Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 39 of 204
Found at i:11281597 original size:50 final size:50
Alignment explanation
Indices: 11281484--11281725 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
11281474 ATTTGGGTAA
* * *
11281484 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
11281540 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11281590 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11281640 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
11281690 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
11281726 TTTGGCACGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:11281673 original size:100 final size:102
Alignment explanation
Indices: 11281484--11281733 Score: 362
Period size: 100 Copynumber: 2.4 Consensus size: 102
11281474 ATTTGGGTAA
11281484 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC---AGATCATGAGAGGTCCC
* *
11281549 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
62 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
11281590 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-GA-GATGAGAGGTCCCCTAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATCATGAGAGGTCCCCTAT
11281653 AAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 AAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
11281690 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
11281734 GTTATTATCA
Statistics
Matches: 134, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 40 0.30
105 2 0.01
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATCATGAGAGGTCCCCTAT
AAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:11284993 original size:15 final size:15
Alignment explanation
Indices: 11284973--11285003 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11284963 GTCATGTAAG
11284973 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11284988 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11285003 T
1 T
11285004 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11285193 original size:17 final size:17
Alignment explanation
Indices: 11285160--11285198 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11285150 TAAGCTTTTG
11285160 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
11285177 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
11285194 ATTTT
1 ATTTT
11285199 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:11285964 original size:15 final size:15
Alignment explanation
Indices: 11285940--11285969 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11285930 TGGAGATCGA
*
11285940 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
11285955 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
11285970 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:11289348 original size:15 final size:15
Alignment explanation
Indices: 11289328--11289358 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11289318 GTCATGTAAG
11289328 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11289343 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11289358 T
1 T
11289359 ATATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11289548 original size:17 final size:17
Alignment explanation
Indices: 11289515--11289553 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11289505 TAAGCTTTTG
11289515 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
11289532 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
11289549 ATTTT
1 ATTTT
11289554 CCACAGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:11294218 original size:8 final size:8
Alignment explanation
Indices: 11294205--11294237 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
11294195 ACCCGGCCCT
11294205 TAAATCCC
1 TAAATCCC
11294213 TAAAT-CC
1 TAAATCCC
11294220 TAAA-CCC
1 TAAATCCC
11294227 TAAATCCC
1 TAAATCCC
11294235 TAA
1 TAA
11294238 CTCTTACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 12 0.52
8 11 0.48
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAATCCC
Found at i:11294557 original size:7 final size:7
Alignment explanation
Indices: 11294545--11294693 Score: 50
Period size: 7 Copynumber: 20.7 Consensus size: 7
11294535 ACTAGTTAAT
11294545 CTAAACC
1 CTAAACC
11294552 CTAAACC
1 CTAAACC
*
11294559 CTAAAACT
1 CT-AAACC
11294567 CTAAAACC
1 CT-AAACC
*
11294575 ATAAACC
1 CTAAACC
* *
11294582 CTTAACA
1 CTAAACC
11294589 C-ATAACC
1 CTA-AACC
*
11294596 TCTAAAGC
1 -CTAAACC
11294604 CTAAACC
1 CTAAACC
* *
11294611 C-CAGCC
1 CTAAACC
*
11294617 TTTAAACC
1 -CTAAACC
*
11294625 ATAAACC
1 CTAAACC
*
11294632 ATAAACC
1 CTAAACC
**
11294639 AAAAACC
1 CTAAACC
*
11294646 GTAAACC
1 CTAAACC
* *
11294653 ATAAATC
1 CTAAACC
* *
11294660 ATAACCC
1 CTAAACC
11294667 CTAAACC
1 CTAAACC
*
11294674 CATAATCC
1 C-TAAACC
*
11294682 ATAAACC
1 CTAAACC
*
11294689 TTAAA
1 CTAAA
11294694 ATGGTAACAC
Statistics
Matches: 106, Mismatches: 29, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
6 3 0.03
7 78 0.74
8 24 0.23
9 1 0.01
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:11294636 original size:14 final size:14
Alignment explanation
Indices: 11294619--11294693 Score: 78
Period size: 14 Copynumber: 5.3 Consensus size: 14
11294609 CCCCAGCCTT
11294619 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
11294633 TAAACCAAAAACCG
1 TAAACCATAAACCA
*
11294647 TAAACCATAAATCA
1 TAAACCATAAACCA
* *
11294661 TAACCCCTAAACCCA
1 TAAACCATAAA-CCA
* *
11294676 TAATCCATAAACCT
1 TAAACCATAAACCA
11294690 TAAA
1 TAAA
11294694 ATGGTAACAC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
14 37 0.77
15 11 0.23
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:11294644 original size:21 final size:21
Alignment explanation
Indices: 11294619--11294693 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
11294609 CCCCAGCCTT
11294619 TAAACCATAAACCATAAACCA
1 TAAACCATAAACCATAAACCA
* * *
11294640 AAAACCGTAAACCATAAATCA
1 TAAACCATAAACCATAAACCA
* * *
11294661 TAACCCCTAAACCCATAATCCA
1 TAAACCATAAA-CCATAAACCA
*
11294683 TAAACCTTAAA
1 TAAACCATAAA
11294694 ATGGTAACAC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
21 26 0.60
22 17 0.40
ACGTcount: A:0.52, C:0.29, G:0.01, T:0.17
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCA
Found at i:11294723 original size:14 final size:14
Alignment explanation
Indices: 11294704--11294755 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
11294694 ATGGTAACAC
*
11294704 CTAAACCTTAAACT
1 CTAAACCATAAACT
*
11294718 CTAAACCATATAC-
1 CTAAACCATAAACT
*
11294731 CTAAACCAAAAACT
1 CTAAACCATAAACT
*
11294745 CTAAACTATAA
1 CTAAACCATAA
11294756 TGATAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAACCATAAACT
Found at i:11295072 original size:41 final size:41
Alignment explanation
Indices: 11294973--11295091 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
11294963 GTTAAAAATA
* ** * *
11294973 GAGCATTAGCAGCGCTTTATCAAAAACGTCGCTAAAAGCCCT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCT-AAAGCCAT
* * * *
11295015 GAGCATTAGCGACGCTTTCCCGAAAATGCCGCTAAATCCAT
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCAT
11295056 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
11295092 ATCCTGAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
41 39 0.60
42 26 0.40
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCAT
Found at i:11295235 original size:40 final size:40
Alignment explanation
Indices: 11295150--11295264 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
11295140 CGCTTTCTGG
* * * * *
11295150 AAAA-CGCCGCTAATTCTTG-TTTTTAACGGCGTTTTTCA
1 AAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTCCA
* * * *
11295188 TAAAGCGCCGCTAGTACTCTATCTTTAGCGGTGTTTTCCA
1 AAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTCCA
* *
11295228 AAAAGCGCCGTTAATGCTCGATCTTTAGCGGCGTTTT
1 AAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTT
11295265 TTATCCAAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
38 3 0.05
39 11 0.18
40 46 0.77
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (40 bp):
AAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTCCA
Found at i:11295804 original size:22 final size:21
Alignment explanation
Indices: 11295776--11295827 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
11295766 TTTAGCCACC
* *
11295776 AAAAAAAATATCGAAAA-TTA
1 AAAAAAAAAATCGAAAACTGA
11295796 AAAAAAAAAATCGAAAACTGA
1 AAAAAAAAAATCGAAAACTGA
11295817 AAAAAGAAAAA
1 AAAAA-AAAAA
11295828 GTGGTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 16 0.57
21 7 0.25
22 5 0.18
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.12
Consensus pattern (21 bp):
AAAAAAAAAATCGAAAACTGA
Found at i:11297526 original size:26 final size:26
Alignment explanation
Indices: 11297491--11297544 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
11297481 CTTGTGATGT
11297491 TAAATCGGTGTCCTTAACTATTCATG
1 TAAATCGGTGTCCTTAACTATTCATG
*
11297517 TAAATTGGTGTCCTTAACTATTCATG
1 TAAATCGGTGTCCTTAACTATTCATG
11297543 TA
1 TA
11297545 TTGGCACGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (26 bp):
TAAATCGGTGTCCTTAACTATTCATG
Found at i:11301736 original size:25 final size:26
Alignment explanation
Indices: 11301694--11301768 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 26
11301684 ATGAATTTTC
*
11301694 TCAAAATTTT-TCTAGGGG-TACAATTG
1 TCAAAATTTTAT-T-GGGGATAAAATTG
11301720 TCAAAATTTTATTGGGGATAAAATTG
1 TCAAAATTTTATTGGGGATAAAATTG
11301746 TCAAAATTTTACTT--GGATAAAAT
1 TCAAAATTTTA-TTGGGGATAAAAT
11301769 CGGGGTGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 13 0.29
26 29 0.64
27 3 0.07
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (26 bp):
TCAAAATTTTATTGGGGATAAAATTG
Found at i:11305072 original size:18 final size:18
Alignment explanation
Indices: 11305049--11305100 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
11305039 ATGGCAAAGT
*
11305049 TGAGAAATGAATATGAGA
1 TGAGAAATGAATATGAAA
11305067 TGAGAAATGAAATATGAAA
1 TGAGAAATG-AATATGAAA
11305086 TGATGAAATG-ATATG
1 TGA-GAAATGAATATG
11305101 TGAATCTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 14 0.45
19 11 0.35
20 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
TGAGAAATGAATATGAAA
Found at i:11305082 original size:19 final size:19
Alignment explanation
Indices: 11305049--11305096 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
11305039 ATGGCAAAGT
*
11305049 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
