Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 94 of 141
Found at i:30590404 original size:22 final size:19
Alignment explanation
Indices: 30590379--30590420 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
30590369 TGATAATAAC
30590379 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
30590401 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
30590420 T
1 T
30590421 CAACTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:30590411 original size:16 final size:15
Alignment explanation
Indices: 30590379--30590417 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30590369 TGATAATAAC
30590379 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
30590395 TTATTATAATATATAT
1 TAATTATAAT-TATAT
30590411 TAATTAT
1 TAATTAT
30590418 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:30597591 original size:27 final size:27
Alignment explanation
Indices: 30597542--30597617 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
30597532 GGACTTACTT
* * *
30597542 GTGTTTAATGTCC-CAGCGAACTACCCT
1 GTGTTTAATGTCCTGA-CGGACTACCCC
*
30597569 GTGTTTAATGTCCTGATGGACTACCCC
1 GTGTTTAATGTCCTGACGGACTACCCC
*
30597596 GTGTTTAGTGTCCTGACGGACT
1 GTGTTTAATGTCCTGACGGACT
30597618 CCATTGGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
GTGTTTAATGTCCTGACGGACTACCCC
Found at i:30600032 original size:27 final size:27
Alignment explanation
Indices: 30599935--30600021 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
30599925 ATTCGTGGGC
*
30599935 AAATGACCGAAATACCCCCAAAGGGTA
1 AAATGACTGAAATACCCCCAAAGGGTA
*
30599962 AAATGACTGAAACACCCCCAAAGGGTA
1 AAATGACTGAAATACCCCCAAAGGGTA
* *
30599989 AAATGACTGAAATACCCTCACAGGGTA
1 AAATGACTGAAATACCCCCAAAGGGTA
30600016 AAATGA
1 AAATGA
30600022 TTGTTATACC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCAAAGGGTA
Found at i:30600417 original size:33 final size:33
Alignment explanation
Indices: 30600365--30600442 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
30600355 CGCATTATTG
* *
30600365 CACTGTACTTATTACTGTATTGGGCAAAGGCCCA
1 CACTGTAC-TGTTACTGTATAGGGCAAAGGCCCA
**
30600399 CACTGTACTGTTACTGTATAGGGCTCAGGCCCA
1 CACTGTACTGTTACTGTATAGGGCAAAGGCCCA
*
30600432 GACTGATACTG
1 CACTG-TACTG
30600443 CATGATTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 25 0.66
34 13 0.34
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (33 bp):
CACTGTACTGTTACTGTATAGGGCAAAGGCCCA
Found at i:30605399 original size:11 final size:11
Alignment explanation
Indices: 30605380--30605410 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
30605370 ATACATTTTC
30605380 ATTATTTATTA
1 ATTATTTATTA
*
30605391 ATTAATTATTA
1 ATTATTTATTA
30605402 ATTATTTAT
1 ATTATTTAT
30605411 ATTTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTATTTATTA
Found at i:30611438 original size:46 final size:46
Alignment explanation
Indices: 30611368--30611724 Score: 459
Period size: 46 Copynumber: 8.2 Consensus size: 46
30611358 TTTGAGTACT
* *
30611368 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
30611414 TCTGATGAAGTGACAAATTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
30611450 TCTGATCAAGAGACAAAGTTATAAGTGGTAGCTTTAGCTACAC-TA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
30611495 TTCTGATCAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTA
1 -TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
30611532 TATGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
30611578 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
30611624 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
30611670 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
30611716 TCTGATCAA
1 TCTGATCAA
30611725 CCCAACCGGC
Statistics
Matches: 272, Mismatches: 17, Indels: 44
0.82 0.05 0.13
Matches are distributed among these distances:
36 54 0.20
37 7 0.03
40 4 0.01
42 4 0.01
45 7 0.03
46 196 0.72
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:30611445 original size:36 final size:36
Alignment explanation
Indices: 30611404--30611558 Score: 148
Period size: 36 Copynumber: 4.0 Consensus size: 36
30611394 GGTAGCTTTA
* * *
30611404 GCTACACTTATCTGATGAAGTGACAAATTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
30611440 GCTACACTTATCTGATCAAGAGACAAAGTTATAAGTGGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAA---GT
* *
30611479 AGCTTTAGCTACACTATTCTGATCAAGTGACAAAGTGATAAGT
1 -GC--TA-C-AC-TTA-TCTGATCAAGAGACAAAGTGATAAGT
* *
30611522 ACTACACTTATATGATCAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
30611558 G
1 G
30611559 GTAGCTTTAG
Statistics
Matches: 97, Mismatches: 12, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
36 54 0.56
37 2 0.02
38 2 0.02
39 3 0.03
40 4 0.04
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 22 0.23
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:30611507 original size:82 final size:82
Alignment explanation
Indices: 30611368--30611696 Score: 480
Period size: 82 Copynumber: 3.9 Consensus size: 82
30611358 TTTGAGTACT
* * *
30611368 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATGAAGTGACAAATT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
30611433 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
30611450 TCTGATCAAGAGACAAAGTTATAAGTGGTAGCTTTAGCTACAC-TATTCTGATCAAGTGACAAAG
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA-TCTGATCAAGTGACAAAG
*
30611514 TGATAAGTACTACACTTA
65 TGATAAGTGCTACACTTA
*
30611532 TATGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
30611597 GATAAGTGTTAGCTTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* *
30611624 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
30611689 GATAAGTG
66 GATAAGTG
30611697 GTAGCCTTAG
Statistics
Matches: 224, Mismatches: 11, Indels: 24
0.86 0.04 0.09
Matches are distributed among these distances:
81 2 0.01
82 138 0.62
83 4 0.02
86 2 0.01
88 2 0.01
91 2 0.01
92 74 0.33
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:30619984 original size:28 final size:28
Alignment explanation
Indices: 30619933--30619986 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
30619923 CAGTAACAGT
*
30619933 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
* *
30619961 ACAGTGTGGGCCTAAGCTCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
30619987 TATCGGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.19
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:30620385 original size:32 final size:32
Alignment explanation
Indices: 30620203--30620468 Score: 209
Period size: 32 Copynumber: 8.4 Consensus size: 32
30620193 GAATGGCTAC
* * * *
30620203 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
30620234 AAGCCATCCGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * * *
30620266 CAA-CTATCAGTAATGGTAA-CTGATTGACACA
1 -AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
30620297 AAGCCATCAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
30620329 CAA-CCATTAATAACAGTGAA-ATGATCGGCACA
1 -AAGCCATCAGTAACGGT-AATATGATCGGCACA
* *
30620361 CAGCCATCGGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * * *
30620393 AAGCCATCACTACCGGTACTATGACCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
30620425 AAGCCATCAGTAACGGTACTATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
30620457 AAGCCATTAGTA
1 AAGCCATCAGTA
30620469 GCATCGCAGC
Statistics
Matches: 182, Mismatches: 45, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
30 2 0.01
31 32 0.18
32 143 0.79
33 5 0.03
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:30620449 original size:96 final size:95
Alignment explanation
Indices: 30620228--30620468 Score: 236
Period size: 96 Copynumber: 2.5 Consensus size: 95
30620218 TAATGTGATT
* * * * * * *
30620228 GGCACAAAGCCATCCGTAGCAGTGATATGATCGGCACACAACTATCAGTAATGGTAACTGATTGA
1 GGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAAATGATCGA
* * *
30620293 CACAAAGCCATCAGTAGCAGTGATATGATC
66 CACAAAGCCATCACTACCAGTGATATGACC
* * * * *
30620323 AGCACACAA-CCATTAATAACAGTGAAATGATCGGCACACAGCCATCGGTAACGGTAATATGATC
1 GGCACA-AAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAA-ATGATC
* *
30620387 GGCACAAAGCCATCACTACCGGT-ACTATGACC
64 GACACAAAGCCATCACTACCAGTGA-TATGACC
* * * *
30620419 GGCACAAAGCCATCAGTAACGGT-ACTATGATTGGCACAAAGCCATTAGTA
1 GGCACAAAGCCATCAGTAACAGTGA-TATGATCGGCACACAGCCATCAGTA
30620469 GCATCGCAGC
Statistics
Matches: 115, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
95 48 0.42
96 67 0.58
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (95 bp):
GGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAAATGATCGA
CACAAAGCCATCACTACCAGTGATATGACC
Found at i:30620746 original size:27 final size:27
Alignment explanation
Indices: 30620701--30621223 Score: 542
Period size: 27 Copynumber: 19.5 Consensus size: 27
30620691 GCAAAAAATA
*
30620701 GTCA-TTTACCC-ACCA-GGGCATTACA
1 GTCATTTTACCCTA-CAGGGGCATTACG
30620726 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * * * *
30620753 ACCATTTTATCCTACAAGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30620780 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
30620807 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
**
30620834 ACCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * * *
30620861 ACCATTTTATCCTACAGGGGTATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30620888 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
30620915 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30620942 ATCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
30620969 GTCATTTTACCTTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30620996 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30621023 GTCATTTTACCCTACAGAGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
**
30621050 GTCATTTTACCCTACAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
30621077 ATCATTTTACCCTACAGGGGTATTAAG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
30621104 GTTATTTTACCCTATA-GGGCTATTTCG
1 GTCATTTTACCCTACAGGGGC-ATTACG
* * * * **
30621131 AT-ATTCTACCTTAC-GAGGGTATTTTG
1 GTCATTTTACCCTACAG-GGGCATTACG
* *
30621157 GTCATTTTACCCTA-TGGAGGCATTTCG
1 GTCATTTTACCCTACAGG-GGCATTACG
* * *
30621184 ATCATTTTACCTCT-C-GAGGGTATTTCG
1 GTCATTTTACC-CTACAG-GGGCATTACG
30621211 GTCATTTTACCCT
1 GTCATTTTACCCT
30621224 TCGAGGGTAT
Statistics
Matches: 419, Mismatches: 67, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
25 4 0.01
26 30 0.07
27 382 0.91
28 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:30622812 original size:63 final size:64
Alignment explanation
Indices: 30622705--30622834 Score: 192
Period size: 63 Copynumber: 2.0 Consensus size: 64
30622695 ATAGAAATTG
* *
30622705 TGAAAATAGAGAAATGGGAAATATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATAGAGAAATGGGAAATATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
* * *
30622769 TGAAAATGGAGAAAT-GG-AATCATTTGGAAATGAATGTGATTTTCTCTAAAATGAAAATGAAAA
