
* *
11641852 AACCTCAAACCTTCAAACT
1 AACCT-AAACCTTAAAACC
11641871 AACCTTAAACCTTAAAACC
1 AACC-TAAACCTTAAAACC
* *
11641890 AACTTTAAACCCT-AAACC
1 AAC-CTAAACCTTAAAACC
*
11641908 TTAACCTAAACC-AAAAACC
1 --AACCTAAACCTTAAAACC
**
11641927 AATTTCAAACCTTAAAA
1 AACCT-AAACCTTAAAA
11641944 GAAACCCTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
17 7 0.07
18 22 0.22
19 64 0.63
20 8 0.08
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (18 bp):
AACCTAAACCTTAAAACC
Found at i:11641843 original size:38 final size:39
Alignment explanation
Indices: 11641764--11641942 Score: 156
Period size: 38 Copynumber: 4.7 Consensus size: 39
11641754 CTTAATCCTC
** * **
11641764 AAACCTTAAAATTAACC-CAAACCCCAAACCAAAACCGT
1 AAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCGT
* *
11641802 AAACCTTAAAATCAACCTCAAACCCTAAACCCTAAGC-T
1 AAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCGT
* *
11641840 AAACCTT-AAACCAACCTCAAACCTTCAAA--CTAACCTT
1 AAACCTTAAAACCAACCTCAAACCCT-AAACCCTAACCGT
* * *
11641877 AAACCTTAAAACCAACTTTAAACCCTAAACCTTAACC-T
1 AAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCGT
* ** *
11641915 AAACC-AAAAACCAATTTCAAACCTTAAA
1 AAACCTTAAAACCAACCTCAAACCCTAAA
11641943 AGAAACCCTA
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
36 5 0.04
37 46 0.39
38 48 0.40
39 20 0.17
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.19
Consensus pattern (39 bp):
AAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCGT
Found at i:11641955 original size:75 final size:75
Alignment explanation
Indices: 11641795--11641956 Score: 198
Period size: 75 Copynumber: 2.2 Consensus size: 75
11641785 CCCCAAACCA
* * * **
11641795 AAACCGTAAACCTTAAAATCAACCTCAAACCCTAAACCCTAAGCTAAACCTTAAACCAACCTCAA
1 AAACCCTAAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCTAAACCAAAAACCAACCTCAA
*
11641860 ACCTTCAAAC
66 ACCTTAAAAC
* * * * * **
11641870 TAACCTTAAACCTTAAAACCAACTTTAAACCCTAAACCTTAACCTAAACCAAAAACCAATTTCAA
1 AAACCCTAAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCTAAACCAAAAACCAACCTCAA
*
11641935 ACCTTAAAAG
66 ACCTTAAAAC
11641945 AAACCCTAAACC
1 AAACCCTAAACC
11641957 CTAATTCTAA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (75 bp):
AAACCCTAAACCTTAAAACCAACCTCAAACCCTAAACCCTAACCTAAACCAAAAACCAACCTCAA
ACCTTAAAAC
Found at i:11641976 original size:18 final size:18
Alignment explanation
Indices: 11641946--11641990 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
11641936 CCTTAAAAGA
*
11641946 AACCCTAAACCCTAATTCT
1 AACCCT-AACCCTAAATCT
11641965 AACCCTAACCCTAAATCT
1 AACCCTAACCCTAAATCT
11641983 AACCCTAA
1 AACCCTAA
11641991 ATCACAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (18 bp):
AACCCTAACCCTAAATCT
Found at i:11642006 original size:6 final size:6
Alignment explanation
Indices: 11641949--11642148 Score: 54
Period size: 6 Copynumber: 32.0 Consensus size: 6
11641939 TAAAAGAAAC
* * * * * * *
11641949 CCTAAA CCCTAAT TCTAAC CCTAAC CCTAAA TCTAAC CCTAAA TCACAAAA
1 CCTAAA -CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA -C-CTAAA
* ** * * *
11642000 CCTAAA CCTTAAG CCTAGT CTTAAA CACTAAA CCAAAAA CCTAAA CCTTAAC
1 CCTAAA CC-TAAA CCTAAA CCTAAA C-CTAAA CC-TAAA CCTAAA CC-TAAA
* * *
11642052 CCTAAC CCTAAA -GTTAA CCTTAAA CC-ATAA CCTAAA GCCTAAA CC--AA
1 CCTAAA CCTAAA CCTAAA CC-TAAA CCTA-AA CCTAAA -CCTAAA CCTAAA
* *
11642099 CTCTAAA GCCTAAA CC--AA CTCTAAA GCCTTAA CCT-AA CCTCTAA CCTAAA
1 C-CTAAA -CCTAAA CCTAAA C-CTAAA -CCTAAA CCTAAA CCT-AAA CCTAAA
11642149 TCTGACTGAA
Statistics
Matches: 144, Mismatches: 28, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
4 6 0.04
5 11 0.08
6 64 0.44
7 57 0.40
8 6 0.04
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.21
Consensus pattern (6 bp):
CCTAAA
Found at i:11642071 original size:24 final size:24
Alignment explanation
Indices: 11642043--11642088 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11642033 CAAAAACCTA
*
11642043 AACCTT-AACCCTAACCCTAAAGTT
1 AACCTTAAACCATAA-CCTAAAGTT
11642067 AACCTTAAACCATAACCTAAAG
1 AACCTTAAACCATAACCTAAAG
11642089 CCTAAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.22
Consensus pattern (24 bp):
AACCTTAAACCATAACCTAAAGTT
Found at i:11642106 original size:18 final size:18
Alignment explanation
Indices: 11642083--11642142 Score: 93
Period size: 18 Copynumber: 3.2 Consensus size: 18
11642073 AAACCATAAC
11642083 CTAAAGCCTAAACCAACT
1 CTAAAGCCTAAACCAACT
11642101 CTAAAGCCTAAACCAACT
1 CTAAAGCCTAAACCAACT
*
11642119 CTAAAGCCTTAACCTAACCT
1 CTAAAGCCTAAACC-AA-CT
11642139 CTAA
1 CTAA
11642143 CCTAAATCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 31 0.79
19 2 0.05
20 6 0.15
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.20
Consensus pattern (18 bp):
CTAAAGCCTAAACCAACT
Found at i:11647145 original size:10 final size:10
Alignment explanation
Indices: 11647130--11647154 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11647120 TTTATTAAAG
11647130 GTTAAAGTTA
1 GTTAAAGTTA
11647140 GTTAAAGTTA
1 GTTAAAGTTA
11647150 GTTAA
1 GTTAA
11647155 TTCAATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
GTTAAAGTTA
Found at i:11650487 original size:10 final size:10
Alignment explanation
Indices: 11650466--11650512 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
11650456 TAAAGAATAG
11650466 GAAAACAAAAA
1 GAAAA-AAAAA
11650477 GAAAAAAAAA
1 GAAAAAAAAA
*
11650487 G-GAAAAAAA
1 GAAAAAAAAA
11650496 GATAAAAGAAAA
1 GA-AAAA-AAAA
11650508 GAAAA
1 GAAAA
11650513 TGAACAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 8 0.26
10 6 0.19
11 11 0.35
12 6 0.19
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:11651942 original size:17 final size:17
Alignment explanation
Indices: 11651912--11651944 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11651902 ATCCTTTGAG
11651912 GGTATCTTTGTAATTTT
1 GGTATCTTTGTAATTTT
11651929 GGTAT-TTTGATAATTT
1 GGTATCTTTG-TAATTT
11651945 GACATTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (17 bp):
GGTATCTTTGTAATTTT
Found at i:11653970 original size:7 final size:7
Alignment explanation
Indices: 11653883--11654176 Score: 169
Period size: 7 Copynumber: 44.4 Consensus size: 7
11653873 ATCCAAATCC
11653883 AACCC-A
1 AACCCTA
*
11653889 AAACCTA
1 AACCCTA
*
11653896 AAACCTAA
1 AACCCT-A
*
11653904 AACCCCA
1 AACCCTA
11653911 AACCCTA
1 AACCCTA
*
11653918 AATCC-A
1 AACCCTA
11653924 AACCCTA
1 AACCCTA
11653931 AACCCTA
1 AACCCTA
*
11653938 AACCTTA
1 AACCCTA
*
11653945 AATCC-A
1 AACCCTA
11653951 AACCC-A
1 AACCCTA
*
11653957 AAACCTA
1 AACCCTA
11653964 AACCCT-
1 AACCCTA
* *
11653970 AATCTTA
1 AACCCTA
*
11653977 AACCTTA
1 AACCCTA
*
11653984 AATCC-A
1 AACCCTA
11653990 AACCC-A
1 AACCCTA
*
11653996 AAACCTA
1 AACCCTA
11654003 AACCCT-
1 AACCCTA
* *
11654009 AATCTTA
1 AACCCTA
11654016 AACCCTA
1 AACCCTA
* *
11654023 AA-TCAA
1 AACCCTA
11654029 AACCCTA
1 AACCCTA
11654036 AACCCTA
1 AACCCTA
*
11654043 AA-TCTA
1 AACCCTA
11654049 AACCCT-
1 AACCCTA
11654055 AACCCTA
1 AACCCTA
11654062 AACCCCTA
1 AA-CCCTA
*
11654070 AATCC-A
1 AACCCTA
11654076 AA-CCTA
1 AACCCTA
*
11654082 AACACTA
1 AACCCTA
*
11654089 AA-CTTA
1 AACCCTA
* *
11654095 AGCCAT-
1 AACCCTA
*
11654101 AATCCTA
1 AACCCTA
*
11654108 AACACTA
1 AACCCTA
*
11654115 AAACCT-
1 AACCCTA
11654121 AACCCT-
1 AACCCTA
11654127 AACCCTA
1 AACCCTA
*
11654134 AATCCTA
1 AACCCTA
*
11654141 AACCTTAA
1 AACCCT-A
11654149 AACCCT-
1 AACCCTA
11654155 AACCCT-
1 AACCCTA
11654161 AA-CCTA
1 AACCCTA
*
11654167 AACCCCA
1 AACCCTA
11654174 AAC
1 AAC
11654177 TAATTCCTAA
Statistics
Matches: 220, Mismatches: 49, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
5 5 0.02
6 85 0.39
7 112 0.51
8 18 0.08
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:11653990 original size:39 final size:40
Alignment explanation
Indices: 11653908--11654044 Score: 190
Period size: 39 Copynumber: 3.5 Consensus size: 40
11653898 ACCTAAAACC
* * *
11653908 CCAAACCCTAAATCC-AAACCCTAAACCCTAAACCTTAAAT
1 CCAAACCCTAAAACCTAAACCCT-AATCTTAAACCTTAAAT
11653948 CCAAACCC-AAAACCTAAACCCTAATCTTAAACCTTAAAT
1 CCAAACCCTAAAACCTAAACCCTAATCTTAAACCTTAAAT
*
11653987 CCAAACCC-AAAACCTAAACCCTAATCTTAAACCCTAAAT
1 CCAAACCCTAAAACCTAAACCCTAATCTTAAACCTTAAAT
* *
11654026 CAAAACCCTAAACCCTAAA
1 CCAAACCCTAAAACCTAAA
11654045 TCTAAACCCT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 65 0.73
40 24 0.27
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (40 bp):
CCAAACCCTAAAACCTAAACCCTAATCTTAAACCTTAAAT
Found at i:11654049 original size:13 final size:13
Alignment explanation
Indices: 11653910--11654083 Score: 123
Period size: 13 Copynumber: 13.8 Consensus size: 13
11653900 CTAAAACCCC
*
11653910 AAACCCTAAATCC
1 AAACCCTAAATCT
*
11653923 AAACCCTAAACCCT
1 AAACCCTAAA-TCT
* *
11653937 AAACCTTAAATCC
1 AAACCCTAAATCT
* *
11653950 AAACCCAAAACCT
1 AAACCCTAAATCT
11653963 AAACCCT-AATCTT
1 AAACCCTAAATC-T
* *
11653976 AAACCTTAAATCC
1 AAACCCTAAATCT
* *
11653989 AAACCCAAAACCT
1 AAACCCTAAATCT
11654002 AAACCCT-AATCTT
1 AAACCCTAAATC-T
