Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 55 of 316
Found at i:16120454 original size:20 final size:20
Alignment explanation
Indices: 16120431--16120492 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
16120421 TAATTAAAGA
16120431 AACATATTAGAACAAAATAT
1 AACATATTAGAACAAAATAT
* **
16120451 AACAAATT--TCCAAACATA-
1 AACATATTAGAACAAA-ATAT
*
16120469 GACATATTAGAACAAAATAT
1 AACATATTAGAACAAAATAT
16120489 AACA
1 AACA
16120493 AATTTCCAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 10 0.33
19 6 0.20
20 14 0.47
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.23
Consensus pattern (20 bp):
AACATATTAGAACAAAATAT
Found at i:16120483 original size:38 final size:38
Alignment explanation
Indices: 16120432--16120508 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
16120422 AATTAAAGAA
16120432 ACATATTAGAACAAAATATAACAAATTTCCAAACATAG
1 ACATATTAGAACAAAATATAACAAATTTCCAAACATAG
16120470 ACATATTAGAACAAAATATAACAAATTTCCAAACATAG
1 ACATATTAGAACAAAATATAACAAATTTCCAAACATAG
16120508 A
1 A
16120509 TAAATAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (38 bp):
ACATATTAGAACAAAATATAACAAATTTCCAAACATAG
Found at i:16121154 original size:3 final size:3
Alignment explanation
Indices: 16121146--16121300 Score: 57
Period size: 3 Copynumber: 50.7 Consensus size: 3
16121136 GAATTAAAAT
* * * * **
16121146 TAA TAA TAA CAA AAA TAA TAA TAA TAA TAA TAG TAA TAA -AA AAA TGC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
16121193 TAA TAG TGA TAT TAG TGA TAG TAA TAA TAGA AAA TAA TAA T-A TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A
* * * *
16121239 TAC TAA TAA CAA CAA TAA T-A TGA TAAA TAGGA -AA TAA TAA TACA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA--A TAA TAA TAA TA-A -TAA
*
16121287 TAA GAA TAA TAA TA
1 TAA TAA TAA TAA TA
16121301 GATTACTAAT
Statistics
Matches: 111, Mismatches: 30, Indels: 22
0.68 0.18 0.13
Matches are distributed among these distances:
2 7 0.06
3 91 0.82
4 10 0.09
5 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:16122803 original size:18 final size:19
Alignment explanation
Indices: 16122776--16122849 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 19
16122766 TATTTGTTCC
*
16122776 TTTTAAGTATTA-TATATA
1 TTTTATGTATTACTATATA
*
16122794 TTTTATGTA-TATTATATA
1 TTTTATGTATTACTATATA
*
16122812 TTATATGTA-TACT-T-TA
1 TTTTATGTATTACTATATA
*
16122828 TTTTATATATTACGTATATA
1 TTTTATGTATTAC-TATATA
16122848 TT
1 TT
16122850 ATGTATACGC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 9 0.20
17 6 0.13
18 26 0.57
19 1 0.02
20 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTATGTATTACTATATA
Found at i:16122831 original size:34 final size:33
Alignment explanation
Indices: 16122792--16122857 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 33
16122782 GTATTATATA
16122792 TATTTTATGTATATTA-TATAT-TATATGTATACTT
1 TATTTTA--TATATTACTATATAT-TATGTATACTT
16122826 TATTTTATATATTACGTATATATTATGTATAC
1 TATTTTATATATTAC-TATATATTATGTATAC
16122858 GCTTTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
32 7 0.24
34 21 0.72
35 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (33 bp):
TATTTTATATATTACTATATATTATGTATACTT
Found at i:16124084 original size:3 final size:3
Alignment explanation
Indices: 16124076--16124103 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16124066 TGGTTACGAC
16124076 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16124104 GAAAATACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16124152 original size:26 final size:25
Alignment explanation
Indices: 16124123--16124172 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
16124113 AATGCGTTAG
*
16124123 TATAAAAAATGATAATCTAATAATAA
1 TATAAAAAATGATAA-ATAATAATAA
* *
16124149 TATACAATATGATAAATAATAATA
1 TATAAAAAATGATAAATAATAATA
16124173 GAAAAGGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (25 bp):
TATAAAAAATGATAAATAATAATAA
Found at i:16125286 original size:18 final size:17
Alignment explanation
Indices: 16125263--16125296 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16125253 GCTAGGGTTT
16125263 TTTTTCTTTTTTCTTTTC
1 TTTTTCTTTTTT-TTTTC
16125281 TTTTTCTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
16125297 GATTATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:16127679 original size:8 final size:8
Alignment explanation
Indices: 16127666--16127698 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
16127656 CAAATGTAAA
16127666 AAAAAAAG
1 AAAAAAAG
16127674 -AAAAAAG
1 AAAAAAAG
16127681 AAAAAAAG
1 AAAAAAAG
*
16127689 AAAGAAAG
1 AAAAAAAG
16127697 AA
1 AA
16127699 TCAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:16127686 original size:15 final size:16
Alignment explanation
Indices: 16127666--16127698 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16127656 CAAATGTAAA
16127666 AAAAAAAGAAA-AAAG
1 AAAAAAAGAAAGAAAG
16127681 AAAAAAAGAAAGAAAG
1 AAAAAAAGAAAGAAAG
16127697 AA
1 AA
16127699 TCAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAGAAAG
Found at i:16128461 original size:59 final size:59
Alignment explanation
Indices: 16128369--16128480 Score: 224
Period size: 59 Copynumber: 1.9 Consensus size: 59
16128359 TGTAAGTATC
16128369 CTTGCTAACTTGTACCAAACTTTGTTTTCTTGAGGAAATAAAATATTCACTTAATTGAA
1 CTTGCTAACTTGTACCAAACTTTGTTTTCTTGAGGAAATAAAATATTCACTTAATTGAA
16128428 CTTGCTAACTTGTACCAAACTTTGTTTTCTTGAGGAAATAAAATATTCACTTA
1 CTTGCTAACTTGTACCAAACTTTGTTTTCTTGAGGAAATAAAATATTCACTTA
16128481 CTCAAATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (59 bp):
CTTGCTAACTTGTACCAAACTTTGTTTTCTTGAGGAAATAAAATATTCACTTAATTGAA
Found at i:16131831 original size:21 final size:22
Alignment explanation
Indices: 16131802--16131848 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
16131792 CAGAAGGAGT
*
16131802 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16131824 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
16131845 GAGT
1 GAGT
16131849 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:16134504 original size:21 final size:21
Alignment explanation
Indices: 16134480--16134528 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
16134470 ATTTTTCGAG
16134480 TTTTAGGTTTCAAGTTTTGGA
1 TTTTAGGTTTCAAGTTTTGGA
* * *
16134501 TTTTCA-ATTTGAAGTTTTGGT
1 TTTT-AGGTTTCAAGTTTTGGA
16134522 TTTTAGG
1 TTTTAGG
16134529 GTTTTGGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
20 1 0.05
21 20 0.91
22 1 0.05
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.55
Consensus pattern (21 bp):
TTTTAGGTTTCAAGTTTTGGA
Found at i:16137342 original size:20 final size:19
Alignment explanation
Indices: 16137313--16137370 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 19
16137303 TATTAAAAAG
*
16137313 TTTTTTATAATTTATATAC
1 TTTTTAATAATTTATATAC
*
16137332 TTTTTAAATAATTTAAATA-
1 TTTTT-AATAATTTATATAC
*
16137351 ATTTTAA-AATTT-TATAC
1 TTTTTAATAATTTATATAC
16137368 TTT
1 TTT
16137371 AAAAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 3 0.09
17 7 0.22
18 2 0.06
19 9 0.28
20 11 0.34
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAATAATTTATATAC
Found at i:16139541 original size:3 final size:3
Alignment explanation
Indices: 16139535--16139584 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
16139525 TTCACATTTC
16139535 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16139583 TA
1 TA
16139585 GAATTTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16140467 original size:24 final size:25
Alignment explanation
Indices: 16140431--16140485 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
16140421 TTTAATTCTT
*
16140431 TTTAATTATATAA-AAATAAAATTAA
1 TTTATTTATATAATAAA-AAAATTAA
*
16140456 TTTATTTA-ATAATAAAAAGATTAA
1 TTTATTTATATAATAAAAAAATTAA
16140480 TTTATT
1 TTTATT
16140486 CCAATTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTATTTATATAATAAAAAAATTAA
Found at i:16140469 original size:21 final size:20
Alignment explanation
Indices: 16140432--16140472 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16140422 TTAATTCTTT
16140432 TTAATTATATAAAAATAAAA
1 TTAATTATATAAAAATAAAA
* *
16140452 TTAATTTATTTAATAATAAAA
1 TTAA-TTATATAAAAATAAAA
16140473 AGATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATTATATAAAAATAAAA
Found at i:16145367 original size:3 final size:3
Alignment explanation
Indices: 16145359--16145397 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
16145349 CAATACACTA
* *
16145359 AAG AAG AAG AAG AAG AAA AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16145398 TCCTTAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16147639 original size:31 final size:31
Alignment explanation
Indices: 16147601--16147664 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16147591 AAGTGATATA