11305067 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
11305086 TGATGAAATGA
1 TGA-GAAATGA
11305097 TATGTGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:11310166 original size:45 final size:45
Alignment explanation
Indices: 11310110--11310195 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
11310100 GAATACCGAA
* * * *
11310110 TATAATGCCATGGTATCTTTCAACCATGGTCTTTTCCTTTTTGAG
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
* *
11310155 TATAATACCATGATGTATTTCAATCACGGTCTTTTCCTTTT
1 TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTT
11310196 CCCAAATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (45 bp):
TATAATACCATGATATATTTCAACCACGGTCTTTTCCTTTTTGAG
Found at i:11314115 original size:17 final size:18
Alignment explanation
Indices: 11314081--11314117 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
11314071 TGTCATTTAC
11314081 AATATAAGTTCAATATCA
1 AATATAAGTTCAATATCA
11314099 AATAT-AGTTCGAA-ATCA
1 AATATAAGTTC-AATATCA
11314116 AA
1 AA
11314118 CTTATCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
AATATAAGTTCAATATCA
Found at i:11318121 original size:44 final size:43
Alignment explanation
Indices: 11317969--11318688 Score: 689
Period size: 44 Copynumber: 16.4 Consensus size: 43
11317959 CCAGTATAAA
* * * *
11317969 AAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGG
* * * * *
11318013 AAGATAATATCTGCTTTCGTT-GATCTATTTCGCCACCAATATGGG
1 AAGACAAGATCTGCTATC-TTCGATCTACTT--CCACCAATATAGG
11318058 AAGACAAGATCTGC-ATCTTCGATCTACTTCCTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGG
* * * * *
11318101 AAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGG
* * *
11318145 AAGACGAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGG
* *
11318189 AAGACAGGATCTGCTATCTTCGATCCACTTCCTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGG
* * *
11318233 AAGACAGGATCTGCTATCTTCGATCTACTTCACACCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGG
* * * * *
11318277 AATACAAGATCTGCTATCTTCAATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGG
* *
11318321 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTT--CCACCAATATAGG
* * *
11318366 AAGATAAGATTTGC-ATCTTCGATCCACTTCCTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGG
* * *
11318409 AAGACATGATCTGCTATCTTCGATCTACTT-CACGCTAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCCAC-C-AATATAGG
* * * * *
11318453 AAGACAAGATATGCTTTCTTTGATCTACTTTGCCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTAC-TT-CCACCAATATAGG
* * *
11318498 AAGACAAGATCTGC-ATCTTCGATCCACTTCCTACTAGTATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGG
* * * *
11318541 AAGACATGATCTGCTATCTTCGATCTA-TTTCACGCAAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCCAC-C-AATATAGG
* * * * *
11318585 AAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACTAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTT--CCACCAATATAGG
* *
11318630 AAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAGTATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGG
*
11318673 AAGACAGGATCTGCTA
1 AAGACAAGATCTGCTA
11318689 CTTTTTAACT
Statistics
Matches: 558, Mismatches: 91, Indels: 54
0.79 0.13 0.08
Matches are distributed among these distances:
42 12 0.02
43 97 0.17
44 358 0.64
45 82 0.15
46 3 0.01
47 6 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (43 bp):
AAGACAAGATCTGCTATCTTCGATCTACTTCCACCAATATAGG
Found at i:11330505 original size:15 final size:15
Alignment explanation
Indices: 11330485--11330519 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11330475 TATATATGCC
11330485 ACAATAATAAATAAA
1 ACAATAATAAATAAA
* *
11330500 ACAATAATAGATATA
1 ACAATAATAAATAAA
11330515 ACAAT
1 ACAAT
11330520 GTCAGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATAAA
Found at i:11330930 original size:30 final size:31
Alignment explanation
Indices: 11330894--11330953 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11330884 GTATAAATAT
*
11330894 AAAAATATTCATTTAAAAAA-ACAAATATAG
1 AAAAATATTCATTAAAAAAATACAAATATAG
* *
11330924 AAAAATATTTATTAAAAAAATAGAAATATA
1 AAAAATATTCATTAAAAAAATACAAATATA
11330954 TATGCATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
AAAAATATTCATTAAAAAAATACAAATATAG
Found at i:11330986 original size:22 final size:21
Alignment explanation
Indices: 11330958--11331003 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11330948 AATATATATG
11330958 CATATATAGATAAGAAAAATTA
1 CATATATAGATAA-AAAAATTA
* *
11330980 CATATATATATAAAATAATTA
1 CATATATAGATAAAAAAATTA
11331001 CAT
1 CAT
11331004 TATCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (21 bp):
CATATATAGATAAAAAAATTA
Found at i:11340731 original size:12 final size:12
Alignment explanation
Indices: 11340714--11340738 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11340704 TTCTCTTGAT
11340714 CCAAGTTGTGAG
1 CCAAGTTGTGAG
11340726 CCAAGTTGTGAG
1 CCAAGTTGTGAG
11340738 C
1 C
11340739 GTCAGACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (12 bp):
CCAAGTTGTGAG
Found at i:11348057 original size:49 final size:49
Alignment explanation
Indices: 11348004--11348103 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
11347994 TGAAAACATG
11348004 GAAATCACAACAACGCAATTAAAGATGCAAAACATAGGAAGTGCTTTCT
1 GAAATCACAACAACGCAATTAAAGATGCAAAACATAGGAAGTGCTTTCT
11348053 GAAATCACAACAACGCAATTAAAGATGCAAAACATAGGAAGTGCTTTCT
1 GAAATCACAACAACGCAATTAAAGATGCAAAACATAGGAAGTGCTTTCT
11348102 GA
1 GA
11348104 CATTTAAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (49 bp):
GAAATCACAACAACGCAATTAAAGATGCAAAACATAGGAAGTGCTTTCT
Found at i:11349076 original size:161 final size:161
Alignment explanation
Indices: 11348811--11349203 Score: 716
Period size: 161 Copynumber: 2.4 Consensus size: 161
11348801 TGTGTTGTTG
*
11348811 AAGGATGGATTTAACTGGCACAGGTGACTTC-GGGAGTAACTCATGTGAAACAAACAGATACTAA
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGG-GTAACTCATGTGAAACAAACAGATACTAA
11348875 CCGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
65 CCGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAA
*
11348940 CGAAAGAGTAAATTGGCACCTTATTTTTTTTT
130 CGAAAGAGTAAATTGGCACCTTATTTTTTTCT
11348972 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
*
11349037 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGATACTAGCCAAC
66 CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
11349102 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
131 GAAAGAGTAAATTGGCACCTTATTTTTTTCT
* * *
11349133 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCACGTGAAGCCAACAGATACTAAC
1 AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
11349198 CGGCCA
66 CGGCCA
11349204 AGTAAATTTT
Statistics
Matches: 225, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
161 222 0.99
162 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (161 bp):
AAGGATGGATTTAGCTGGCACAGGTGACTTCTGGGGTAACTCATGTGAAACAAACAGATACTAAC
CGGCCACATAAGTTTTGACAAACAATGATTGTTAAAGTTTCCGCATTTCAAAGAAACTAGCCAAC
GAAAGAGTAAATTGGCACCTTATTTTTTTCT
Found at i:11354661 original size:37 final size:37
Alignment explanation
Indices: 11354609--11354699 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
11354599 TTAGTGCCGA
*
11354609 GGCGTGTTATCGGTTGGATTAGGT-TACATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCT-CATGAGCATTT
* *
11354646 GGCGTGTTATTGGTTGGATTAGCTCTTATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTCATGAGCATTT
*
11354683 GGCGTGTT-TCAGTTGGA
1 GGCGTGTTATCGGTTGGA
11354700 CTACTTGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 7 0.15
37 40 0.83
38 1 0.02
ACGTcount: A:0.16, C:0.11, G:0.33, T:0.40
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTCATGAGCATTT
Found at i:11358157 original size:13 final size:13
Alignment explanation
Indices: 11358139--11358164 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11358129 GAAGTTTCGT
11358139 TAAGCTTATGATA
1 TAAGCTTATGATA
11358152 TAAGCTTATGATA
1 TAAGCTTATGATA
11358165 ACTAATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TAAGCTTATGATA
Found at i:11360087 original size:19 final size:20
Alignment explanation
Indices: 11360055--11360105 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
11360045 GATTAAAAAC
11360055 TAGTTTATTAAGTAAATTAT
1 TAGTTTATTAAGTAAATTAT
*
11360075 TAGTTT-TTGAGTAAATTAT
1 TAGTTTATTAAGTAAATTAT
*
11360094 TAATTTGATTAA
1 TAGTTT-ATTAA
11360106 ATATTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 17 0.65
20 6 0.23
21 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TAGTTTATTAAGTAAATTAT
Found at i:11360110 original size:16 final size:17
Alignment explanation
Indices: 11360065--11360112 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
11360055 TAGTTTATTA
*
11360065 AGTAAATTATTAGTTTTTG
1 AGTAAATTATTA--ATTTG
11360084 AGTAAATTATTAATTTG
1 AGTAAATTATTAATTTG
*
11360101 ATTAAA-TATTAA
1 AGTAAATTATTAA
11360113 AAGTTGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
19 12 0.44
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (17 bp):
AGTAAATTATTAATTTG
Found at i:11365058 original size:23 final size:23
Alignment explanation
Indices: 11365022--11365313 Score: 137
Period size: 23 Copynumber: 12.5 Consensus size: 23
11365012 TCTACCCTAT
* * * *
11365022 TTGGAAAGCTTTTATACATCAAT
1 TTGGACAGCATTTATACAACAAA
* *
11365045 TTGGACAGCATTTATATACCAAA
1 TTGGACAGCATTTATACAACAAA
* *
11365068 TTAGACAGCATTT-TCACACAAAAA
1 TTGGACAGCATTTAT-ACA-ACAAA
* ** *
11365092 TTTGGACAACATAAATACAACAAC
1 -TTGGACAGCATTTATACAACAAA
* * *
11365116 TTGGGCAGCATATATACAAC-AG
1 TTGGACAGCATTTATACAACAAA
* * *
11365138 TTTGAGCA-CATTTTTACACCAAAA
1 TTGGA-CAGCATTTATACAAC-AAA
* * *
11365162 CTGGACAGCATATATGCAACAAA
1 TTGGACAGCATTTATACAACAAA
* *
11365185 TTGGGCAGCATTTA-AGCATCAAAA
1 TTGGACAGCATTTATA-CAAC-AAA
* * **
11365209 TTAGACAGCATATATGTAACAAA
1 TTGGACAGCATTTATACAACAAA
*
11365232 TTGGACAGCATTTA-AGCATCAAAA
1 TTGGACAGCATTTATA-CAAC-AAA
* **
11365256 TTGGACAGCATATATGTAACAAA
1 TTGGACAGCATTTATACAACAAA
** *
11365279 TTGGGTAGCATTTA-AGCATCAAAA
1 TTGGACAGCATTTATA-CAAC-AAA
11365303 TTGGACAGCAT
1 TTGGACAGCAT
11365314 ATATGTAAAA
Statistics
Matches: 194, Mismatches: 59, Indels: 31
0.68 0.21 0.11
Matches are distributed among these distances:
22 14 0.07
23 103 0.53
24 64 0.33
25 12 0.06
26 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATTTATACAACAAA
Found at i:11365184 original size:24 final size:24
Alignment explanation