11654015 AAACCCTAAATC-
1 AAACCCTAAATCT
*
11654027 AAAACC-----CT
1 AAACCCTAAATCT
11654035 AAACCCTAAATCT
1 AAACCCTAAATCT
**
11654048 AAACCCTAACCCT
1 AAACCCTAAATCT
*
11654061 AAACCCCTAAATCC
1 AAA-CCCTAAATCT
11654075 AAA-CCTAAA
1 AAACCCTAAA
11654084 CACTAAACTT
Statistics
Matches: 123, Mismatches: 26, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
7 1 0.01
8 5 0.04
12 17 0.14
13 72 0.59
14 28 0.23
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCCTAAATCT
Found at i:11654065 original size:33 final size:33
Alignment explanation
Indices: 11653883--11654176 Score: 190
Period size: 33 Copynumber: 8.9 Consensus size: 33
11653873 ATCCAAATCC
* * * *
11653883 AACCCAAAACCTAAAACCTAAAACCCCAAACCCTA
1 AACCCTAACCCTAAACCCT-AAACCCTAAA-CCTA
* * *
11653918 AATCCAAACCCTAAACCCTAAACCTTAAATCC-A
1 AACCCTAACCCTAAACCCTAAACCCTAAA-CCTA
* * * *
11653951 AACCCAAAACCTAAACCCT-AATCTTAAACCTTA
1 AACCCTAACCCTAAACCCTAAACCCTAAACC-TA
* * * * *
11653984 AATCCAAACCC-AAAACCTAAACCCTAATCTTA
1 AACCCTAACCCTAAACCCTAAACCCTAAACCTA
** * *
11654016 AACCCTAAATCAAAACCCTAAACCCTAAATCTA
1 AACCCTAACCCTAAACCCTAAACCCTAAACCTA
*
11654049 AACCCTAACCCTAAACCCCTAAATCC-AAACCTA
1 AACCCTAACCCTAAA-CCCTAAACCCTAAACCTA
* * * * * *
11654082 AACACTAAACTTAAGCCAT-AATCCTAAACACTA
1 AACCCTAACCCTAAACCCTAAACCCTAAAC-CTA
* *
11654115 AAACCTAACCCT-AACCCTAAATCCTAAACCTTAA
1 AACCCTAACCCTAAACCCTAAACCCTAAACC-T-A
*
11654149 AACCCTAACCCT-AA-CCTAAACCCCAAAC
1 AACCCTAACCCTAAACCCTAAACCCTAAAC
11654177 TAATTCCTAA
Statistics
Matches: 206, Mismatches: 43, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
31 7 0.03
32 35 0.17
33 115 0.56
34 33 0.16
35 16 0.08
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.17
Consensus pattern (33 bp):
AACCCTAACCCTAAACCCTAAACCCTAAACCTA
Found at i:11654068 original size:27 final size:26
Alignment explanation
Indices: 11653904--11654079 Score: 145
Period size: 26 Copynumber: 6.9 Consensus size: 26
11653894 TAAAACCTAA
*
11653904 AACCCCAAACCCTAAATCCAAACCCT
1 AACCCTAAACCCTAAATCCAAACCCT
* *
11653930 AAACCCTAAACCTTAAATCCAAACCCA
1 -AACCCTAAACCCTAAATCCAAACCCT
* * *
11653957 AAACCTAAACCCT-AATCTTAAACCTT
1 AACCCTAAACCCTAAATC-CAAACCCT
* *
11653983 AAATCC-AAACCC-AAAACCTAAACCCT
1 -AACCCTAAACCCTAAATCC-AAACCCT
* *
11654009 AATCTTAAACCCTAAAT-C-AA----
1 AACCCTAAACCCTAAATCCAAACCCT
*
11654029 AACCCTAAACCCTAAATCTAAACCCT
1 AACCCTAAACCCTAAATCCAAACCCT
11654055 AACCCTAAACCCCTAAATCCAAACC
1 AACCCTAAA-CCCTAAATCCAAACC
11654080 TAAACACTAA
Statistics
Matches: 118, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
20 15 0.13
22 2 0.02
24 2 0.02
25 8 0.07
26 47 0.40
27 44 0.37
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (26 bp):
AACCCTAAACCCTAAATCCAAACCCT
Found at i:11654079 original size:21 final size:20
Alignment explanation
Indices: 11653896--11654084 Score: 62
Period size: 20 Copynumber: 9.5 Consensus size: 20
11653886 CCAAAACCTA
11653896 AAACCTAAAACCCC-AAACCC
1 AAACCT-AAACCCCTAAACCC
11653916 TAAATCC-AAA-CCCTAAACCC
1 -AAA-CCTAAACCCCTAAACCC
*
11653936 TAAACCTTAAA-TCC-AAACCC
1 -AAACC-TAAACCCCTAAACCC
* **
11653956 AAAACCTAAA-CCCTAATCTT
1 -AAACCTAAACCCCTAAACCC
*
11653976 AAACCTTAAA-TCC-AAACCC
1 AAACC-TAAACCCCTAAACCC
* **
11653995 AAAACCTAAA-CCCTAATCTT
1 -AAACCTAAACCCCTAAACCC
* *
11654015 AAACCCTAAA--TCAAAACCC
1 AAA-CCTAAACCCCTAAACCC
*
11654034 TAAACCCTAAA--TCTAAACCC
1 -AAA-CCTAAACCCCTAAACCC
* *
11654054 TAACCCTAAACCCCTAAATCC
1 -AAACCTAAACCCCTAAACCC
11654075 AAACCTAAAC
1 AAACCTAAAC
11654085 ACTAAACTTA
Statistics
Matches: 132, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
19 38 0.29
20 77 0.58
21 15 0.11
22 2 0.02
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (20 bp):
AAACCTAAACCCCTAAACCC
Found at i:11654089 original size:27 final size:28
Alignment explanation
Indices: 11654028--11654091 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
11654018 CCCTAAATCA
*
11654028 AAACCCTAAA-CCCTAAATCTAAACCCT
1 AAACCCTAAACCCCTAAATCCAAACCCT
11654055 -AACCCTAAACCCCTAAATCCAAA-CCT
1 AAACCCTAAACCCCTAAATCCAAACCCT
*
11654081 AAACACTAAAC
1 AAACCCTAAAC
11654092 TTAAGCCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (28 bp):
AAACCCTAAACCCCTAAATCCAAACCCT
Found at i:11654158 original size:14 final size:13
Alignment explanation
Indices: 11653904--11654162 Score: 100
Period size: 13 Copynumber: 19.6 Consensus size: 13
11653894 TAAAACCTAA
*
11653904 AACCCCAAACCCT
1 AACCCTAAACCCT
*
11653917 AAATCC-AAACCCT
1 -AACCCTAAACCCT
*
11653930 AAACCCTAAACCTT
1 -AACCCTAAACCCT
* *
11653944 AAATCC-AAACCCA
1 -AACCCTAAACCCT
*
11653957 AAACCTAAACCCT
1 AACCCTAAACCCT
* * *
11653970 AATCTTAAACCTT
1 AACCCTAAACCCT
* *
11653983 AAATCC-AAACCCA
1 -AACCCTAAACCCT
*
11653996 AAACCTAAACCCT
1 AACCCTAAACCCT
* *
11654009 AATCTTAAACCCT
1 AACCCTAAACCCT
** *
11654022 AAATCAAAACCCT
1 AACCCTAAACCCT
*
11654035 AAACCCTAAA-TCT
1 -AACCCTAAACCCT
11654048 AAACCCT-AACCCT
1 -AACCCTAAACCCT
*
11654061 AAACCCCTAAATCC-
1 -AA-CCCTAAACCCT
* *
11654075 AAACCTAAACACT
1 AACCCTAAACCCT
* * * *
11654088 AAACTTAAGCCAT
1 AACCCTAAACCCT
* *
11654101 AATCCTAAACACT
1 AACCCTAAACCCT
*
11654114 AAAACCT-AACCCT
1 -AACCCTAAACCCT
*
11654127 AACCCTAAATCCT
1 AACCCTAAACCCT
*
11654140 AAACCTTAAAACCCT
1 -AACCCT-AAACCCT
11654155 AACCCTAA
1 AACCCTAA
11654163 CCTAAACCCC
Statistics
Matches: 185, Mismatches: 47, Indels: 27
0.71 0.18 0.10
Matches are distributed among these distances:
12 22 0.12
13 109 0.59
14 44 0.24
15 10 0.05
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:11655204 original size:26 final size:25
Alignment explanation
Indices: 11655156--11655361 Score: 211
Period size: 25 Copynumber: 8.2 Consensus size: 25
11655146 TGTAAATACA
*
11655156 TCATTTCATGCATATTTTCATTATG
1 TCATTTCATGCATATTTTAATTATG
* *
11655181 TGATTTCATTGCATAGTTTAATTATG
1 TCATTTCA-TGCATATTTTAATTATG
* * * *
11655207 TCATTTCATGCACATTGTAAATATA
1 TCATTTCATGCATATTTTAATTATG
11655232 TCATTTCATGCATATTTTTAATTATG
1 TCATTTCATGCATA-TTTTAATTATG
* *
11655258 TCATTTCA--CATATATTGTAAATATA
1 TCATTTCATGCATAT-TT-TAATTATG
* * * *
11655283 TCATTTCATGCACATTGTAAATATA
1 TCATTTCATGCATATTTTAATTATG
*
11655308 TC-TTTTATGCATATTTTAATTATG
1 TCATTTCATGCATATTTTAATTATG
* *
11655332 TCATTTCATGCATGTTTAAATTATG
1 TCATTTCATGCATATTTTAATTATG
11655357 TCATT
1 TCATT
11655362 GATTATATAT
Statistics
Matches: 149, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
23 1 0.01
24 25 0.17
25 80 0.54
26 39 0.26
27 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.49
Consensus pattern (25 bp):
TCATTTCATGCATATTTTAATTATG
Found at i:11655238 original size:51 final size:50
Alignment explanation
Indices: 11655156--11655361 Score: 202
Period size: 51 Copynumber: 4.1 Consensus size: 50
11655146 TGTAAATACA
* * * * *
11655156 TCATTTCATGCATATTTTCATTATGTGATTTCATTGCATAGTTTAATTATG
1 TCATTTCATGCATATTGTAAATATATCATTTCA-TGCATAGTTTAATTATG
* *
11655207 TCATTTCATGCACATTGTAAATATATCATTTCATGCATATTTTTAATTATG
1 TCATTTCATGCATATTGTAAATATATCATTTCATGCATA-GTTTAATTATG
*** * * *
11655258 TCATTTCACATATATTGTAAATATATCATTTCATGCACA-TTGTAAATATA
1 TCATTTCATGCATATTGTAAATATATCATTTCATGCATAGTT-TAATTATG
* * * *
11655308 TC-TTTTATGCATATTTTAATTATGTCATTTCATGCAT-GTTTAAATTATG
1 TCATTTCATGCATATTGTAAATATATCATTTCATGCATAGTTT-AATTATG
11655357 TCATT
1 TCATT
11655362 GATTATATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.30
50 16 0.13
51 71 0.56
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.49
Consensus pattern (50 bp):
TCATTTCATGCATATTGTAAATATATCATTTCATGCATAGTTTAATTATG
Found at i:11655287 original size:76 final size:74
Alignment explanation
Indices: 11655146--11655340 Score: 268
Period size: 76 Copynumber: 2.6 Consensus size: 74
11655136 TTTACATTTC
* * * * * *
11655146 TGTAAATACATCATTTCATGCATATTTTCATTATGTGATTTCATTGCATAGTTTAATTATGTCAT
1 TGTAAATATATCATTTCATGCATATTTTAATTATGTCATTTCA-T-CATAATTTAAATATATCAT
11655211 TTCATGCACAT
64 TTCATGCACAT
11655222 TGTAAATATATCATTTCATGCATATTTTTAATTATGTCATTTCA-CATATATTGTAAATATATCA
1 TGTAAATATATCATTTCATGCATA-TTTTAATTATGTCATTTCATCATA-ATT-TAAATATATCA
11655286 TTTCATGCACAT
63 TTTCATGCACAT
*
11655298 TGTAAATATATC-TTTTATGCATATTTTAATTATGTCATTTCAT
1 TGTAAATATATCATTTCATGCATATTTTAATTATGTCATTTCAT
11655341 GCATGTTTAA
Statistics
Matches: 108, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
74 23 0.21
75 12 0.11
76 56 0.52
77 17 0.16
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (74 bp):
TGTAAATATATCATTTCATGCATATTTTAATTATGTCATTTCATCATAATTTAAATATATCATTT
CATGCACAT
Found at i:11655921 original size:15 final size:16
Alignment explanation
Indices: 11655903--11655955 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 16
11655893 AAAAAATGAG
11655903 AAAAA-GAAAAAGAAA
1 AAAAATGAAAAAGAAA
11655918 AAAAATGGACAGAAAGAAA
1 AAAAAT-GA-A-AAAGAAA
11655937 AAAAACTGAAAAAGAAA
1 AAAAA-TGAAAAAGAAA
11655954 AA
1 AA
11655956 TCTTTAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.15
17 11 0.33
18 2 0.06
19 14 0.42
20 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAAATGAAAAAGAAA
Found at i:11655933 original size:25 final size:24
Alignment explanation
Indices: 11655892--11655938 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
11655882 ATTATAAATG
11655892 AAAAAAATGAGAAAAAGAAAAAGA
1 AAAAAAATGAGAAAAAGAAAAAGA
11655916 AAAAAAATG-GACAGAAAGAAAAA
1 AAAAAAATGAGA-A-AAAGAAAAA
11655939 AAACTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.48
25 9 0.43
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAAAAATGAGAAAAAGAAAAAGA
Found at i:11657539 original size:20 final size:21
Alignment explanation
Indices: 11657503--11657542 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11657493 GTCGAAATGG
11657503 AAAAGTTGAAGAAAGAAAACC
1 AAAAGTTGAAGAAAGAAAACC
*
11657524 AAAAGTTGTA-AAAGAAAAC
1 AAAAGTTGAAGAAAGAAAAC
11657543 AGGTCAGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAGTTGAAGAAAGAAAACC
Found at i:11660975 original size:20 final size:19
Alignment explanation
Indices: 11660969--11661014 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
11660959 AAATTGAAAC
*
11660969 TTAAAACTAAAACCCTAAA
1 TTAAAACTAAAACCATAAA
*
11660988 TTGAAACTTAAAACCATAAA
1 TTAAAAC-TAAAACCATAAA
11661008 TTAAAAC
1 TTAAAAC
11661015 CCCAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (19 bp):
TTAAAACTAAAACCATAAA
Found at i:11660994 original size:13 final size:13
Alignment explanation
Indices: 11660933--11660994 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
11660923 CCTAAAATTA
11660933 AAATTGAAACCCT
1 AAATTGAAACCCT
* *
11660946 AAACTAAAACCCT
1 AAATTGAAACCCT
*
11660959 AAATTGAAA-CTT
1 AAATTGAAACCCT
* *
11660971 AAAACTAAAACCCT
1 -AAATTGAAACCCT
11660985 AAATTGAAAC
1 AAATTGAAAC
11660995 TTAAAACCAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
12 2 0.05
13 33 0.89
14 2 0.05
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (13 bp):
AAATTGAAACCCT
Found at i:11660995 original size:26 final size:26
Alignment explanation
Indices: 11660933--11661001 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
11660923 CCTAAAATTA
*
11660933 AAATTGAAACCCT-AAACTAAAACCCT
1 AAATTGAAA-CTTAAAACTAAAACCCT
11660959 AAATTGAAACTTAAAACTAAAACCCT
1 AAATTGAAACTTAAAACTAAAACCCT
11660985 AAATTGAAACTTAAAAC
1 AAATTGAAACTTAAAAC
11661002 CATAAATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (26 bp):
AAATTGAAACTTAAAACTAAAACCCT
Found at i:11663147 original size:23 final size:23
Alignment explanation
Indices: 11663121--11663166 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
11663111 ACAAAGAATA
*
11663121 TGTTGTTAGATGAAAAAAGGTAG
1 TGTTCTTAGATGAAAAAAGGTAG
11663144 TGTTCTTAGATGAAAAAAGGTAG
1 TGTTCTTAGATGAAAAAAGGTAG
11663167 CATTGTAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.28, T:0.30
Consensus pattern (23 bp):
TGTTCTTAGATGAAAAAAGGTAG
Found at i:11663621 original size:17 final size:15
Alignment explanation
Indices: 11663584--11663623 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 15
11663574 TTAAATATCA
11663584 AAAAATAATAAAAAT
1 AAAAATAATAAAAAT
11663599 AAAAATAACTAAAAATT
1 AAAAATAA-TAAAAA-T
11663616 AAAAATAA
1 AAAAATAA
11663624 ATAGTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 6 0.26
17 9 0.39
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:11671247 original size:3 final size:3
Alignment explanation
Indices: 11671239--11671279 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
11671229 GTTTATTCAA
*
11671239 AAC AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
11671280 TAATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:11671743 original size:26 final size:25
Alignment explanation
Indices: 11671714--11671764 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
11671704 CCCATAGTCG
*
11671714 AAACCCTAAATGCAACCCTAAAACCT
1 AAACCCTAAA-GCAAACCTAAAACCT
* *
11671740 AAACCCTGAAGGAAACCTAAAACCT
1 AAACCCTAAAGCAAACCTAAAACCT
11671765 TAAATAGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.47, C:0.31, G:0.08, T:0.14
Consensus pattern (25 bp):
AAACCCTAAAGCAAACCTAAAACCT
Found at i:11674321 original size:236 final size:234
Alignment explanation
Indices: 11673934--11674865 Score: 1106
Period size: 236 Copynumber: 4.0 Consensus size: 234
11673924 ATTTTATTGC
* * *
11673934 CAAATTTATTTGGTGGAAAATTTTTTTGTGACATTTTTTATTTTAGGTGACGTTATAATTTTGTC
1 CAAATTTATTTGGTGAAAAATTTTTTTATGACTTTTTTTATTTTAGGTGACGTTATAATTTTGTC
* * * * * *
11673999 ACCAACTTAAAATTTTATTTGTGA-CATTTTTTCTAGTAGATTTTAGGTAACGTTGTTAATTCTT
66 ACCAATTTAAAATTTTATTTGTGAGAATTTTTTCTA-TAGATTTTAGGTGACATTATTAATTTTT
* * * *
11674063 GTCACAAAATGAACGCTTTAGTTAATTATTAATGACATTACAATTTCGTCACGTCAATGTATGAT
130 GTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTCATCACGTCAATGTATGAT
11674128 -TTATATGATGATAACATAAATGTCACAAACTTTTACCAT
195 GTTATATGATGATAACATAAATGTCACAAACTTTTACCAT
* * * * **
11674167 CAAATTTAGTTGGTGAAAAATTTATTTATGACTTTTTTTTATTTTTGGTAATATTATAATTTTTG
1 CAAATTTATTTGGTGAAAAATTTTTTTATGAC-TTTTTTTATTTTAGGTGACGTTATAA-TTTTG
*
11674232 TCACCAATTTAAAATTTTATTTGTGAGGAATTTCTTT-TATAGATTTTAGGTGATATTATTAATT
64 TCACCAATTTAAAATTTTATTTGTGA-GAATTT-TTTCTATAGATTTTAGGTGACATTATTAATT
* * * * *
11674296 TTTGTCACAAATTGAACACTTTAGTTTACTATTAATGACATTAAAATTTCGTCACATTAATGTAT
127 TTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTCATCACGTCAATGTAT
* ** * * *
11674361 -AGTGTTATATAACAATAGCATAAATGTCACAAACTTTTACTAC
192 GA-TGTTATATGATGATAACATAAATGTCACAAACTTTTACCAT
* * * ** *
11674404 CAAATTTATTTGGTGAAAAATTTTTTTATGACGTTTTTTATTTTAAGTGATGTTATAATTTCATT
1 CAAATTTATTTGGTGAAAAATTTTTTTATGACTTTTTTTATTTTAGGTGACGTTATAATTTTGTC
* * * * *
11674469 ACCAATTTAAAATTTTATCTGT--GACTTTTTTTTATAGATTTTAGGTGACATTATTAATATTTA
66 ACCAATTTAAAATTTTATTTGTGAGAATTTTTTCTATAGATTTTAGGTGACATTATTAATTTTTG
* * *
11674532 TCACAAATTGAACACTTTAGTTAACTATTAATGACGTTACAATTTCATCATGTCAATGTATGGTG
131 TCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTCATCACGTCAATGTATGATG
*
11674597 TTATATGATGATAATAT-AATGTCACAAACTTTTACCAT
196 TTATATGATGATAACATAAATGTCACAAACTTTTACCAT
* ** * *
11674635 TAAATTTATTTGGTGGGAAATTTTTTTGTGACGTTTTTTCTATTTTAGGTGACGTTATAATTTTA
1 CAAATTTATTTGGTGAAAAATTTTTTTATGAC-TTTTTT-TATTTTAGGTGACGTTATAATTTTG
* * * * * *
11674700 TCACCAATTTAAAATTTTAATTATGACGTATTTTTTCTAATAGATTTAAGGTGACGTTATGAATT
64 TCACCAATTTAAAATTTTATTTGTGA-GAATTTTTTCT-ATAGATTTTAGGTGACATTATTAATT
* * * * * * * *
11674765 TTTGTCATAAATTGAATACTTT-GTTAACTATTAATGACATTGCTATTTCATTATGTTAATATAT
127 TTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTCATCACGTCAATGTAT
* * *
11674829 GGTGTTATATGATGATAAAATAAATATCACAAACTTT
192 GATGTTATATGATGATAACATAAATGTCACAAACTTT
11674866 AAAAAGATGC
Statistics
Matches: 594, Mismatches: 89, Indels: 28
0.84 0.13 0.04
Matches are distributed among these distances:
231 50 0.08
232 106 0.18
233 70 0.12
234 21 0.04
235 56 0.09
236 164 0.28
237 124 0.21
238 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.46
Consensus pattern (234 bp):
CAAATTTATTTGGTGAAAAATTTTTTTATGACTTTTTTTATTTTAGGTGACGTTATAATTTTGTC
ACCAATTTAAAATTTTATTTGTGAGAATTTTTTCTATAGATTTTAGGTGACATTATTAATTTTTG
TCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTCATCACGTCAATGTATGATG
TTATATGATGATAACATAAATGTCACAAACTTTTACCAT
Found at i:11674836 original size:468 final size:470
Alignment explanation
Indices: 11673915--11674865 Score: 1225
Period size: 468 Copynumber: 2.0 Consensus size: 470
11673905 ACCAAAATCT
* * * *
11673915 TGTCATCAAA-TTTTATTGCCAAATTTATTTGGTGGAAAATTTTTTTGTGACATTTTTTATTTTA
1 TGTCA-CAAACTTTTACTACCAAATTTATTTGGTGAAAAATTTTTTTATGACATTTTTTATTTTA
* ** *
11673979 GGTGACGTTATAATTTTGTCACCAACTTAAAATTTTATTTGTGACATTTTTTCTAGTAGATTTTA
65 AGTGACGTTATAATTTCATCACCAACTTAAAATTTTATCTGTGACATTTTTTCTAGTAGATTTTA
* * * * *
11674044 GGTAACGTTGTTAATTCTTGTCACAAAATGAACGCTTTAGTTAATTATTAATGACATTACAATTT
130 GGTAACATTATTAATTCTTATCACAAAATGAACACTTTAGTTAACTATTAATGACATTACAATTT
*
11674109 CGTCACGTCAATGTATGATTTATATGATGATAACATAAATGTCACAAACTTTTACCATCAAATTT
195 CATCACGTCAATGTATGATTTATATGATGATAACATAAATGTCACAAACTTTTACCATCAAATTT
* * * *
11674174 AGTTGGTGAAAAATTTATTTATGACTTTTTTTTATTTTTGGTAATATTATAATTTTTGTCACCAA
260 AGTTGGTGAAAAATTTATTTATGACTTTTTTCTATTTTAGGTAACATTATAATTTTTATCACCAA
* * * * * *
11674239 TTTAAAATTTTATTTGTGAGGAATTTCTTTTATAGATTTTAGGTGATATTATTAATTTTTGTCAC
325 TTTAAAATTTTAATTATGACGAATTTCTTTTATAGATTTAAGGTGACATTATGAATTTTTGTCAC
* * *
11674304 AAATTGAACACTTTAGTTTACTATTAATGACATTAAAATTTCGTCACATTAATGTATAGTGTTAT
390 AAATTGAACACTTTAGTTAACTATTAATGACATTAAAATTTCATCACATTAATATATAGTGTTAT
**
11674369 ATAACAATAGCATAAA
455 ATAACAATAAAATAAA
*
11674385 TGTCACAAACTTTTACTACCAAATTTATTTGGTGAAAAATTTTTTTATGACGTTTTTTATTTTAA
1 TGTCACAAACTTTTACTACCAAATTTATTTGGTGAAAAATTTTTTTATGACATTTTTTATTTTAA
* * * *
11674450 GTGATGTTATAATTTCATTACCAATTTAAAATTTTATCTGTGAC-TTTTTTTTA-TAGATTTTAG
66 GTGACGTTATAATTTCATCACCAACTTAAAATTTTATCTGTGACATTTTTTCTAGTAGATTTTAG
* * *
11674513 GTGACATTATTAATAT-TTATCACAAATTGAACACTTTAGTTAACTATTAATGACGTTACAATTT
131 GTAACATTATTAAT-TCTTATCACAAAATGAACACTTTAGTTAACTATTAATGACATTACAATTT
* * * *
11674577 CATCATGTCAATGTATGGTGTTATATGATGATAATAT-AATGTCACAAACTTTTACCATTAAATT