16147601 TGAGAAAGATTTATATTTGAATGCTTATTAT
1 TGAGAAAGATTTATATTTGAATGCTTATTAT
16147632 TGAGAAAGATTTATATTTGAATGCTTATTAT
1 TGAGAAAGATTTATATTTGAATGCTTATTAT
16147663 TG
1 TG
16147665 TAGTTGGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (31 bp):
TGAGAAAGATTTATATTTGAATGCTTATTAT
Found at i:16149649 original size:27 final size:27
Alignment explanation
Indices: 16149619--16149795 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
16149609 ATATTGAGTC
* * * *
16149619 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16149646 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16149673 CGCACACTTAGTGC-ACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16149700 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16149727 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16149754 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16149781 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16149796 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.07
27 111 0.86
28 9 0.07
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16149757 original size:81 final size:81
Alignment explanation
Indices: 16149640--16149794 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
16149630 TGCTATATAA
*
16149640 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGC-ACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16149704 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16149721 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16149785 CACTTAGTGC
65 CACTTAGTGC
16149795 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 55 0.82
82 11 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16157704 original size:27 final size:27
Alignment explanation
Indices: 16157674--16157851 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
16157664 ATATTGAGTC
* * * *
16157674 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16157701 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
16157728 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16157756 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16157783 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16157810 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16157837 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16157852 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16157813 original size:82 final size:81
Alignment explanation
Indices: 16157695--16157850 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16157685 TGCTATATAA
* *
16157695 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16157760 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16157777 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16157841 CACTTAGTGC
65 CACTTAGTGC
16157851 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16168121 original size:23 final size:22
Alignment explanation
Indices: 16168095--16168148 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
16168085 GGCATCGAAG
16168095 AATTCCCAGTTCACGCAAAAATC
1 AATT-CCAGTTCACGCAAAAATC
*
16168118 AATTGCAGTTCACGCAAAAATC
1 AATTCCAGTTCACGCAAAAATC
*
16168140 AATTGCAGT
1 AATTCCAGT
16168149 AAGGAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (22 bp):
AATTCCAGTTCACGCAAAAATC
Found at i:16168126 original size:22 final size:22
Alignment explanation
Indices: 16168101--16168148 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
16168091 GAAGAATTCC
16168101 CAGTTCACGCAAAAATCAATTG
1 CAGTTCACGCAAAAATCAATTG
16168123 CAGTTCACGCAAAAATCAATTG
1 CAGTTCACGCAAAAATCAATTG
16168145 CAGT
1 CAGT
16168149 AAGGAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (22 bp):
CAGTTCACGCAAAAATCAATTG
Found at i:16168851 original size:33 final size:33
Alignment explanation
Indices: 16168809--16168890 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
16168799 GATGAAAAAC
*
16168809 AATGATATTTTAAATATTTTACATATTTGAAAT
1 AATGATATTTGAAATATTTTACATATTTGAAAT
* *
16168842 AATGGTATTTGAAATATTTTACATATTTTAAAT
1 AATGATATTTGAAATATTTTACATATTTGAAAT
*
16168875 AATAATATTTGAAATA
1 AATGATATTTGAAATA
16168891 ATTATTTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (33 bp):
AATGATATTTGAAATATTTTACATATTTGAAAT
Found at i:16168884 original size:15 final size:15
Alignment explanation
Indices: 16168831--16168892 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
16168821 AATATTTTAC
*
16168831 ATATTTGAAATAATG
1 ATATTTGAAATAATA
* *
16168846 GTATTTGAAATATTTTA
1 ATATTTGAAATA--ATA
*
16168863 CATATTTTAAATAATA
1 -ATATTTGAAATAATA
16168879 ATATTTGAAATAAT
1 ATATTTGAAATAAT
16168893 TATTTGATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 24 0.65
16 2 0.05
17 1 0.03
18 10 0.27
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (15 bp):
ATATTTGAAATAATA
Found at i:16168898 original size:13 final size:14
Alignment explanation
Indices: 16168831--16168899 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
16168821 AATATTTTAC
16168831 ATATTTGAAATAAT
1 ATATTTGAAATAAT
* *
16168845 GGTATTTGAAATATTTTAC
1 -ATATTTGAAATA----AT
*
16168864 ATATTTTAAATAAT
1 ATATTTGAAATAAT
16168878 AATATTTGAAATAAT
1 -ATATTTGAAATAAT
16168893 -TATTTGA
1 ATATTTGA
16168900 TTTTATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
13 7 0.16
14 1 0.02
15 24 0.56
18 10 0.23
19 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.46
Consensus pattern (14 bp):
ATATTTGAAATAAT
Found at i:16170511 original size:24 final size:24
Alignment explanation
Indices: 16170484--16170534 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
16170474 AATGATATAT
*
16170484 ATTATTTT-TATTTATATATTATCC
1 ATTATTTTATATCTAT-TATTATCC
*
16170508 ATTATTTTATATCTATTATTATTC
1 ATTATTTTATATCTATTATTATCC
16170532 ATT
1 ATT
16170535 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATTTTATATCTATTATTATCC
Found at i:16170528 original size:17 final size:17
Alignment explanation
Indices: 16170479--16170681 Score: 68
Period size: 17 Copynumber: 11.6 Consensus size: 17
16170469 TATAAAATGA
*
16170479 TATATATTATTTTTATT
1 TATATATTATTATTATT
*
16170496 TATATATTATCCATTATTT
1 TATATATTAT-TATTA-TT
16170515 TATATCTATTATTATTCATT
1 TATA--TATTATTATT-ATT
* * *
16170535 TTTAAATTA-TATGTAAT
1 TATATATTATTAT-TATT
* *
16170552 TAAATTTTATTA-TATT
1 TATATATTATTATTATT
*
16170568 ATATCGTATTA-TATTATT
1 -TAT-ATATTATTATTATT
16170586 CTATATAGTATATATATTA-T
1 -TATATA-T-TAT-TATTATT
*
16170606 TA-ATATT-TTATTAAT
1 TATATATTATTATTATT
* *
16170621 TA-ACTATTTTCTAATGTATG
1 TATA-TATTAT-T-AT-TATT
16170641 TAT-TATTATTATTATT
1 TATATATTATTATTATT
*
16170657 T-T-TATTAATATTA-T
1 TATATATTATTATTATT
16170671 TATATTATTAT
1 TATA-TATTAT
16170682 ATGCTTCCTA
Statistics
Matches: 140, Mismatches: 22, Indels: 48
0.67 0.10 0.23
Matches are distributed among these distances:
14 7 0.05
15 17 0.12
16 12 0.09
17 35 0.25
18 27 0.19
19 17 0.12
20 13 0.09
21 12 0.09
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATATTATTATTATT
Found at i:16170582 original size:20 final size:21
Alignment explanation
Indices: 16170559--16170606 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
16170549 AATTAAATTT
*
16170559 TATTATAT-TATATCGTAT-TA
1 TATTAT-TCTATATAGTATATA
16170579 TATTATTCTATATAGTATATA
1 TATTATTCTATATAGTATATA
16170600 TATTATT
1 TATTATT
16170607 AATATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTATTCTATATAGTATATA
Found at i:16170649 original size:3 final size:3
Alignment explanation
Indices: 16170641--16170681 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
16170631 CTAATGTATG
* *
16170641 TAT TAT TAT TAT TAT TTT TAT TAA TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16170682 ATGCTTCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16171947 original size:13 final size:13
Alignment explanation
Indices: 16171931--16171955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16171921 CAATATATTT
16171931 ATTAATTATAAAC
1 ATTAATTATAAAC
16171944 ATTAATTATAAA
1 ATTAATTATAAA
16171956 TAAAAAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAATTATAAAC
Found at i:16173056 original size:18 final size:19
Alignment explanation
Indices: 16173033--16173071 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
16173023 AATATGTTAT
*
16173033 ATTATGTTATTTATAA-AC
1 ATTATGTAATTTATAATAC
16173051 ATTATGTAATTTATAATAC
1 ATTATGTAATTTATAATAC
16173070 AT
1 AT
16173072 AAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTATGTAATTTATAATAC
Found at i:16175653 original size:37 final size:37
Alignment explanation
Indices: 16175594--16175739 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
16175584 AGCTCAGACG
* *
16175594 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
16175631 AAATCTCCACACTTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