Indices: 11365157--11365329 Score: 165
Period size: 23 Copynumber: 7.4 Consensus size: 24
11365147 ATTTTTACAC
*
11365157 CAAAACTGGACAGCATATATGCAA
1 CAAAATTGGACAGCATATATGCAA
* * * *
11365181 C-AAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
* *
11365204 CAAAATTAGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
* * *
11365228 C-AAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
11365251 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
** * * *
11365275 C-AAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
11365298 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
11365322 -AAAATTGG
1 CAAAATTGG
11365330 TTCAACTCAT
Statistics
Matches: 114, Mismatches: 32, Indels: 7
0.75 0.21 0.05
Matches are distributed among these distances:
23 61 0.54
24 53 0.46
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (24 bp):
CAAAATTGGACAGCATATATGCAA
Found at i:11365216 original size:47 final size:47
Alignment explanation
Indices: 11365157--11365329 Score: 292
Period size: 47 Copynumber: 3.7 Consensus size: 47
11365147 ATTTTTACAC
* *
11365157 CAAAACTGGACAGCATATATGCAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
* *
11365204 CAAAATTAGACAGCATATATGTAACAAATTGGACAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11365251 CAAAATTGGACAGCATATATGTAACAAATTGGGTAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
11365298 CAAAATTGGACAGCATATATGTAAAAAATTGG
1 CAAAATTGGACAGCATATATGTAACAAATTGG
11365330 TTCAACTCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
Found at i:11366211 original size:43 final size:42
Alignment explanation
Indices: 11366143--11366272 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 42
11366133 AACTCGTACA
*
11366143 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
*
11366186 ATGCC-ACTGTCCCAGACAGT-TTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
*
11366229 ATGCCAACGTTCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
11366272 A
1 A
11366273 AAATCCTATG
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
42 5 0.07
43 62 0.83
44 8 0.11
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:11371783 original size:51 final size:49
Alignment explanation
Indices: 11371694--11371876 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 49
11371684 GTTCACATAT
* *
11371694 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTGG
1 TAGCCTGCACATAGTACTACACACGTGACCA--ACTATCTGATACACGTAG
* * * * ***
11371745 TAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGTATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCAA-CTATCTGATACACGTAG
* * *
11371796 TAGCCTGCACATAGTACTACACATGCGACCTA-TCATTCTGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCAACT-A-TCTGATACACGTAG
11371846 TAGCCTGCACATAGTACTACACACGTGACCA
1 TAGCCTGCACATAGTACTACACACGTGACCA
11371877 TCACTTTCAC
Statistics
Matches: 106, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 40 0.38
51 62 0.58
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGCCTGCACATAGTACTACACACGTGACCAACTATCTGATACACGTAG
Found at i:11371897 original size:101 final size:101
Alignment explanation
Indices: 11371684--11371873 Score: 278
Period size: 101 Copynumber: 1.9 Consensus size: 101
11371674 AATGATACCG
* * *
11371684 GTTCACATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTGGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGC
* *
11371749 TTGCACATAGTACTACACACGTGATCGAAGCTATCC
66 CTGCACATAGTACTACACACGTGATCCAAGCTATCC
*
11371785 GGT-ACGTATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATACACGTAGT
1 GTTCAC--ATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCTGATACACGTAGT
11371847 AGCCTGCACATAGTACTACACACGTGA
63 AGCCTGCACATAGTACTACACACGTGA
11371874 CCATCACTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
100 2 0.02
101 42 0.52
102 33 0.41
103 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGATCCAAGCTATCC
Found at i:11374413 original size:23 final size:23
Alignment explanation
Indices: 11374369--11374413 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
11374359 TTATATTAAT
* **
11374369 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAGAAAAATATTA
*
11374392 ATAATTTAATTATAAAAATATT
1 ATAATTTAATTAGAAAAATATT
11374414 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTTAATTAGAAAAATATTA
Found at i:11395401 original size:23 final size:23
Alignment explanation
Indices: 11395375--11395420 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11395365 TTTTTAACCA
*
11395375 CTTTTT-TTTCTTTTAGATTTTTT
1 CTTTTTCTTT-TTTTACATTTTTT
*
11395398 CTTTTTCTTTTTTTCCATTTTTT
1 CTTTTTCTTTTTTTACATTTTTT
11395421 GTGGCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTTTCTTTTTTTACATTTTTT
Found at i:11400661 original size:20 final size:20
Alignment explanation
Indices: 11400636--11400673 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
11400626 TACTATTTAG
11400636 AAAAAAAATACATCAATCAT
1 AAAAAAAATACATCAATCAT
11400656 AAAAAAAATACATCAATC
1 AAAAAAAATACATCAATC
11400674 GTCTTGTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAAAAATACATCAATCAT
Found at i:11402379 original size:15 final size:17
Alignment explanation
Indices: 11402359--11402395 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11402349 GTCAAACATT
11402359 ATTATAAT-TATGG-TA
1 ATTATAATATATGGTTA
*
11402374 ATTATAATATTTGGTTA
1 ATTATAATATATGGTTA
11402391 ATTAT
1 ATTAT
11402396 TATGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (17 bp):
ATTATAATATATGGTTA
Found at i:11411138 original size:44 final size:44
Alignment explanation
Indices: 11411055--11411158 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 44
11411045 GAAAGAGAAG
* * *
11411055 AAGAGAAGAAGAAGAAAGAGAAGGAGATGGCGGGAAGGGAAGGGAAA
1 AAGAGAAGAA-AA-AAAGAGAAGGAGATAGAGAGAAGGGAA-GGAAA
*
11411102 AAGA-AAGAAAAAAAGAGAAGGAGAATAGAGAG-AGGGAAGGAGA
1 AAGAGAAGAAAAAAAGAGAAGGAG-ATAGAGAGAAGGGAAGGAAA
11411145 AAGAGAAGAAAAAA
1 AAGAGAAGAAAAAA
11411159 GTAAATAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
43 8 0.16
44 27 0.53
45 7 0.14
46 5 0.10
47 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.02
Consensus pattern (44 bp):
AAGAGAAGAAAAAAAGAGAAGGAGATAGAGAGAAGGGAAGGAAA
Found at i:11416198 original size:14 final size:14
Alignment explanation
Indices: 11416179--11416213 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11416169 GACATTTTTT
*
11416179 TTCTAATGACACTA
1 TTCTAACGACACTA
*
11416193 TTCTAACGATACTA
1 TTCTAACGACACTA
11416207 TTCTAAC
1 TTCTAAC
11416214 ATGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGACACTA
Found at i:11417520 original size:62 final size:61
Alignment explanation
Indices: 11417433--11417722 Score: 406
Period size: 61 Copynumber: 4.7 Consensus size: 61
11417423 CAACATTACA
* * * * * * *
11417433 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAATTTTTATAATATAAATTATAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGT-ATATAAATTAAAT
11417495 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAA-TTTGCTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
*
11417556 ACATTACAACATTAAAAATTAGAGCAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
* *
11417618 ACCTTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGT-TACTAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTATA-TAAATTAAAT
* *
11417679 ACATTACAACATT-AAAATTTGAAACAAAATTTGTAATATAAATT
1 ACATTACAACATTAAAAATTAG-AACAAACTTTGTAATATAAATT
11417723 AGGTACATTG
Statistics
Matches: 209, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
60 9 0.04
61 100 0.48
62 100 0.48
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (61 bp):
ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTATATAAATTAAAT
Found at i:11417568 original size:61 final size:60
Alignment explanation
Indices: 11417433--11417722 Score: 386
Period size: 62 Copynumber: 4.7 Consensus size: 60
11417423 CAACATTACA
* * * * * * *
11417433 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAATTTTTATAATATAAATTATAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAA-ATTTGT-ATATAAATTAAAT
11417495 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTGCTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTG-TATATAAATTAAAT
*
11417556 ACATTACAACATTAAAAATTAGAGCAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAA-TTTG-TATATAAATTAAAT
* *
11417618 ACCTTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGT-TACTAAATTAAAT
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAA-TTTGTATA-TAAATTAAAT
* *
11417679 ACATTACAACATT-AAAATTTGAAACAAAATTTGTAATATAAATT
1 ACATTACAACATTAAAAATTAG-AACAAACTTTGTAATATAAATT
11417723 AGGTACATTG
Statistics
Matches: 209, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
60 11 0.05
61 98 0.47
62 100 0.48
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (60 bp):
ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTGTATATAAATTAAAT
Found at i:11417609 original size:123 final size:123
Alignment explanation
Indices: 11417433--11417722 Score: 415
Period size: 123 Copynumber: 2.4 Consensus size: 123
11417423 CAACATTACA
* * * * * *
11417433 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAATTTTTATAATATAAATTATATACA
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAATACA
11417498 TTACAACATTAAAAATTAGAACAAACTTTGTAATATAAA-TTTGCTATA-TAAATTAAAT
66 TTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTG-T-TACTAAATTAAAT
* * * *
11417556 ACATTACAACATTAAAAATTAGAGCAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACC
1 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAATACA
*
11417621 TTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTACTAAATTAAAT
66 TTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTTACTAAATTAAAT
* *
11417679 ACATTACAACATT-AAAATTTGAAACAAAATTTGTAATATAAATT
1 ACATTACAACATTAAAAATTAG-AACAAACTTTGTAATATAAATT
11417723 AGGTACATTG
Statistics
Matches: 150, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
122 9 0.06
123 137 0.91
124 4 0.03
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (123 bp):
ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAATACA
TTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTTACTAAATTAAAT
Found at i:11419370 original size:18 final size:18
Alignment explanation
Indices: 11419344--11419381 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11419334 ACTGAAGATG
*
11419344 CATTAATATTTTCATCGT
1 CATTAATATCTTCATCGT
*
11419362 CATTCATATCTTCATCGT
1 CATTAATATCTTCATCGT