1 TGAAAATAGAGAAATGGGAAAT-ATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
30622832 TGA
1 TGA
30622835 CTTGGAAATG
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
62 3 0.05
63 43 0.72
64 14 0.23
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (64 bp):
TGAAAATAGAGAAATGGGAAATATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAA
Found at i:30643229 original size:19 final size:19
Alignment explanation
Indices: 30643199--30643236 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
30643189 AATATTTACA
30643199 ATTTTTTATT-AATTTGAT
1 ATTTTTTATTAAATTTGAT
30643217 ATTTTTTAGTTAAATTTGAT
1 ATTTTTTA-TTAAATTTGAT
30643237 TCTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 2 0.11
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
ATTTTTTATTAAATTTGAT
Found at i:30647101 original size:27 final size:27
Alignment explanation
Indices: 30647071--30647152 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
30647061 AATGTGTTTT
30647071 TATTGCATGTTATTAAGTTGTCTTAAA
1 TATTGCATGTTATTAAGTTGTCTTAAA
* * *
30647098 TATTACA-GCTTA-TAAATATGT-TT--T
1 TATTGCATG-TTATTAAGT-TGTCTTAAA
30647122 TATTGCATGTTATTAAGTTGTCTTAAA
1 TATTGCATGTTATTAAGTTGTCTTAAA
30647149 TATT
1 TATT
30647153 ACAGCTTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
24 12 0.29
25 7 0.17
26 7 0.17
27 16 0.38
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (27 bp):
TATTGCATGTTATTAAGTTGTCTTAAA
Found at i:30647134 original size:24 final size:23
Alignment explanation
Indices: 30647059--30647134 Score: 55
Period size: 24 Copynumber: 3.0 Consensus size: 23
30647049 TTATTCATGT
30647059 TAAATGTGTTTTTATTGCATGTTA
1 TAAAT-TGTTTTTATTGCATGTTA
* * *
30647083 TTAAGTTGTCTTAAATATTACA-GCTTA
1 -TAAATTGT-TT--TTATTGCATG-TTA
30647110 TAAATATGTTTTTATTGCATGTTA
1 TAAAT-TGTTTTTATTGCATGTTA
30647134 T
1 T
30647135 TAAGTTGTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
24 13 0.33
25 7 0.18
26 7 0.18
27 12 0.31
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (23 bp):
TAAATTGTTTTTATTGCATGTTA
Found at i:30647135 original size:51 final size:51
Alignment explanation
Indices: 30647059--30647173 Score: 221
Period size: 51 Copynumber: 2.3 Consensus size: 51
30647049 TTATTCATGT
*
30647059 TAAATGTGTTTTTATTGCATGTTATTAAGTTGTCTTAAATATTACAGCTTA
1 TAAATATGTTTTTATTGCATGTTATTAAGTTGTCTTAAATATTACAGCTTA
30647110 TAAATATGTTTTTATTGCATGTTATTAAGTTGTCTTAAATATTACAGCTTA
1 TAAATATGTTTTTATTGCATGTTATTAAGTTGTCTTAAATATTACAGCTTA
30647161 TAAATATGTTTTT
1 TAAATATGTTTTT
30647174 TTTAGTGCAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (51 bp):
TAAATATGTTTTTATTGCATGTTATTAAGTTGTCTTAAATATTACAGCTTA
Found at i:30647161 original size:27 final size:27
Alignment explanation
Indices: 30647080--30647161 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
30647070 TTATTGCATG
30647080 TTATTAAGTTGTCTTAAATATTACAGC
1 TTATTAAGTTGTCTTAAATATTACAGC
* * *
30647107 TTA-TAAATATGT-TT--TTATTGCATG-
1 TTATTAAGT-TGTCTTAAATATTACA-GC
30647131 TTATTAAGTTGTCTTAAATATTACAGC
1 TTATTAAGTTGTCTTAAATATTACAGC
30647158 TTAT
1 TTAT
30647162 AAATATGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
24 12 0.29
25 7 0.17
26 7 0.17
27 16 0.38
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (27 bp):
TTATTAAGTTGTCTTAAATATTACAGC
Found at i:30648102 original size:35 final size:35
Alignment explanation
Indices: 30648056--30648130 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
30648046 GGGGTGACAC
30648056 TTTTTAGTGTTGAATCGTTTCTGGAGTTAAGTCTA
1 TTTTTAGTGTTGAATCGTTTCTGGAGTTAAGTCTA
30648091 TTTTTAGTGTTGAATCGTTTCTGGAGTTAAGTCTA
1 TTTTTAGTGTTGAATCGTTTCTGGAGTTAAGTCTA
30648126 TTTTT
1 TTTTT
30648131 CCATTACCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.19, C:0.08, G:0.21, T:0.52
Consensus pattern (35 bp):
TTTTTAGTGTTGAATCGTTTCTGGAGTTAAGTCTA
Found at i:30648789 original size:20 final size:20
Alignment explanation
Indices: 30648760--30648807 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
30648750 GAACCACTCT
30648760 ATTT-CTTACTTATCATTCC
1 ATTTACTTACTTATCATTCC
* * *
30648779 GTTTACTTACTTTTCATTTC
1 ATTTACTTACTTATCATTCC
30648799 ATTTACTTA
1 ATTTACTTA
30648808 GCATAAGCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTACTTACTTATCATTCC
Found at i:30662869 original size:20 final size:21
Alignment explanation
Indices: 30662821--30662873 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
30662811 TTTTCAGGTG
30662821 GTATCGATACCACTTAAAGGAA
1 GTATCGATACCAC-TAAAGGAA
* * *
30662843 ATATCGATACCA-TAGAGGCA
1 GTATCGATACCACTAAAGGAA
30662863 GTATCGATACC
1 GTATCGATACC
30662874 TACGTAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (21 bp):
GTATCGATACCACTAAAGGAA
Found at i:30662956 original size:12 final size:12
Alignment explanation
Indices: 30662941--30662965 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30662931 TTTATGTTTG
30662941 TTTGTCGTATGT
1 TTTGTCGTATGT
30662953 TTTGTCGTATGT
1 TTTGTCGTATGT
30662965 T
1 T
30662966 AGTATAATTA
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:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTGTCGTATGT
Found at i:30680651 original size:20 final size:20
Alignment explanation
Indices: 30680628--30680688 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
30680618 TAAGTAAATT
30680628 GAAAGATGTATAATCTTATA
1 GAAAGATGTATAATCTTATA
* *
30680648 GAAAGGT-TGATAA----ATT
1 GAAAGATGT-ATAATCTTATA
30680664 GAAAGATGTATAATCTTATA
1 GAAAGATGTATAATCTTATA
30680684 GAAAG
1 GAAAG
30680689 GTTGATGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
19 1 0.03
20 17 0.55
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (20 bp):
GAAAGATGTATAATCTTATA
Found at i:30680663 original size:36 final size:36
Alignment explanation
Indices: 30680622--30680694 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
30680612 GGAAAATAAG
30680622 TAAATTGAAAGATGTATAATCTTATAGAAAGGTTGA
1 TAAATTGAAAGATGTATAATCTTATAGAAAGGTTGA
30680658 TAAATTGAAAGATGTATAATCTTATAGAAAGGTTGA
1 TAAATTGAAAGATGTATAATCTTATAGAAAGGTTGA
30680694 T
1 T
30680695 GGTTATACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (36 bp):
TAAATTGAAAGATGTATAATCTTATAGAAAGGTTGA
Found at i:30684554 original size:24 final size:24
Alignment explanation
Indices: 30684515--30684610 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
30684505 GACAAGTTGC
*
30684515 ACGTTATGTCCGAGCCACTCAATA
1 ACGTTATGTCCAAGCCACTCAATA
*
30684539 ACGTTATGCCCAAGCCACTCAATA
1 ACGTTATGTCCAAGCCACTCAATA
* * * *
30684563 GCATTGTGTTCAAGCCACTCAATA
1 ACGTTATGTCCAAGCCACTCAATA
* * *
30684587 ATG-TATTGGCCAAGCCATTCAATA
1 ACGTTA-TGTCCAAGCCACTCAATA
30684611 TCGCAGACAA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 1 0.02
24 56 0.98
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (24 bp):
ACGTTATGTCCAAGCCACTCAATA
Found at i:30700528 original size:16 final size:16
Alignment explanation
Indices: 30700507--30700541 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30700497 ACGATAACAT
*
30700507 GTTTATAGGCGGTCAA
1 GTTTATAGGAGGTCAA
30700523 GTTTATAGGAGGTCAA
1 GTTTATAGGAGGTCAA
30700539 GTT
1 GTT
30700542 CTTGGCACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.31, T:0.34
Consensus pattern (16 bp):
GTTTATAGGAGGTCAA
Found at i:30700719 original size:14 final size:14
Alignment explanation
Indices: 30700700--30700726 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30700690 TAGTTAAGTA
30700700 AATATTTTTATTTT
1 AATATTTTTATTTT
30700714 AATATTTTTATTT
1 AATATTTTTATTT
30700727 ACCTTCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATATTTTTATTTT
Found at i:30709097 original size:8 final size:8
Alignment explanation
Indices: 30709086--30709113 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
30709076 AAAATAATAA
30709086 AATTATAG
1 AATTATAG
30709094 AATTATAG
1 AATTATAG
30709102 AATTATAG
1 AATTATAG
30709110 AATT
1 AATT
30709114 TACCCCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (8 bp):
AATTATAG
Found at i:30710715 original size:36 final size:36
Alignment explanation
Indices: 30710667--30711129 Score: 361
Period size: 36 Copynumber: 12.7 Consensus size: 36
30710657 TAGTCAAAAC
*
30710667 CAACCTTTAAAAAAGGTTAGGATAGACTCGTCTAAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACTCGTCTAAGG
* *
30710704 TAACCTT-AAAAAGGTTGGGATAGACCTTGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGG
* * * * * *
30710740 AAATCAT-AAAAAGGTTGGTATAGTCCTTGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAG-ACTCGTCTAAGG
* * *
30710776 TAACTTTTAAAAACGGTTGGGATAGAGC-CGTCTAAGG
1 CAAC-CTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGG
* * * * *
30710813 CAA-GTTTAAAAAGGTTGGAATAGACCTTGTCTAAGA
1 CAACCTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGG
* *
30710849 CAACCTATAAAAAAAGGCTGGGATAGAC-CTATCTAAGG
1 CAACCT-T-AAAAAAGGTTGGGATAGACTC-GTCTAAGG
*
30710887 CAACCTTAAACAA-GTTGGGATAGAC-CATGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACTC--GTCTAAGG
* * *
30710923 CAACCTTTAAAAAGGTTGGAATAGACTCGTTTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGACTCGTCTAAGG
*
30710959 CAACCTT-AAAAAGGTTGGGATAGACCTTGTCTAAGG
1 CAACCTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGG
** * * * * *
30710995 CAAATTTTAGAAAAGGTTGGGATAGACCCATTTAAAG
1 C-AACCTTAAAAAAGGTTGGGATAGACTCGTCTAAGG
* * *
30711032 CAACCTT-AAAAAGGTTGGGATAAATCTTGTCCAAGG
1 CAACCTTAAAAAAGGTTGGGATAGA-CTCGTCTAAGG
* * * *
30711068 AAACCTTTAAAAGAGGTTGGGATAAACCCGTCTAAGG
1 CAACC-TTAAAAAAGGTTGGGATAGACTCGTCTAAGG
* *
30711105 TAACCTT-AAAAAGATTGGGATAGAC
1 CAACCTTAAAAAAGGTTGGGATAGAC
30711130 ACGTATAATG
Statistics
Matches: 339, Mismatches: 68, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
35 92 0.27
36 117 0.35
37 53 0.16
38 62 0.18
39 15 0.04
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (36 bp):
CAACCTTAAAAAAGGTTGGGATAGACTCGTCTAAGG
Found at i:30710823 original size:73 final size:71
Alignment explanation
Indices: 30710667--30711129 Score: 464
Period size: 73 Copynumber: 6.4 Consensus size: 71
30710657 TAGTCAAAAC
* * * *
30710667 CAACCTTTAAAAAAGGTTAGGATAGA-CTCGTCTAAGGTAAC-CTTAAAAAGGTTGGGATAGACC
1 CAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAGGTTGGGATAGACC
30710730 TTGTCTAAGG
64 --GTCTAAGG
* * * * * *
30710740 AAATCATAAAAAGGTTGGTATAGTCCTTGTCTAAGGTAACTTTTAAAAACGGTTGGGATAGAGCC
1 CAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAA-GGTTGGGATAGA-CC
30710805 GTCTAAGG
64 GTCTAAGG
** * * ** *
30710813 CAAGTTTAAAAAGGTTGGAATAGACCTTGTCTAAGACAACCTATAAAAAAAGGCTGGGATAGACC
1 CAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAA-CT-TTTAAAAAGGTTGGGATAGACC
*
30710878 TATCTAAGG
64 -GTCTAAGG
* * *
30710887 CAACCTTAAACAA-GTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAGGTTGGAATAGACTC
1 CAACCTTAAA-AAGGTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAGGTTGGGATAGAC-C
*
30710951 GTTTAAGG
64 GTCTAAGG