16175668 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
16175705 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
16175740 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:16175998 original size:47 final size:47
Alignment explanation
Indices: 16175946--16176139 Score: 248
Period size: 47 Copynumber: 4.1 Consensus size: 47
16175936 CATACCTATT
* * *
16175946 TCACATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCA
* * * *
16175993 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCA
* * *
16176040 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCA
* *
16176087 TCACATTGGCCATTCGACCTTATCTCATATATATACA--TTCACATTCA
1 TCACATTGGCCATTCGGCCTTA-C-CACATATATACATGTTCACATTCA
16176134 TCACAT
1 TCACAT
16176140 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 120 0.92
49 10 0.08
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCA
Found at i:16181812 original size:26 final size:26
Alignment explanation
Indices: 16181783--16181890 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16181773 TGATACAAAT
16181783 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16181809 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16181835 TGATAATGGGTTAGGTAATTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16181861 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16181887 TGAT
1 TGAT
16181891 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16188000 original size:26 final size:26
Alignment explanation
Indices: 16187971--16188026 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
16187961 TGATACAAAT
16187971 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGCAAATGTTCCA
* *
16187997 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGCAAATGTTCCA
16188023 TGAT
1 TGAT
16188027 TGTAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGCAAATGTTCCA
Found at i:16189539 original size:26 final size:26
Alignment explanation
Indices: 16189510--16189562 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16189500 TTTACAGTTT
16189510 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
16189536 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16189562 T
1 T
16189563 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16196687 original size:38 final size:38
Alignment explanation
Indices: 16196636--16196984 Score: 482
Period size: 38 Copynumber: 9.1 Consensus size: 38
16196626 ATATTCGATG
*
16196636 TATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
16196674 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
16196712 TATATCCGAGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
16196750 TATATCCGGGTTAAATCCCACAGGCTTCGGGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
16196788 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** *
16196826 TATATCCGGGTTAAATCTAGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * * *
16196864 TATATCGGGGCTTAAAGACCTGCTGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
16196904 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * * *
16196942 TATATCTGGGATAAATCTCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
16196980 TATAT
1 TATAT
16196985 TCAGGCCTTC
Statistics
Matches: 276, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
38 241 0.87
39 10 0.04
40 25 0.09
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:16197043 original size:43 final size:43
Alignment explanation
Indices: 16196982--16197093 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
16196972 GCTGGTATTA
* *
16196982 TATTCAGGCCTTCATGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
16197025 TATTCGGGCCTTCTTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
16197068 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCATGCCTAGCAGGC
16197094 GTAATGCTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:16197106 original size:43 final size:43
Alignment explanation
Indices: 16196961--16197093 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
16196951 GATAAATCTC
* * * *
16196961 GCAGGCCTAGTGCTGGT-AT-TATATTCAGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTA
* * *
16197002 GTAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCTTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTA
* *
16197045 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTA
16197088 GCAGGC
1 GCAGGC
16197094 GTAATGCTGG
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 13 0.16
42 2 0.02
43 66 0.81
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTA
Found at i:16206544 original size:119 final size:119
Alignment explanation
Indices: 16206387--16206724 Score: 507
Period size: 119 Copynumber: 2.8 Consensus size: 119
16206377 TAGGCCGCAG
*
16206387 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATAATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
16206452 TTTACAAGAAACAAATCGAGGAAATAGCAGATTTGACTCTTAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
*
16206506 TATAGCAGATCTAGCTTTCAGATGTTTATACTGGAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
16206571 TTTACAAGAAACAAATCGAGGACATAGTAGATTTGGCTCTCAGATGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
* * * * * *
16206625 TATAGCAGATCCCA-CCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTAGTATCCTTGT
1 TATAGCAGAT-CTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
** * * *
16206689 ACTTACAAGGAACAAATCGAAGACATAGCTGATTTG
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTG
16206725 GCTTCCACGT
Statistics
Matches: 199, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
119 197 0.99
120 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (119 bp):
TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
Found at i:16208671 original size:30 final size:30
Alignment explanation
Indices: 16208637--16208717 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
16208627 TTTTCCTCAA
* *
16208637 ATTATAATTATTTTACATCAAATTTTTTAT
1 ATTATAATTATTTTACATCAAATATTATAT
* * *
16208667 ATTATTATTATATTTTCA-CATATATTATAT
1 ATTATAATTAT-TTTACATCAAATATTATAT
16208697 ATTTACTAATTATTTATACAT
1 A-TTA-TAATTATTT-TACAT
16208718 GTCATTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
30 20 0.51
31 10 0.26
32 9 0.23
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTATAATTATTTTACATCAAATATTATAT
Found at i:16217193 original size:25 final size:25
Alignment explanation
Indices: 16217165--16217283 Score: 141
Period size: 25 Copynumber: 4.8 Consensus size: 25
16217155 CGGATACTCC
* *
16217165 ATAGCTTGTGAGACCATACCGATTT
1 ATAGCTCGTGAGAGCATACCGATTT
*
16217190 ATAGCTCGTGAGAGCATACCAATTT
1 ATAGCTCGTGAGAGCATACCGATTT
* *
16217215 ATAGCTTGTGAGAGCATACCGATCT
1 ATAGCTCGTGAGAGCATACCGATTT
* * * *
16217240 ACAGCTCGAGTGAGCATACCGATTC
1 ATAGCTCGTGAGAGCATACCGATTT
16217265 ATAGCTCGT-ATGAGCATAC
1 ATAGCTCGTGA-GAGCATAC
16217284 ATGTACATGA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
25 78 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
ATAGCTCGTGAGAGCATACCGATTT
Found at i:16220097 original size:42 final size:43
Alignment explanation
Indices: 16220001--16220156 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 43
16219991 AGCTCGTACA
* *
16220001 ATGCCAACGTCCCAG-CGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
*
16220043 ATTCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* * *
16220085 ATGCCAACGTCCCAGACTTGGTCATACACGTAAATC-ATTAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCAAATA-TCG
* *
16220129 ATGCCAATGTCCCAAACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
16220157 TGATAGCACA
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.02
42 39 0.41
43 27 0.28
44 27 0.28
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:16220152 original size:86 final size:84
Alignment explanation
Indices: 16220001--16220156 Score: 199
Period size: 86 Copynumber: 1.8 Consensus size: 84
16219991 AGCTCGTACA
* * * * *
16220001 ATGCCAACGTCCCAGCGTGGTCTTACATGTAATCAAATATCGATTCCACTGTCCCAGACAGGGTC
1 ATGCCAACGTCCCAGCGTGGTCATACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGGTC
16220066 TTACACGAAATCAAATACG
66 TTACACGAAATCAAATACG
* *
16220085 ATGCCAACGTCCCAGACTTGGTCATACACGTAAATC-ATTAGTCGATGCCAATGTCCCAAAC-GT
1 ATGCCAACGTCCCAG-CGTGGTCATACACGT-AATCAAATA-TCGATGCCAATGTCCCAAACAG-
16220148 GGTCTTACA
62 GGTCTTACA
16220157 TGATAGCACA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
84 15 0.25
85 16 0.26
86 30 0.49
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGCGTGGTCATACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGGTC
TTACACGAAATCAAATACG
Found at i:16226403 original size:40 final size:40
Alignment explanation
Indices: 16226335--16226537 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
16226325 CGAGATTTAA
* *