195 CATCACGTCAATGTATGAT-TTATATGATGATAACATAAATGTCACAAACTTTTACCATCAAATT
* ** * * * *
11674641 TATTTGGTGGGAAATTTTTTTGTGACGTTTTTTCTATTTTAGGTGACGTTATAA-TTTTATCACC
259 TAGTTGGTGAAAAATTTATTTATGAC-TTTTTTCTATTTTAGGTAACATTATAATTTTTATCACC
* *
11674705 AATTTAAAATTTTAATTATGACGTATTT-TTTCTAATAGATTTAAGGTGACGTTATGAATTTTTG
323 AATTTAAAATTTTAATTATGACGAATTTCTTT-T-ATAGATTTAAGGTGACATTATGAATTTTTG
* * *** * ** *
11674769 TCATAAATTGAATACTTT-GTTAACTATTAATGACATTGCTATTTCATTATGTTAATATATGGTG
386 TCACAAATTGAACACTTTAGTTAACTATTAATGACATTAAAATTTCATCACATTAATATATAGTG
* **
11674833 TTATATGATGATAAAATAAA
451 TTATATAACAATAAAATAAA
*
11674853 TATCACAAACTTT
1 TGTCACAAACTTT
11674866 AAAAAGATGC
Statistics
Matches: 412, Mismatches: 63, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
467 3 0.01
468 224 0.54
469 93 0.23
470 92 0.22
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (470 bp):
TGTCACAAACTTTTACTACCAAATTTATTTGGTGAAAAATTTTTTTATGACATTTTTTATTTTAA
GTGACGTTATAATTTCATCACCAACTTAAAATTTTATCTGTGACATTTTTTCTAGTAGATTTTAG
GTAACATTATTAATTCTTATCACAAAATGAACACTTTAGTTAACTATTAATGACATTACAATTTC
ATCACGTCAATGTATGATTTATATGATGATAACATAAATGTCACAAACTTTTACCATCAAATTTA
GTTGGTGAAAAATTTATTTATGACTTTTTTCTATTTTAGGTAACATTATAATTTTTATCACCAAT
TTAAAATTTTAATTATGACGAATTTCTTTTATAGATTTAAGGTGACATTATGAATTTTTGTCACA
AATTGAACACTTTAGTTAACTATTAATGACATTAAAATTTCATCACATTAATATATAGTGTTATA
TAACAATAAAATAAA
Found at i:11683224 original size:8 final size:8
Alignment explanation
Indices: 11683195--11683243 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
11683185 GGGGCATGTT
11683195 AAAAAAA-
1 AAAAAAAG
11683202 AAAAGAAAG
1 AAAA-AAAG
11683211 AAAAAAAG
1 AAAAAAAG
11683219 ATAAAAAGAG
1 A-AAAAA-AG
*
11683229 CAAAAAAG
1 AAAAAAAG
11683237 AAAAAAA
1 AAAAAAA
11683244 AAGAGACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 4 0.11
8 16 0.44
9 14 0.39
10 2 0.06
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:11683224 original size:10 final size:10
Alignment explanation
Indices: 11683197--11683247 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11683187 GGCATGTTAA
11683197 AAAAAAAAAG
1 AAAAAAAAAG
11683207 AAAGAAAAAA-
1 AAA-AAAAAAG
* *
11683217 AGATAAAAAG
1 AAAAAAAAAG
**
11683227 AGCAAAAAAG
1 AAAAAAAAAG
11683237 AAAAAAAAAG
1 AAAAAAAAAG
11683247 A
1 A
11683248 GACAAAGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 5 0.15
10 22 0.67
11 6 0.18
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11683750 original size:19 final size:18
Alignment explanation
Indices: 11683728--11683795 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
11683718 AAAATGAACA
11683728 AAAAGAGTAAAGTGAAAAG
1 AAAAGAG-AAAGTGAAAAG
11683747 AAAA-AGGAAAAGTG-AAAG
1 AAAAGA-G-AAAGTGAAAAG
*
11683765 AAAATGAGAAAATGAAAGAAG
1 AAAA-GAGAAAGTG-AA-AAG
11683786 AAAAGA-AAAG
1 AAAAGAGAAAG
11683796 AAGAAGAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
18 14 0.35
19 15 0.38
20 4 0.10
21 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (18 bp):
AAAAGAGAAAGTGAAAAG
Found at i:11683766 original size:18 final size:19
Alignment explanation
Indices: 11683736--11683813 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
11683726 CAAAAAGAGT
11683736 AAAGTGAAAAGAA-AAAGGA
1 AAAGTG-AAAGAACAAAGGA
*
11683755 AAAGTGAAAGAA-AATGAGA
1 AAAGTGAAAGAACAAAG-GA
* *
11683774 AAA-TGAAAGAAGAAAAGA
1 AAAGTGAAAGAACAAAGGA
*
11683792 AAAG-AAGAAGAACAAAGGA
1 AAAGTGA-AAGAACAAAGGA
11683811 AAA
1 AAA
11683814 AAAGAAAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
18 23 0.47
19 26 0.53
ACGTcount: A:0.69, C:0.01, G:0.24, T:0.05
Consensus pattern (19 bp):
AAAGTGAAAGAACAAAGGA
Found at i:11683789 original size:13 final size:13
Alignment explanation
Indices: 11683741--11683821 Score: 55
Period size: 13 Copynumber: 6.4 Consensus size: 13
11683731 AGAGTAAAGT
*
11683741 GAAAAGAA-AAAG
1 GAAAAGAAGAAAA
*
11683753 GAAAAG-TG-AAA
1 GAAAAGAAGAAAA
11683764 GAAAATG-AGAAAA
1 GAAAA-GAAGAAAA
11683777 TG-AAAGAAGAAAA
1 -GAAAAGAAGAAAA
11683790 GAAAAGAAGAAGAA
1 GAAAAGAAGAA-AA
* * *
11683804 CAAAGGAAAAAAA
1 GAAAAGAAGAAAA
11683817 GAAAA
1 GAAAA
11683822 AGAAAGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
11 7 0.13
12 10 0.19
13 26 0.48
14 11 0.20
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.04
Consensus pattern (13 bp):
GAAAAGAAGAAAA
Found at i:11683827 original size:19 final size:19
Alignment explanation
Indices: 11683773--11683827 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
11683763 AGAAAATGAG
* *
11683773 AAAATGAAAGAAGAAAAGAA
1 AAAAAGAAA-AAGAAAGGAA
* * *
11683793 AAGAAGAAGAACAAAGGAA
1 AAAAAGAAAAAGAAAGGAA
11683812 AAAAAGAAAAAGAAAG
1 AAAAAGAAAAAGAAAG
11683828 AGATTAAATG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAGGAA
Found at i:11684865 original size:61 final size:61
Alignment explanation
Indices: 11684731--11684868 Score: 161
Period size: 61 Copynumber: 2.3 Consensus size: 61
11684721 TAATTGGCAT
* * * * * *
11684731 CAATGAAGATTTAAGCCCAATTTAGATAGCACCCAGGTTTTAAGTCTAGTTTAGCTAACAT
1 CAATGAAAATTTAAGCCCAATTTAGATAGCACCCAAGTTTTAAGCCTAATCTAGCTAACAA
* * * * *
11684792 CAATTAATATTTAAGCCCAATTTAGCTGGCACCCAAG-TTTAAGCCTAATCTAGCTAGCAA
1 CAATGAAAATTTAAGCCCAATTTAGATAGCACCCAAGTTTTAAGCCTAATCTAGCTAACAA
11684852 CTAATGAAAATTTAAGC
1 C-AATGAAAATTTAAGC
11684869 ATAGTTTACC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 19 0.30
61 45 0.70
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (61 bp):
CAATGAAAATTTAAGCCCAATTTAGATAGCACCCAAGTTTTAAGCCTAATCTAGCTAACAA
Found at i:11684981 original size:33 final size:33
Alignment explanation
Indices: 11684944--11685216 Score: 105
Period size: 33 Copynumber: 8.2 Consensus size: 33
11684934 CCAATAAAGT
*
11684944 TTTAAGC-CCAATTTAGCTGGCATTCAATGAAAA
1 TTTAAGCTCC-ATTTAGCTGGCATCCAATGAAAA
* *
11684977 TTTAAGCTCCATTTAGCTGGCATCCAGTGAAAGT
1 TTTAAGCTCCATTTAGCTGGCATCCAATGAAA-A
* * * **
11685011 TTTGAGCT-TAGATTAGCTAAC-TCCCAATGAAAA
1 TTTAAGCTCCA-TTTAGCTGGCAT-CCAATGAAAA
* * * *
11685044 TTTAAG-TCTAGATTAGCTGGCACCCCATGAAAA
1 TTTAAGCTCCA-TTTAGCTGGCATCCAATGAAAA
* * * * * *
11685077 TTTTAGCTCAACTTAGTTGGCATATC-ATGAAAT
1 TTTAAGCTCCATTTAGCTGGCAT-CCAATGAAAA
** * *
11685110 TTTAAGCT-CAGTTTAATTGGTA-CCCATGAAAAGA
1 TTTAAGCTCCA-TTTAGCTGGCATCCAATG-AAA-A
* * ** * *
11685144 TTTAAGC-CCAGATTAACTGAAACCCAATAAAAA
1 TTTAAGCTCCA-TTTAGCTGGCATCCAATGAAAA
* * *
11685177 TTTAAGCT-TAGTTTAGCTGGCACCCCATGAAAA
1 TTTAAGCTCCA-TTTAGCTGGCATCCAATGAAAA
11685210 TTTAAGC
1 TTTAAGC
11685217 CTAGATTATC
Statistics
Matches: 183, Mismatches: 42, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
31 1 0.01
32 5 0.03
33 125 0.68
34 48 0.26
35 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (33 bp):
TTTAAGCTCCATTTAGCTGGCATCCAATGAAAA
Found at i:11685633 original size:31 final size:31
Alignment explanation
Indices: 11685542--11685725 Score: 152
Period size: 31 Copynumber: 5.9 Consensus size: 31
11685532 TTAATTTTGG
** * *
11685542 TCACCTCATTCGACTTGTGGCACAATCCCAG
1 TCACCTCATTCGACTTGTGGCTTAATCTCAA
* * * *
11685573 TCACTTCATTCGACTTATAGTTTAATCTCAA
1 TCACCTCATTCGACTTGTGGCTTAATCTCAA
*
11685604 TCACCTCATTCGACTTGTGGCTTAGTCTCAA
1 TCACCTCATTCGACTTGTGGCTTAATCTCAA
* * *** * *
11685635 TCACCTCATTTGACCTACAGTTTAATCTCGA
1 TCACCTCATTCGACTTGTGGCTTAATCTCAA
* * *
11685666 TCACCTTATTCGACTTGTGGCTTAGTCTCGA
1 TCACCTCATTCGACTTGTGGCTTAATCTCAA
* * * **
11685697 TCACTTTATTTGACTTGTGATTTAATCTC
1 TCACCTCATTCGACTTGTGGCTTAATCTC
11685726 GGTCATCCTA
Statistics
Matches: 119, Mismatches: 34, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 119 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (31 bp):
TCACCTCATTCGACTTGTGGCTTAATCTCAA
Found at i:11685689 original size:206 final size:207
Alignment explanation
Indices: 11685322--11685728 Score: 482
Period size: 206 Copynumber: 2.0 Consensus size: 207
11685312 ATTCGACCTA
* ** * *
11685322 CAATTTAATCTCGGTCACTTCATATGACTTGTGGCTTATTCTCAATCACCTCATTCAACCTATAG
1 CAATTTAATCTCGGTCACCTCATATGACTTGTGGCACAATCCCAATCACCTCATTCAACCTATAG
* * * * * * *
11685387 TTTAATCTCAGTTACCTTATTCAACTTGTGGCTCAGTCTCAATCACTTTATTCGACTTGCAGTTT
66 TTTAATCTCAATCACCTCATTCAACTTGTGGCTCAGTCTCAATCACCTCATTCGACCTACAGTTT
* * * * *
11685452 AGTTTCGAACACTTCATTTGACTTATGGCTTAGTTTC-AGTCAC-TTCTTGGACTTGTTG-TTTA
131 AATCTCGAACACTTCATTCGACTTATGGCTTAGTCTCGA-TCACTTTATTGGACTTG-TGATTTA
11685514 ATCTCGGTATCTTG
194 ATCTCGGTATCTTG
* * * * * *
11685528 CAATTTAATTTTGGTCACCTCAT-TCGACTTGTGGCACAATCCCAGTCACTTCATTCGACTTATA
1 CAATTTAATCTCGGTCACCTCATAT-GACTTGTGGCACAATCCCAATCACCTCATTCAACCTATA
* * *
11685592 GTTTAATCTCAATCACCTCATTCGACTTGTGGCTTAGTCTCAATCACCTCATTTGACCTACAGTT
65 GTTTAATCTCAATCACCTCATTCAACTTGTGGCTCAGTCTCAATCACCTCATTCGACCTACAGTT
* * *
11685657 TAATCTCGATCACCTT-ATTCGACTTGTGGCTTAGTCTCGATCACTTTATTTGACTTGTGATTTA
130 TAATCTCGAACA-CTTCATTCGACTTATGGCTTAGTCTCGATCACTTTATTGGACTTGTGATTTA
11685721 ATCTCGGT
194 ATCTCGGT
11685729 CATCCTATAG
Statistics
Matches: 167, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