*
30710959 CAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAAATTTTAGAAAAGGTTGGGATAGACCC
1 CAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACTTTTA-AAAAGGTTGGGATAGA-CC
* * *
30711024 ATTTAAAG
64 GTCTAAGG
* * * * * *
30711032 CAACCTTAAAAAGGTTGGGATAAATCTTGTCCAAGGAAACCTTTAAAAGAGGTTGGGATAAACCC
1 CAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAA-AGGTTGGGATAGA-CC
30711097 GTCTAAGG
64 GTCTAAGG
* *
30711105 TAACCTTAAAAAGATTGGGATAGAC
1 CAACCTTAAAAAGGTTGGGATAGAC
30711130 ACGTATAATG
Statistics
Matches: 325, Mismatches: 52, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
71 16 0.05
72 80 0.25
73 155 0.48
74 64 0.20
75 10 0.03
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (71 bp):
CAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAGGTTGGGATAGACCGT
CTAAGG
Found at i:30711047 original size:219 final size:218
Alignment explanation
Indices: 30710696--30711129 Score: 543
Period size: 219 Copynumber: 2.0 Consensus size: 218
30710686 GGATAGACTC
* * * * *
30710696 GTCTAAGGTAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGGAAATCATAAAAAGGTTGGTAT
1 GTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCTCGTCTAAGGAAACCATAAAAAGGTTGGGAT
* * * * * * **
30710761 AGTCCTTGTCTAAGGTAACTTTTAAAAACGGTTGGGATAGAGCCGTCTAAGGCAAGTTTAAAAAG
66 AGACCTTGTCTAAGGCAAATTTTAAAAACGGTTGGGATAGACCCATCTAAAGCAACCTTAAAAAG
* * * *
30710826 GTTGGAATAGACCTTGTCTAA-GACAACCTATAAAAAAAGGCTGGGATAGACCTATCTAAGGCAA
131 GTTGGAATAAACCTTGTCCAAGGA-AACCT-TAAAAAAAGGCTGGGATAAACCCATCTAAGGCAA
30710890 CCTTAAACAAG-TTGGGATAGACCAT
194 CCTTAAA-AAGATTGGGATAGACCAT
* * *
30710915 GTCTAAGGCAACCTTTAAAAAGGTTGGAATAGA-CTCGTTTAAGGCAACCTTAAAAAGGTTGGGA
1 GTCTAAGGCAACC-TTAAAAAGGTTGGAATAGACCTCGTCTAAGGAAACCATAAAAAGGTTGGGA
*
30710979 TAGACCTTGTCTAAGGCAAATTTTAGAAAA-GGTTGGGATAGACCCATTTAAAGCAACCTTAAAA
65 TAGACCTTGTCTAAGGCAAATTTTA-AAAACGGTTGGGATAGACCCATCTAAAGCAACCTTAAAA
* * * * * * *
30711043 AGGTTGGGATAAATCTTGTCCAAGGAAACCTTTAAAAGAGGTTGGGATAAACCCGTCTAAGGTAA
129 AGGTTGGAATAAACCTTGTCCAAGGAAACCTTAAAAAAAGGCTGGGATAAACCCATCTAAGGCAA
30711108 CCTTAAAAAGATTGGGATAGAC
194 CCTTAAAAAGATTGGGATAGAC
30711130 ACGTATAATG
Statistics
Matches: 183, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
217 3 0.02
218 45 0.25
219 111 0.61
220 24 0.13
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (218 bp):
GTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCTCGTCTAAGGAAACCATAAAAAGGTTGGGAT
AGACCTTGTCTAAGGCAAATTTTAAAAACGGTTGGGATAGACCCATCTAAAGCAACCTTAAAAAG
GTTGGAATAAACCTTGTCCAAGGAAACCTTAAAAAAAGGCTGGGATAAACCCATCTAAGGCAACC
TTAAAAAGATTGGGATAGACCAT
Found at i:30711268 original size:6 final size:7
Alignment explanation
Indices: 30711237--30711275 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
30711227 TACAACTAAA
30711237 AAAATAT
1 AAAATAT
30711244 AAAATAT
1 AAAATAT
30711251 AAAATAT
1 AAAATAT
30711258 AAAAT-T
1 AAAATAT
30711264 AAAAT-T
1 AAAATAT
30711270 AAAATA
1 AAAATA
30711276 AAGATTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATAT
Found at i:30716357 original size:27 final size:27
Alignment explanation
Indices: 30716327--30716538 Score: 201
Period size: 27 Copynumber: 7.8 Consensus size: 27
30716317 TGCGATTCGT
* * *
30716327 GGGTAAAATGAGTGAACTACCCCCGAA
1 GGGTAAAATGATTGAAATACCCTCGAA
**
30716354 GGGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGATTGAAATACCCTCGAA
* *
30716381 GGGTAAAATGATTGAAATACCCCCAAA
1 GGGTAAAATGATTGAAATACCCTCGAA
* * **
30716408 GGGTAAAATGATCGAAATACCCTGGTT
1 GGGTAAAATGATTGAAATACCCTCGAA
* *
30716435 GAGTAAAATGATTGAAATAACCTCGAA
1 GGGTAAAATGATTGAAATACCCTCGAA
* * **
30716462 GGGTAAAATGATCGGAATA-CCTCCGGTT
1 GGGTAAAATGATTGAAATACCCT-C-GAA
* **
30716490 GAGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGATTGAAATACCCTCGAA
* *
30716517 GGGTAAAATAACTGAAATACCC
1 GGGTAAAATGATTGAAATACCC
30716539 CCATAAGGTA
Statistics
Matches: 149, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.02
27 125 0.84
28 18 0.12
29 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGTAAAATGATTGAAATACCCTCGAA
Found at i:30716391 original size:54 final size:54
Alignment explanation
Indices: 30716329--30716538 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
30716319 CGATTCGTGG
* * ** *
30716329 GTAAAATGAGTGAACTACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGG
1 GTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGTTGA
* * *
30716383 GTAAAATGATTGAAATACCCCCAAAGGGTAAAATGATCGAAATACCCTGGTTGA
1 GTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGTTGA
* * * *
30716437 GTAAAATGATTGAAATAACCTCGAAGGGTAAAATGATCGGAATA-CCTCCGGTTGA
1 GTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCT-C-GTTGA
** * * *
30716492 GTAAAATGACCGAAATACCCTCGAAGGGTAAAATAACTGAAATACCC
1 GTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAAATACCC
30716539 CCATAAGGTA
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 3 0.02
54 86 0.65
55 42 0.32
56 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (54 bp):
GTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGTTGA
Found at i:30716548 original size:27 final size:26
Alignment explanation
Indices: 30716328--30716566 Score: 113
Period size: 27 Copynumber: 8.8 Consensus size: 26
30716318 GCGATTCGTG
* * *
30716328 GGTAAAATGAGTGAACTACCCCCGAAG
1 GGTAAAATGACTGAAATACCCCC-AAA
* * *
30716355 GGTAAAATGACCGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCC-CCAAA
*
30716382 GGTAAAATGATTGAAATACCCCCAAA
1 GGTAAAATGACTGAAATACCCCCAAA
*****
30716408 GGGTAAAATGA-TCGAAATACCCTGGTT
1 -GGTAAAATGACT-GAAATACCCCCAAA
* * * *
30716435 GAGTAAAATGATTGAAATAACCTCGAAG
1 G-GTAAAATGACTGAAAT-ACCCCCAAA
* ****
30716463 GGTAAAATGA-TCGGAATACCTCCGGTT
1 GGTAAAATGACT-GAAATACC-CCCAAA
* * *
30716490 GAGTAAAATGACCGAAATACCCTCGAAG
1 G-GTAAAATGACTGAAATACCC-CCAAA
*
30716518 GGTAAAATAACTGAAATACCCCCATAA
1 GGTAAAATGACTGAAATACCCCCA-AA
* **
30716545 GGTAGAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCC
30716567 TAGGAAATGA
Statistics
Matches: 164, Mismatches: 36, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
26 11 0.07
27 127 0.77
28 26 0.16
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACTGAAATACCCCCAAA
Found at i:30716785 original size:26 final size:26
Alignment explanation
Indices: 30716754--30716827 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
30716744 ACATATACTG
* *
30716754 TTACTGGAAGCTTTGTTGCGATTCTA
1 TTACTGGCAGCTTTGCTGCGATTCTA
* *
30716780 TTACTGGCAGCTTCGCTACGATTCTA
1 TTACTGGCAGCTTTGCTGCGATTCTA
30716806 TTACTGGCAGCTTTGCTGCGAT
1 TTACTGGCAGCTTTGCTGCGAT
30716828 ATTGGTGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGATTCTA
Found at i:30723812 original size:27 final size:27
Alignment explanation
Indices: 30723774--30723956 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
30723764 TGCTATTCGT
*
30723774 GGGTAAAATGACTGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
30723801 GGGTAAAATGACCGAAATACCTTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
30723828 AGGTAAAATGACCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
30723855 GGATAAAATGACCAAAATA-CCTCCGAA
1 GGGTAAAATGACCGAAATACCCT-CGAA
** *
30723882 GGGTAAAATGATTGAAATACCC-CTATA
1 GGGTAAAATGACCGAAATACCCTCGA-A
* *
30723909 GGGTAAAATGAACGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
**
30723936 GGGTAAAATGACTAAAATACC
1 GGGTAAAATGACCGAAATACC
30723957 ACCATAAGGT
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.04
27 125 0.93
28 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCGAA
Found at i:30723839 original size:54 final size:54
Alignment explanation
Indices: 30723774--30723956 Score: 260
Period size: 54 Copynumber: 3.4 Consensus size: 54
30723764 TGCTATTCGT
*
30723774 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTTCGAA
1 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTCCGAA
* * * *
30723828 AGGTAAAATGACCGAAATACCCTCGAAGGATAAAATGACCAAAATACCTCCGAA
1 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTCCGAA
* * * *
30723882 GGGTAAAATGATTGAAATACCC-CTATAGGGTAAAATGAACGAAATACCCCCGAA
1 GGGTAAAATGACTGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCTCCGAA
*
30723936 GGGTAAAATGACTAAAATACC
1 GGGTAAAATGACTGAAATACC
30723957 ACCATAAGGT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 111 0.98
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (54 bp):
GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCTCCGAA
Found at i:30723974 original size:81 final size:81
Alignment explanation
Indices: 30723777--30723987 Score: 230
Period size: 81 Copynumber: 2.6 Consensus size: 81
30723767 TATTCGTGGG
** * ** * * * *
30723777 TAAAATGACTGAAATACC-CTCGAAGGGTAAAATGACCGAAATACCTTCGA-AAGGTAAAATGAC
1 TAAAATGACCAAAATACCAC-CGAAAGGTAAAATGATTGAAATACC-CCTATAGGGTAAAATGAA
*
30723840 CGAAATACCCTCGAAGGA
64 CGAAATACCCCCGAAGGA
* *
30723858 TAAAATGACCAAAATACCTCCGAAGGGTAAAATGATTGAAATACCCCTATAGGGTAAAATGAACG
1 TAAAATGACCAAAATACCACCGAAAGGTAAAATGATTGAAATACCCCTATAGGGTAAAATGAACG
*
30723923 AAATACCCCCGAAGGG
66 AAATACCCCCGAAGGA
* **
30723939 TAAAATGACTAAAATACCACC-ATAAGGTAAAATGATTGTTATACCCCTA
1 TAAAATGACCAAAATACCACCGA-AAGGTAAAATGATTGAAATACCCCTA
30723988 GGAGATGAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.03
81 108 0.96
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (81 bp):
TAAAATGACCAAAATACCACCGAAAGGTAAAATGATTGAAATACCCCTATAGGGTAAAATGAACG
AAATACCCCCGAAGGA
Found at i:30726213 original size:140 final size:140
Alignment explanation
Indices: 30725988--30726788 Score: 898
Period size: 140 Copynumber: 5.8 Consensus size: 140
30725978 TAAAACTGAG
* **
30725988 TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAAC-CTTTATGCAAAGAGTTGGCCAAAGCA
1 TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTC-TTATACAAAGAGTTGGCCAAAGTG
* * * * *
30726052 TATGTC-AGCAATTTTATCCCAACATTTAGGAAAGTGTTGGCCCAAAAGTGTCGGCATAGTGTTG
65 TATATCGA-CAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGTCGGCATAGTGTTG
** *
30726116 GACAAAGTTGAA
129 GACAAAGCCGAC
* * * * * **
30726128 TCTTATTTAAGTATTGCCTTAGGCATGTATATACCAATTTTTATACAAAGAGTTGGCCAAAACGT
1 TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGT
** * *
30726193 ATGCCGACAAGTCTATCCCAACAC-----------TTAG--C-AAAGTGTCGGCATGGTGTTGAA
66 ATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGTCGGCATAGTGTTGGA
*
30726244 CAAAGCAGAC
131 CAAAGCCGAC
* * * * *
30726254 TCTGAATTAAGCATTGTCTCAGGCATGCATATCCCAACTCTTATACAAAGGGTTGGCCAAAGTGT
1 TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGT
* * *
30726319 ATATCAACAAGTCTATCCCAACACTTAGGAAACTGTTAGCCCAAAAGTGTAGGCATAGTGTTGGA
66 ATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGTCGGCATAGTGTTGGA
* *
30726384 CAAAGTCGGC
131 CAAAGCCGAC
* ** * *
30726394 TCTTATTTCAGTGTTGCCTTAGGCATGCATATCCCAACTCTTATATAAAAAGTTGGCCAAAGTGT
1 TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGT
* *