16226335 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16226374 CCGGATATAGTAACTCACACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
16226414 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
16226454 CCAGATGTAATAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16226494 CCGGA-ACTAGTGACTAGCGCA-AAATGCCTTCAGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
16226535 CCG
1 CCG
16226538 ATTATCATCC
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.11
40 102 0.71
41 21 0.15
42 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16227697 original size:5 final size:5
Alignment explanation
Indices: 16227683--16227714 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
16227673 TCAAGCTAAC
16227683 AAAT- AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
16227715 AACATGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:16229256 original size:13 final size:13
Alignment explanation
Indices: 16229238--16229268 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16229228 AAATAACCAA
*
16229238 AATTATCAAAATT
1 AATTATAAAAATT
16229251 AATTATAAAAATT
1 AATTATAAAAATT
16229264 AATTA
1 AATTA
16229269 AAATTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
AATTATAAAAATT
Found at i:16233048 original size:30 final size:30
Alignment explanation
Indices: 16232993--16233049 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16232983 CTTTTGAAAA
* * * *
16232993 TATTTACGAAAAGAGCCATCTAATTTTTAT
1 TATTTACAAAAAGAGCAACCAAATTTTTAT
16233023 TATTTACAAAAAGAGCAACCAAATTTT
1 TATTTACAAAAAGAGCAACCAAATTTT
16233050 AAAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGCAACCAAATTTTTAT
Found at i:16235009 original size:40 final size:40
Alignment explanation
Indices: 16234972--16235154 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
16234962 GCTACTCGTT
*
16234972 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
16235012 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
16235052 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
16235091 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
16235132 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
16235155 AACATCATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16235089 original size:79 final size:81
Alignment explanation
Indices: 16234972--16235156 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
16234962 GCTACTCGTT
* **
16234972 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
16235036 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
16235052 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
16235115 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
16235132 CAAA-GCCTTCGGGACTTAGCCCGAA
1 CAAATGCCTTCGGGACTTAGCCCGAA
16235157 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 32 0.35
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:16240763 original size:41 final size:40
Alignment explanation
Indices: 16240718--16240798 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
16240708 ATTAATTAAG
*
16240718 TTAGAATTTGA-ACAGAAAATTAAACCAAAATACAAAACTAA
1 TTAGAATTT-ATACAGAAAAGTAAACCAAAATAC-AAACTAA
* *
16240759 TTAGAATTTATATAGAAAAGTAAACCAAAATGCAAACTAA
1 TTAGAATTTATACAGAAAAGTAAACCAAAATACAAACTAA
16240799 CAAATTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 8 0.22
41 28 0.78
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (40 bp):
TTAGAATTTATACAGAAAAGTAAACCAAAATACAAACTAA
Found at i:16241719 original size:21 final size:20
Alignment explanation
Indices: 16241695--16241736 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16241685 TGAAATGCAA
16241695 TCAAACCAACATGAATTAAAT
1 TCAAACCAACATG-ATTAAAT
* *
16241716 TCAAGCTAACATGATTAAAT
1 TCAAACCAACATGATTAAAT
16241736 T
1 T
16241737 AACCATTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
TCAAACCAACATGATTAAAT
Found at i:16251774 original size:43 final size:43
Alignment explanation
Indices: 16251709--16251832 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
16251699 AACTCGTACA
* * * *
16251709 ATGCC-ATATCTCAGATATGGTCTTACATGTTATCACATACCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATAACG
* * * * *
16251751 ATGCCAATGTCCTAGACCTGGTCTTACATGAAATCATATAACG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATAACG
16251794 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACAT
16251833 CTCGGTAATC
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 5 0.07
43 62 0.93
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATAACG
Found at i:16257697 original size:14 final size:15
Alignment explanation
Indices: 16257680--16257708 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16257670 ACACGAAAAT
16257680 TTCACACA-TATAAA
1 TTCACACATTATAAA
16257694 TTCACACATTATAAA
1 TTCACACATTATAAA
16257709 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:16262900 original size:43 final size:42
Alignment explanation
Indices: 16262852--16263008 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
16262842 TATCCCAAAT
* * *
16262852 ATGGTCTTACATGTTATCAAATATCGATGCCAATGTCCCTTAC
1 ATGGTCTTACACGTAATCAAATATCGATGCCAATGT-CCTGAC
* *
16262895 ATGGTCTTACACGAAATCATATAAT-GATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCAAAT-ATCGATGCCAATGTCCT-GAC
* * * * *
16262938 ATGGTATTACACGTAATCATAATA-CTATGCTAATGTTCCAGGC
1 ATGGTCTTACACGTAATCA-AATATCGATGCCAATG-TCCTGAC
* * *
16262981 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACACGTAATCAAATATCGAT
16263009 AATCCTAATG
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 5 0.05
43 79 0.87
44 7 0.08
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCTGAC
Found at i:16275002 original size:34 final size:34
Alignment explanation
Indices: 16274959--16275054 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
16274949 TTGCATACTA
*
16274959 TACTGAAATGGGCTAAGGCCCAAACTGCCT-CTGT
1 TACTGAAATGGGCTAAGGCCCAAACTG-ATACTGT
* * *
16274993 TACTGAAATGGACTCAGGCCCAGACTGATACTGT
1 TACTGAAATGGGCTAAGGCCCAAACTGATACTGT
* * * *
16275027 TAATGAAAAGGGGTTAAGGCCCTAACTG
1 TACTG-AAATGGGCTAAGGCCCAAACTG
16275055 GAACTAACGG
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 1 0.02
34 32 0.65
35 16 0.33
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAAACTGATACTGT
Found at i:16303911 original size:19 final size:18
Alignment explanation
Indices: 16303879--16303917 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16303869 GATTTCTTAC
*
16303879 TTTAGCCCATTTTCTCTGT
1 TTTAGCCCAGTTTCTC-GT
*
16303898 TTTAGGCCAGTTTCTCGT
1 TTTAGCCCAGTTTCTCGT
16303916 TT
1 TT
16303918 CTTTCACTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.51
Consensus pattern (18 bp):
TTTAGCCCAGTTTCTCGT
Found at i:16314994 original size:43 final size:43
Alignment explanation
Indices: 16314930--16315052 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
16314920 ATTGAGATGT
* * *
16314930 GATTACATGTAAGACCTTGTGTGGGACAGTGGCATTG-TATTAC
1 GATTACGTGTAAGACCTTGTGTGGGACAGTGGCATCGTTAAT-C
* *
16314973 GATTACGTGTAAGACCATGTGTGGGACA-TCCGCATCGTTAATC
1 GATTACGTGTAAGACCTTGTGTGGGACAGT-GGCATCGTTAATC
16315016 GACTT-CGTGTAAGACCTTGTGTGGGACAGTGGCATCG
1 GA-TTACGTGTAAGACCTTGTGTGGGACAGTGGCATCG
16315053 ATACGTGTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.01
43 62 0.90
44 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
GATTACGTGTAAGACCTTGTGTGGGACAGTGGCATCGTTAATC
Found at i:16325085 original size:40 final size:40
Alignment explanation
Indices: 16325030--16325109 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
16325020 CAAAATTTAT
16325030 CCTAAATAAGATATGAGAGCTTTTCAAGAGAACAAGGCAG
1 CCTAAATAAGATATGAGAGCTTTTCAAGAGAACAAGGCAG
*
16325070 CCTAAATACGATATGAGAGCTTTTCAAGAGAACAAGGCAG
1 CCTAAATAAGATATGAGAGCTTTTCAAGAGAACAAGGCAG
16325110 TCATATACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (40 bp):
CCTAAATAAGATATGAGAGCTTTTCAAGAGAACAAGGCAG
Found at i:16337886 original size:20 final size:20
Alignment explanation
Indices: 16337839--16337888 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
16337829 TGAAAATTAA
* *
16337839 TTTCCAAAAATATCATATTT
1 TTTCCAAAAATATCAGATAT
16337859 TTTCCCAAAAATCAT-AGATAT
1 TTT-CCAAAAAT-ATCAGATAT
16337880 TTTCCAAAA
1 TTTCCAAAA
16337889 TTAATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 15 0.58
22 2 0.08
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTCCAAAAATATCAGATAT
Found at i:16349102 original size:16 final size:17
Alignment explanation
Indices: 16349052--16349102 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
16349042 ATAGAAATAT
*
16349052 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
16349069 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
16349088 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
16349103 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:16349121 original size:22 final size:21