11419380 CA
1 CA
11419382 ATATCATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (18 bp):
CATTAATATCTTCATCGT
Found at i:11421142 original size:19 final size:20
Alignment explanation
Indices: 11421118--11421161 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11421108 TTTCTACTTC
11421118 TTCTTCT-CGTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
**
11421137 TTCTTCTATTTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
11421157 TTCTT
1 TTCTT
11421162 TTCTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.64
Consensus pattern (20 bp):
TTCTTCTACGTACGTTTCTT
Found at i:11426086 original size:16 final size:16
Alignment explanation
Indices: 11426065--11426095 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11426055 AATTATATAT
11426065 TTTTTATTTTTAATAA
1 TTTTTATTTTTAATAA
11426081 TTTTTATTTTTAATA
1 TTTTTATTTTTAATA
11426096 TTCCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTAATAA
Found at i:11428513 original size:48 final size:49
Alignment explanation
Indices: 11428441--11428543 Score: 163
Period size: 48 Copynumber: 2.1 Consensus size: 49
11428431 TCATGTAATA
* * *
11428441 TAATTTTATAAAGTGTTGAGCTTTTGGTACATGATATT-AACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
*
11428489 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
11428538 TAATTT
1 TAATTT
11428544 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 34 0.68
49 16 0.32
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATACATGATATTAAACTTAATTT
Found at i:11430139 original size:18 final size:18
Alignment explanation
Indices: 11430105--11430151 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
11430095 CTAAGAATAT
11430105 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
11430123 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
*
11430141 CTAAATTATAT
1 TTAAATTATAT
11430152 TTTAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:11430272 original size:16 final size:17
Alignment explanation
Indices: 11430239--11430274 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
11430229 ATATTAAGAA
11430239 TTTTATTAAATTTTATAT
1 TTTTATTAAA-TTTATAT
11430257 TTTTATTAAA-TTATAT
1 TTTTATTAAATTTATAT
11430273 TT
1 TT
11430275 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTAAATTTATAT
Found at i:11430401 original size:26 final size:26
Alignment explanation
Indices: 11430320--11430437 Score: 80
Period size: 26 Copynumber: 4.4 Consensus size: 26
11430310 ATATATTATG
*
11430320 ATTT-TATTAAATTCATA--TAAGAAT
1 ATTTATATTAAATT-ATATTTAATAAT
* *
11430344 ATTTAATATTAAGAATTTTATTAAATTAAAT
1 ATTT-ATATT-A-AATTATATTTAA-T-AAT
*
11430375 ATTTTTATTAAATTATATTTAATAAT
1 ATTTATATTAAATTATATTTAATAAT
* * * *
11430401 AATTATGTTAAATTATATTTTATAGT
1 ATTTATATTAAATTATATTTAATAAT
11430427 ATTATATATTA
1 ATT-TATATTA
11430438 TGATTTTAGA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
24 4 0.06
26 30 0.42
27 10 0.14
28 14 0.19
29 3 0.04
30 4 0.06
31 7 0.10
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (26 bp):
ATTTATATTAAATTATATTTAATAAT
Found at i:11430526 original size:120 final size:119
Alignment explanation
Indices: 11429932--11430532 Score: 1057
Period size: 120 Copynumber: 5.0 Consensus size: 119
11429922 AAGTAGATTA
11429932 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11429997 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAATT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATT
11430052 TAAATTATA-TTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
11430113 AATAATTTTATTAAATTATATATTTTTACTAAATTATATTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTAATAATAATTA-TT
*
11430169 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
11430234 AAGAATTTTATTAAATTTTATATTTTTATTAAATTATATTTAATAATAATTATT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATT
*
11430288 TAAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATAT
1 T-AAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
*
11430353 TAAGAATTTTATTAAATTAAATATTTTTATTAAATTATATTTAATAATAATTATGT
65 TAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-T
*
11430409 TAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11430474 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-T
11430529 TAAA
1 TAAA
11430533 ATATGCTTAA
Statistics
Matches: 461, Mismatches: 12, Indels: 16
0.94 0.02 0.03
Matches are distributed among these distances:
116 54 0.12
117 24 0.05
118 35 0.08
119 38 0.08
120 256 0.56
121 54 0.12
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (119 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATT
Found at i:11439274 original size:65 final size:64
Alignment explanation
Indices: 11439181--11439370 Score: 281
Period size: 65 Copynumber: 2.9 Consensus size: 64
11439171 CTAGTCATAA
*
11439181 ATTACCAGCAAAAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * * *
11439246 ATTATCAGCGTTAAAAAACCTTAATTTCTATGATACTTCCTTATTGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * *
11439311 ATTACCAGCATAAAAAACCCTTACGTTCTATGATACTTCCTCATCAAGGAATTACTCTAT
1 ATTACCAGCATAAAAAA-CCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTAT
11439371 GCTCTTACCT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 7 0.06
65 104 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (64 bp):
ATTACCAGCATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
Found at i:11443685 original size:16 final size:16
Alignment explanation
Indices: 11443664--11443694 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11443654 AACTACAATT
11443664 ATTTTTATGTAAAAGA
1 ATTTTTATGTAAAAGA
*
11443680 ATTTTTTTGTAAAAG
1 ATTTTTATGTAAAAG
11443695 TCAAAAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (16 bp):
ATTTTTATGTAAAAGA
Found at i:11446504 original size:64 final size:63
Alignment explanation
Indices: 11446384--11446505 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
11446374 TATCCCTAGA
**
11446384 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGGTGCT
* * * *
11446447 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACTG
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACTG
11446506 AAACTGAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 26 0.50
64 26 0.50
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.33
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGGTGCT
Found at i:11446513 original size:64 final size:63
Alignment explanation
Indices: 11446384--11446522 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 63
11446374 TATCCCTAGA
** ***
11446384 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
* * * *
11446447 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACTGAAACT
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
* *
11446511 GAAGGTGATGAT
1 GAATGTGTTGAT
11446523 ACGAGGAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
63 26 0.41
64 38 0.59
ACGTcount: A:0.29, C:0.06, G:0.33, T:0.32
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
Found at i:11446531 original size:64 final size:64
Alignment explanation
Indices: 11446384--11446539 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
11446374 TATCCCTAGA
* * ** ***
11446384 GAATGTGTTGATGTAAGGAATGA-TGGGGC-ATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAATGTGTTGATGTAGGGAATGAGT-GTGCAATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
* *
11446447 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACTGAAACT
1 GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
11446511 GAA-G-G-TGATGATACGAGGAATGAGTGTGC
1 GAATGTGTTGATG-TA-G-GGAATGAGTGTGC
11446540 GTGTTGTGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
61 5 0.06
62 3 0.04
63 27 0.34
64 44 0.56
ACGTcount: A:0.29, C:0.06, G:0.34, T:0.30
Consensus pattern (64 bp):
GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
Found at i:11452972 original size:7 final size:7
Alignment explanation
Indices: 11452951--11453043 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
11452941 AGACTGAGGT
11452951 TTGAAAA
1 TTGAAAA
11452958 TTTG-AAA
1 -TTGAAAA
11452965 TTGAAAA
1 TTGAAAA
11452972 TT-AAAA
1 TTGAAAA
*
11452978 TTTGAAGA
1 -TTGAAAA
11452986 TTGAAAA
1 TTGAAAA
11452993 TAT-AAAA
1 T-TGAAAA
11453000 TTGAAAA
1 TTGAAAA
***
11453007 TTGGGGA
1 TTGAAAA
**
11453014 TTGAGGA
1 TTGAAAA
**
11453021 TTGAAGG
1 TTGAAAA
11453028 TTGAAAA
1 TTGAAAA
11453035 TTGAAAA
1 TTGAAAA
11453042 TT
1 TT
11453044 TAGGAAGGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
6 8 0.11
7 55 0.79
8 7 0.10
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.32
Consensus pattern (7 bp):
TTGAAAA
Found at i:11452990 original size:21 final size:21
Alignment explanation
Indices: 11452954--11453005 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
11452944 CTGAGGTTTG
11452954 AAAATTTGAAATTGAAAAT-T
1 AAAATTTGAAATTGAAAATAT
11452974 AAAATTTGAAGATTGAAAATAT
1 AAAATTTGAA-ATTGAAAATAT
11452996 AAAA-TTGAAA
1 AAAATTTGAAA
11453006 ATTGGGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.37
21 14 0.47
22 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (21 bp):
AAAATTTGAAATTGAAAATAT
Found at i:11455991 original size:30 final size:30
Alignment explanation
Indices: 11455957--11456047 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
11455947 TTAGAGGAAA
11455957 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
11455987 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
11456017 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
11456047 T
1 T
11456048 CTTTTCGTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.47
Consensus pattern (30 bp):
TTTAGTTATTAGACTCTGCATTGAAGTCTT
Found at i:11467974 original size:54 final size:55
Alignment explanation
Indices: 11467915--11468100 Score: 175
Period size: 54 Copynumber: 3.4 Consensus size: 55
11467905 CTATCATGCA
* * *
11467915 CCTTCTCCCTTCTCCTTTCACCATCT-AGATCCCTGTCCCGGCTCTTCCCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
** * * *
11467969 CCTTCTCCCTTCTCCTTTC-CC-TCTCCATTTCTCTCTCCCTACTCCTCTCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCT-CAGATCCCTCTCCCGACTCCTCCCTCGCT
* * * * **
11468023 CCTTCTCCCTTCTCCTTTCACCA-CTCATG-TCTCTATCTCTACTCCTTGCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCA-GATCCCTCTCCCGACTCCTCCCTCGCT
* *
11468077 CCCTCTCCCTTCTCCTCTCACCAT
1 CCTTCTCCCTTCTCCTTTCACCAT
11468101 AAATCTCCCT
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 102 0.92
55 4 0.04