30726459 ATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTAAGCCCAAAAATGTCGGCATAGTGTTGGA
66 ATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGTCGGCATAGTGTTGGA
30726524 CAAAGCCGAC
131 CAAAGCCGAC
* * * * *
30726534 TCTTATTTAAG-AGTTGCCTTAGGCATGCATATCCCAAATCCTATATAGAGAATTGGCCAAAGTG
1 TCTTATTTAAGCA-TTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTG
** * * * * * *
30726598 TATATCGGGAAGTCTATCCTAACACTTTGGAAAGTGTTGGCCTAAAAGTTTTGGCATAGTGTTGG
65 TATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGTCGGCATAGTGTTGG
30726663 ACAAAGCCGAC
130 ACAAAGCCGAC
** *
30726674 TAATATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTAGCCAAAGTGT
1 TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGT
* * * * * *
30726739 ATGTCGACATGTCTATCCCAACACTTAGAAAAGTGTCACCCCAAATGTGT
66 ATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGT
30726789 TGCAGTAGGT
Statistics
Matches: 549, Mismatches: 94, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
126 101 0.18
127 1 0.00
129 3 0.01
137 4 0.01
139 1 0.00
140 437 0.80
141 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (140 bp):
TCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGT
ATATCGACAAGTCTATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTGTCGGCATAGTGTTGGA
CAAAGCCGAC
Found at i:30733835 original size:128 final size:129
Alignment explanation
Indices: 30733579--30733980 Score: 502
Period size: 129 Copynumber: 3.1 Consensus size: 129
30733569 AAAAACAAAT
* * * * * *
30733579 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCCTTTATATTTTAACTAGAATTAATAAATAT
1 TATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATAT
* * * *
30733644 AATTATTTATATTAGTAAA-TCTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
66 AACTACTTATATTAATAAATTC-GGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
* **
30733708 TATATTATTTCCAAAAGAATATTAATTCCCACATCTTTTATATTTTGACCAAAATTAATTAATAT
1 TATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATAT
*
30733773 AACTACTT-TATTAATAAATTCGGTAAAATATATACAATGAATATTTTGTATGAATCAAATTCAT
66 AACTACTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC--
30733837 A
129 A
* * * * *
30733838 TATTAGTTATATTCGTTCCAAAAGAATTTTAATTTTCATGTCTTATATATTTTGATCGAAATTAA
1 TA-TA--T-TA-T--TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAA
* * *
30733903 TTAACATAACTTCTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCA
59 TTAATATAACTACTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCA
30733968 AATTCA
124 AATTCA
30733974 TATATTA
1 TATATTA
30733981 ATTATATTCT
Statistics
Matches: 236, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
128 48 0.20
129 64 0.27
130 3 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 2 0.01
135 3 0.01
136 3 0.01
137 55 0.23
138 52 0.22
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (129 bp):
TATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATAT
AACTACTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
Found at i:30733870 original size:137 final size:138
Alignment explanation
Indices: 30733716--30733989 Score: 424
Period size: 138 Copynumber: 2.0 Consensus size: 138
30733706 CATATATTAT
* *
30733716 TTCCAAAAGAATATTAATTCCCACATCTTTTATATTTTGACCAAAATTAATTAATATAACTACTT
1 TTCCAAAAGAATATTAATTCCCACATCTTATATATTTTGACCAAAATTAATTAACATAACTACTT
* *
30733781 -TATTAATAAATTCGGTAAAATATATACAATGAATATTTTGTATGAATCAAATTCATATATTAGT
66 ATATTAATAAATTCGATAAAATATATACAATGAATATTTTGTATGAATCAAATTCATATATTAAT
30733845 TATATTCG
131 TATATTCG
* ** ** * * *
30733853 TTCCAAAAGAATTTTAATTTTCATGTCTTATATATTTTGATCGAAATTAATTAACATAACTTCTT
1 TTCCAAAAGAATATTAATTCCCACATCTTATATATTTTGACCAAAATTAATTAACATAACTACTT
*
30733918 ATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAAT
66 ATATTAATAAATTCGATAAAATATATACAATGAATATTTTGTATGAATCAAATTCATATATTAAT
30733983 TATATTC
131 TATATTC
30733990 TTTTTAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 55 0.45
138 68 0.55
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (138 bp):
TTCCAAAAGAATATTAATTCCCACATCTTATATATTTTGACCAAAATTAATTAACATAACTACTT
ATATTAATAAATTCGATAAAATATATACAATGAATATTTTGTATGAATCAAATTCATATATTAAT
TATATTCG
Found at i:30736754 original size:234 final size:234
Alignment explanation
Indices: 30736345--30736818 Score: 894
Period size: 234 Copynumber: 2.0 Consensus size: 234
30736335 CCATATGAAA
*
30736345 ATCCTACAATGAGAAAACTTATTTTTAGTGGCAAGAGGTCAGGACAGTCGAGTGGTGAAATAGGG
1 ATCCTACAATGAGAAAACTTATTTTTAGTGGCAAGAGGTCAGGACAGCCGAGTGGTGAAATAGGG
*
30736410 GAGACTTTAACTAATAAATTGTACTAATTGGCTCAACCGAAAATTCTAAAAAACTTATGGTAAGA
66 GAGACTTTAACTAATAAATTGTACTAATTGGCTAAACCGAAAATTCTAAAAAACTTATGGTAAGA
*
30736475 TGATATATAAGCCTAGTTTCAGGGAAAATTTACTGATTTAAATTTTGAATTCTGTAGCTCGAGTT
131 TGATATATAAGCCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAATTCTGTAGCTCGAGTT
30736540 ATAAATGATTTAGTGACTGCTGCGCGAGTGGACAGCTTT
196 ATAAATGATTTAGTGACTGCTGCGCGAGTGGACAGCTTT
30736579 ATCCTACAATGAGAAAACTTATTTTTAGTGGCAAGAGGTCAGGACAGCCGAGTGGTGAAATAGGG
1 ATCCTACAATGAGAAAACTTATTTTTAGTGGCAAGAGGTCAGGACAGCCGAGTGGTGAAATAGGG
* *
30736644 GAGACTTTAACTAATAAATTGTACTAATTGGCTAAACCGAGAATTCTGAAAAACTTATGGTAAGA
66 GAGACTTTAACTAATAAATTGTACTAATTGGCTAAACCGAAAATTCTAAAAAACTTATGGTAAGA
*
30736709 TGATATATAAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAATTCTGTAGCTCGAGTT
131 TGATATATAAGCCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAATTCTGTAGCTCGAGTT
30736774 ATAAATGATTTAGTGACTGCTGCGCGAGTGGACAGCTTT
196 ATAAATGATTTAGTGACTGCTGCGCGAGTGGACAGCTTT
30736813 ATCCTA
1 ATCCTA
30736819 AATAGTGAGA
Statistics
Matches: 234, Mismatches: 6, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
234 234 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (234 bp):
ATCCTACAATGAGAAAACTTATTTTTAGTGGCAAGAGGTCAGGACAGCCGAGTGGTGAAATAGGG
GAGACTTTAACTAATAAATTGTACTAATTGGCTAAACCGAAAATTCTAAAAAACTTATGGTAAGA
TGATATATAAGCCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAATTCTGTAGCTCGAGTT
ATAAATGATTTAGTGACTGCTGCGCGAGTGGACAGCTTT
Found at i:30741480 original size:20 final size:20
Alignment explanation
Indices: 30741443--30741512 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
30741433 CACCATAGTA
*
30741443 CAAACAG-GGACACCGAAGTG
1 CAAACAGAGGA-ATCGAAGTG
* * *
30741463 TATACAGAGGAATTGAAGTG
1 CAAACAGAGGAATCGAAGTG
*
30741483 CAAACAGAGGCATCGAAGTG
1 CAAACAGAGGAATCGAAGTG
*
30741503 CAAAAAGAGG
1 CAAACAGAGG
30741513 CACCAAAGTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 37 0.93
21 3 0.08
ACGTcount: A:0.43, C:0.16, G:0.30, T:0.11
Consensus pattern (20 bp):
CAAACAGAGGAATCGAAGTG
Found at i:30741521 original size:20 final size:20
Alignment explanation
Indices: 30741478--30741526 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30741468 AGAGGAATTG
* * *
30741478 AAGTGCAAACAGAGGCATCG
1 AAGTGCAAAAAGAGGCACCA
30741498 AAGTGCAAAAAGAGGCACCA
1 AAGTGCAAAAAGAGGCACCA
30741518 AAGTG-AAAA
1 AAGTGCAAAA
30741527 TCCCATGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.49, C:0.16, G:0.27, T:0.08
Consensus pattern (20 bp):
AAGTGCAAAAAGAGGCACCA
Found at i:30748756 original size:21 final size:22
Alignment explanation
Indices: 30748717--30748757 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
30748707 CCAATAAATT
30748717 AATTTAACAAAATTAATTAATC
1 AATTTAACAAAATTAATTAATC
30748739 AATTT-ACATAAA-TAATTAA
1 AATTTAACA-AAATTAATTAA
30748758 ACCCAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTTAACAAAATTAATTAATC
Found at i:30762860 original size:44 final size:45
Alignment explanation
Indices: 30762757--30763229 Score: 465
Period size: 44 Copynumber: 10.7 Consensus size: 45
30762747 AGGCTAAAAA
* * * *
30762757 ATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * * *
30762801 ATAACATATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * * * * *
30762846 AT-GCAGATCTTGTCTTCCCATAATAGTGGCGAAGTAGATTGAAA
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * * * *
30762890 ATAACAGATCTTGTCTTCATGTATTGG-GGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * * *
30762934 ATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * *
30762979 AT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * * * * *
30763023 AAAGCATATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * *
30763067 ATAACAGATCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* *
30763112 AT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * * * * * * *
30763156 AAAGCAAATCTTGTCTTCATTTATTGG-CGTGAAGTGGATCGAAA
1 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
* * *
30763200 ATAGCAGATCCTATCTTCTTATATTGGTAG
1 ATAGCAGATCTTGTCTTCCTATATTGGTAG
30763230 TGAGGCAGAC
Statistics
Matches: 345, Mismatches: 77, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
44 238 0.69
45 107 0.31
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG
Found at i:30762992 original size:133 final size:133
Alignment explanation
Indices: 30762759--30763229 Score: 773
Period size: 133 Copynumber: 3.5 Consensus size: 133
30762749 GCTAAAAAAT
*
30762759 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACATATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
* *
30762824 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAATAGTGGCGAAGTAGATTGAA
66 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAATGGTGGCGAAGTAGATCGAA
30762889 -AA
131 GAA
* *
30762891 TAACAGATCTTGTCTTCATGTATTGGGGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
1 -AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTAT
* *
30762956 ATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
65 ATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAATGGTGGCGAAGTAGATCGA
30763021 AGAA
130 AGAA
* *
30763025 AGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCATGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
*
30763090 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
66 TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAATGGTGGCGAAGTAGATCGAA
30763155 GAA
131 GAA
* * * * * * *
30763158 AGCAAATCTTGTCTTCATTTATTGGCGTGAAGTGGATCGAAAATAGCAGATCCTATCTTCTTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
30763223 TTGGTAG
66 TTGGTAG
30763230 TGAGGCAGAC
Statistics
Matches: 316, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 314 0.99
134 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (133 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATA
TTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAATGGTGGCGAAGTAGATCGAA
GAA
Found at i:30763217 original size:89 final size:89
Alignment explanation
Indices: 30762757--30763227 Score: 468
Period size: 89 Copynumber: 5.3 Consensus size: 89
30762747 AGGCTAAAAA
* * * * * *
30762757 ATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAACATATCCTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGA-AACAGATCTTGTCTTCCT
30762821 ATATTGGTAGCGAAGTGGATCGAAG
65 ATATTGGTAGCGAAGTGGATCGAAG
* * * * * *
30762846 AT-GCAGATCTTGTCTTCCCATAATAGTGGCGAAGTAGATTGAAAATAACAGATCTTGTCTTCAT