Alignment explanation
Indices: 16349062--16349104 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
16349052 AATCTTTAAG
16349062 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
16349081 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
16349102 GAT
1 GAT
16349105 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:16349333 original size:14 final size:14
Alignment explanation
Indices: 16349314--16349344 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16349304 CTGTGGTTTG
16349314 TTCTTATTTTATTC
1 TTCTTATTTTATTC
16349328 TTCTTATTTTATTC
1 TTCTTATTTTATTC
16349342 TTC
1 TTC
16349345 GTCTATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTATTTTATTC
Found at i:16354774 original size:13 final size:13
Alignment explanation
Indices: 16354766--16354809 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
16354756 GGAAAAAAAT
*
16354766 AAAATAAAAGGAAA
1 AAAATAAAA-TAAA
16354780 AAAATAAAATAAA
1 AAAATAAAATAAA
16354793 AAGAA-AAAATAAA
1 AA-AATAAAATAAA
16354806 AAAA
1 AAAA
16354810 ATGGAGAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 15 0.54
14 11 0.39
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:16354774 original size:19 final size:19
Alignment explanation
Indices: 16354747--16354810 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
16354737 TTCTATTTCA
*
16354747 AAAAAAAAAGGAAAAAAAT
1 AAAATAAAAGGAAAAAAAT
16354766 AAAATAAAAGGAAAAAAAT
1 AAAATAAAAGGAAAAAAAT
*
16354785 AAAATAAAAAG-AAAAAAT
1 AAAATAAAAGGAAAAAAAT
16354803 AAAA-AAAA
1 AAAATAAAA
16354811 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.09
18 11 0.26
19 28 0.65
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAATAAAAGGAAAAAAAT
Found at i:16355727 original size:44 final size:44
Alignment explanation
Indices: 16355667--16356381 Score: 625
Period size: 44 Copynumber: 16.3 Consensus size: 44
16355657 CAGAGAAACG
* *
16355667 AGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * **
16355711 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
16355756 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
*
16355799 AGATTTGGCATCCCTGTG-TTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * ** **
16355842 AGATCTGACA-CTCCTGTGCTTACAACGAAGCAGATCGAAGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
16355887 AG-TATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
16355930 ATATTTGGCATCACTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
16355974 AGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
16356019 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
16356062 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
16356106 AGATCTGACATTCCTGTGATTACAGCGAAGCAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
16356151 AG-TATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * *
16356194 AGATTTGGCATCACTGTGTTTATAGGGAACAAATCGAAGATAGA
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* ** * * ** **
16356238 AGATCTGACATTTCTATGCTTATAGCAAAGCAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
16356283 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAAC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * *
16356326 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
*
16356370 AGATCTAGCATC
1 AGATCTGGCATC
16356382 TCCATTTCGA
Statistics
Matches: 533, Mismatches: 107, Indels: 62
0.76 0.15 0.09
Matches are distributed among these distances:
42 6 0.01
43 98 0.18
44 352 0.66
45 77 0.14
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:16356019 original size:132 final size:132
Alignment explanation
Indices: 16355667--16356375 Score: 1204
Period size: 132 Copynumber: 5.4 Consensus size: 132
16355657 CAGAGAAACG
* * *
16355667 AGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
16355732 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
16355797 GC
131 GC
* *
16355799 AGATTTGGCATCCCTGTG-TTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* *
16355863 ACAACGAAGCAGATCGAAGATTTCAGTATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
16355928 GC
131 GC
* * *
16355930 ATATTTGGCATCACTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
16355995 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
16356060 GC
131 GC
*
16356062 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGATT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
16356127 ACAGCGAAGCAGATCGAAGATTTCAGTATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
16356192 GT
131 GC
* * * *
16356194 AGATTTGGCATCACTGTGTTTATAGGGAACAAATCGAAGATAGAAGATCTGACATTTCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* *
16356259 ATAGCAAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
16356324 AC
131 GC
* *
16356326 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGATAACAGATCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCT
16356376 AGCATCTCCA
Statistics
Matches: 546, Mismatches: 30, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
131 126 0.23
132 420 0.77
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:16356979 original size:19 final size:19
Alignment explanation
Indices: 16356955--16357033 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
16356945 AATCTTTAAG
*
16356955 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16356974 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16356993 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16357010 GATATGCAATCTTAAAGATAT
1 GATATGCAATCTT--AGATAT
16357031 GAT
1 GAT
16357034 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
21 9 0.16
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16356985 original size:36 final size:35
Alignment explanation
Indices: 16356945--16357032 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
16356935 ATGGAAATAT
16356945 AATCTTTAAGGATATGA-AATCTTAGATATGATATGC
1 AATC-TTAA-GATATGACAATCTTAGATATGATATGC
16356981 AATCTT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTAAGATATG--ACAATCTTAGATATGATATGC
16357017 AATCTTAAAGATATGA
1 AATCTT-AAGATATGA
16357033 TCTTGTAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 3 0.06
36 30 0.64
38 7 0.15
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (35 bp):
AATCTTAAGATATGACAATCTTAGATATGATATGC
Found at i:16357262 original size:14 final size:14
Alignment explanation
Indices: 16357243--16357273 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16357233 CTGTGGTTTG
16357243 TTCTTATTTTATTC
1 TTCTTATTTTATTC
16357257 TTCTTATTTTATTC
1 TTCTTATTTTATTC
16357271 TTC
1 TTC
16357274 GTCTATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTATTTTATTC
Found at i:16360869 original size:54 final size:54
Alignment explanation
Indices: 16360787--16360894 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
16360777 CACTTACTAT
16360787 TGAGCTTGAAAGCTTTGAAAAAACCCTAGCTATAGTGGACATACAAGGTTCGGC
1 TGAGCTTGAAAGCTTTGAAAAAACCCTAGCTATAGTGGACATACAAGGTTCGGC
*
16360841 TGAGCTTGAAAGCTTTGAAAAAACCCTAGCTATTGTGGACATACAAGGTTCGGC
1 TGAGCTTGAAAGCTTTGAAAAAACCCTAGCTATAGTGGACATACAAGGTTCGGC
16360895 CAAGGAAGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (54 bp):
TGAGCTTGAAAGCTTTGAAAAAACCCTAGCTATAGTGGACATACAAGGTTCGGC
Found at i:16364112 original size:43 final size:42
Alignment explanation
Indices: 16364056--16364185 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 42
16364046 TGCTCGTACA
* * *
16364056 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACATGTAATCACATATCG
** * *
16364098 ATGCCACTGTCCCAGACATGGTCTTACACATAATCTCA-ATGCA
1 ATGCCA-TGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
16364141 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAATCACATATCG
16364184 AT
1 AT
16364186 ATCCTAATGT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 8 0.11
43 62 0.86
44 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:16368804 original size:40 final size:41
Alignment explanation
Indices: 16368610--16368790 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 41
16368600 ATGATGTCTA
* * * *
16368610 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCT
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCCG
* * *
16368650 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
16368690 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
16368729 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
16368769 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
16368791 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
Found at i:16368812 original size:79 final size:79
Alignment explanation
Indices: 16368659--16368823 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
16368649 TGACTAAGAT
* **
16368659 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
16368724 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