205 1 0.01
206 140 0.84
207 26 0.16
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (207 bp):
CAATTTAATCTCGGTCACCTCATATGACTTGTGGCACAATCCCAATCACCTCATTCAACCTATAG
TTTAATCTCAATCACCTCATTCAACTTGTGGCTCAGTCTCAATCACCTCATTCGACCTACAGTTT
AATCTCGAACACTTCATTCGACTTATGGCTTAGTCTCGATCACTTTATTGGACTTGTGATTTAAT
CTCGGTATCTTG
Found at i:11685708 original size:62 final size:62
Alignment explanation
Indices: 11685542--11685710 Score: 221
Period size: 62 Copynumber: 2.7 Consensus size: 62
11685532 TTAATTTTGG
** * * * * * *
11685542 TCACCTCATTCGACTTGTGGCACAATCCCAGTCACTTCATTCGACTTATAGTTTAATCTCAA
1 TCACCTCATTCGACTTGTGGCTTAGTCTCAATCACTTCATTTGACCTACAGTTTAATCTCAA
* *
11685604 TCACCTCATTCGACTTGTGGCTTAGTCTCAATCACCTCATTTGACCTACAGTTTAATCTCGA
1 TCACCTCATTCGACTTGTGGCTTAGTCTCAATCACTTCATTTGACCTACAGTTTAATCTCAA
* * *
11685666 TCACCTTATTCGACTTGTGGCTTAGTCTCGATCACTTTATTTGAC
1 TCACCTCATTCGACTTGTGGCTTAGTCTCAATCACTTCATTTGAC
11685711 TTGTGATTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (62 bp):
TCACCTCATTCGACTTGTGGCTTAGTCTCAATCACTTCATTTGACCTACAGTTTAATCTCAA
Found at i:11685803 original size:84 final size:84
Alignment explanation
Indices: 11685648--11685875 Score: 244
Period size: 84 Copynumber: 2.7 Consensus size: 84
11685638 CCTCATTTGA
* ** * * * *
11685648 CCTACAGTTTAATCTCGATCACCTTATTCGACTTGTGGCTTAGTCTCGATCACTTTATTTGACTT
1 CCTATAGTTTAATCTCGATCATTTTATTCGACTTGTGGCTTAGTCTAGATCACTTCATTCGACCT
** *
11685713 GTGATTTAATCTCGGTCAT
66 ACGATTTAATCACGGTCAT
*
11685732 CCTATAGTTTAATCTCGATCATTTTATTCGATTTGTGGCTTAGTCTTAG-TCACTTCATTCGACC
1 CCTATAGTTTAATCTCGATCATTTTATTCGACTTGTGGCTTAGTC-TAGATCACTTCATTCGACC
11685796 TACGATTTAATCACGGTCAT
65 TACGATTTAATCACGGTCAT
* * * * * * * **
11685816 CTTGTAATTTAATCAC-AGTCATTTCATTCAACTTGTGGCTTAATCCCGATCACTTCATTC
1 CCTATAGTTTAATCTCGA-TCATTTTATTCGACTTGTGGCTTAGTCTAGATCACTTCATTC
11685876 AACTTACAGA
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
83 2 0.02
84 116 0.97
85 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (84 bp):
CCTATAGTTTAATCTCGATCATTTTATTCGACTTGTGGCTTAGTCTAGATCACTTCATTCGACCT
ACGATTTAATCACGGTCAT
Found at i:11685890 original size:146 final size:146
Alignment explanation
Indices: 11685740--11686083 Score: 354
Period size: 146 Copynumber: 2.4 Consensus size: 146
11685730 ATCCTATAGT
* * *
11685740 TTAATCTCGATCATTTTATTCGATTTGTGGCTTAGTCTTAGTCACTTCATTCGACCTACGATTTA
1 TTAATCTCGATCATTTCATTCGACTTGTGGCTTAGTCTTAGTCACTTCATTCGACCTACAATTTA
* * * * * *
11685805 ATCACGGTCATCTTGTAATTTAATCACAGTCA-TTTCATTCAACTTGTGGCTTAATCCCGATCAC
66 ATCACGATCATCCTGCAATTTAATCACAATCACCTT-ATTCAACTTATGGCTTAATCCCGATCAC
11685869 TTCATTCAACTTACAGA
130 TTCATTCAACTTACAGA
* * * * * * * * * *
11685886 TTAATCTTGATCACTTCACTCAAGTTGTGACTTAATCTT-GATCACGTT-ATTAGACTTGCAATT
1 TTAATCTCGATCATTTCATTCGACTTGTGGCTTAGTCTTAG-TCAC-TTCATTCGACCTACAATT
* * * *
11685949 TAATCTCGATCATCCTGCAATTTAATCTCAATCACCTTATTTAACTTATGGCTTAATCTCGATCA
64 TAATCACGATCATCCTGCAATTTAATCACAATCACCTTATTCAACTTATGGCTTAATCCCGATCA
* *
11686014 CTTCATTCAACTTATAGT
129 CTTCATTCAACTTACAGA
* * * * *
11686032 TTAATATC-AGTCATCTCATTCGACTTATGGTTTAGTCTCAGTCACTTCATTC
1 TTAATCTCGA-TCATTTCATTCGACTTGTGGCTTAGTCTTAGTCACTTCATTC
11686084 AACTTATGGT
Statistics
Matches: 155, Mismatches: 37, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
145 4 0.03
146 146 0.94
147 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (146 bp):
TTAATCTCGATCATTTCATTCGACTTGTGGCTTAGTCTTAGTCACTTCATTCGACCTACAATTTA
ATCACGATCATCCTGCAATTTAATCACAATCACCTTATTCAACTTATGGCTTAATCCCGATCACT
TCATTCAACTTACAGA
Found at i:11686106 original size:31 final size:31
Alignment explanation
Indices: 11685969--11686099 Score: 151
Period size: 31 Copynumber: 4.2 Consensus size: 31
11685959 CATCCTGCAA
* *
11685969 TTTAATCTCAATCACCTT-ATTTAACTTATGG
1 TTTAATCTCAGTCA-CTTCATTCAACTTATGG
* *
11686000 CTTAATCTC-GATCACTTCATTCAACTTATAG
1 TTTAATCTCAG-TCACTTCATTCAACTTATGG
* *
11686031 TTTAATATCAGTCA-TCTCATTCGACTTATGG
1 TTTAATCTCAGTCACT-TCATTCAACTTATGG
*
11686062 TTTAGTCTCAGTCACTTCATTCAACTTATGG
1 TTTAATCTCAGTCACTTCATTCAACTTATGG
11686093 TTTAATC
1 TTTAATC
11686100 CTAGTCATCC
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
30 4 0.05
31 77 0.93
32 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (31 bp):
TTTAATCTCAGTCACTTCATTCAACTTATGG
Found at i:11686161 original size:31 final size:31
Alignment explanation
Indices: 11686108--11686172 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
11686098 TCCTAGTCAT
***
11686108 CCTACAATTTAGTCTTGGTCACTTCATTCGA
1 CCTACAATTTAGTCTCAATCACTTCATTCGA
* *
11686139 CCTACAATTTAGTCTCAATCACTTTATTTGA
1 CCTACAATTTAGTCTCAATCACTTCATTCGA
11686170 CCT
1 CCT
11686173 GTGGCTTAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.09, T:0.40
Consensus pattern (31 bp):
CCTACAATTTAGTCTCAATCACTTCATTCGA
Found at i:11686222 original size:31 final size:31
Alignment explanation
Indices: 11686146--11686222 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
11686136 CGACCTACAA
* * **
11686146 TTTAGTCTCAATCACTTTATTTGACCTGTGG
1 TTTAGTCTCAGTCACTTCATTCAACCTGTGG
* * *
11686177 CTTAGTCCCTGTCACTTCATTCAACCTGTGG
1 TTTAGTCTCAGTCACTTCATTCAACCTGTGG
*
11686208 TTTAATCTCAGTCAC
1 TTTAGTCTCAGTCAC
11686223 CTACAGTTTA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTAGTCTCAGTCACTTCATTCAACCTGTGG
Found at i:11686363 original size:11 final size:10
Alignment explanation
Indices: 11686343--11686403 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 10
11686333 TTGGTTGTCC
11686343 AAAAAAAATA
1 AAAAAAAATA
11686353 AAAAAATAATA
1 AAAAAA-AATA
* * *
11686364 ATATAATATA
1 AAAAAAAATA
11686374 AAAACAAAATA
1 AAAA-AAAATA
11686385 AAAAACAAA-A
1 AAAAA-AAATA
11686395 AACAAAAAA
1 AA-AAAAAA
11686404 AGAGGGTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 18 0.44
11 23 0.56
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:11686735 original size:7 final size:7
Alignment explanation
Indices: 11686710--11686747 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
11686700 AAAATAATAA
11686710 AAATTAT
1 AAATTAT
11686717 -AATTAT
1 AAATTAT
11686723 -AATTAT
1 AAATTAT
11686729 AAATTAT
1 AAATTAT
11686736 AAATTA-
1 AAATTAT
11686742 AAATTA
1 AAATTA
11686748 ATAGTTTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTAT
Found at i:11686735 original size:13 final size:13
Alignment explanation
Indices: 11686710--11686747 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11686700 AAAATAATAA
11686710 AAATTATAATTAT
1 AAATTATAATTAT
11686723 -AATTATAAATTAT
1 AAATTAT-AATTAT
*
11686736 AAATTAAAATTA
1 AAATTATAATTA
11686748 ATAGTTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 6 0.27
13 11 0.50
14 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATTATAATTAT
Found at i:11689477 original size:13 final size:13
Alignment explanation
Indices: 11689455--11689530 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
11689445 CCTTAAAAGT
*
11689455 AAAACTTTAAATC
1 AAAACCTTAAATC
*
11689468 AAAACCTTAAATT
1 AAAACCTTAAATC
* * *
11689481 GAAATCTCAAAATC
1 AAAACCT-TAAATC
*
11689495 GAAACCTTAAATGC
1 AAAACCTTAAAT-C
* *
11689509 -AACCCTAAAATC
1 AAAACCTTAAATC
11689521 AAAACCTTAA
1 AAAACCTTAA
11689531 GGGAAACCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
12 1 0.02
13 36 0.75
14 11 0.23
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAACCTTAAATC
Found at i:11689525 original size:26 final size:27
Alignment explanation
Indices: 11689463--11689530 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
11689453 GTAAAACTTT
*
11689463 AAATCAAAACCTTAAATTGAAATCTCA
1 AAATCAAAACCTTAAATTGAAACCTCA
* *
11689490 AAATCGAAACCTTAAA-TGCAACC-CTA
1 AAATCAAAACCTTAAATTGAAACCTC-A
11689516 AAATCAAAACCTTAA
1 AAATCAAAACCTTAA
11689531 GGGAAACCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.03
26 20 0.56
27 15 0.42
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.22
Consensus pattern (27 bp):
AAATCAAAACCTTAAATTGAAACCTCA
Found at i:11689538 original size:26 final size:26
Alignment explanation
Indices: 11689463--11689543 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
11689453 GTAAAACTTT
*
11689463 AAATCAAAACCTTAAATTGAAA-TCTCA
1 AAATCAAAACCTTAAA-TGAAACCCT-A
* *
11689490 AAATCGAAACCTTAAATGCAACCCTA
1 AAATCAAAACCTTAAATGAAACCCTA
**
11689516 AAATCAAAACCTTAAGGGAAACCC-A
1 AAATCAAAACCTTAAATGAAACCCTA
11689541 AAA
1 AAA
11689544 CCCTAAATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.09
26 25 0.54
27 17 0.37
ACGTcount: A:0.52, C:0.22, G:0.07, T:0.19
Consensus pattern (26 bp):
AAATCAAAACCTTAAATGAAACCCTA
Found at i:11692279 original size:28 final size:27
Alignment explanation
Indices: 11692232--11692288 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
11692222 AAAACAGGTG
* *
11692232 AAAGAAAAAATATAAAAAAAATAGAGA
1 AAAGAAAAAAAATAAAAAAAAAAGAGA
*
11692259 AAAGAAAAAAAATAGAGAAAAAAAGAGA
1 AAAGAAAAAAAATA-AAAAAAAAAGAGA
11692287 AA
1 AA
11692289 TTTTGTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (27 bp):
AAAGAAAAAAAATAAAAAAAAAAGAGA