1 ATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGA-AACAGATCTTGTCTTCCT
* * * *
30762910 GTATTGG-GGTGAAGTAGATCGAAG
65 ATATTGGTAGCGAAGTGGATCGAAG
* * * * * ** *
30762934 ATAACAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCA
1 ATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAACAGATCTTGTCTTCCTA
* * *
30762999 TACTGGTGGCGAAGTAGATCGAAG
66 TATTGGTAGCGAAGTGGATCGAAG
* * * * * * *
30763023 AAAGCATATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAACAGATCATGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGA-AACAGATCTTGTCTTCCT
30763087 ATATTGGTAGCGAAGTGGATCGAAG
65 ATATTGGTAGCGAAGTGGATCGAAG
* * *
30763112 AT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCTTGTCTTCAT
1 ATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAA-CAGATCTTGTCTTCCT
* * * *
30763176 TTATTGG-CGTGAAGTGGATCGAAA
65 ATATTGGTAGCGAAGTGGATCGAAG
* * *
30763200 ATAGCAGATCCTATCTTCTTATATTGGT
1 ATAGCAGATCTTGTCTTCCTATATTGGT
30763228 AGTGAGGCAG
Statistics
Matches: 309, Mismatches: 66, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
88 108 0.35
89 201 0.65
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (89 bp):
ATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAACAGATCTTGTCTTCCTA
TATTGGTAGCGAAGTGGATCGAAG
Found at i:30774995 original size:21 final size:18
Alignment explanation
Indices: 30774969--30775017 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
30774959 TTATTAACAT
30774969 AAAAAATTAAAATTTAGACA
1 AAAAAATTAAAATTTA-A-A
* *
30774989 AAGAAAATGAAATTTTAAA
1 AA-AAAATTAAAATTTAAA
30775008 AAAAAATTAA
1 AAAAAATTAA
30775018 GTCTTGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 7 0.28
19 3 0.12
20 3 0.12
21 12 0.48
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAAAATTAAAATTTAAA
Found at i:30783468 original size:27 final size:27
Alignment explanation
Indices: 30782997--30783465 Score: 588
Period size: 27 Copynumber: 17.3 Consensus size: 27
30782987 GCAAATAACC
* *
30782997 GAAATACCCTTGAAGGGCAAAATGAC-
1 GAAATACCCTCGAAGGGTAAAATGACT
* * *
30783023 CAGAATACCCTCAAAGGGTAAAATGAAT
1 GA-AATACCCTCGAAGGGTAAAATGACT
30783051 GAAATACCCTCGAAGGGTAAAATGA-T
1 GAAATACCCTCGAAGGGTAAAATGACT
* * *
30783077 AGAAATACCTTCAAAGGGTAAAATGACC
1 -GAAATACCCTCGAAGGGTAAAATGACT
* * *
30783105 AAAATACCCTCAAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACT
* *
30783132 GAAATACCCTCGAAGGGTAAAAGGACC
1 GAAATACCCTCGAAGGGTAAAATGACT
* *
30783159 GAAATACCCTCAAAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACT
30783186 GAAATACCCTCGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACT
*
30783213 GAAATACTCTCGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACT
* * *
30783240 AAAATACCCCCCGAAGGGTAAAATAACT
1 GAAATA-CCCTCGAAGGGTAAAATGACT
*
30783268 TAAATACCCTCGAAGGGTAAAATGA-T
1 GAAATACCCTCGAAGGGTAAAATGACT
*
30783294 CGAAATACCCTCGAAGGGTAAAATCACT
1 -GAAATACCCTCGAAGGGTAAAATGACT
* * *
30783322 GAAATACCCTCAAATGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGACT
* *
30783349 GAAATACCCTCGTAGGGTCAAATGA-T
1 GAAATACCCTCGAAGGGTAAAATGACT
* *
30783375 CGAAATACCCCCGAAGGGTAAAATGATT
1 -GAAATACCCTCGAAGGGTAAAATGACT
30783403 GAAATACCCTCGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACT
*
30783430 GAAATACGCC-CAAAGGGTAAAATGACT
1 GAAATAC-CCTCGAAGGGTAAAATGACT
30783457 GAAATACCC
1 GAAATACCC
30783466 CCATTGGGTA
Statistics
Matches: 390, Mismatches: 43, Indels: 20
0.86 0.09 0.04
Matches are distributed among these distances:
26 6 0.02
27 356 0.91
28 28 0.07
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACT
Found at i:30783693 original size:26 final size:26
Alignment explanation
Indices: 30783650--30783700 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
30783640 GCCACATATA
*
30783650 CTATTACTGGCAGCTTTGCTGCGATT
1 CTATTACTAGCAGCTTTGCTGCGATT
* * *
30783676 CTATTACTATCAGTTTTGTTGCGAT
1 CTATTACTAGCAGCTTTGCTGCGAT
30783701 ATTGTTGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (26 bp):
CTATTACTAGCAGCTTTGCTGCGATT
Found at i:30786791 original size:27 final size:26
Alignment explanation
Indices: 30786752--30786999 Score: 230
Period size: 27 Copynumber: 9.3 Consensus size: 26
30786742 ATTCATGGGC
30786752 AAATGACCGAAATACACCCGAAGGGTA
1 AAATGACCGAAATAC-CCCGAAGGGTA
** **
30786779 AAATGACATAAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
* * *
30786806 AAACGACTGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATA-CCCCGAAGGGTA
* * * *
30786833 AAATGA-CTAGAATTCCCTTGAAAGGTA
1 AAATGACCGA-AATACCC-CGAAGGGTA
*
30786860 AAATGACCGAAATACCCCCAAGGGTA
1 AAATGACCGAAATACCCCGAAGGGTA
* * *
30786886 AAATGATCAAAATACCCCGGAAGGTTA
1 AAATGACCGAAATACCCC-GAAGGGTA
*
30786913 AAATGACCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCC-CGAAGGGTA
**
30786940 AAATGATTGAAATACCCCTGAAGGGTA
1 AAATGACCGAAATACCCC-GAAGGGTA
*
30786967 AAATGACCGAAATATCCC-ATAGGGTA
1 AAATGACCGAAATACCCCGA-AGGGTA
30786993 AAATGAC
1 AAATGAC
30787000 TGTTATACCC
Statistics
Matches: 178, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 42 0.24
27 129 0.72
28 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (26 bp):
AAATGACCGAAATACCCCGAAGGGTA
Found at i:30786851 original size:54 final size:54
Alignment explanation
Indices: 30786752--30787000 Score: 276
Period size: 54 Copynumber: 4.6 Consensus size: 54
30786742 ATTCATGGGC
* * *
30786752 AAATGACCGAAATACACCCGAAGGGTAAAATGACATA-AATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGAC-TAGAATACCCCTAAAGGGTA
* * * *
30786806 AAACGACTGAAATACCCCCAAAGGGTAAAATGACTAGAATTCCCTTGAAA-GGTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACTAGAATACCCCT-AAAGGGTA
* ** *
30786860 AAATGACCGAAATACCCCC-AAGGGTAAAATGA-TCAAAATACCCCGGAAGGTTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACT-AGAATACCCCTAAAGGGTA
* * *
30786913 AAATGACCGAAATACCCTCAAAGGGTAAAATGA-TTGAAATACCCCTGAAGGGTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACTAG-AATACCCCTAAAGGGTA
* *
30786967 AAATGACCGAAATA-TCCCATAGGGTAAAATGACT
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACT
30787001 GTTATACCCC
Statistics
Matches: 167, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.02
53 58 0.35
54 103 0.62
55 3 0.02
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.18
Consensus pattern (54 bp):
AAATGACCGAAATACCCCCAAAGGGTAAAATGACTAGAATACCCCTAAAGGGTA
Found at i:30786939 original size:107 final size:107
Alignment explanation
Indices: 30786752--30786999 Score: 322
Period size: 107 Copynumber: 2.3 Consensus size: 107
30786742 ATTCATGGGC
* ** *
30786752 AAATGACCGAAATACACCCGAAGGGTAAAATGACATAAATACCCTTAAAGGGTAAAACGACTGAA
1 AAATGACCGAAATAC-CCCCAAGGGTAAAATGACATAAATACCCCGAAAGGGTAAAACGACCGAA
* *
30786817 ATACCCCCAAAGGGTAAAATGACTAG-AATTCCCTTGAAAGGTA
65 ATACCCCCAAAGGGTAAAATGA-TAGAAATACCCCTGAAAGGTA
* * *
30786860 AAATGACCGAAATACCCCCAAGGGTAAAATGATCA-AAATACCCCGGAAGGTTAAAATGACCGAA
1 AAATGACCGAAATACCCCCAAGGGTAAAATGA-CATAAATACCCCGAAAGGGTAAAACGACCGAA
* * *
30786924 ATACCCTCAAAGGGTAAAATGATTGAAATACCCCTGAAGGGTA
65 ATACCCCCAAAGGGTAAAATGATAGAAATACCCCTGAAAGGTA
*
30786967 AAATGACCGAAATA-TCCCATAGGGTAAAATGAC
1 AAATGACCGAAATACCCCCA-AGGGTAAAATGAC
30787000 TGTTATACCC
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
106 7 0.06
107 100 0.81
108 17 0.14
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (107 bp):
AAATGACCGAAATACCCCCAAGGGTAAAATGACATAAATACCCCGAAAGGGTAAAACGACCGAAA
TACCCCCAAAGGGTAAAATGATAGAAATACCCCTGAAAGGTA
Found at i:30787214 original size:26 final size:26
Alignment explanation
Indices: 30787185--30787247 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
30787175 ACTGTTATTG
*
30787185 GCAGCTTTGCTGCGTTACTATTACTA
1 GCAGCTTTGCTGCGTCACTATTACTA
* *
30787211 GCAGCTTTGTTGTGTCACTATTACTA
1 GCAGCTTTGCTGCGTCACTATTACTA
30787237 GCAGCTTTGCT
1 GCAGCTTTGCT
30787248 ACGATATTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (26 bp):
GCAGCTTTGCTGCGTCACTATTACTA
Found at i:30787438 original size:33 final size:32
Alignment explanation
Indices: 30787353--30787438 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 32
30787343 ATTATTGCAT
* *
30787353 TGCACTGATTACTGTATTGGGCTAAAGTCCGCA
1 TGCACTGA-TACTGTATAGGGCTAAAGCCCGCA
* * *
30787386 --CATTGTTACTGTA-ATGGGCTAAGGCCCGCA
1 TGCACTGATACTGTATA-GGGCTAAAGCCCGCA
30787416 CTGCACTGATACTGTATAGGGCT
1 -TGCACTGATACTGTATAGGGCT
30787439 TTGGCGCAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
30 20 0.49
31 4 0.10
33 16 0.39
34 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (32 bp):
TGCACTGATACTGTATAGGGCTAAAGCCCGCA
Found at i:30789379 original size:60 final size:60
Alignment explanation
Indices: 30789306--30789419 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
30789296 TGTTGTTAAC
30789306 GATAGCTTGTAACATGCATTTTATCTCTGTTTAAGCTCCACAACGAGGAGATGTGTCAAT
1 GATAGCTTGTAACATGCATTTTATCTCTGTTTAAGCTCCACAACGAGGAGATGTGTCAAT
* *
30789366 GATAGCTTGTAACATGCATTTTATCTTTGTTTTAGCTCCACAACGAGGAGATGT
1 GATAGCTTGTAACATGCATTTTATCTCTGTTTAAGCTCCACAACGAGGAGATGT
30789420 CATCTTTAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (60 bp):
GATAGCTTGTAACATGCATTTTATCTCTGTTTAAGCTCCACAACGAGGAGATGTGTCAAT
Found at i:30791768 original size:50 final size:50
Alignment explanation
Indices: 30791662--30791757 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
30791652 TTATTAAGGT
* * * * *
30791662 TATGAGAGGTCCAACGTAAGACCATGTCTGGGACATGGCGTTGGCATCAA
1 TATGAGAGGTCCAACGTAAGACCATATCTAGGACATAGCATGGGCATCAA
* **
30791712 GATGAGAGGTCCCCCGTAAGACCATATCTAGGACATAGCATGGGCA
1 TATGAGAGGTCCAACGTAAGACCATATCTAGGACATAGCATGGGCA
30791758 CTGATATGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
TATGAGAGGTCCAACGTAAGACCATATCTAGGACATAGCATGGGCATCAA
Found at i:30792084 original size:20 final size:20
Alignment explanation
Indices: 30792059--30792097 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30792049 TGAGTTTTTT
30792059 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAA-CAGAGTAAGTAAAC
*
30792079 AAGTAATAGAGTAAGTAAA
1 AAGTAACAGAGTAAGTAAA
30792098 GAAGAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (20 bp):
AAGTAACAGAGTAAGTAAAC
Found at i:30796368 original size:10 final size:10
Alignment explanation
Indices: 30796353--30796378 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30796343 CTCAACGACC
30796353 TTAAATGTTA
1 TTAAATGTTA
30796363 TTAAATGTTA
1 TTAAATGTTA
30796373 TTAAAT
1 TTAAAT
30796379 TAAATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
TTAAATGTTA
Found at i:30798277 original size:13 final size:13
Alignment explanation
Indices: 30798259--30798303 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
30798249 GAGCACACGT
*
30798259 AAAACATATTTTG
1 AAAACATATCTTG
*
30798272 AAAACATAACTTG
1 AAAACATATCTTG
*
30798285 GAAACATATCTTG
1 AAAACATATCTTG
30798298 AAAACA
1 AAAACA
30798304 GAATATCAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (13 bp):
AAAACATATCTTG