16368738 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* * *
16368801 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
16368817 CCGAAGG
1 CCGAAGG
16368824 TATGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16369084 original size:47 final size:47
Alignment explanation
Indices: 16369015--16369182 Score: 246
Period size: 47 Copynumber: 3.6 Consensus size: 47
16369005 AAGGGTTGGT
16369015 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16369062 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
16369109 AATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
16369156 GATGTGAAAGTGCATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
16369183 TCCCGAAGGG
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:16369357 original size:37 final size:37
Alignment explanation
Indices: 16369301--16369379 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
16369291 CCGAGCTCTA
* *
16369301 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCAGGT
* *
16369338 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
16369375 AAGAC
1 AAGAC
16369380 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:16371251 original size:40 final size:40
Alignment explanation
Indices: 16371196--16371454 Score: 419
Period size: 40 Copynumber: 6.5 Consensus size: 40
16371186 GAGAATTGAG
*
16371196 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
16371236 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
16371276 AGTGATCTATCCGGGCTAAGTCCTGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
16371316 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
16371356 AGTGATATATCCGGGCTAAGTCCTGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
16371396 AGTGATGTATCCGGGCTAAGTTCCGAAGATCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
16371436 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
16371455 ACCTCGAAGA
Statistics
Matches: 204, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 204 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:16375354 original size:40 final size:40
Alignment explanation
Indices: 16375159--16375340 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
16375149 AATGATGTCT
* * * * *
16375159 GGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * *
16375199 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
16375239 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
16375278 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
16375318 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
16375341 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:16375362 original size:79 final size:79
Alignment explanation
Indices: 16375209--16375373 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
16375199 GGACTAAGAT
* **
16375209 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
16375274 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
16375288 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
16375351 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
16375367 CCGAAGG
1 CCGAAGG
16375374 TATGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:16375634 original size:47 final size:47
Alignment explanation
Indices: 16375565--16375873 Score: 492
Period size: 47 Copynumber: 6.6 Consensus size: 47
16375555 AAGTGTTGGT
*
16375565 AATGTGAAAGTGTATAGATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16375612 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16375659 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16375706 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16375753 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * ** * * *
16375800 AATGTGAAGGTGTATATATGTGACAGGGCGGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
16375847 GATGTGAAAGTGCATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
16375874 TCCCGAAGGG
Statistics
Matches: 243, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 243 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:16376035 original size:37 final size:37
Alignment explanation
Indices: 16375992--16376070 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
16375982 CCGAGCTCTA
* *
16375992 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGAGT
* *
16376029 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
16376066 AAGAC
1 AAGAC
16376071 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:16379691 original size:41 final size:43
Alignment explanation
Indices: 16379630--16379725 Score: 126
Period size: 41 Copynumber: 2.3 Consensus size: 43
16379620 ATGCTATCTC
16379630 ATATCGATGCCACTGTCCCAGACAGGGTCTTACAC-GAATCAA
1 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACAGAATCAA
* * * *
16379672 ATA-CGATGCCGA-TGTCCCAGACATGGTTTTACACATAATCAC
1 ATATCGATGCC-ACTGTCCCAGACAGGGTCTTACACAGAATCAA
16379714 ATATCGATGCCA
1 ATATCGATGCCA
16379726 ACGTCCGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 27 0.57
42 13 0.28
43 7 0.15
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATATCGATGCCACTGTCCCAGACAGGGTCTTACACAGAATCAA
Found at i:16383037 original size:42 final size:43
Alignment explanation
Indices: 16382944--16383141 Score: 183
Period size: 42 Copynumber: 4.7 Consensus size: 43
16382934 CAATGCTGAC
** * * **
16382944 GTCCCAGATGTGGTCTTACATGTAATTCA-ATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATA-CGATGCCGAT
* *
16382987 GTCCCAGACAGGGTCTTACACG-AAATCAGATACGATACCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCGAT
* *
16383029 GTCCCAGACATGGTCTTATACGTAAATCTCA-AT-CGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACGTAAA--TCAGATACGATGCC-GAT
* * *
16383072 GTCTCAGACACGATCTTACACG-AAATCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCGAT
* *
16383114 GTCTCAGACATGGTCTTATACGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
16383142 TCAATCAGGC
Statistics
Matches: 126, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 61 0.48
43 53 0.42
44 3 0.02
45 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCGAT
Found at i:16383089 original size:85 final size:85
Alignment explanation
Indices: 16382975--16383174 Score: 305
Period size: 85 Copynumber: 2.4 Consensus size: 85
16382965 GTAATTCAAT
* * * *
16382975 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATACGATACCGATGTCCCAGACAT
1 ATCGAGGCCTATGTCTCAGACACGGTCTTACACGAAATCAGATACGATACCGATGTCCCAGACAT
16383040 GGTCTTATACGTAAATCTCA
66 GGTCTTATACGTAAATCTCA
* * * *
16383060 ATCGAGGCCTGTGTCTCAGACACGATCTTACACGAAATCAGATACGATGCCGATGTCTCAGACAT
1 ATCGAGGCCTATGTCTCAGACACGGTCTTACACGAAATCAGATACGATACCGATGTCCCAGACAT
16383125 GGTCTTATACGTAAATCTCA
66 GGTCTTATACGTAAATCTCA
*
16383145 ATC-AGGCCTATTTCT-AGACACGGTCTTACA
1 ATCGAGGCCTATGTCTCAGACACGGTCTTACA
16383175 TGATATCTCA
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
83 14 0.13
84 10 0.10
85 81 0.77
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (85 bp):
ATCGAGGCCTATGTCTCAGACACGGTCTTACACGAAATCAGATACGATACCGATGTCCCAGACAT
GGTCTTATACGTAAATCTCA
Found at i:16390380 original size:41 final size:43
Alignment explanation
Indices: 16390316--16390421 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 43
16390306 ATGCTATCTC
* * * * *
16390316 ATATCGATGCCACTGTCCTAGACAGGGTCTTACATG-AATCAA
1 ATATCGATGCCAATCTCCCAGACAGGGTCTTAAACGTAATCAA
* * *
16390358 ATA-CGATGCCGATCTCCCAGACATGGTCTTAAACGTAATCAC
1 ATATCGATGCCAATCTCCCAGACAGGGTCTTAAACGTAATCAA
*
16390400 ATATCGATGCCAATGTCCCAGA
1 ATATCGATGCCAATCTCCCAGA
16390422 TGTGGTCTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 25 0.48
42 11 0.21
43 16 0.31
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATATCGATGCCAATCTCCCAGACAGGGTCTTAAACGTAATCAA
Found at i:16390419 original size:43 final size:43
Alignment explanation
Indices: 16390279--16390433 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 43
16390269 ATATCATACA
* * *
16390279 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-TAATCACATATCG
* * * *
16390322 ATGCCACTGTCCTAGACAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
16390363 ATGCCGATCTCCCAGACATGGTCTTAAACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
**
16390406 ATGCCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
16390434 CGAGAACACA
Statistics
Matches: 89, Mismatches: 20, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 25 0.28
42 14 0.16
43 50 0.56
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:16398443 original size:16 final size:18
Alignment explanation
Indices: 16398415--16398448 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16398405 TTAGAATTGG
16398415 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
16398432 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