ACGTcount: A:0.07, C:0.49, G:0.05, T:0.39
Consensus pattern (55 bp):
CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
Found at i:11467994 original size:24 final size:24
Alignment explanation
Indices: 11467965--11468041 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
11467955 GCTCTTCCCT
11467965 CGCTCCTTCTCCCTTCTCCTTTCC
1 CGCTCCTTCTCCCTTCTCCTTTCC
* * * *
11467989 CTCTCCATTTCTCTCTCCCTACTCCTCTCT
1 CGCT-C----CT-TCTCCCTTCTCCTTTCC
11468019 CGCTCCTTCTCCCTTCTCCTTTC
1 CGCTCCTTCTCCCTTCTCCTTTC
11468042 ACCACTCATG
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
24 17 0.43
25 3 0.08
29 3 0.08
30 17 0.43
ACGTcount: A:0.03, C:0.52, G:0.03, T:0.43
Consensus pattern (24 bp):
CGCTCCTTCTCCCTTCTCCTTTCC
Found at i:11469597 original size:15 final size:15
Alignment explanation
Indices: 11469579--11469612 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11469569 TGCGATGGCG
*
11469579 GTGGTGACGATGTTT
1 GTGGTGACGATGCTT
*
11469594 GTGGTGGCGATGCTT
1 GTGGTGACGATGCTT
11469609 GTGG
1 GTGG
11469613 CGTTTGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.47, T:0.35
Consensus pattern (15 bp):
GTGGTGACGATGCTT
Found at i:11470724 original size:46 final size:48
Alignment explanation
Indices: 11470639--11470729 Score: 132
Period size: 46 Copynumber: 1.9 Consensus size: 48
11470629 TAAAATTTAT
*
11470639 CCCAATTTACAACTGAAAAAGTAATTATACTGTTCGAAAA-AAAATAG
1 CCCAATTTACAACTGAAAAAGTAATTATACCGTTCGAAAATAAAATAG
* * *
11470686 CCCAATTTACAACTG-TAAAGTTATTATACCGTTGGAAAATAAAA
1 CCCAATTTACAACTGAAAAAGTAATTATACCGTTCGAAAATAAAA
11470730 ATTATAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 20 0.51
47 19 0.49
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.27
Consensus pattern (48 bp):
CCCAATTTACAACTGAAAAAGTAATTATACCGTTCGAAAATAAAATAG
Found at i:11471664 original size:11 final size:11
Alignment explanation
Indices: 11471650--11471683 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
11471640 TTATATGTAA
11471650 ATTATTTATTT
1 ATTATTTATTT
11471661 ATTATTTATTT
1 ATTATTTATTT
11471672 ATTATTATATTT
1 ATTATT-TATTT
11471684 TTTAGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTATTTATTT
Found at i:11476918 original size:12 final size:13
Alignment explanation
Indices: 11476894--11476922 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11476884 CGCCACAGCC
11476894 AAAACAAACCAAA
1 AAAACAAACCAAA
11476907 AAAACAAA-CAAA
1 AAAACAAACCAAA
11476919 AAAA
1 AAAA
11476923 AAAGGAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACCAAA
Found at i:11476923 original size:13 final size:13
Alignment explanation
Indices: 11476894--11476923 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11476884 CGCCACAGCC
*
11476894 AAAACAAACCAAA
1 AAAACAAACAAAA
11476907 AAAACAAACAAAA
1 AAAACAAACAAAA
11476920 AAAA
1 AAAA
11476924 AAGGAGGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAACAAAA
Found at i:11480516 original size:54 final size:54
Alignment explanation
Indices: 11480441--11480548 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
11480431 CAAAACAAAG
11480441 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
1 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
11480495 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
1 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
11480549 AACTTTCCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (54 bp):
TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
Found at i:11481122 original size:66 final size:65
Alignment explanation
Indices: 11480966--11481174 Score: 294
Period size: 66 Copynumber: 3.2 Consensus size: 65
11480956 CATTCAAACC
* *
11480966 ATATATATATAATTCACAACATTAAATTCAGCTCACAA-AAATTGAAACATATATTCGAACCACA
1 ATATATATATAATTCATAACATTAAATTCAGCTCA-AAGAAATTGAAACATACATTCGAACCACA
11481030 TGT
65 --T
* * * * *
11481033 ATGTATATATAATTCATAACATTAAGTTCAGCTCAAAGAATTTTGTAACATACATTCGAACCTCA
1 ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAA-ATTGAAACATACATTCGAACCACA
11481098 T
65 T
*
11481099 ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCAAACCACAT
1 ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCACAT
*
11481164 GTATATATATA
1 ATATATATATA
11481175 TTATACTATT
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
65 31 0.25
66 41 0.33
67 34 0.27
68 20 0.16
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (65 bp):
ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCACAT
Found at i:11483537 original size:18 final size:18
Alignment explanation
Indices: 11483514--11483552 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11483504 TGGGAAAATA
*
11483514 AGAAAGGGAATGGAAGAG
1 AGAAAGGGAATGAAAGAG
* *
11483532 AGAAAGTGAGTGAAAGAG
1 AGAAAGGGAATGAAAGAG
11483550 AGA
1 AGA
11483553 GAGATGTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.41, T:0.08
Consensus pattern (18 bp):
AGAAAGGGAATGAAAGAG
Found at i:11486221 original size:22 final size:22
Alignment explanation
Indices: 11486196--11486242 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
11486186 AAAGGTGTCC
11486196 AGGGTGGTG-ATTTAAGGGGTTA
1 AGGGTGGTGAATTT-AGGGGTTA
*
11486218 AGGGTTGTGACATTTAGGGGTTA
1 AGGGTGGTGA-ATTTAGGGGTTA
11486241 AG
1 AG
11486243 TGAGATGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.23, C:0.02, G:0.43, T:0.32
Consensus pattern (22 bp):
AGGGTGGTGAATTTAGGGGTTA
Found at i:11488452 original size:14 final size:14
Alignment explanation
Indices: 11488433--11488465 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11488423 TAATATAGTT
11488433 TTATTTATTTATTA
1 TTATTTATTTATTA
*
11488447 TTATTTATTTATTG
1 TTATTTATTTATTA
11488461 TTATT
1 TTATT
11488466 ATTATTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:11488479 original size:20 final size:20
Alignment explanation
Indices: 11488441--11488479 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11488431 TTTTATTTAT
*
11488441 TTATTATTATTTATTTATTG
1 TTATTATTATTTATATATTG
*
11488461 TTATTATTATTTCTATATT
1 TTATTATTATTTATATATT
11488480 TATGCACGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTATTATTTATATATTG
Found at i:11492230 original size:12 final size:12
Alignment explanation
Indices: 11492213--11492237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11492203 GAAGTAAATG
11492213 AAAGTCGTAATA
1 AAAGTCGTAATA
11492225 AAAGTCGTAATA
1 AAAGTCGTAATA
11492237 A
1 A
11492238 TGAACAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAGTCGTAATA
Found at i:11494718 original size:14 final size:15
Alignment explanation
Indices: 11494692--11494724 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11494682 TCCCAAGCTG
11494692 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
11494707 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
11494721 GGAA
1 GGAA
11494725 AAGAGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:11496350 original size:176 final size:176
Alignment explanation
Indices: 11496042--11496686 Score: 661
Period size: 176 Copynumber: 3.7 Consensus size: 176
11496032 GAACAGATCA
* * * *** * * *
11496042 TTGAAGATAGTAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACAAGCCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCC
* * * ** * * ** * *
11496107 TCTCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGGCGGCAAAGC
66 TCCCTAGGGTGCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTATACCAACAGCGAAGC
11496172 AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
131 AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
* *
11496218 TTGAAAATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTACT
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCC
* * *
11496283 TCCCTGGGGTGCAGCGGAGCAGGTTAAAAATAGCATATCTTGCCTTCCTATACCAACAGCGAAGC
66 TCCCTAGGGTGCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTATACCAACAGCGAAGC
* *
11496348 AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTACAGCGAAGCAGG
131 AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
* * ** * ** * * * *
11496394 TTGAAAATTGTAGATCTTATC-TCC-CTAAGAAGTAGTGGAGTAGATCGAATACACTAGCCTTGC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTAA-CAGTGAAGCAGATCGAAGACACTAGCCTTGC
* * * * * *
11496457 CTCCCTCAGCG-GCAGCAGAGCAGGTTAAAGATAGCAGATCTTGCCTTCTTGTACTAACAGTGAA
65 CTCCCT-AGGGTGCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTATACCAACAGCGAA
** * * * * *
11496521 GCAGATTGAAGACACTAGCCTTGCCTTCCTCGGTGGCAGCAGAGCAGG
129 GCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
* * * * *
11496569 TT-AAAGATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGTAGATGGAAGACACTAGCCTTGC
1 TTGAAA-ATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGC
* * * * * *
11496633 CTCCCT-CGGTGGCAACGAAGCAGGTTAAAGATAGTAGATCTTGTCTTCCCATAC
65 CTCCCTAGGGT-GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTATAC
11496687 TAGTGGCGAA
Statistics
Matches: 382, Mismatches: 80, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
174 8 0.02
175 132 0.35
176 239 0.63
177 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (176 bp):
TTGAAAATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCC
TCCCTAGGGTGCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTATACCAACAGCGAAGC
AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
Found at i:11496523 original size:263 final size:263
Alignment explanation
Indices: 11496172--11496674 Score: 672
Period size: 263 Copynumber: 1.9 Consensus size: 263
11496162 GCGGCAAAGC
** ** *
11496172 AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTG
1 AGATCAAAGACACCAGCCTTGCCTCCCTCAGCGGCAGCAGAGCAGGTTGAAAATAGCAGATCTTG
* *
11496237 CCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTT-ACTTCC-CTGGGGTGCAGCGG
66 CCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGACTTCCTC-GGTG-GCAGCAG
* *
11496300 AGCAGGTTAAAAATAGCATATCTTGCCTTCCTATACCAACAGCGAAGCAGATCAAAGACACCAGC
129 AGCAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCAACAACGAAGCAGATCAAAGACACCAGC
* * * *
11496365 CTTGCCTCCCTGGGTTACAGCGAAGCAGGTTGAAA-ATTGTAGATCTTATCTCCCTAAGAAGTAG
194 CTTGCCTCCCTCGGTGACAACGAAGCAGGTT-AAAGATAGTAGATCTTATCTCCCTAAGAAGTAG
11496429 TGGAGT
258 TGGAGT
* * *
11496435 AGATCGAATACACTAGCCTTGCCTCCCTCAGCGGCAGCAGAGCAGGTT-AAAGATAGCAGATCTT
1 AGATCAAAGACACCAGCCTTGCCTCCCTCAGCGGCAGCAGAGCAGGTTGAAA-ATAGCAGATCTT
* * *
11496499 GCCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTCCTCGGTGGCAGCAGA
65 GCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGACTTCCTCGGTGGCAGCAGA
* * ** * * * ** *
11496564 GCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGTAGATGGAAGACACTAGCC
130 GCAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCAACAACGAAGCAGATCAAAGACACCAGCC
*
11496629 TTGCCTCCCTCGGTGGCAACGAAGCAGGTTAAAGATAGTAGATCTT
195 TTGCCTCCCTCGGTGACAACGAAGCAGGTTAAAGATAGTAGATCTT
11496675 GTCTTCCCAT
Statistics
Matches: 206, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
262 6 0.03
263 191 0.93
264 8 0.04
265 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (263 bp):
AGATCAAAGACACCAGCCTTGCCTCCCTCAGCGGCAGCAGAGCAGGTTGAAAATAGCAGATCTTG
CCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGACTTCCTCGGTGGCAGCAGAG
CAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCAACAACGAAGCAGATCAAAGACACCAGCCT
TGCCTCCCTCGGTGACAACGAAGCAGGTTAAAGATAGTAGATCTTATCTCCCTAAGAAGTAGTGG
AGT
Found at i:11496588 original size:44 final size:44
Alignment explanation
Indices: 11496452--11496594 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 44
11496442 ATACACTAGC
* *
11496452 CTTGCCTCCCTCAGCGGCAGCAGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTTCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
* * * ** * * * * *
11496496 CTTGCCTTCTTGTACTAACAG-TGAAGCAGATTGAAGACA-CTAG-C
1 CTTGCCTTCCT-CAGTGGCAGCAG-AGCAGGTTAAAGATAGC-AGAT
*
11496540 CTTGCCTTCCTCGGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTTCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
11496584 CTTGCCTTCCT
1 CTTGCCTTCCT
11496595 GTACTGATAA
Statistics
Matches: 70, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
43 18 0.26
44 34 0.49
45 18 0.26
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
Found at i:11496702 original size:88 final size:88
Alignment explanation
Indices: 11496045--11496681 Score: 586
Period size: 88 Copynumber: 7.2 Consensus size: 88
11496035 CAGATCATTG
* * *** * * * *
11496045 AAGATAGTAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACAAGCCTTGCCTCT
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* * * * ** *
11496110 CTAGGTTGCAGTGGAGCAGACTG
66 CTCGGTGGCAGCGAAGCAGGTTA
*** * ** * *
11496133 AAGATAGCAGATCTTGCCTTCCTGTACCGGCGGCAAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* * *
11496198 CTGGGTTGCAGCGGAGCAGGTTGA
66 CTCGGTGGCAGCGAAGCAGGTT-A
* *
11496222 AA-ATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTACTTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* *
11496286 CT-GGGGTGCAGCGGAGCAGGTTA
66 CTCGGTG-GCAGCGAAGCAGGTTA
* * * * * * *
11496309 AAAATAGCATATCTTGCCTTCCTATACCAACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* **
11496374 CTGGGTTACAGCGAAGCAGGTTGA
66 CTCGGTGGCAGCGAAGCAGGTT-A
* * ** * ** * * * *
11496398 AA-ATTGTAGATCTTATC-TCC-CTAAGAAGTAGTGGAGTAGATCGAATACACTAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAA-CAGTGAAGCAGATCGAAGACACTAGCCTTGCCTC
* *
11496460 CCTCAGCGGCAGC-AGAGCAGGTTA
65 CCTCGGTGGCAGCGA-AGCAGGTTA
* * *
11496484 AAGATAGCAGATCTTGCCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
11496549 CTCGGTGGCAGC-AGAGCAGGTTA
66 CTCGGTGGCAGCGA-AGCAGGTTA
* * * * *
11496572 AAGATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGTAGATGGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
*
11496637 CTCGGTGGCAACGAAGCAGGTTA
66 CTCGGTGGCAGCGAAGCAGGTTA
* *
11496660 AAGATAGTAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGCCTTCC
11496682 CATACTAGTG
Statistics
Matches: 457, Mismatches: 81, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
86 8 0.02
87 62 0.14
88 375 0.82
89 12 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
CTCGGTGGCAGCGAAGCAGGTTA
Found at i:11496769 original size:44 final size:42
Alignment explanation
Indices: 11496690--11497282 Score: 379
Period size: 44 Copynumber: 13.5 Consensus size: 42
11496680 CCCATACTAG
* * *
11496690 TGGC-GAAGTAGATCGAAGATGACAGATCTTGTCTTCATGTAT
1 TGGCAGAAGTAGATCGAAGATG-CAGATCTTATCTTCCTATAT
* * * *
11496732 TAGCATGAAGTAGATTGAAGATAGCTGATCCTATCTTCCTATAT
1 TGGCA-GAAGTAGATCGAAGAT-GCAGATCTTATCTTCCTATAT
* * * *
11496776 TGGTAGAAAGTGGATTGAAGATGCAGATCTTGTCTTCCTATACT
1 TGGCAG-AAGTAGATCGAAGATGCAGATCTTATCTTCCTATA-T
* * ** * *
11496820 GGTGGC-GAAGTAGATCGAAGAAAGCGGATCTTATCTTTATGTGT
1 --TGGCAGAAGTAGATCGAAG-ATGCAGATCTTATCTTCCTATAT
* * * *
11496864 TGGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATAT
1 TGGC-AGAAGTAGATCGAAGAT-GCAGATCTTATCTTCCTATAT
* *
11496908 TGGTAAGAAGTAGATCGAAGATGCAGATCTTATCTTCCCATACT
1 TGG-CAGAAGTAGATCGAAGATGCAGATCTTATCTTCCTATA-T
* * *
11496952 GGTGGC-GAAGTAGATCGAAGAAAGCAGATCTTATCTTCGTGTAT
1 --TGGCAGAAGTAGATCGAAG-ATGCAGATCTTATCTTCCTATAT
* * * *
11496996 TGGCGTGAAGTTGATCGAAGATAGCAGATCATGTCTTCCTATAT
1 TGGC-AGAAGTAGATCGAAGAT-GCAGATCTTATCTTCCTATAT
* * * *
11497040 TGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACT
1 TGGCA-GAAGTAGATCGAAGATGCAGATCTTATCTTCCTATA-T
* * * * *
11497084 GGTGGC-GAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTAT
1 --TGGCAGAAGTAGATCGAAG-ATGCAGATCTTATCTTCCTATAT
* * * *
11497128 TGGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTCCTAAAT
1 TGGCA-GAAGTAGATCGAAGAT-GCAGATCTTATCTTCCTATAT
* * * *
11497172 TGGTAGCGAAAG-GGATCGAAGATGCAGATCTTGTCTTCCCATACT
1 TGGCA--G-AAGTAGATCGAAGATGCAGATCTTATCTTCCTATA-T
* * * * *
11497217 GGTGGC-GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAT
1 --TGGCAGAAGTAGATCGAAG-ATGCAGATCTTATCTTCCTATAT
*
11497261 TGGCGTGAAGTAGATCGAAGAT
1 TGGC-AGAAGTAGATCGAAGAT
11497283 ATCAAATTTT
Statistics
Matches: 432, Mismatches: 83, Indels: 71
0.74 0.14 0.12
Matches are distributed among these distances:
42 19 0.04
43 60 0.14
44 258 0.60
45 80 0.19
46 12 0.03
47 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TGGCAGAAGTAGATCGAAGATGCAGATCTTATCTTCCTATAT
Found at i:11496809 original size:132 final size:132
Alignment explanation
Indices: 11496668--11497283 Score: 941
Period size: 132 Copynumber: 4.7 Consensus size: 132
11496658 TAAAGATAGT
* *
11496668 AGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAG-ATGACAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG-CAGATCTTGTCTTCATGTAT
* * * * * *
11496732 TAGCATGAAGTAGATTGAAGATAGCTGATCCTATCTTCCTATATTGGTAGAAAGTGGATTGAAGA
65 TGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGAAAGTGGATCGAAGA
11496797 TGC
130 TGC
* * * * *
11496800 AGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTATCTTTATGTGTT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
11496865 GGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATATTGGTA-AGAAGTAGATCGAAGA
66 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGA-AAGTGGATCGAAGA
11496929 TGC
130 TGC
* * *
11496932 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCGTGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* * *
11496997 GGCGTGAAGTTGATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
66 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGAAAGTGGATCGAAGAT
11497062 GC
131 GC
*
11497064 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* * *
11497129 GGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAAG-GGATCGAAG
66 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA--GAAAGTGGATCGAAG
11497193 ATGC
129 ATGC
*
11497197 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
11497262 GGCGTGAAGTAGATCGAAGATA
66 GGCGTGAAGTAGATCGAAGATA
11497284 TCAAATTTTG
Statistics
Matches: 441, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.00
132 338 0.77
133 98 0.22
134 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (132 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGAAAGTGGATCGAAGAT
GC
Found at i:11496832 original size:88 final size:88
Alignment explanation
Indices: 11496660--11497283 Score: 476
Period size: 88 Copynumber: 7.1 Consensus size: 88
11496650 AAGCAGGTTA
* * * * * *
11496660 AAGATAGTAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGATGACAGATCTTGTCTT
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGAAGATG-CAGATCTTGTCTT
* * * *
11496725 CATGTA-T--TAGCATGAAGTAGATTG
64 CCTATACTGGTGGC--GAAGTAGATCG
* * * * *
11496749 AAGATAGCTGATCCTATCTTCCTATATTGGTAGAAAGTGGATTGAAGATGCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCC
11496814 TATACTGGTGGCGAAGTAGATCG
66 TATACTGGTGGCGAAGTAGATCG
* * ** * * * * *
11496837 AAGAAAGCGGATCTTATCTTTATGTGTTGG-CGTGAAGTAGATTGAAGATAGCAGATCCTGTCTT
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTTGTCTT
* **
11496901 CCTATATTGGT-AAGAAGTAGATCG
64 CCTATACTGGTGGCGAAGTAGATCG
* * * * *
11496925 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTT
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGAAG-ATGCAGATCTTGTCTT
* * * * * *
11496989 CGTGTATTGG-CGTGAAGTTGATCG
64 CCTATACTGGTGGCGAAGTAGATCG
* * *
11497013 AAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCC
*
11497078 CATACTGGTGGCGAAGTAGATCG
66 TATACTGGTGGCGAAGTAGATCG
* * * * * * * * *
11497101 AAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTC
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAGGAAGTAGATCGAAGAT-GCAGATCTTGTCTTC
* * * *
11497166 CTAAATTGGTAGCGAAAG-GGATCG
65 CTATACTGGTGGCG-AAGTAGATCG
* * * * * *
11497190 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
1 AAGATAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGAAG-ATGCAGATCTTGTCTT
* * * * *
11497254 CATGTATTGG-CGTGAAGTAGATCG
64 CCTATACTGGTGGCGAAGTAGATCG
11497278 AAGATA
1 AAGATA
11497284 TCAAATTTTG
Statistics
Matches: 422, Mismatches: 97, Indels: 32
0.77 0.18 0.06
Matches are distributed among these distances:
87 58 0.14
88 221 0.52
89 136 0.32
90 7 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (88 bp):
AAGATAGCAGATCTTATCTTCCTATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCC
TATACTGGTGGCGAAGTAGATCG
Found at i:11497977 original size:28 final size:28
Alignment explanation
Indices: 11497946--11498001 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11497936 ATTATCGTTC
11497946 TTTTAT-TTTTCATATATATATTTTATTT
1 TTTTATATTTT-ATATATATATTTTATTT
* * *
11497974 TTTTATATTTTTTATATTTTTTTTATTT
1 TTTTATATTTTATATATATATTTTATTT
11498002 ATTTCTGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTATATTTTATATATATATTTTATTT
Found at i:11497980 original size:19 final size:18
Alignment explanation
Indices: 11497946--11498005 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
11497936 ATTATCGTTC
*
11497946 TTTTATTTTTCATATATATA
1 TTTTATTTTT-TTATAT-TA
11497966 TTTTATTTTTTTATATT-
1 TTTTATTTTTTTATATTA