Found at i:30808685 original size:54 final size:51
Alignment explanation
Indices: 30808616--30808759 Score: 139
Period size: 54 Copynumber: 2.7 Consensus size: 51
30808606 CCAAATATTT
*
30808616 GTAAAATGGTCGTAATACCCCTGTAGGGTAAAATGACCGAAAA-ACCCCCT-TAGG
1 GTAAAAT-GTCGTAATACCCCTG-AGGGT-AAATGACC-AAAATA-CCCCTATAAG
* *
30808670 GTAAAATGTCTGTAATACCCCCTAAAGGTTAAATGACCAAAATACCCCTATAAG
1 GTAAAATGTC-GTAATA-CCCCT-GAGGGTAAATGACCAAAATACCCCTATAAG
* *
30808724 GTAAAATGACCGTAATGCCCCTAGAGGGTAAATGAC
1 GTAAAATG-TCGTAATACCCCT-GAGGGTAAATGAC
30808760 TATTTTGCCC
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
53 29 0.38
54 38 0.49
55 10 0.13
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (51 bp):
GTAAAATGTCGTAATACCCCTGAGGGTAAATGACCAAAATACCCCTATAAG
Found at i:30808744 original size:27 final size:27
Alignment explanation
Indices: 30808616--30808759 Score: 123
Period size: 27 Copynumber: 5.4 Consensus size: 27
30808606 CCAAATATTT
** *
30808616 GTAAAATGGTCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* *
30808643 GTAAAATGACCGAAAAACCCCCT-TAGG
1 GTAAAATGACCGTAATA-CCCCTATAGG
* * *
30808670 GTAAAATGTCTGTAATACCCCCTA-AAG
1 GTAAAATGACCGTAATA-CCCCTATAGG
* ** *
30808697 GTTAAATGACCAAAATACCCCTATAAG
1 GTAAAATGACCGTAATACCCCTATAGG
* *
30808724 GTAAAATGACCGTAATGCCCCTAGAGG
1 GTAAAATGACCGTAATACCCCTATAGG
30808751 GT-AAATGAC
1 GTAAAATGAC
30808760 TATTTTGCCC
Statistics
Matches: 94, Mismatches: 20, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
26 13 0.14
27 76 0.81
28 5 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:30808815 original size:13 final size:13
Alignment explanation
Indices: 30808797--30808838 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
30808787 TATTTGTCCG
*
30808797 TGATTTATATGAC
1 TGATTTGTATGAC
*
30808810 TGATTTGTCTG--
1 TGATTTGTATGAC
30808821 TGATTTGTATGAC
1 TGATTTGTATGAC
30808834 TGATT
1 TGATT
30808839 CTAAGCATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 10 0.42
13 14 0.58
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (13 bp):
TGATTTGTATGAC
Found at i:30808815 original size:24 final size:24
Alignment explanation
Indices: 30808788--30808838 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
30808778 TAAATGATTT
30808788 ATTTGTCCGTGATTTATATGACTG
1 ATTTGTCCGTGATTTATATGACTG
* *
30808812 ATTTGTCTGTGATTTGTATGACTG
1 ATTTGTCCGTGATTTATATGACTG
30808836 ATT
1 ATT
30808839 CTAAGCATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.49
Consensus pattern (24 bp):
ATTTGTCCGTGATTTATATGACTG
Found at i:30809424 original size:25 final size:25
Alignment explanation
Indices: 30809394--30809444 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
30809384 TTTCGTCAGT
30809394 TAGGGGTAAAATGGTAATTTTACCC
1 TAGGGGTAAAATGGTAATTTTACCC
*** *
30809419 TAGGGGTATTTTGGTCATTTTACCC
1 TAGGGGTAAAATGGTAATTTTACCC
30809444 T
1 T
30809445 TCGAGGGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (25 bp):
TAGGGGTAAAATGGTAATTTTACCC
Found at i:30821130 original size:85 final size:85
Alignment explanation
Indices: 30820985--30821150 Score: 287
Period size: 85 Copynumber: 2.0 Consensus size: 85
30820975 TAAGTGGGAG
*
30820985 GTCTAAAGATGGAATTAGACCAAGAAATAGTTAGAGGGTGGCATATGAAAACATTATCCTTAATA
1 GTCTAAAGATGCAATTAGACCAAGAAATAGTTAGAGGGTGGCATATGAAAACATTATCCTTAATA
30821050 TACATGTTATATATATATAT
66 TACATGTTATATATATATAT
* * *
30821070 GTCTAAAGATGCAATTAGACCAAGAAATAGTTAGTGGGTGGCATATGACAACATTGTCCTTAATA
1 GTCTAAAGATGCAATTAGACCAAGAAATAGTTAGAGGGTGGCATATGAAAACATTATCCTTAATA
*
30821135 TATATGTTATATATAT
66 TACATGTTATATATAT
30821151 TTATTATAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (85 bp):
GTCTAAAGATGCAATTAGACCAAGAAATAGTTAGAGGGTGGCATATGAAAACATTATCCTTAATA
TACATGTTATATATATATAT
Found at i:30822536 original size:41 final size:41
Alignment explanation
Indices: 30822467--30822568 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
30822457 GAAATTTTCA
* * *
30822467 AACTTAAAGTCTAGCAGGCTTAAGGCCGGT-AATGTAAGTCG
1 AACTTTAAGTCCAGCAGGCTTAAGGCCGGTGAA-ATAAGTCG
* * * *
30822508 GACTTTATGTCCAGCAGGCTTAATGCCGGTGAAATAATTCG
1 AACTTTAAGTCCAGCAGGCTTAAGGCCGGTGAAATAAGTCG
*
30822549 AACTTTAAGTCTAGCAGGCT
1 AACTTTAAGTCCAGCAGGCT
30822569 AATTGCTGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 48 0.96
42 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (41 bp):
AACTTTAAGTCCAGCAGGCTTAAGGCCGGTGAAATAAGTCG
Found at i:30823743 original size:17 final size:16
Alignment explanation
Indices: 30823711--30823742 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30823701 TGGTTAGAAA
30823711 AAAAATTAAAATATAT
1 AAAAATTAAAATATAT
30823727 AAAAATTAAAAT-TAT
1 AAAAATTAAAATATAT
30823742 A
1 A
30823743 TGTTTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATTAAAATATAT
Found at i:30824642 original size:37 final size:37
Alignment explanation
Indices: 30824601--30824674 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
30824591 GTCGTATGAA
30824601 TGTCACTGAATATGAGCGGGAATTTGTGAGACTCCGC
1 TGTCACTGAATATGAGCGGGAATTTGTGAGACTCCGC
* *
30824638 TGTCACTGAATATGAGCGGGAATTTTTTAGACTCCGC
1 TGTCACTGAATATGAGCGGGAATTTGTGAGACTCCGC
30824675 AGATATGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (37 bp):
TGTCACTGAATATGAGCGGGAATTTGTGAGACTCCGC
Found at i:30830602 original size:18 final size:18
Alignment explanation
Indices: 30830579--30830613 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30830569 AGTTAGTGGG
*
30830579 TGGCATATGACTACATTC
1 TGGCATATGACAACATTC
30830597 TGGCATATGACAACATT
1 TGGCATATGACAACATT
30830614 GTCCTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (18 bp):
TGGCATATGACAACATTC
Found at i:30832021 original size:41 final size:41
Alignment explanation
Indices: 30831957--30832044 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 41
30831947 TGGAAATTTT
* *
30831957 CAGGCTTAAGGCCGGTAATATAATTCAGACTTTATGTCCAG
1 CAGGCTTAAGGCCGGTAATATAATTCAAACTTTAAGTCCAG
* *
30831998 CAGGCTTAATGCCGGTGAA-ATAATTCAAACTTTAAGTCTAG
1 CAGGCTTAAGGCCGGT-AATATAATTCAAACTTTAAGTCCAG
30832039 CAGGCT
1 CAGGCT
30832045 CATTGCCAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
CAGGCTTAAGGCCGGTAATATAATTCAAACTTTAAGTCCAG
Found at i:30832057 original size:41 final size:41
Alignment explanation
Indices: 30831976--30832057 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
30831966 GGCCGGTAAT
* * * *
30831976 ATAATTCAGACTTTATGTCCAGCAGGCTTAATGCCGGTGAA
1 ATAATTCAAACTTTAAGTCCAGCAGGCTCAATGCCAGTGAA
* *
30832017 ATAATTCAAACTTTAAGTCTAGCAGGCTCATTGCCAGTGAA
1 ATAATTCAAACTTTAAGTCCAGCAGGCTCAATGCCAGTGAA
30832058 TTGAATCAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (41 bp):
ATAATTCAAACTTTAAGTCCAGCAGGCTCAATGCCAGTGAA
Found at i:30843722 original size:168 final size:168
Alignment explanation
Indices: 30843434--30843756 Score: 438
Period size: 168 Copynumber: 1.9 Consensus size: 168
30843424 CGAACTTGGT
* *
30843434 CATCTTGGGAATCTAGATATAGTGATACCCATACTTGGTATAGCGATATCACTGGAGTTGGCCTC
1 CATCTTGGGAATCTAGATATAGTGATACCCATACTTGGTATAGCGATATCACTGCAGTTGGCCAC
* * * *
30843499 AATTCTCTTCACTTTAGGACTATCAGGGGTATCATCACTTCTATATTTCAGTATCACGATACCCC
66 AATTCTCTTCACTTTAAGACTATCAGGGGTATCAACACTTCTAGATTTCAGTATCACAATACCCC
** *
30843564 CTTCTGAGTGATGTTTTCCTCAAGTCCTCAAGCTTGAA
131 CTTAGGAGTAATGTTTTCCTCAAGTCCTCAAGCTTGAA
* * *
30843602 CATCTTTGGAATCTCGATATCA-TGATACCCATACTTGGTATTGCGATATCACTAGCA-TTGGCC
1 CATCTTGGGAATCTAGATAT-AGTGATACCCATACTTGGTATAGCGATATCACT-GCAGTTGGCC
* * *
30843665 ACAATTCTCTTCACTTTAATACTGTCAGGGGTATCAAGACTT-TCAGGATTT-AGTATCACAATA
64 ACAATTCTCTTCACTTTAAGACTATCAGGGGTATCAACACTTCT-A-GATTTCAGTATCACAATA
*
30843728 CCCCCTTAGGAGTAATGTTTTCTTCAAGT
127 CCCCCTTAGGAGTAATGTTTTCCTCAAGT
30843757 TCGTGCTATT
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
167 1 0.01
168 127 0.94
169 7 0.05
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (168 bp):
CATCTTGGGAATCTAGATATAGTGATACCCATACTTGGTATAGCGATATCACTGCAGTTGGCCAC
AATTCTCTTCACTTTAAGACTATCAGGGGTATCAACACTTCTAGATTTCAGTATCACAATACCCC
CTTAGGAGTAATGTTTTCCTCAAGTCCTCAAGCTTGAA
Found at i:30857139 original size:25 final size:26
Alignment explanation
Indices: 30857093--30857152 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
30857083 TAAACATATG
30857093 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
30857118 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
30857144 -ATATATAAA
1 AAT-TATAAA
30857153 CTATATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:30857822 original size:17 final size:18
Alignment explanation
Indices: 30857789--30857822 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30857779 ACAAGATGGA
*
30857789 AAATGAAAAAGGAAAAAC
1 AAATGAAAAAGAAAAAAC
30857807 AAAT-AAAAAGAAAAAA
1 AAATGAAAAAGAAAAAA
30857823 GGAACAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (18 bp):
AAATGAAAAAGAAAAAAC
Found at i:30861054 original size:21 final size:21
Alignment explanation
Indices: 30861013--30861054 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
30861003 ATAGGTGTGC
**
30861013 TTGGTAGGAAAGATGGAAAAA
1 TTGGTAGGAAAGATAAAAAAA
30861034 TTGGTAGGAAAGA-AAATAAAA
1 TTGGTAGGAAAGATAAA-AAAA
30861055 CAAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.52, C:0.00, G:0.29, T:0.19
Consensus pattern (21 bp):
TTGGTAGGAAAGATAAAAAAA
Found at i:30871306 original size:48 final size:47
Alignment explanation
Indices: 30871225--30871384 Score: 194
Period size: 48 Copynumber: 3.3 Consensus size: 47
30871215 AAGCTATTTA
** *
30871225 TCGTATAGGTTTAACCTTGACAAGTAACCAGGCACTATTATTCATTAT
1 TCGTATAGGTTTAACCTAAACAGGT-ACCAGGCACTATTATTCATTAT
*
30871273 TTGTATAGGTTTAACCTAAACAGGTACCTAGGCACTATTATTCATTAT
1 TCGTATAGGTTTAACCTAAACAGGTACC-AGGCACTATTATTCATTAT
* * ** *
30871321 TCGTGTAGGTTTAACCCAAATCAGAAACCAAGCACTATTATTCATTAT
1 TCGTATAGGTTTAACCTAAA-CAGGTACCAGGCACTATTATTCATTAT
* *
30871369 TCATGTAGGTTTAACC
1 TCGTATAGGTTTAACC
30871385 CAAATGAGTA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
47 3 0.03
48 90 0.91
49 6 0.06
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (47 bp):
TCGTATAGGTTTAACCTAAACAGGTACCAGGCACTATTATTCATTAT
Found at i:30871385 original size:48 final size:48
Alignment explanation
Indices: 30871250--30871399 Score: 203
Period size: 48 Copynumber: 3.1 Consensus size: 48
30871240 CTTGACAAGT
* * * *
30871250 AACCAGGCACTATTATTCATTATTTGTATAGGTTTAACCTAAA-CAGG
1 AACCAGGCACTATTATTCATTATTCGTGTAGGTTTAACCCAAATCAGA
*
30871297 TACCTAGGCACTATTATTCATTATTCGTGTAGGTTTAACCCAAATCAGA
1 AACC-AGGCACTATTATTCATTATTCGTGTAGGTTTAACCCAAATCAGA
* * * *
30871346 AACCAAGCACTATTATTCATTATTCATGTAGGTTTAACCCAAATGAGT
1 AACCAGGCACTATTATTCATTATTCGTGTAGGTTTAACCCAAATCAGA
30871394 AACCAG
1 AACCAG
30871400 ACATTATTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
47 3 0.03
48 81 0.90
49 6 0.07
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (48 bp):
AACCAGGCACTATTATTCATTATTCGTGTAGGTTTAACCCAAATCAGA