Found at i:11692289 original size:18 final size:18
Alignment explanation
Indices: 11692245--11692279 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11692235 GAAAAAATAT
11692245 AAAAAAAATAGAGAAAAG
1 AAAAAAAATAGAGAAAAG
11692263 AAAAAAAATAGAGAAAA
1 AAAAAAAATAGAGAAAA
11692280 AAAGAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAAAAATAGAGAAAAG
Found at i:11692761 original size:17 final size:17
Alignment explanation
Indices: 11692736--11692777 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11692726 AAGGGAAAGG
*
11692736 AAAATAAATG-AATAAAA
1 AAAAGAAATGAAAT-AAA
11692753 AAAAGAAATGAAATAAA
1 AAAAGAAATGAAATAAA
11692770 AAAAGAAA
1 AAAAGAAA
11692778 AAAAATGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAGAAATGAAATAAA
Found at i:11692783 original size:17 final size:17
Alignment explanation
Indices: 11692750--11692783 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11692740 TAAATGAATA
**
11692750 AAAAAAAGAAATGAAAT
1 AAAAAAAGAAAAAAAAT
11692767 AAAAAAAGAAAAAAAAT
1 AAAAAAAGAAAAAAAAT
11692784 GGGGAAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAT
Found at i:11694431 original size:20 final size:20
Alignment explanation
Indices: 11694395--11694432 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11694385 AACAAAGGAT
*
11694395 AATGATGATAGAGAAATAGA
1 AATGATGATAGAAAAATAGA
11694415 AATGATGACTA-AAAAATA
1 AATGATGA-TAGAAAAATA
11694433 AAAAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (20 bp):
AATGATGATAGAAAAATAGA
Found at i:11695188 original size:30 final size:30
Alignment explanation
Indices: 11695154--11695210 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11695144 TGAAAAAGAG
11695154 GAGAATTAAGCCCAATCTAGCTGGCATAAT
1 GAGAATTAAGCCCAATCTAGCTGGCATAAT
* * * *
11695184 GAGAATTAATCCTAATTTAGTTGGCAT
1 GAGAATTAAGCCCAATCTAGCTGGCAT
11695211 CGAAGAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (30 bp):
GAGAATTAAGCCCAATCTAGCTGGCATAAT
Found at i:11695274 original size:31 final size:32
Alignment explanation
Indices: 11695236--11695296 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
11695226 GCAGTTTAGT
11695236 TGGCACTGACA-AG-ATT-AATCCCAATTTAGCC
1 TGGCACTGA-AGAGAATTAAAT-CCAATTTAGCC
11695267 TGGCACTGAAGAGAATTAAATCCAATTTAG
1 TGGCACTGAAGAGAATTAAATCCAATTTAG
11695297 TTGGCACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 1 0.04
31 11 0.41
32 12 0.44
33 3 0.11
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (32 bp):
TGGCACTGAAGAGAATTAAATCCAATTTAGCC
Found at i:11695302 original size:31 final size:31
Alignment explanation
Indices: 11695154--11695303 Score: 100
Period size: 31 Copynumber: 4.9 Consensus size: 31
11695144 TGAAAAAGAG
** * *
11695154 GAGAATTAAGCCCAATCTAGCTGGCA-T-AA
1 GAGAATTAAATCCAATTTAGTTGGCACTGAA
11695183 TGAGAATT-AATCCTAATTTAGTTGGCA-TCGAA
1 -GAGAATTAAATCC-AATTTAGTTGGCACT-GAA
** * *
11695215 GA-AGATTATGTGCAGTTTAGTTGGCACTGACA
1 GAGA-ATTAAATCCAATTTAGTTGGCACTGA-A
*
11695247 -AG-ATT-AATCCCAATTTAGCCTGGCACTGAA
1 GAGAATTAAAT-CCAATTTAG-TTGGCACTGAA
11695277 GAGAATTAAATCCAATTTAGTTGGCAC
1 GAGAATTAAATCCAATTTAGTTGGCAC
11695304 CAAGAAAAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
29 4 0.04
30 31 0.33
31 37 0.40
32 18 0.19
33 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (31 bp):
GAGAATTAAATCCAATTTAGTTGGCACTGAA
Found at i:11695315 original size:31 final size:32
Alignment explanation
Indices: 11695280--11695349 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
11695270 CACTGAAGAG
*
11695280 AATTAA-ATCCAATTTAGTTGGCACC-AAGAAA
1 AATTAAGATCCAA-TTAGTTAGCACCTAAGAAA
* *
11695311 AATTAAGCTCCAATTAGTTAGCACCTATGAAA
1 AATTAAGATCCAATTAGTTAGCACCTAAGAAA
11695343 AATTAAG
1 AATTAAG
11695350 CCCAAATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 17 0.50
32 17 0.50
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (32 bp):
AATTAAGATCCAATTAGTTAGCACCTAAGAAA
Found at i:11695323 original size:32 final size:32
Alignment explanation
Indices: 11695287--11695354 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
11695277 GAGAATTAAA
*
11695287 TCCAATTTAGTTGGCACC-AAGAAAAATTAAGC
1 TCCAA-TTAGTTAGCACCTAAGAAAAATTAAGC
*
11695319 TCCAATTAGTTAGCACCTATGAAAAATTAAGC
1 TCCAATTAGTTAGCACCTAAGAAAAATTAAGC
11695351 -CCAA
1 TCCAA
11695355 ATTAACTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (32 bp):
TCCAATTAGTTAGCACCTAAGAAAAATTAAGC
Found at i:11695328 original size:93 final size:91
Alignment explanation
Indices: 11695158--11695334 Score: 200
Period size: 93 Copynumber: 1.9 Consensus size: 91
11695148 AAAGAGGAGA
* *
11695158 ATTAAGCCCAATCTAGCTGGCATAATGAGAATTAATCCTAATTTAGTTGGCATCGAAGAAGATTA
1 ATTAAGCCCAATCTAGCTGGCATAATGAGAATTAATCCTAATTTAGTTGGCATCCAAGAAAATTA
* * * *
11695223 TGTGCAGTTTAGTTGGCACTGACAAG
66 AGTCCAGATTAGTTAGCACTGACAAG
* *
11695249 ATTAATCCCAATTTAGCCTGGCACTGAA-GAGAATTAAATCC-AATTTAGTTGGCA-CCAAGAAA
1 ATTAAGCCCAATCTAG-CTGGCA-T-AATGAGAATT-AATCCTAATTTAGTTGGCATCCAAG-AA
11695311 AATTAAGCTCCA-ATTAGTTAGCAC
61 AATTAAG-TCCAGATTAGTTAGCAC
11695335 CTATGAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
91 14 0.19
92 10 0.14
93 38 0.53
94 10 0.14
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (91 bp):
ATTAAGCCCAATCTAGCTGGCATAATGAGAATTAATCCTAATTTAGTTGGCATCCAAGAAAATTA
AGTCCAGATTAGTTAGCACTGACAAG
Found at i:11695595 original size:47 final size:46
Alignment explanation
Indices: 11695478--11695741 Score: 188
Period size: 47 Copynumber: 5.6 Consensus size: 46
11695468 ACAATTTTTT
* * * **
11695478 TTTTTTAAGTTTAATGCCTATTTTATAAGAGCC-CTTTCTAGATAGATTT
1 TTTTTTAAGTTTGATGCCTATTTTATAGGAGCCTTTTTC-AGA-A-A-AA
*
11695527 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCTTTTTTCAGAAAAA
1 TTTTTT-AAGTTTGATGCCTATTTTATAGGAGCC-TTTTTCAGAAAAA
* * * ** * **
11695575 TTTTTTAAGTTTGATGCTTATTTTATAGAAACCCATTACAGATGAA
1 TTTTTTAAGTTTGATGCCTATTTTATAGGAGCCTTTTTCAGAAAAA
* * * * *
11695621 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCATTTTCCATATAGA
1 TTTTTT-AAGTTTGATGCCTATTTTATAGGAGCC-TTTTTCAGAAAAA
* * * ** * * *
11695669 TTTTTAAAATTTCATGCCTATTTTATAACAACCATTTTCAGACAAA
1 TTTTTTAAGTTTGATGCCTATTTTATAGGAGCCTTTTTCAGAAAAA
*
11695715 TCTTTTAAAGTTTGATGCCTATTTTAT
1 T-TTTTTAAGTTTGATGCCTATTTTAT
11695742 GTGAGCCCTT
Statistics
Matches: 174, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
46 23 0.13
47 94 0.54
48 18 0.10
49 7 0.04
50 25 0.14
51 3 0.02
52 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (46 bp):
TTTTTTAAGTTTGATGCCTATTTTATAGGAGCCTTTTTCAGAAAAA
Found at i:11695648 original size:94 final size:94
Alignment explanation
Indices: 11695527--11695741 Score: 272
Period size: 94 Copynumber: 2.3 Consensus size: 94
11695517 AGATAGATTT
* * * * *
11695527 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCTTTTTTCAGAAAAATTTTTTAAGTTTGATGC
1 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCATTTTCCAGAAAAATTTTTAAAATTTCATGC
* **
11695592 TTATTTTATAGA-AACCCA-TTACAGATGAA
66 CTATTTTATA-ACAA-CCATTTACAGACAAA
* * *
11695621 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCATTTTCCATATAGATTTTTAAAATTTCATGC
1 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCATTTTCCAGAAAAATTTTTAAAATTTCATGC
*
11695686 CTATTTTATAACAACCATTTTCAGACAAA
66 CTATTTTATAACAACCATTTACAGACAAA
* *
11695715 TCTTTTAAAGTTTGATGCCTATTTTAT
1 TTTTTTAAAGTTTGATGCTTATTTTAT
11695742 GTGAGCCCTT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
93 4 0.04
94 101 0.96
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (94 bp):
TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCATTTTCCAGAAAAATTTTTAAAATTTCATGC
CTATTTTATAACAACCATTTACAGACAAA
Found at i:11695755 original size:112 final size:112
Alignment explanation
Indices: 11695639--11695853 Score: 306
Period size: 112 Copynumber: 1.9 Consensus size: 112
11695629 AGTTTGATGC
*
11695639 TTATTTTATAGGAGCCATTTTCCATATAGA-TTTTTAAAATTTCATGCCTATTTTATAACAACCA
1 TTATTTTATAGAAGCCATTTT-CATATAGATTTTTTAAAATTTCATGCCTATTTTATAACAACCA
* * *
11695703 TTTTCAGACAAATCTTTTAAAGTTTGATGCCTATTTTATGTGAGCCCT
65 TTTCCAGACAAATCTTTTAAAGTTTAATGCATATTTTATGTGAGCCCT
* * * * * * *
11695751 TTATTTTATATAAGCCATTTTCATATAGATTTTTTTAATTTTGATGCCTATTTTATAAGAGCCCT
1 TTATTTTATAGAAGCCATTTTCATATAGATTTTTTAAAATTTCATGCCTATTTTATAACAACCAT
*
11695816 TTCCAGACAAATTTTTTAAAGTTTAATGCATATTTTAT
66 TTCCAGACAAATCTTTTAAAGTTTAATGCATATTTTAT
11695854 AAGAATCCTT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
111 8 0.09
112 82 0.91
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.47
Consensus pattern (112 bp):
TTATTTTATAGAAGCCATTTTCATATAGATTTTTTAAAATTTCATGCCTATTTTATAACAACCAT
TTCCAGACAAATCTTTTAAAGTTTAATGCATATTTTATGTGAGCCCT
Found at i:11695759 original size:65 final size:65
Alignment explanation
Indices: 11695687--11695817 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 65
11695677 ATTTCATGCC
**
11695687 TATTTTATA-ACAACCATTTTCAGACAAATCTTTTAAAGTTTGATGCCTATTTTATGTGAGCCCT
1 TATTTTATATA-AACCATTTTCAGACAAATCTTTTAAAGTTTGATGCCTATTTTATAAGAGCCCT
11695751 T
65 T
* * * * * * *