*
11497983 TTTTATATTTTTTTTATTTA
1 TTTTAT-TTTTTTATA-TTA
11498003 TTT
1 TTT
11498006 CTGCCTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.17
18 9 0.26
19 7 0.20
20 13 0.37
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTTTATATTA
Found at i:11497986 original size:9 final size:9
Alignment explanation
Indices: 11497960--11498001 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
11497950 ATTTTTCATA
*
11497960 TATATATTT
1 TATATTTTT
11497969 TAT-TTTTT
1 TATATTTTT
11497977 TATATTTTT
1 TATATTTTT
11497986 TATATTTTT
1 TATATTTTT
*
11497995 TTTATTT
1 TATATTT
11498002 ATTTCTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TATATTTTT
Found at i:11498640 original size:3 final size:3
Alignment explanation
Indices: 11498632--11498681 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
11498622 ATAGTTTTAT
* * *
11498632 TTA TTA TTA TTA TTT TTG TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11498680 TT
1 TT
11498682 TCTATATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11498714 original size:21 final size:24
Alignment explanation
Indices: 11498690--11498738 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 24
11498680 TTTCTATATT
11498690 TATACACGCA-TTTTT-TA-AATA
1 TATACACGCAGTTTTTATATAATA
* *
11498711 TATATATGCAGTTTTTATATAATA
1 TATACACGCAGTTTTTATATAATA
11498735 TATA
1 TATA
11498739 TTTTTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 5 0.22
23 2 0.09
24 8 0.35
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (24 bp):
TATACACGCAGTTTTTATATAATA
Found at i:11502504 original size:44 final size:44
Alignment explanation
Indices: 11502456--11502551 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
11502446 ATATCTCAAG
*
11502456 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
* *
11502500 GTCCATGTTTATAACGTGGCAATTAAGAAAGAATTGATGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
11502544 GTACCATG
1 GT-CCATG
11502552 GTTGATCAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 43 0.90
45 5 0.10
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:11502629 original size:50 final size:50
Alignment explanation
Indices: 11502569--11502804 Score: 330
Period size: 50 Copynumber: 4.7 Consensus size: 50
11502559 AATGTCAACA
*
11502569 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * *
11502619 CAAGATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* *
11502669 CGAGATGAGAGGTCCCATGAAAGACCATGTTTGGGACATGGCATTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * *
11502719 CGAGATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCAT
1 CGAGATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * ** *
11502769 CGATATAAGAACTCCCATGTAAGACCATATCTGGGA
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGA
11502805 TATAGTATTG
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 164 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.20
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
Found at i:11509633 original size:9 final size:9
Alignment explanation
Indices: 11509618--11509649 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
11509608 TTTTATATAT
11509618 TTATGTAAG
1 TTATGTAAG
*
11509627 CTATGTAAG
1 TTATGTAAG
11509636 TTATGTAAG
1 TTATGTAAG
11509645 TTATG
1 TTATG
11509650 ATCCAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11509698 original size:9 final size:9
Alignment explanation
Indices: 11509686--11509738 Score: 97
Period size: 9 Copynumber: 5.9 Consensus size: 9
11509676 ATGTTTATAC
11509686 AAGTTATGT
1 AAGTTATGT
*
11509695 AAGTTATAT
1 AAGTTATGT
11509704 AAGTTATGT
1 AAGTTATGT
11509713 AAGTTATGT
1 AAGTTATGT
11509722 AAGTTATGT
1 AAGTTATGT
11509731 AAGTTATG
1 AAGTTATG
11509739 ATAATCATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (9 bp):
AAGTTATGT
Found at i:11509707 original size:18 final size:18
Alignment explanation
Indices: 11509680--11509742 Score: 99
Period size: 18 Copynumber: 3.4 Consensus size: 18
11509670 CTTTAAATGT
*
11509680 TTATACAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
11509698 TTATATAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
*
11509716 TTATGTAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
11509734 TTATGATAA
1 TTAT-ATAA
11509743 TCATAAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 38 0.93
19 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (18 bp):
TTATATAAGTTATGTAAG
Found at i:11509710 original size:27 final size:27
Alignment explanation
Indices: 11509680--11509737 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
11509670 CTTTAAATGT
11509680 TTATACAAGTTATGTAAGTTATATAAG
1 TTATACAAGTTATGTAAGTTATATAAG
** *
11509707 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATACAAGTTATGTAAGTTATATAAG
11509734 TTAT
1 TTAT
11509738 GATAATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (27 bp):
TTATACAAGTTATGTAAGTTATATAAG
Found at i:11509800 original size:13 final size:13
Alignment explanation
Indices: 11509782--11509808 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11509772 TGATTATCAT
11509782 CTTTAAATTTTAA
1 CTTTAAATTTTAA
11509795 CTTTAAATTTTAA
1 CTTTAAATTTTAA
11509808 C
1 C
11509809 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:11514603 original size:50 final size:50
Alignment explanation
Indices: 11514490--11514732 Score: 317
Period size: 50 Copynumber: 4.8 Consensus size: 50
11514480 GATAATAACA
* * ** *
11514490 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
11514541 TGTCC-ATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
11514591 TGCCAACGCCATGTCCCAGGCATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
11514641 TGCCAACGCCATGTCTCATACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
11514691 TGCCAACACCATGTCCCAGACATGGTCTTACATGTGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11514733 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
49 2 0.01
50 134 0.80
51 29 0.17
52 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11520751 original size:27 final size:27
Alignment explanation
Indices: 11520721--11520775 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
11520711 AGAGGGGACA
*
11520721 GTCGACGGTGATGTAGCAGATGGTCGG
1 GTCGACGGTGATGCAGCAGATGGTCGG
* *
11520748 GTCGATGGTGATGCAGTAGATGGTCGG
1 GTCGACGGTGATGCAGCAGATGGTCGG
11520775 G
1 G
11520776 GAAATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.45, T:0.24
Consensus pattern (27 bp):
GTCGACGGTGATGCAGCAGATGGTCGG
Found at i:11521715 original size:50 final size:53
Alignment explanation
Indices: 11521604--11521752 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 53
11521594 ATTTGGGTAA
*
11521604 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATG
*
11521660 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATG
** * *
11521710 AGAGGTCCCCCGTAAGACCATGTGTGGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
11521753 GTTATGATCA
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
50 41 0.48
53 3 0.03
55 2 0.02
56 40 0.47
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATG
Found at i:11529547 original size:41 final size:41
Alignment explanation
Indices: 11529485--11529594 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
11529475 CATTGAATGT
* * *
11529485 AAGGGGTTACTAAGTGAAGATTCCTCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
*
11529526 AAGGGGTCGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
*
11529567 AAGGGGTTGCCAAGTGCAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
11529595 GGGGTTGCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
Found at i:11529607 original size:26 final size:26
Alignment explanation
Indices: 11529568--11529620 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11529558 CTGATCAAAA
11529568 AGGGGTTGCCAAGTGCAGATTCCCCG
1 AGGGGTTGCCAAGTGCAGATTCCCCG
* **
11529594 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCCAAGTGCAGATTCCCCG
11529620 A
1 A
11529621 ATTATTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (26 bp):
AGGGGTTGCCAAGTGCAGATTCCCCG
Found at i:11531911 original size:18 final size:18
Alignment explanation
Indices: 11531861--11531912 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 18
11531851 TCTTTCTAGT
11531861 TTATTTTT-ATTTATTAAA
1 TTATTTTTCATTT-TTAAA
11531879 TT-TTTTTC---TTT-AA
1 TTATTTTTCATTTTTAAA
11531892 TTATTTTTCATTTTTAAA
1 TTATTTTTCATTTTTAAA
11531910 TTA
1 TTA
11531913 ATTATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 1 0.04
17 8 0.29
18 7 0.25
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTTCATTTTTAAA
Found at i:11537908 original size:27 final size:27
Alignment explanation
Indices: 11537878--11537941 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
11537868 TTTTATTTTT
***
11537878 ATGCAATTTAGTTTGTAGGTCCAAATC
1 ATGCAATTTAGTCCATAGGTCCAAATC
11537905 ATGCAATTTAGTCCATAGGTCCAAATC
1 ATGCAATTTAGTCCATAGGTCCAAATC
11537932 ATGCAATTTA
1 ATGCAATTTA
11537942 ACCATTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (27 bp):
ATGCAATTTAGTCCATAGGTCCAAATC
Found at i:11539723 original size:20 final size:20
Alignment explanation
Indices: 11539665--11539724 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
11539655 ATTTTGATGT
* *
11539665 GTTAAAATGATTTTAAATTG
1 GTTAAAATCATTTTAACTTG
* *
11539685 GTTGAAATCATTTTGACTTG
1 GTTAAAATCATTTTAACTTG
*
11539705 GTTAAAATCATTCTAACTTG
1 GTTAAAATCATTTTAACTTG
11539725 AATTTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:11540395 original size:21 final size:21
Alignment explanation
Indices: 11540357--11540396 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11540347 AAAGTAGATA
*
11540357 TATGAGAATTAACGTCTTCCC
1 TATGAGAATTAACCTCTTCCC
11540378 TATGAG-ATTGAACCTCTTC
1 TATGAGAATT-AACCTCTTC
11540397 TCGAAGACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (21 bp):
TATGAGAATTAACCTCTTCCC
Found at i:11543036 original size:94 final size:94
Alignment explanation
Indices: 11542875--11543064 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 94
11542865 CAAGCATACA
*
11542875 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAGAACCAATCATTGACCTATATAA
1 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
11542940 TTTTAAATCAACACATTTACCTTCCTCAT
66 TTTTAAATCAACACATTTACCTTCCTCAT
11542969 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
1 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
11543034 TTTTAAATCAACACATTTACCTTCCTCAT