Found at i:30872211 original size:17 final size:17
Alignment explanation
Indices: 30872189--30872226 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30872179 TTAAAAGTTA
30872189 GTTA-TTTATTTTTAATT
1 GTTATTTTA-TTTTAATT
30872206 GTTATTTTATTTTAATT
1 GTTATTTTATTTTAATT
30872223 -TTAT
1 GTTAT
30872227 AAAACTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 12 0.60
18 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
GTTATTTTATTTTAATT
Found at i:30881092 original size:25 final size:24
Alignment explanation
Indices: 30881062--30881109 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
30881052 AAAATATCTT
30881062 AAATTTTCAAAAAAA-TATATAAAAC
1 AAATTTT-AAAAAAATTAT-TAAAAC
30881087 AAATTTTAAAAAAATTATTAAAA
1 AAATTTTAAAAAAATTATTAAAA
30881110 TTACATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATTTTAAAAAAATTATTAAAAC
Found at i:30882254 original size:14 final size:14
Alignment explanation
Indices: 30882235--30882320 Score: 84
Period size: 14 Copynumber: 6.2 Consensus size: 14
30882225 CTCAATCATA
*
30882235 AATCCTAAATTCTC
1 AATCCTCAATTCTC
*
30882249 AATCCTCAATTTTC
1 AATCCTCAATTCTC
*
30882263 AATCCTCAATCCTC
1 AATCCTCAATTCTC
* * *
30882277 -ATCCCCAATTTTT
1 AATCCTCAATTCTC
*
30882290 AATCCTCAATCCTC
1 AATCCTCAATTCTC
* *
30882304 AATCATTAATTCTC
1 AATCCTCAATTCTC
30882318 AAT
1 AAT
30882321 TTTCAATTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
13 9 0.16
14 47 0.84
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (14 bp):
AATCCTCAATTCTC
Found at i:30882256 original size:7 final size:7
Alignment explanation
Indices: 30882218--30882307 Score: 74
Period size: 7 Copynumber: 13.0 Consensus size: 7
30882208 TTCTTTTCAA
*
30882218 CTCAATA
1 CTCAATC
30882225 CTCAATC
1 CTCAATC
* *
30882232 ATAAATC
1 CTCAATC
* *
30882239 CTAAATT
1 CTCAATC
30882246 CTCAATC
1 CTCAATC
*
30882253 CTCAATT
1 CTCAATC
*
30882260 TTCAATC
1 CTCAATC
30882267 CTCAATC
1 CTCAATC
30882274 CTC-ATC
1 CTCAATC
* *
30882280 CCCAATT
1 CTCAATC
* *
30882287 TTTAATC
1 CTCAATC
30882294 CTCAATC
1 CTCAATC
30882301 CTCAATC
1 CTCAATC
30882308 ATTAATTCTC
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
6 5 0.08
7 58 0.92
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.34
Consensus pattern (7 bp):
CTCAATC
Found at i:30882287 original size:27 final size:27
Alignment explanation
Indices: 30882235--30882304 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
30882225 CTCAATCATA
* * *
30882235 AATCCTAAATTCTCAATCCTCAATTTTC
1 AATCCTCAATCCTC-ATCCCCAATTTTC
*
30882263 AATCCTCAATCCTCATCCCCAATTTTT
1 AATCCTCAATCCTCATCCCCAATTTTC
30882290 AATCCTCAATCCTCA
1 AATCCTCAATCCTCA
30882305 ATCATTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 26 0.68
28 12 0.32
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (27 bp):
AATCCTCAATCCTCATCCCCAATTTTC
Found at i:30882306 original size:21 final size:21
Alignment explanation
Indices: 30882270--30882320 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
30882260 TTCAATCCTC
**
30882270 AATCCTC-ATCCCCAATTTTT
1 AATCCTCAATCCCCAATCATT
*
30882290 AATCCTCAATCCTCAATCATT
1 AATCCTCAATCCCCAATCATT
*
30882311 AATTCTCAAT
1 AATCCTCAAT
30882321 TTTCAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (21 bp):
AATCCTCAATCCCCAATCATT
Found at i:30882388 original size:20 final size:20
Alignment explanation
Indices: 30882350--30882388 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30882340 CATTTTCTAA
*
30882350 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTCATTTT
30882370 ATTTTATTC-CTTATCATTT
1 ATTTTATTCTCTT-TCATTT
30882389 GTAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTATTCTCTTTCATTTT
Found at i:30887617 original size:19 final size:19
Alignment explanation
Indices: 30887589--30887628 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
30887579 TATTTTCAAG
*
30887589 AATTTAATTAT-GAAATAT
1 AATTTAATTATAGAAAAAT
30887607 AATTGTAATTATAGAAAAAT
1 AATT-TAATTATAGAAAAAT
30887627 AA
1 AA
30887629 AAATAAACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
AATTTAATTATAGAAAAAT
Found at i:30890705 original size:21 final size:20
Alignment explanation
Indices: 30890681--30890731 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
30890671 ATTTATAACA
*
30890681 TATTCAATTCTCATCACTTGC
1 TATTCAAATCTCAT-ACTTGC
*
30890702 TATTTCAAATCTCATACTTTC
1 TA-TTCAAATCTCATACTTGC
*
30890723 TATACAAAT
1 TATTCAAAT
30890732 AGCTTTTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:30890708 original size:22 final size:21
Alignment explanation
Indices: 30890683--30890725 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
30890673 TTATAACATA
*
30890683 TTCAATTCTCATCACTTGCTAT
1 TTCAAATCTCAT-ACTTGCTAT
*
30890705 TTCAAATCTCATACTTTCTAT
1 TTCAAATCTCATACTTGCTAT
30890726 ACAAATAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.47
Consensus pattern (21 bp):
TTCAAATCTCATACTTGCTAT
Found at i:30891012 original size:41 final size:40
Alignment explanation
Indices: 30890899--30891025 Score: 134
Period size: 37 Copynumber: 3.2 Consensus size: 40
30890889 GTACCTAGTA
* *
30890899 CCTCATCGGATAATTCGAAGTAATAAATTGACACCCAGTG
1 CCTCATCGAATAATCCGAAGTAATAAATTGACACCCAGTG
* ** * * *
30890939 TCTCATCGGCTAAACCGAAG---TAAATGGGCACCCAGTG
1 CCTCATCGAATAATCCGAAGTAATAAATTGACACCCAGTG
30890976 CCTCATCGAATTAATCCGAAGTAATAAATTGACACCCAGTG
1 CCTCATCGAA-TAATCCGAAGTAATAAATTGACACCCAGTG
* *
30891017 TCTTATCGA
1 CCTCATCGA
30891026 CTCAAAGTCG
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
37 22 0.32
38 9 0.13
40 16 0.23
41 22 0.32
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
CCTCATCGAATAATCCGAAGTAATAAATTGACACCCAGTG
Found at i:30891895 original size:21 final size:21
Alignment explanation
Indices: 30891871--30891933 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 21
30891861 GAAACCCTAA
30891871 CTTTTCTCCTTCTTTCTTTCT
1 CTTTTCTCCTTCTTTCTTTCT
*
30891892 CTTTCTCTTTCCTTTCTTTCCTTCT
1 CTTT-TC--TCC-TTCTTTCTTTCT
30891917 CTATTT-TCCTTCTTTCT
1 CT-TTTCTCCTTCTTTCT
30891934 CTCCTTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 11 0.31
22 5 0.14
24 3 0.09
25 14 0.40
26 2 0.06
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (21 bp):
CTTTTCTCCTTCTTTCTTTCT
Found at i:30891931 original size:25 final size:25
Alignment explanation
Indices: 30891880--30891947 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
30891870 ACTTTTCTCC
* *
30891880 TTCTTTCTTTCTCTTTCTCTTTCCT
1 TTCTTTCCTTCTCTTTCTCCTTCCT
*
30891905 TTCTTTCCTTCTCTATTTTCCTT-CT
1 TTCTTTCCTTCTCT-TTCTCCTTCCT
* *
30891930 TTCTCTCCTTCTTTTTCT
1 TTCTTTCCTTCTCTTTCT
30891948 ATTTCTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 3 0.08
25 27 0.75
26 6 0.17
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.66
Consensus pattern (25 bp):
TTCTTTCCTTCTCTTTCTCCTTCCT
Found at i:30891944 original size:21 final size:21
Alignment explanation
Indices: 30891877--30891944 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 21
30891867 CTAACTTTTC
*
30891877 TCCTTCTTTCTTTCTCTTTCTCTT
1 TCCTTCTTTC--TCTCCTTCT-TT
* *
30891901 TCCTTTCTTTC-CTTCTCTATTT
1 TCC-TTCTTTCTCTCCT-TCTTT
30891923 TCCTTCTTTCTCTCCTTCTTT
1 TCCTTCTTTCTCTCCTTCTTT
30891944 T
1 T
30891945 TCTATTTCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
21 12 0.33
22 12 0.33
23 2 0.06
24 3 0.08
25 7 0.19
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (21 bp):
TCCTTCTTTCTCTCCTTCTTT
Found at i:30891988 original size:5 final size:5
Alignment explanation
Indices: 30891978--30892015 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
30891968 ATTATTTTAG
30891978 TATAA TATAA TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
30892016 CTTAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:30892065 original size:38 final size:37
Alignment explanation
Indices: 30891998--30892077 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
30891988 TATAATATAA
30891998 TATAATATAATATATATACTTAAAATTTAAGTTTTAT
1 TATAATATAATATATATACTTAAAATTTAAGTTTTAT
* * * *
30892035 TATAATATTATATTATATATTTTAACTTTAAGTTTTAT
1 TATAATATAATA-TATATACTTAAAATTTAAGTTTTAT
*
30892073 AATAA
1 TATAA
30892078 AATACACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 11 0.30
38 26 0.70
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (37 bp):
TATAATATAATATATATACTTAAAATTTAAGTTTTAT
Found at i:30899579 original size:16 final size:15
Alignment explanation
Indices: 30899558--30899601 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
30899548 TTTTAAAGGT
*
30899558 TAATTAAGTAATTTGA
1 TAATTAAGTAA-ATGA
*
30899574 TAATTAAGTTAAATGT
1 TAATTAAG-TAAATGA
30899590 TAATTAAGTAAA
1 TAATTAAGTAAA
30899602 AGATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 18 0.72
17 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (15 bp):
TAATTAAGTAAATGA
Found at i:30900411 original size:40 final size:40
Alignment explanation
Indices: 30900356--30900579 Score: 306
Period size: 40 Copynumber: 5.6 Consensus size: 40
30900346 AATTATTGTA
* * *
30900356 TGATTGCACAAACGTGCCCTTGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
30900396 TGATTGCATATACGTGCCCTTGTTTGTACTTTGATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
30900436 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGAACCCG
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
30900476 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
30900516 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CTC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * **
30900555 TGAATGCACTTTTGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTT
30900580 ATACCCCGAT
Statistics
Matches: 167, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 22 0.13
40 145 0.87
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:30900457 original size:20 final size:20
Alignment explanation
Indices: 30900392--30900537 Score: 84
Period size: 20 Copynumber: 7.3 Consensus size: 20
30900382 TACTTTGGTA
*
30900392 CCCCTGATTGCATATACGTG
1 CCCCTGATTGCACATACGTG
* * * ** *
30900412 CCCTTGTTTGTAC-TTTGATA
1 CCCCTGATTGCACATACG-TG
30900432 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACATACGTG
* * *
30900452 CCCCTGTTTGTAC-TTCG-G
1 CCCCTGATTGCACATACGTG
*
30900470 AACCCGTGATTGCACATACGTG
1 --CCCCTGATTGCACATACGTG
* * * *
30900492 CCCCTGTTTGTAC-TTCGGTA
1 CCCCTGATTGCACATAC-GTG
*
30900512 CCCTTGATTGCACATACGTG
1 CCCCTGATTGCACATACGTG
30900532 CCCCTG
1 CCCCTG
30900538 TTTGTACTTC
Statistics
Matches: 87, Mismatches: 31, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
18 1 0.01
19 7 0.08
20 71 0.82
21 7 0.08
22 1 0.01
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Found at i:30906611 original size:5 final size:5
Alignment explanation
Indices: 30906601--30906626 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30906591 ACCTTGCGTG
30906601 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