11695752 TATTTTATATAAGCCATTTTCATATAGATTTTTTTAATTTTGATGCCTATTTTATAAGAGCCCTT
1 TATTTTATATAAACCATTTTCAGACAAATCTTTTAAAGTTTGATGCCTATTTTATAAGAGCCCTT
11695817 T
1 T
11695818 CCAGACAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 55 0.98
66 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (65 bp):
TATTTTATATAAACCATTTTCAGACAAATCTTTTAAAGTTTGATGCCTATTTTATAAGAGCCCTT
Found at i:11698285 original size:13 final size:13
Alignment explanation
Indices: 11698275--11698319 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
11698265 TCCCAAATTG
11698275 AAACCTTAAATCC
1 AAACCTTAAATCC
*
11698288 AAACCTTAAACCC
1 AAACCTTAAATCC
*
11698301 TAAACCTCAAATCC
1 -AAACCTTAAATCC
11698315 AAACC
1 AAACC
11698320 CCAAAACCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACCTTAAATCC
Found at i:11698304 original size:7 final size:7
Alignment explanation
Indices: 11698275--11698497 Score: 111
Period size: 7 Copynumber: 33.7 Consensus size: 7
11698265 TCCCAAATTG
*
11698275 AAACCTT
1 AAACCCT
*
11698282 AAATCC-
1 AAACCCT
*
11698288 AAACCTT
1 AAACCCT
11698295 AAACCCT
1 AAACCCT
11698302 AAA-CCT
1 AAACCCT
*
11698308 CAAATCC-
1 -AAACCCT
*
11698315 AAACCCCA
1 AAA-CCCT
11698323 AAACCC-
1 AAACCCT
*
11698329 AAA-TCT
1 AAACCCT
11698335 AAACCC-
1 AAACCCT
*
11698341 AAAACCT
1 AAACCCT
11698348 AAACCCT
1 AAACCCT
*
11698355 AAATCC-
1 AAACCCT
*
11698361 AAA-CTT
1 AAACCCT
11698367 CAAACTCC-
1 -AAAC-CCT
*
11698375 AAACCCC
1 AAACCCT
*
11698382 AAATCC-
1 AAACCCT
11698388 AAACCCT
1 AAACCCT
11698395 AAACCCT
1 AAACCCT
* *
11698402 AATCCAT
1 AAACCCT
11698409 AAA-CCT
1 AAACCCT
11698415 AAACCCT
1 AAACCCT
11698422 -AACCCT
1 AAACCCT
11698428 AAACCCT
1 AAACCCT
**
11698435 AAAATC-
1 AAACCCT
11698441 AAACCCT
1 AAACCCT
*
11698448 -AACCTT
1 AAACCCT
*
11698454 AAA-GCT
1 AAACCCT
*
11698460 AAA-CTT
1 AAACCCT
*
11698466 AAGCCCT
1 AAACCCT
11698473 AAACCCT
1 AAACCCT
*
11698480 AAAACCT
1 AAACCCT
11698487 -AACCCT
1 AAACCCT
11698493 AAACC
1 AAACC
11698498 TTTACCTTAA
Statistics
Matches: 163, Mismatches: 33, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
5 2 0.01
6 63 0.39
7 92 0.56
8 5 0.03
9 1 0.01
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:11698304 original size:20 final size:19
Alignment explanation
Indices: 11698275--11698423 Score: 81
Period size: 20 Copynumber: 7.5 Consensus size: 19
11698265 TCCCAAATTG
*
11698275 AAACCTTAAATCCAAACCTT
1 AAACCCTAAATCCAAACC-T
*
11698295 AAACCCTAAACCTCAAATCC-
1 AAACCCTAAATC-CAAA-CCT
* * *
11698315 AAACCCCAAAACCCAAATCT
1 AAA-CCCTAAATCCAAACCT
*
11698335 AAACCC-AAAACCTAAACCCT
1 AAACCCTAAATCC-AAA-CCT
* * *
11698355 AAATCC-AAACTTCAAACTCC
1 AAACCCTAAA-TCCAAAC-CT
*
11698375 AAACCCCAAATCCAAACCCT
1 AAACCCTAAATCCAAA-CCT
11698395 AAACCCT-AATCCATAAACCT
1 AAACCCTAAATCC--AAACCT
11698415 AAACCCTAA
1 AAACCCTAA
11698424 CCCTAAACCC
Statistics
Matches: 102, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
18 5 0.05
19 13 0.13
20 61 0.60
21 21 0.21
22 2 0.02
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (19 bp):
AAACCCTAAATCCAAACCT
Found at i:11698324 original size:13 final size:13
Alignment explanation
Indices: 11698320--11698393 Score: 69
Period size: 13 Copynumber: 5.6 Consensus size: 13
11698310 AATCCAAACC
*
11698320 CCAAAACCCAAAT
1 CCAAACCCCAAAT
* *
11698333 CTAAA-CCCAAAA
1 CCAAACCCCAAAT
*
11698345 CCTAAACCCTAAAT
1 CC-AAACCCCAAAT
**
11698359 CCAAACTTCAAACT
1 CCAAACCCCAAA-T
11698373 CCAAACCCCAAAT
1 CCAAACCCCAAAT
11698386 CCAAACCC
1 CCAAACCC
11698394 TAAACCCTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
12 7 0.15
13 23 0.48
14 18 0.38
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (13 bp):
CCAAACCCCAAAT
Found at i:11698428 original size:13 final size:13
Alignment explanation
Indices: 11698388--11698522 Score: 94
Period size: 13 Copynumber: 10.3 Consensus size: 13
11698378 CCCCAAATCC
11698388 AAACCCTAAACCCT
1 AAACCCT-AACCCT
* * *
11698402 AATCCATAAACCT
1 AAACCCTAACCCT
11698415 AAACCCTAACCCT
1 AAACCCTAACCCT
**
11698428 AAACCCTAA-AAT
1 AAACCCTAACCCT
*
11698440 CAAACCCTAACCTT
1 -AAACCCTAACCCT
* * *
11698454 AAA-GCTAAACTT
1 AAACCCTAACCCT
*
11698466 AAGCCCTAAACCCT
1 AAACCCT-AACCCT
*
11698480 AAAACCTAACCCT
1 AAACCCTAACCCT
* * *
11698493 AAACCTTTACCTT
1 AAACCCTAACCCT
*
11698506 AAAACCTAACCCT
1 AAACCCTAACCCT
11698519 AAAC
1 AAAC
11698523 TTTAAAATCG
Statistics
Matches: 90, Mismatches: 27, Indels: 9
0.71 0.21 0.07
Matches are distributed among these distances:
12 10 0.11
13 65 0.72
14 15 0.17
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (13 bp):
AAACCCTAACCCT
Found at i:11698435 original size:20 final size:20
Alignment explanation
Indices: 11698375--11698497 Score: 92
Period size: 20 Copynumber: 6.2 Consensus size: 20
11698365 TTCAAACTCC
* * *
11698375 AAACCCCAAATCCAAACCCT
1 AAACCCTAAACCCTAACCCT
* * *
11698395 AAACCCTAATCCATAAACCT
1 AAACCCTAAACCCTAACCCT
11698415 AAACCCT-AACCCTAAACCCT
1 AAACCCTAAACCCT-AACCCT
** *
11698435 AAAATC-AAACCCTAACCTT
1 AAACCCTAAACCCTAACCCT
* *
11698454 AAA-GCTAAA-CTTAAGCCCT
1 AAACCCTAAACCCTAA-CCCT
*
11698473 AAACCCTAAAACCTAACCCT
1 AAACCCTAAACCCTAACCCT
11698493 AAACC
1 AAACC
11698498 TTTACCTTAA
Statistics
Matches: 80, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
18 5 0.06
19 21 0.26
20 50 0.62
21 4 0.05
ACGTcount: A:0.45, C:0.37, G:0.02, T:0.16
Consensus pattern (20 bp):
AAACCCTAAACCCTAACCCT
Found at i:11704314 original size:13 final size:12
Alignment explanation
Indices: 11704290--11704336 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
11704280 AAATTCTATC
11704290 AATTTATTTATTTA
1 AATTT-TTTA-TTA
11704304 AATTTTTTATTA
1 AATTTTTTATTA
*
11704316 AAATTTTTATTA
1 AATTTTTTATTA
11704328 AATTATTTT
1 AATT-TTTT
11704337 TAATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 17 0.57
13 8 0.27
14 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTTTTATTA
Found at i:11704322 original size:12 final size:12
Alignment explanation
Indices: 11704296--11704344 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
11704286 TATCAATTTA
*
11704296 TTTATTTAAATTT
1 TTTA-TTAAAATT
11704309 TTTATTAAAATT
1 TTTATTAAAATT
11704321 TTTATTAAATTATT
1 TTTATTAAA--ATT
*
11704335 TTTAATAAAA
1 TTTATTAAAA
11704345 AATTTTACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 17 0.53
13 4 0.12
14 11 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTATTAAAATT
Found at i:11704323 original size:14 final size:13
Alignment explanation
Indices: 11704290--11704344 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
11704280 AAATTCTATC
*
11704290 AATTTATTTATTTA
1 AATTT-TTTATTAA
11704304 AATTTTTTATTAA
1 AATTTTTTATTAA
11704317 AA-TTTTTATTAA
1 AATTTTTTATTAA
* *
11704329 ATTATTTTTAATAA
1 AAT-TTTTTATTAA
11704343 AA
1 AA
11704345 AATTTTACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.31
13 9 0.26
14 15 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTTTTTATTAA
Found at i:11707235 original size:21 final size:24
Alignment explanation
Indices: 11707190--11707242 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
11707180 AATGTTATAT
*
11707190 TTTTTATATATTATTTTAATAAAA
1 TTTTTATATATTATTTAAATAAAA
11707214 TTTTTA-ATA-TATTTAAAT-AAA
1 TTTTTATATATTATTTAAATAAAA
*
11707235 TTTATATA
1 TTTTTATA
11707243 AAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 9 0.35
23 3 0.12
24 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATAAAA
Found at i:11709197 original size:25 final size:25
Alignment explanation
Indices: 11709166--11709253 Score: 131
Period size: 25 Copynumber: 3.5 Consensus size: 25
11709156 TATATCAAAT
*
11709166 AAGCACAATCAAATATATGCATGTT
1 AAGCACAATCAAATATATGCATGTC
* *
11709191 AAACACAACCAAATATATGCATGTC
1 AAGCACAATCAAATATATGCATGTC
*
11709216 AAGCACAATCAAACATATGCATGTC
1 AAGCACAATCAAATATATGCATGTC
*
11709241 AAGCACAAGCAAA
1 AAGCACAATCAAA
11709254 ATTGTCCATA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (25 bp):
AAGCACAATCAAATATATGCATGTC
Found at i:11709207 original size:50 final size:50
Alignment explanation
Indices: 11709155--11709253 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
11709145 GTTAGAGCAT
* *
11709155 ATATAT-CAAAT-AAGCACAATCAAATATATGCATGTTAAACACAACCAA
1 ATATATGCAAATCAAGCACAATCAAACATATGCATGTCAAACACAACCAA
** * *
11709203 ATATATGCATGTCAAGCACAATCAAACATATGCATGTCAAGCACAAGCAA
1 ATATATGCAAATCAAGCACAATCAAACATATGCATGTCAAACACAACCAA
11709253 A
1 A
11709254 ATTGTCCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 6 0.14
49 3 0.07
50 34 0.79
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.21
Consensus pattern (50 bp):
ATATATGCAAATCAAGCACAATCAAACATATGCATGTCAAACACAACCAA
Found at i:11709803 original size:16 final size:16
Alignment explanation
Indices: 11709782--11709816 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11709772 ATACAAGCTC
*
11709782 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
11709798 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11709814 ATA
1 ATA