16398449 GTTTAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:16407979 original size:15 final size:15
Alignment explanation
Indices: 16407961--16407989 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16407951 GTTTGATAAA
16407961 CTAAAAAATTAAGTC
1 CTAAAAAATTAAGTC
16407976 CTAAAAAATTAAGT
1 CTAAAAAATTAAGT
16407990 ATTGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
CTAAAAAATTAAGTC
Found at i:16409899 original size:111 final size:109
Alignment explanation
Indices: 16409749--16409950 Score: 291
Period size: 111 Copynumber: 1.8 Consensus size: 109
16409739 TTAATTTCAA
* * *
16409749 GTTTCCCTCTCTCTCTCTCTTTCTCTTTTTTTCTCACTTTCTTATTTCCTTTTGTCATCCCTTTT
1 GTTTCCCTCTCTCTCTCCCTTTCTCTTTTTTTCTCACTTTCTTATTTCCTTTTGCCATCCCCTTT
16409814 TTGCTAATT-CCCAAGCAAATTTCTTTTTAAATTTCGTTCTCTCAT
66 TT-CTAATTCCCCAAGCAAATTT-TTTTTAAATTTCGTTCTCTCAT
* * *
16409859 GTTTCCCTCTCTCTGTCTCCCTTTCTC-TTTTTTCTCACTTTTTTGTTTCCTTTTGCCTTCCCCT
1 GTTTCCCTCTCTC--TCTCCCTTTCTCTTTTTTTCTCACTTTCTTATTTCCTTTTGCCATCCCCT
*
16409923 TTTTCTATTTCCCCAAGCAAATTTTTTT
64 TTTTCTAATTCCCCAAGCAAATTTTTTT
16409951 CATTTTTGTT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
110 22 0.27
111 49 0.60
112 11 0.13
ACGTcount: A:0.10, C:0.30, G:0.05, T:0.55
Consensus pattern (109 bp):
GTTTCCCTCTCTCTCTCCCTTTCTCTTTTTTTCTCACTTTCTTATTTCCTTTTGCCATCCCCTTT
TTCTAATTCCCCAAGCAAATTTTTTTTAAATTTCGTTCTCTCAT
Found at i:16420054 original size:46 final size:46
Alignment explanation
Indices: 16420004--16420266 Score: 187
Period size: 46 Copynumber: 5.6 Consensus size: 46
16419994 ATCAGCTATA
* *
16420004 AGATGTGTCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTG
1 AGATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG
* * * *
16420050 AGATGAGAGCTAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG
1 AGATGAG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG
* * * **
16420096 AGATGTAAGCCAATGTAAGA-CATGCCTGGGACAT-GCATCGGC-TAAA
1 AGATG--AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TG
* * * * * *
16420142 AGATGTGTCAGCGTGAGACCATATCTAGGACATGGCATCGGCACTGG
1 AGATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTG
* * * *
16420189 TATATGAGAGTCAGTGTAAGATCATGTCTGTGACATGGCATCGAC-TTG
1 -AGAT--GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG
*
16420237 ACGTATGAGCCAGTGTAAGACCATGTCTGG
1 A-G-ATGAGTCAGTGTAAGACCATGTCTGG
16420267 AATATCACAT
Statistics
Matches: 169, Mismatches: 34, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
44 8 0.05
45 12 0.07
46 64 0.38
47 37 0.22
48 16 0.09
49 2 0.01
50 30 0.18
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG
Found at i:16428072 original size:23 final size:23
Alignment explanation
Indices: 16427988--16428088 Score: 85
Period size: 23 Copynumber: 4.2 Consensus size: 23
16427978 TAGCTCGTAT
*
16427988 GAGCTTACCGATATATCAGCTCAAAA
1 GAGCTTACCG-T-T-TCAGCTCAATA
** * * *
16428014 GAGCTTACTATTTTCAACTCATTG
1 GAGCTTAC-CGTTTCAGCTCAATA
* *
16428038 GAGTTTAACGTTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAATA
*
16428061 GAGCTTACCGTTTTAGCTCAATA
1 GAGCTTACCGTTTCAGCTCAATA
16428084 GAGCT
1 GAGCT
16428089 CATTGTTCAT
Statistics
Matches: 58, Mismatches: 16, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
23 35 0.60
24 13 0.22
25 1 0.02
26 9 0.16
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAATA
Found at i:16438778 original size:20 final size:18
Alignment explanation
Indices: 16438742--16438778 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
16438732 ACGACCTTCT
16438742 GTGTTTGTGTGATTGTTC
1 GTGTTTGTGTGATTGTTC
16438760 GTGTTTGGTGTGCATTGTT
1 GTGTTT-GTGTG-ATTGTT
16438779 GCATTTGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.05, C:0.05, G:0.35, T:0.54
Consensus pattern (18 bp):
GTGTTTGTGTGATTGTTC
Found at i:16440018 original size:91 final size:90
Alignment explanation
Indices: 16439882--16440149 Score: 283
Period size: 91 Copynumber: 3.0 Consensus size: 90
16439872 ACACACTAGA
* ** * * *
16439882 TGCACATAGTGCAAACCCATAGGCTAAATATT-TTTCCTCGATAACACGCCATATTGCTCATAAG
1 TGCACATAGTGCAAACCCGTAGGCTAAATATTCTCCCCT-GATAACATGCTAGATTGCTCATAAG
*
16439946 AGCTTTCACACTGATATCA-TGCTAAAC
65 AGCTTTCACACCGATATCACT-C-AAAC
* * *
16439973 -GCACATAGTGCAAAGCCTGTAGGCTAAATATTCTCCCCTGATAACATGTTAGATTGCTCATAAA
1 TGCACATAGTGCAAA-CCCGTAGGCTAAATATTCTCCCCTGATAACATGCTAGATTGCTCATAAG
* *
16440037 AGCTTTCTCACCGATATCACTCCAAC
65 AGCTTTCACACCGATATCACTCAAAC
* ** * *
16440063 TGCATATAACGCAAAACCCGTAGGCTAAATATTCTTCCCC-AATAACATGGTAGATTGCTCATAA
1 TGCACATAGTGC-AAACCCGTAGGCTAAATATTC-TCCCCTGATAACATGCTAGATTGCTCATAA
* *
16440127 GAGCTTTCCCACCGATAACACTC
64 GAGCTTTCACACCGATATCACTC
16440150 TAGAATCTTT
Statistics
Matches: 150, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
90 17 0.11
91 120 0.80
92 13 0.09
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (90 bp):
TGCACATAGTGCAAACCCGTAGGCTAAATATTCTCCCCTGATAACATGCTAGATTGCTCATAAGA
GCTTTCACACCGATATCACTCAAAC
Found at i:16442003 original size:23 final size:23
Alignment explanation
Indices: 16441973--16442021 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16441963 TGATTACGGC
*
16441973 TTAATTAAATTAACT-AATCATGT
1 TTAATTAAATTAA-TAAAACATGT
*
16441996 TTAATTAATTTAATAAAACATGT
1 TTAATTAAATTAATAAAACATGT
16442019 TTA
1 TTA
16442022 TCGATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAATTAAATTAATAAAACATGT
Found at i:16447984 original size:18 final size:18
Alignment explanation
Indices: 16447961--16448000 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16447951 GATTGGCCTT
* *
16447961 GCCTGTGTGGCCCATATG
1 GCCTGTATGGCCCATACG
16447979 GCCTGTATGGCCCATACG
1 GCCTGTATGGCCCATACG
16447997 GCCT
1 GCCT
16448001 TGCCTAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.25
Consensus pattern (18 bp):
GCCTGTATGGCCCATACG
Found at i:16452532 original size:16 final size:16
Alignment explanation
Indices: 16452511--16452545 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16452501 CTCACGTTCT
* *
16452511 TTTCTTTTTCTTTTTC
1 TTTCTTTCTCTTTTAC
16452527 TTTCTTTCTCTTTTAC
1 TTTCTTTCTCTTTTAC
16452543 TTT
1 TTT
16452546 TGTTTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTCTCTTTTAC
Found at i:16453669 original size:21 final size:21
Alignment explanation
Indices: 16453644--16453686 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16453634 GGTTACGTTT
*
16453644 ATGATGAGGAGGAACTTCTGG
1 ATGATGAGAAGGAACTTCTGG
*
16453665 ATGATGAGAAGGAAGTTCTGG
1 ATGATGAGAAGGAACTTCTGG
16453686 A
1 A
16453687 AGACTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.23
Consensus pattern (21 bp):
ATGATGAGAAGGAACTTCTGG
Found at i:16457356 original size:28 final size:28
Alignment explanation
Indices: 16457316--16457376 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
16457306 TAAGTGTAAT
* *
16457316 ATTAAACAAATTGTTTTAATAAAAATCC
1 ATTAAACAAATTGGTTCAATAAAAATCC
16457344 ATTAAACAAATTGGTTCAATAAAAATCC
1 ATTAAACAAATTGGTTCAATAAAAATCC
16457372 ATTAA
1 ATTAA
16457377 TTACATCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (28 bp):
ATTAAACAAATTGGTTCAATAAAAATCC
Found at i:16458514 original size:14 final size:13
Alignment explanation
Indices: 16458475--16458516 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
16458465 ATTATTATTT
16458475 AATTAAATAATTG
1 AATTAAATAATTG
16458488 AAGTTCAAA-AATTG
1 AA-TT-AAATAATTG
16458502 AATTAAATTAATTG
1 AATTAAA-TAATTG
16458516 A
1 A
16458517 TCATTGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 15 0.60
15 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (13 bp):
AATTAAATAATTG
Found at i:16467590 original size:11 final size:11
Alignment explanation
Indices: 16467574--16467601 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16467564 GTGCAGTATT
16467574 GAGACAGCGAA
1 GAGACAGCGAA
16467585 GAGACAGCGAA
1 GAGACAGCGAA
16467596 GAGACA
1 GAGACA
16467602 AGCATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.36, T:0.00
Consensus pattern (11 bp):
GAGACAGCGAA
Found at i:16474382 original size:55 final size:54
Alignment explanation
Indices: 16474303--16474407 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 54
16474293 TAATATGAGC
* *
16474303 GTGCGACACACCGTGCCCACCACCCATGGTCGAAACTGTAAAAATAACACGGGT
1 GTGCGACACACCATGCCCACCACCCATGGTCAAAACTGTAAAAATAACACGGGT
* *
16474357 GTGCGACACACCCATGCCCACCACCCGTGGTCAAAACTGTCAAAATAACAC
1 GTGCGACACA-CCATGCCCACCACCCATGGTCAAAACTGTAAAAATAACAC
16474408 AGGCGTGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 10 0.22
55 36 0.78
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.14
Consensus pattern (54 bp):
GTGCGACACACCATGCCCACCACCCATGGTCAAAACTGTAAAAATAACACGGGT
Found at i:16476575 original size:16 final size:17
Alignment explanation
Indices: 16476541--16476587 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