30906627 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:30910061 original size:27 final size:26
Alignment explanation
Indices: 30910005--30910061 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
30909995 GTTAATTTAT
* *
30910005 TTTAATTATATTTAATATATGTGTTT
1 TTTAATTATATTTAATATATGTCTTA
*
30910031 TTTAA-TATAGTTTAAATATATTTCTTA
1 TTTAATTATA-TTT-AATATATGTCTTA
30910058 TTTA
1 TTTA
30910062 TCATGAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 8 0.31
27 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (26 bp):
TTTAATTATATTTAATATATGTCTTA
Found at i:30911281 original size:33 final size:33
Alignment explanation
Indices: 30911237--30911309 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
30911227 TCCTCCATTT
30911237 TTCCCTTGTCCATACGTTAGGCTTCGGGTTCTTC
1 TTCCC-TGTCCATACGTTAGGCTTCGGGTTCTTC
30911271 TTCCCTGTCCATACGTTAGGCTTCGGGTTCTTC
1 TTCCCTGTCCATACGTTAGGCTTCGGGTTCTTC
30911304 TTCCCT
1 TTCCCT
30911310 CTTTTCTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 34 0.87
34 5 0.13
ACGTcount: A:0.08, C:0.32, G:0.19, T:0.41
Consensus pattern (33 bp):
TTCCCTGTCCATACGTTAGGCTTCGGGTTCTTC
Found at i:30912810 original size:15 final size:17
Alignment explanation
Indices: 30912787--30912829 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
30912777 TAATCATAAT
30912787 TAATATATTAAT-AAATA
1 TAAT-TATTAATAAAATA
30912804 -AATTATTAAATAAAATA
1 TAATTATT-AATAAAATA
30912821 TAATTATTA
1 TAATTATTA
30912830 TAGTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 6 0.26
17 6 0.26
18 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTATTAATAAAATA
Found at i:30913427 original size:20 final size:20
Alignment explanation
Indices: 30913402--30913448 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30913392 CGCAGGTTAA
* *
30913402 TTTCTTTTACATTTTCATCT
1 TTTCTTTTACATTTCCATAT
*
30913422 TTTCTTTTTCATTTCCATAT
1 TTTCTTTTACATTTCCATAT
30913442 TTT-TTTT
1 TTTCTTTT
30913449 GTCTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTCTTTTACATTTCCATAT
Found at i:30915592 original size:9 final size:9
Alignment explanation
Indices: 30915578--30915620 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
30915568 TTACTTGAGT
*
30915578 TTAAAAATA
1 TTAAAAAAA
30915587 TTAAAAAAA
1 TTAAAAAAA
30915596 TTAAAGAAAA
1 TTAAA-AAAA
*
30915606 GTAGAAAAAA
1 TTA-AAAAAA
30915616 TTAAA
1 TTAAA
30915621 TTGAAGTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 15 0.52
10 12 0.41
11 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:30916856 original size:18 final size:18
Alignment explanation
Indices: 30916811--30916847 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30916801 AATTAATTCT
* *
30916811 AAAAGGATAAAATAATTA
1 AAAAAGATAAAATAAGTA
30916829 AAAAAGATAAAATAAGTA
1 AAAAAGATAAAATAAGTA
30916847 A
1 A
30916848 TCAAAATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AAAAAGATAAAATAAGTA
Found at i:30920238 original size:27 final size:27
Alignment explanation
Indices: 30920199--30920250 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
30920189 GGGATCCTCA
* * *
30920199 TGTTTATTGTCCCGATGGACTATCTCG
1 TGTTTAGTATCCCGACGGACTATCTCG
30920226 TGTTTAGTATCCCGACGGACTATCT
1 TGTTTAGTATCCCGACGGACTATCT
30920251 ATGATGCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
TGTTTAGTATCCCGACGGACTATCTCG
Found at i:30928321 original size:20 final size:20
Alignment explanation
Indices: 30928296--30928402 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
30928286 TTGTACGGGA
*
30928296 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCCCTG
**
30928316 TTTGCACTTTAGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * ** *
30928336 TATACACTTCCATGTCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
30928356 TTTGCACATT-TGTGCCCCTA
1 TTTGCAC-TTCGGTGCCCCTG
* *
30928376 TCTGCACTTCGGTGCCCTTG
1 TTTGCACTTCGGTGCCCCTG
30928396 TTATGCA
1 TT-TGCA
30928403 TCTATGATGC
Statistics
Matches: 64, Mismatches: 20, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
19 2 0.03
20 56 0.88
21 6 0.09
ACGTcount: A:0.12, C:0.31, G:0.19, T:0.38
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:30939689 original size:29 final size:29
Alignment explanation
Indices: 30939654--30939812 Score: 96
Period size: 29 Copynumber: 5.4 Consensus size: 29
30939644 CCATCGATGA
*
30939654 ATGAAAAGGGATAGCTTCGGCTATCGAA-C
1 ATGAAAAGGGATAGCTTCGACTATC-AATC
* *
30939683 ATGAAAAGGGATATCTTCGACTATCAATT
1 ATGAAAAGGGATAGCTTCGACTATCAATC
* * * *
30939712 ATGAAAAGGGA-CGGTGACGACCATCAA-C
1 ATGAAAAGGGATAGCT-TCGACTATCAATC
* * *
30939740 AATGAAAAGGGAT-GGTGAT-GACCATTGAA-C
1 -ATGAAAAGGGATAGCT--TCGACTA-TCAATC
* *
30939770 TATGAAAAGAGATAGCTTCGACTATCAAATT
1 -ATGAAAAGGGATAGCTTCGACTATC-AATC
30939801 ATGAAAAGGGAT
1 ATGAAAAGGGAT
30939813 GGTGACGACC
Statistics
Matches: 101, Mismatches: 19, Indels: 19
0.73 0.14 0.14
Matches are distributed among these distances:
28 3 0.03
29 64 0.63
30 32 0.32
31 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCAATC
Found at i:30939777 original size:30 final size:30
Alignment explanation
Indices: 30939711--30939872 Score: 150
Period size: 30 Copynumber: 5.4 Consensus size: 30
30939701 GACTATCAAT
* *
30939711 TATGAAAAGGGACGGTGACGACCATC-AAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* **
30939740 AATGAAAAGGGATGGTGATGACCATTGAAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* * * *
30939770 TATGAAAAGAGATAGCT--TCGACTATCAAAT
1 TATGAAAAGGGAT-GGTGAT-GACCATCAAAC
* *
30939800 TATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* * *
30939830 AATGAAAATGGATGGTGATGACCATCAAAT
1 TATGAAAAGGGATGGTGATGACCATCAAAC
*
30939860 TATGAAAATGGAT
1 TATGAAAAGGGAT
30939873 AACTTTGGCT
Statistics
Matches: 105, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
29 25 0.24
30 78 0.74
31 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACCATCAAAC
Found at i:30939857 original size:60 final size:59
Alignment explanation
Indices: 30939712--30939872 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 59
30939702 ACTATCAATT
* * * * *
30939712 ATGAAAAGGGACGGTGACGACCATCAACA--ATGAAAAGGGATGGTGATGACCATTGAACT
1 ATGAAAA-GGATGGTGATGACCATCAA-ATTATGAAAAGGGATGGTGACGACCATCGAACA
* *
30939771 ATGAAAAGAGATAGCT--TCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
1 ATGAAAAG-GAT-GGTGAT-GACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
*
30939831 ATGAAAATGGATGGTGATGACCATCAAATTATGAAAATGGAT
1 ATGAAAA-GGATGGTGATGACCATCAAATTATGAAAAGGGAT
30939873 AACTTTGGCT
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
58 2 0.02
59 19 0.23
60 61 0.73
61 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (59 bp):
ATGAAAAGGATGGTGATGACCATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
Found at i:30939918 original size:30 final size:30
Alignment explanation
Indices: 30939860--30939918 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
30939850 ACCATCAAAT
* *
30939860 TATGAAAATGGATAACTTTGGCTGTCGAAC
1 TATGAAAATGGATAACTTCGGCTATCGAAC
* * *
30939890 TATGGAAATGGATAGCTTCGGTTATCGAA
1 TATGAAAATGGATAACTTCGGCTATCGAA
30939919 TTACGTAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
TATGAAAATGGATAACTTCGGCTATCGAAC
Found at i:30942368 original size:30 final size:30
Alignment explanation
Indices: 30942332--30942388 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
30942322 ACGAGCCTTG
30942332 GGCAAAAGTGTAAATCTGCAAAAGTTTACA
1 GGCAAAAGTGTAAATCTGCAAAAGTTTACA
* * * *
30942362 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATCTGCAAAAGTTT
30942389 GAGTCAAGGA
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:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATCTGCAAAAGTTTACA
Found at i:30942857 original size:23 final size:23
Alignment explanation
Indices: 30942827--30942925 Score: 108
Period size: 23 Copynumber: 4.3 Consensus size: 23
30942817 AGTGTTATTG
30942827 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* ** * *
30942850 ATCTGTGGTAGCTTTGACTAAAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
30942873 TTCAATGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
30942896 ATCAGTGGTAGCTTCGGGTACAT
1 ATCAGTGGTAGCTACGGCTACAT
30942919 ATCAGTG
1 ATCAGTG
30942926 TGGAACTTAT
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:30946208 original size:23 final size:23
Alignment explanation
Indices: 30946173--30946271 Score: 117
Period size: 23 Copynumber: 4.3 Consensus size: 23
30946163 AGTATTATTG
*
30946173 ATCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
30946196 ATCTGTGGTAGCTTCGGCTAAAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
30946219 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
30946242 ATCAGTAGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
30946265 ATCAGTG
1 ATCAGTG
30946272 TGGCACTTAT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:30946253 original size:46 final size:46
Alignment explanation
Indices: 30946173--30946271 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 46
30946163 AGTATTATTG
* * * *
30946173 ATCAATGGTAGCTACGGCTACATATCTGTGGTAGCTTCGGCTAAAT
1 ATCAGTGGTAGCTACGGCTACATATCAGTAGTAGCTTCAGCTAAAT
* * *
30946219 TTCAGTGGTAGCTACGGCTACGTATCAGTAGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACATATCAGTAGTAGCTTCAGCTAAAT
30946265 ATCAGTG
1 ATCAGTG
30946272 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTACGGCTACATATCAGTAGTAGCTTCAGCTAAAT
Found at i:30948674 original size:18 final size:17
Alignment explanation
Indices: 30948641--30948679 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
30948631 TTTTATAAAT
30948641 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
30948659 TGTGAATTAT-TATTGAA
1 TGTGAATTATAT-TTGAA
30948676 TGTG
1 TGTG
30948680 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:30948935 original size:23 final size:23
Alignment explanation
Indices: 30948905--30949003 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
30948895 AGTGTTATTG
*
30948905 ATCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
30948928 ATCTGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
30948951 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
30948974 ATCAGTGGTAGCTTCGGCTGCAT
1 ATCAGTGGTAGCTACGGCTACAT
30948997 ATCAGTG
1 ATCAGTG
30949004 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:30948982 original size:46 final size:46
Alignment explanation
Indices: 30948905--30949003 Score: 153
Period size: 46 Copynumber: 2.2 Consensus size: 46
30948895 AGTGTTATTG
*
30948905 ATCAGTGGTAGCTACAGCTACATATCTGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACAGCTACATATCAGTGGTAGCTTCGGCTACAT
* * * *
30948951 TTCAGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTCGGCTGCAT
1 ATCAGTGGTAGCTACAGCTACATATCAGTGGTAGCTTCGGCTACAT
30948997 ATCAGTG
1 ATCAGTG
30949004 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTACAGCTACATATCAGTGGTAGCTTCGGCTACAT
Done.