11709817 TCTTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:11711254 original size:45 final size:45
Alignment explanation
Indices: 11711166--11711256 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
11711156 TAGGCAAAAG
* *
11711166 AAAATTTATTCACTAAGCACAAGTTACCAATTGTAAGGAAGATAT
1 AAAATTTATTCACTAAGCACAAGTTACCAATTGAAAAGAAGATAT
* *
11711211 AAAATTTATTCACTAAGCATAAGTTGCCAATTGCAAAAG-AGATAT
1 AAAATTTATTCACTAAGCACAAGTTACCAATTG-AAAAGAAGATAT
11711256 A
1 A
11711257 TACTTAAGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 38 0.93
46 3 0.07
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (45 bp):
AAAATTTATTCACTAAGCACAAGTTACCAATTGAAAAGAAGATAT
Found at i:11713835 original size:20 final size:19
Alignment explanation
Indices: 11713802--11713840 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11713792 GTTCTGAATG
11713802 GAATTGAATATCATAGTTTT
1 GAATTGAATATCATA-TTTT
* *
11713822 GAATTGATTTTCATATTTT
1 GAATTGAATATCATATTTT
11713841 TTTGCCCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
GAATTGAATATCATATTTT
Found at i:11714056 original size:3 final size:3
Alignment explanation
Indices: 11714044--11714080 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11714034 ATATTGTTAG
11714044 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11714081 CATTAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11714161 original size:26 final size:25
Alignment explanation
Indices: 11714126--11714176 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
11714116 GGTTAATAAC
*
11714126 TTAAAATTAACTTTTTAAAAAAAATT
1 TTAAAATTAA-TATTTAAAAAAAATT
* *
11714152 TTAAATTTAATATTTAAAAATAATT
1 TTAAAATTAATATTTAAAAAAAATT
11714177 ATATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAAAATTAATATTTAAAAAAAATT
Found at i:11714611 original size:56 final size:56
Alignment explanation
Indices: 11714525--11714640 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 56
11714515 TATAGACATG
* *
11714525 TCAATAATTATGTAATCTAGTGATATAAAATCTTATATTTTTAATTTGTAATAATT
1 TCAATAATTATGTAATCTAGTGATATAAAATATTATATTTTAAATTTGTAATAATT
* *
11714581 TCAATAATTATGTAAGT-TATTGATATAAAATATTATATTTTAAATTTTTAATAATT
1 TCAATAATTATGTAA-TCTAGTGATATAAAATATTATATTTTAAATTTGTAATAATT
11714637 TCAA
1 TCAA
11714641 GTAGAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 54 0.98
57 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.48
Consensus pattern (56 bp):
TCAATAATTATGTAATCTAGTGATATAAAATATTATATTTTAAATTTGTAATAATT
Found at i:11729234 original size:2 final size:2
Alignment explanation
Indices: 11729227--11729252 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11729217 CGAACAAAAT
11729227 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11729253 CTTACTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11729420 original size:2 final size:2
Alignment explanation
Indices: 11729413--11729442 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11729403 CTACTTAACA
11729413 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11729443 TTTGGTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11731223 original size:4 final size:4
Alignment explanation
Indices: 11731214--11731255 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
11731204 ATTTATGAAT
*
11731214 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTG ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
11731256 GGACACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:11733441 original size:18 final size:17
Alignment explanation
Indices: 11733418--11733451 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11733408 CAATCAAATA
11733418 AAAAAAATCAAAAACTAC
1 AAAAAAA-CAAAAACTAC
*
11733436 AAAAAAAGAAAAACTA
1 AAAAAAACAAAAACTA
11733452 AATAGATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.76, C:0.12, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAAACAAAAACTAC
Found at i:11743341 original size:21 final size:21
Alignment explanation
Indices: 11743317--11743358 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11743307 GTATTCGCAA
11743317 CTTTGTTGGGTATATATGCAT
1 CTTTGTTGGGTATATATGCAT
11743338 CTTTGTTGGGTATATATGCAT
1 CTTTGTTGGGTATATATGCAT
11743359 AATGGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.48
Consensus pattern (21 bp):
CTTTGTTGGGTATATATGCAT
Found at i:11745159 original size:16 final size:16
Alignment explanation
Indices: 11745138--11745187 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
11745128 CTGCTTTAAA
11745138 TCTTTCTTTCCCCTTC
1 TCTTTCTTTCCCCTTC
*
11745154 TCTTTC-TTCCCTTTC
1 TCTTTCTTTCCCCTTC
* *
11745169 T-TTTATCTCCCCTTTC
1 TCTTTCTTTCCCC-TTC
11745185 TCT
1 TCT
11745188 AGAAATCGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 3 0.11
15 13 0.48
16 10 0.37
17 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTTTCTTTCCCCTTC
Found at i:11745169 original size:15 final size:15
Alignment explanation
Indices: 11745138--11745187 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
11745128 CTGCTTTAAA
*
11745138 TCTTTCTTTCCCCTTC
1 TCTTTC-TTCCCTTTC
11745154 TCTTTCTTCCCTTTC
1 TCTTTCTTCCCTTTC
* *
11745169 TTTTATCTCCCCTTTC
1 TCTT-TCTTCCCTTTC
11745185 TCT
1 TCT
11745188 AGAAATCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTTTCTTCCCTTTC
Found at i:11745443 original size:12 final size:13
Alignment explanation
Indices: 11745403--11745438 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
11745393 AAAATTTTTC
11745403 AAAAAATTTCCAA
1 AAAAAATTTCCAA
11745416 AAAAATATTTCCAA
1 AAAAA-ATTTCCAA
11745430 AAAAAATTT
1 AAAAAATTT
11745439 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAATTTCCAA
Found at i:11745687 original size:4 final size:4
Alignment explanation
Indices: 11745678--11745706 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
11745668 TCATTATTAT
11745678 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
11745707 CACCTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11746800 original size:21 final size:20
Alignment explanation
Indices: 11746761--11746801 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11746751 TTATGATGTT
*
11746761 TTATTTATTTATTATTATTA
1 TTATTTATTTATAATTATTA
*
11746781 TTATTTTTTTCATAATTATTA
1 TTATTTATTT-ATAATTATTA
11746802 ATTAATTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTATTTATAATTATTA
Found at i:11746826 original size:21 final size:21
Alignment explanation
Indices: 11746802--11746860 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
11746792 ATAATTATTA
11746802 ATTAATTGCATGATATTTTAT
1 ATTAATTGCATGATATTTTAT
*
11746823 ATTAATTGCATGATAATTTAT
1 ATTAATTGCATGATATTTTAT
11746844 ATTAATTGCATGATATT
1 ATTAATTGCATGATATT
11746861 ATTTGCATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (21 bp):
ATTAATTGCATGATATTTTAT
Found at i:11746861 original size:14 final size:14
Alignment explanation
Indices: 11746842--11746872 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11746832 ATGATAATTT
11746842 ATATTAATTGCATG
1 ATATTAATTGCATG
*
11746856 ATATTATTTGCATG
1 ATATTAATTGCATG
11746870 ATA
1 ATA
11746873 ATTTTAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (14 bp):
ATATTAATTGCATG
Found at i:11748529 original size:15 final size:17
Alignment explanation
Indices: 11748511--11748550 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
11748501 ATATTATTTT
11748511 TATATTTTATT-G-TAA
1 TATATTTTATTAGTTAA
*
11748526 TATAATTTATTAGTTAA
1 TATATTTTATTAGTTAA
11748543 -ATATTTTA
1 TATATTTTA
11748551 GTTTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 10 0.48
16 8 0.38
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TATATTTTATTAGTTAA
Found at i:11748927 original size:19 final size:19
Alignment explanation
Indices: 11748883--11748935 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
11748873 ATGATTTATC
* *
11748883 ATTAAAATAATATTTTTAAT
1 ATTAAAATAA-ATTTTAAAA
*
11748903 A-GAAAATAAATTTTAAAA
1 ATTAAAATAAATTTTAAAA
11748921 ATTAAAATTAAATTT
1 ATTAAAA-TAAATTT
11748936 AAGATATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 8 0.30
19 11 0.41
20 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAAATAAATTTTAAAA
Found at i:11749009 original size:32 final size:32
Alignment explanation
Indices: 11748955--11749024 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
11748945 AAATTCTTTT
* * *
11748955 TAAAAATTTCCATAGCAATTT-AACAATTAAAA
1 TAAAAATTTCAACAGCAATTTAAAAAATT-AAA
* *
11748987 TAAAAATTTCAACATCATTTTAAAAAATTAAA
1 TAAAAATTTCAACAGCAATTTAAAAAATTAAA
11749019 TAAAAA
1 TAAAAA
11749025 AAAAACTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.31
Consensus pattern (32 bp):
TAAAAATTTCAACAGCAATTTAAAAAATTAAA
Found at i:11751618 original size:16 final size:16
Alignment explanation
Indices: 11751593--11751624 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11751583 TTCAACTTTT
*
11751593 TTGTTTTCTTGTTTGA
1 TTGTTATCTTGTTTGA
11751609 TTGTTATCTTGTTTGA
1 TTGTTATCTTGTTTGA
11751625 ATGGGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (16 bp):
TTGTTATCTTGTTTGA
Done.