66 TTTTAAATCAACACATTTACCTTCCTCAT
11543063 CT
1 CT
11543065 TTATCAAGCT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (94 bp):
CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
TTTTAAATCAACACATTTACCTTCCTCAT
Found at i:11543931 original size:272 final size:271
Alignment explanation
Indices: 11543441--11543976 Score: 964
Period size: 272 Copynumber: 2.0 Consensus size: 271
11543431 TAGGAGCTTG
* *
11543441 TTTTAAACCATATAAAGCTTTTGAAATTTTGAAAACATGGTTTGGAAATTTTAGATCTTCAAAAC
1 TTTTAAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCAAAAC
* * **
11543506 TTGGTGGTTGTTCAATATATGCTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACATCC
66 TTGGTGGTTGTTCAACAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACATCC
*
11543571 ATTTGATATAATTTGAAGTCATTAAAGCATGCAAAATCTAAAAGCATTCTAGTGGCTTCCATCCT
131 ATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCATCCT
* *
11543636 AGCTACTGGAGCATAAGTTTCATCATAATCTATTCCTTCTTCTTGAGTGTAACCTTGAGCAACAA
196 AGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCAACAA
11543701 GTCTAGCATTA
261 GTCTAGCATTA
*
11543712 TTTTCAAACCATATAAAGCTTTTGAAAGTTTGAAAATATGGTTTGCAAATTTTAGATCTTCAAAA
1 TTTT-AAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCAAAA
*
11543777 CTTGGTGGTTGTTCAACAGACACTTCTTTATTTATAAAACCATTTAGAAAAATACTTTTTACATC
65 CTTGGTGGTTGTTCAACAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACATC
11543842 CATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCATCC
130 CATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCATCC
11543907 TAGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCAACA
195 TAGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCAACA
11543972 AGTCT
260 AGTCT
11543977 CGCCTTGTTC
Statistics
Matches: 253, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
271 4 0.02
272 249 0.98
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (271 bp):
TTTTAAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCAAAAC
TTGGTGGTTGTTCAACAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACATCC
ATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCATCCT
AGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCAACAA
GTCTAGCATTA
Found at i:11558464 original size:26 final size:24
Alignment explanation
Indices: 11558426--11558474 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
11558416 ACTAAATAAA
*
11558426 TTAATAATAAAATAATAAAATATTAT
1 TTAAAAATAAAAT--TAAAATATTAT
*
11558452 TTAAAAATCAAATTAAAATATTA
1 TTAAAAATAAAATTAAAATATTA
11558475 ATAAACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TTAAAAATAAAATTAAAATATTAT
Found at i:11562797 original size:40 final size:40
Alignment explanation
Indices: 11562702--11562801 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
11562692 GCGTTTAGAC
* * *
11562702 AAAAAACGCCGCTAAAAATGGAACATTAGCGGCGCTTTAT
1 AAAAAACGCCGCTAAAAATGGAACAATAGCGGCACTTTAA
* ** * * * * *
11562742 GAAAATTGCCACTAAAGATTGAGCAATAGCGGCATTTTAA
1 AAAAAACGCCGCTAAAAATGGAACAATAGCGGCACTTTAA
11562782 AAAAAACGCCGCTAAAAATG
1 AAAAAACGCCGCTAAAAATG
11562802 AGCTTTAGCG
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATGGAACAATAGCGGCACTTTAA
Found at i:11562938 original size:30 final size:30
Alignment explanation
Indices: 11562894--11562950 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
11562884 GGCATTTTGG
*
11562894 AAAAACGCCACTAATGCTCTGGTCTTTTAT
1 AAAAACGCCACTAATGCTCTAGTCTTTTAT
* *
11562924 AAAAGCGCCGCTAATGCTCTAGTCTTT
1 AAAAACGCCACTAATGCTCTAGTCTTT
11562951 AGCGGCGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (30 bp):
AAAAACGCCACTAATGCTCTAGTCTTTTAT
Found at i:11562981 original size:41 final size:41
Alignment explanation
Indices: 11562918--11563105 Score: 254
Period size: 41 Copynumber: 4.6 Consensus size: 41
11562908 TGCTCTGGTC
* * *
11562918 TTTTATAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGT
* * *
11562959 TTTTGGAAAAGCTCCGCTAATGCTCTTGCCTTTAGCGGCAT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGT
* *
11563000 TTTTAAAAAAGCGCCGCTAATGCTCTTGCCTTTAGCAGCGTT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCG-T
*
11563042 TTTTAGAAAAGCGCCGCTAATGCTC-TGTTCTTTAGCGGCGT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTG-CCTTTAGCGGCGT
11563083 TTTT-GCAAAAGCGCCGCTAATGC
1 TTTTAG-AAAAGCGCCGCTAATGC
11563106 AAAATACTAT
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 94 0.72
42 35 0.27
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGT
Found at i:11563086 original size:83 final size:82
Alignment explanation
Indices: 11562918--11563105 Score: 261
Period size: 83 Copynumber: 2.3 Consensus size: 82
11562908 TGCTCTGGTC
* * * * *
11562918 TTTTATAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTTGGAAAAGCTCCGCTAATGCT
1 TTTTAAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCAGCGTTTTTAGAAAAGCGCCGCTAATGCT
11562983 CTTGCCTTTAGCGGCAT
66 CTTGCCTTTAGCGGCAT
*
11563000 TTTTAAAAAAGCGCCGCTAATGCTCTTGCCTTTAGCAGCGTTTTTTAGAAAAGCGCCGCTAATGC
1 TTTTAAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCAGCG-TTTTTAGAAAAGCGCCGCTAATGC
* *
11563065 TC-TGTTCTTTAGCGGCGT
65 TCTTG-CCTTTAGCGGCAT
**
11563083 TTTTGCAAAAGCGCCGCTAATGC
1 TTTTAAAAAAGCGCCGCTAATGC
11563106 AAAATACTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
82 38 0.40
83 56 0.60
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (82 bp):
TTTTAAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCAGCGTTTTTAGAAAAGCGCCGCTAATGCT
CTTGCCTTTAGCGGCAT
Found at i:11563364 original size:7 final size:7
Alignment explanation
Indices: 11563352--11563381 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
11563342 ATGAATTTAA
11563352 GGATTAT
1 GGATTAT
11563359 GGATTAT
1 GGATTAT
11563366 GGATTAT
1 GGATTAT
11563373 GGATTAT
1 GGATTAT
11563380 GG
1 GG
11563382 TTTAAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (7 bp):
GGATTAT
Found at i:11563366 original size:22 final size:22
Alignment explanation
Indices: 11563325--11563381 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11563315 GAGTTACTAT
* *
11563325 TTTAAGGTTTAGGGAGTATGAA
1 TTTAAGGATTATGGAGTATGAA
* *
11563347 TTTAAGGATTATGGATTATGGA
1 TTTAAGGATTATGGAGTATGAA
*
11563369 -TTATGGATTATGG
1 TTTAAGGATTATGG
11563382 TTTAAGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (22 bp):
TTTAAGGATTATGGAGTATGAA
Found at i:11563414 original size:7 final size:7
Alignment explanation
Indices: 11563404--11563460 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
11563394 AATTTAAGGT
11563404 TTAGGGG
1 TTAGGGG
11563411 TTAGGGG
1 TTAGGGG
*
11563418 TTAAGGGT
1 TT-AGGGG
*
11563426 TTAAGGG
1 TTAGGGG
*
11563433 TTAGAGG
1 TTAGGGG
11563440 TTATGGGG
1 TTA-GGGG
* *
11563448 TTAAGAG
1 TTAGGGG
11563455 TTAGGG
1 TTAGGG
11563461 ATTCAAGGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
7 26 0.68
8 12 0.32
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:11563424 original size:15 final size:15
Alignment explanation
Indices: 11563401--11563452 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
11563391 TAGAATTTAA
*
11563401 GGTTTAGGGGTTAGG
1 GGTTAAGGGGTTAGG
* *
11563416 GGTTAAGGGTTTAAG
1 GGTTAAGGGGTTAGG
*
11563431 GGTT-AGAGGTTATGG
1 GGTTAAGGGGTTA-GG
11563446 GGTTAAG
1 GGTTAAG
11563453 AGTTAGGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 6 0.21
15 21 0.72
16 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (15 bp):
GGTTAAGGGGTTAGG
Found at i:11563433 original size:22 final size:22
Alignment explanation
Indices: 11563380--11563458 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
11563370 TATGGATTAT
**
11563380 GGTTTAAGGGTTAGAATTTAA-
1 GGTTTAAGGGTTAGAGGTTAAG
* *
11563401 GGTTTAGGGGTTAGGGGTTAAG
1 GGTTTAAGGGTTAGAGGTTAAG
*
11563423 GGTTTAAGGGTTAGAGGTTATG
1 GGTTTAAGGGTTAGAGGTTAAG
* *
11563445 GGGTTAAGAGTTAG
1 GGTTTAAGGGTTAG
11563459 GGATTCAAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
21 17 0.35
22 31 0.65
ACGTcount: A:0.25, C:0.00, G:0.41, T:0.34
Consensus pattern (22 bp):
GGTTTAAGGGTTAGAGGTTAAG
Found at i:11569868 original size:86 final size:85
Alignment explanation
Indices: 11569734--11570005 Score: 267
Period size: 86 Copynumber: 3.2 Consensus size: 85
11569724 AGGTTATGTT
* * *
11569734 TTTAGCGGCGTTTGTGGGAAAAAGTACCACTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGAAAA
1 TTTAGCGGCGTTTGT-GG-AAAAGCACCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGTGGAAAA
** *
11569799 AGCGCCGCTAAAGGTCAAGGTC
64 AGCGCCGCTAAAGAACAAGATC
* * ***
11569821 TTTAGCGGTGTTTGTGAGAAAAGCATCGCTAAAGGTCAAGGTCTTTAGCGATATTTGTGGGAAAA
1 TTTAGCGGCGTTTGTG-GAAAAGCACCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGT-GGAAAA
* *
11569886 A-CGTCGCTAAAGAACATGATC
64 AGCGCCGCTAAAGAACAAGATC
* * * ** * *
11569907 TTTCGCGACGTTTGTGGAGAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGAGAAA
1 TTTAGCGGCGTTTGTGGA-AAAGCACCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGTGGAAAAA
* * *
11569972 GCGCCACTAAAGAACATGACC
65 GCGCCGCTAAAGAACAAGATC
* *
11569993 TTTAACGGTGTTT
1 TTTAGCGGCGTTT
11570006 TTAAAAATAA
Statistics
Matches: 149, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
85 8 0.05
86 119 0.80
87 22 0.15
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAAAAGCACCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGTGGAAAAAG
CGCCGCTAAAGAACAAGATC
Found at i:11569989 original size:43 final size:43
Alignment explanation
Indices: 11569734--11569987 Score: 233
Period size: 43 Copynumber: 5.9 Consensus size: 43
11569724 AGGTTATGTT
* ** * ** *
11569734 TTTAGCGGCGTTTGTGGGAAAAAGTACCACTAAAGGTCAAGGTT
1 TTTAGCGGCGTTTGT-GGAGAAAGCGCCGCTAAAGAACAAGGTC
* **
11569778 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAAGGTC
1 TTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACAAGGTC
* ** **
11569821 TTTAGCGGTGTTTGT-GAGAAAAGCATCGCTAAAGGTCAAGGTC
1 TTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGAACAAGGTC
*** * * * *
11569864 TTTAGCGATATTTGTGG-GAAAAACGTCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGAACAAGGTC
* * *
11569907 TTTCGCGACGTTTGTGGAGAAAGCGCCGCTAAAGAACATGGTC
1 TTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACAAGGTC
*
11569950 TTTAGCGGCGTTTGTGGAGAAAGCGCCACTAAAGAACA
1 TTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACA
11569988 TGACCTTTAA
Statistics
Matches: 182, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.01
43 163 0.90
44 17 0.09
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAACAAGGTC
Done.