16476531 TTTGAAGACT
* *
16476541 TTTATTTATTTTTTTTA
1 TTTATTTATCTTTTATA
*
16476558 TTTTTTTA-CTTTTATA
1 TTTATTTATCTTTTATA
16476574 TTTATTTATCTTTT
1 TTTATTTATCTTTT
16476588 TAAATTACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTATCTTTTATA
Found at i:16476587 original size:24 final size:23
Alignment explanation
Indices: 16476545--16476589 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
16476535 AAGACTTTTA
* *
16476545 TTTATTTTTTTTATTTTTTTACT
1 TTTATTTTATTTATCTTTTTACT
16476568 TTTATATTTATTTATCTTTTTA
1 TTTAT-TTTATTTATCTTTTTA
16476590 AATTACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTATTTTATTTATCTTTTTACT
Found at i:16481913 original size:25 final size:25
Alignment explanation
Indices: 16481885--16481936 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
16481875 TTTGGAGCCA
16481885 TTTATATTGGTTAAAATGCTTCGTT
1 TTTATATTGGTTAAAATGCTTCGTT
*
16481910 TTTATATTGGTTAAAATGGTTCGTT
1 TTTATATTGGTTAAAATGCTTCGTT
16481935 TT
1 TT
16481937 AGCAGTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (25 bp):
TTTATATTGGTTAAAATGCTTCGTT
Found at i:16482071 original size:6 final size:6
Alignment explanation
Indices: 16482060--16482086 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16482050 AATATAATTT
16482060 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
16482087 TTTATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:16482310 original size:20 final size:21
Alignment explanation
Indices: 16482262--16482311 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
16482252 TGAATATTTA
* * *
16482262 TTTTTAAGATTTATTTAATCT
1 TTTTTAATATTTATTAAATAT
*
16482283 TATTTAATATTTA-TAAATAT
1 TTTTTAATATTTATTAAATAT
16482303 TTTTTAATA
1 TTTTTAATA
16482312 CACATATATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTAATATTTATTAAATAT
Found at i:16484134 original size:41 final size:41
Alignment explanation
Indices: 16484067--16484317 Score: 261
Period size: 41 Copynumber: 6.1 Consensus size: 41
16484057 GGAGATAGTG
* * * * *
16484067 TATCAGGCCTTGAGTCTAGTAGGCTTCGTGTCAGTGTGTTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* *
16484108 TATCAGGCTTTGTGCCTAGCAAGCTTCGTGCCAGTGTATTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* * * *
16484149 TATTAGGCTTTATGCCTAGCAAGCTTCGTGTC-GATATATTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAG-TGTATTA
* * ** * *
16484190 TATCAGGCTTTATGCCTAGTAGGCTTTATTTCGGTGTATTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
** * *
16484231 TATCAGGCTTTGTGCCTAGCAGGCTTTATGTCAATGTGTTA
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
* * * *
16484272 TATCAGGCTTTGAGCCTAGCAGGCTTCGTGCCAGTGTCTTG
1 TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
16484313 TATCA
1 TATCA
16484318 AGTAAGTTGT
Statistics
Matches: 177, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 175 0.99
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TATCAGGCTTTGTGCCTAGCAGGCTTCGTGTCAGTGTATTA
Found at i:16484317 original size:123 final size:123
Alignment explanation
Indices: 16484065--16484303 Score: 293
Period size: 123 Copynumber: 1.9 Consensus size: 123
16484055 TTGGAGATAG
* * *
16484065 TGTATCAGGCCTTGAGTCTAGTAGGCTTCGTGTCAGTGTGTTATATCAGGCTTTGTGCCTAGCAA
1 TGTATCAGGCCTTGAGCCTAGTAGGCTTCATGTCAGTGTATTATATCAGGCTTTGTGCCTAGCAA
* * * *
16484130 GCTTCGTGCCAGTGTATTATATTAGGCTTTATGCCTAGCAAGCTTCGTGTCGATATAT
66 GCTTCATGCCAATGTATTATATCAGGCTTTATGCCTAGCAAGCTTCGTGCCGATATAT
* * * * *
16484188 TATATCAGG-CTTTATGCCTAGTAGGCTTTATTTCGGTGTATTATATCAGGCTTTGTGCCTAGCA
1 TGTATCAGGCCTTGA-GCCTAGTAGGCTTCATGTCAGTGTATTATATCAGGCTTTGTGCCTAGCA
* * * * *
16484252 GGCTTTATGTCAATGTGTTATATCAGGCTTTGA-GCCTAGCAGGCTTCGTGCC
65 AGCTTCATGCCAATGTATTATATCAGGCTTT-ATGCCTAGCAAGCTTCGTGCC
16484304 AGTGTCTTGT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
122 4 0.04
123 92 0.95
124 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (123 bp):
TGTATCAGGCCTTGAGCCTAGTAGGCTTCATGTCAGTGTATTATATCAGGCTTTGTGCCTAGCAA
GCTTCATGCCAATGTATTATATCAGGCTTTATGCCTAGCAAGCTTCGTGCCGATATAT
Found at i:16486382 original size:174 final size:174
Alignment explanation
Indices: 16486091--16486418 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
16486081 AACTCAAGGT
** * *
16486091 ACTTACCTTTTTCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
16486156 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
16486221 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
*
16486265 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
16486330 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
16486395 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
16486419 TATACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
Found at i:16486410 original size:29 final size:29
Alignment explanation
Indices: 16486371--16486449 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
16486361 CTTAATAATC
** *
16486371 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATACAATTTA
* *
16486401 AACTCGCACACTTAGTGCTATACAATTTA
1 AACCCGCACACTTAGTGCCATACAATTTA
16486430 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
16486450 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 39 0.93
30 3 0.07
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACAATTTA
Found at i:16497842 original size:27 final size:26
Alignment explanation
Indices: 16497788--16497841 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16497778 CATACCATAA
16497788 TTACCTTTTTACTTAACAAATTTTTT
1 TTACCTTTTTACTTAACAAATTTTTT
16497814 TTACCTTTTTACTTAACAAATTTTTT
1 TTACCTTTTTACTTAACAAATTTTTT
16497840 TT
1 TT
16497842 TTCTTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (26 bp):
TTACCTTTTTACTTAACAAATTTTTT
Found at i:16512246 original size:14 final size:13
Alignment explanation
Indices: 16512226--16512257 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
16512216 AATATTTGAC
16512226 TTGTTCTTAATTA
1 TTGTTCTTAATTA
16512239 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
16512253 TTGTT
1 TTGTT
16512258 TTGATGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:16512693 original size:26 final size:26
Alignment explanation
Indices: 16512664--16512717 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16512654 TTTTTCTTTC
16512664 TATGCATTCTTAGTTAGTAATTAGTT
1 TATGCATTCTTAGTTAGTAATTAGTT
16512690 TATGCATTCTTAGTTAGTAATTAGTT
1 TATGCATTCTTAGTTAGTAATTAGTT
16512716 TA
1 TA
16512718 GACAACCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (26 bp):
TATGCATTCTTAGTTAGTAATTAGTT
Found at i:16513960 original size:46 final size:46
Alignment explanation
Indices: 16513896--16513989 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
16513886 GTTCGATTAT
* *
16513896 ATATTGGCACTTATTGTGCG-AGACCAAAATAGCTTCGGCTATATAA
1 ATATTAGCACTTAGTGTGCGTA-ACCAAAATAGCTTCGGCTATATAA
*** *
16513942 ATATTAGCACTTAGTGTGCGTAATTGAGATAGCTTCGGCTATATAA
1 ATATTAGCACTTAGTGTGCGTAACCAAAATAGCTTCGGCTATATAA
16513988 AT
1 AT
16513990 TGTAACACCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (46 bp):
ATATTAGCACTTAGTGTGCGTAACCAAAATAGCTTCGGCTATATAA
Found at i:16517204 original size:26 final size:26
Alignment explanation
Indices: 16517173--16517280 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
16517163 TGAAATGCCC
*
16517173 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16517199 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
* *
16517225 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16517251 ATCATGGAACATTTACATAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16517277 ATCA
1 ATCA
16517281 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16522206 original size:19 final size:19
Alignment explanation
Indices: 16522156--16522208 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
16522146 GCCCATTAAG
16522156 CCCCCCCCAAAAAAACCTAA
1 CCCCCCCC-AAAAAACCTAA
*****
16522176 CCCAAAAAAAAAAACCTAA
1 CCCCCCCCAAAAAACCTAA
16522195 CCCCCCCCAAAAAA
1 CCCCCCCCAAAAAA
16522209 ACCAAGAAAC
Statistics
Matches: 23, Mismatches: 10, Indels: 1
0.68 0.29 0.03
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.53, C:0.43, G:0.00, T:0.04
Consensus pattern (19 bp):
CCCCCCCCAAAAAACCTAA
Found at i:16525943 original size:26 final size:26
Alignment explanation
Indices: 16525912--16526019 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
16525902 TGAAATGCCC
16525912 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
16525938 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAAACCATT
* *
16525964 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
16525990 ATCATGGAACATTTACCT-AACCGATT
1 ATCATGGAACATTTACCTAAACC-ATT
16526016 ATCA
1 ATCA
16526020 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 3 0.04
26 71 0.96
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Done.