Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 57 of 210
Found at i:17300825 original size:24 final size:24
Alignment explanation
Indices: 17300798--17300843 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
17300788 TTTAAATTCA
*
17300798 AAGATATTAATAAAAATACATACT
1 AAGAAATTAATAAAAATACATACT
17300822 AAGAAATTAATAAAAATACATA
1 AAGAAATTAATAAAAATACATA
17300844 AATGGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (24 bp):
AAGAAATTAATAAAAATACATACT
Found at i:17301217 original size:8 final size:8
Alignment explanation
Indices: 17301206--17301232 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17301196 TATAAAACTA
17301206 TAAATTAT
1 TAAATTAT
17301214 TAAATTAT
1 TAAATTAT
17301222 TAAATTAT
1 TAAATTAT
17301230 TAA
1 TAA
17301233 TTAAGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAAATTAT
Found at i:17305819 original size:3 final size:3
Alignment explanation
Indices: 17305811--17305850 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
17305801 AAAATAAATA
17305811 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17305851 TCCAGATCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17307959 original size:19 final size:19
Alignment explanation
Indices: 17307913--17307960 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
17307903 GTATATATTT
17307913 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
17307931 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
17307950 TAAGTTTTATT
1 TAAATTTTATT
17307961 CATATTATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:17311832 original size:19 final size:19
Alignment explanation
Indices: 17311766--17311824 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
17311756 GTATATATTT
17311766 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
17311784 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
17311803 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
17311822 TAA
1 TAA
17311825 GTTTTATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 5 0.12
19 35 0.88
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:17312338 original size:39 final size:39
Alignment explanation
Indices: 17312289--17312366 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
17312279 ACTAAAGAGA
* * *
17312289 TCTATGACCATGCTTATCAAGTTGTACTGTGAGAACAAG
1 TCTATAACCATGCCTATCAAGTTATACTGTGAGAACAAG
17312328 TCTATAACCATGCCTATCAAGTTATACTGTGAGAACAAG
1 TCTATAACCATGCCTATCAAGTTATACTGTGAGAACAAG
17312367 GCAACCATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (39 bp):
TCTATAACCATGCCTATCAAGTTATACTGTGAGAACAAG
Found at i:17319329 original size:31 final size:32
Alignment explanation
Indices: 17319291--17319358 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
17319281 TGGGCATTGC
* *
17319291 CATTACATATTTTTATCATTGTAGTCACTT-T
1 CATTACATACTTTTATCATTGTAGCCACTTGT
*
17319322 CATTACATACTTTTATCATTTTAGCCACTTGT
1 CATTACATACTTTTATCATTGTAGCCACTTGT
17319354 CATTA
1 CATTA
17319359 ATTTACCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (32 bp):
CATTACATACTTTTATCATTGTAGCCACTTGT
Found at i:17320004 original size:12 final size:12
Alignment explanation
Indices: 17319983--17320011 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17319973 AATTGATTCT
17319983 TAAA-AAAATTA
1 TAAAGAAAATTA
17319994 TAAAGAAAATTA
1 TAAAGAAAATTA
17320006 TAAAGA
1 TAAAGA
17320012 TAAAATGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (12 bp):
TAAAGAAAATTA
Found at i:17324577 original size:21 final size:21
Alignment explanation
Indices: 17324551--17324605 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17324541 ACAGTCTAAG
* *
17324551 CACACGGGCGTGTG-GAGTGGC
1 CACACGGGCATGTGAG-GTAGC
*
17324572 CACACGAGCATGTGAGGTAGC
1 CACACGGGCATGTGAGGTAGC
*
17324593 CACACGGCCATGT
1 CACACGGGCATGT
17324606 CTCTAAGCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.22, C:0.27, G:0.36, T:0.15
Consensus pattern (21 bp):
CACACGGGCATGTGAGGTAGC
Found at i:17328384 original size:16 final size:16
Alignment explanation
Indices: 17328360--17328392 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17328350 AGATAATTTC
*
17328360 ATTACAGCATTGTTTA
1 ATTAAAGCATTGTTTA
17328376 ATTAAAGCATTGTTTA
1 ATTAAAGCATTGTTTA
17328392 A
1 A
17328393 CATTCATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (16 bp):
ATTAAAGCATTGTTTA
Found at i:17334595 original size:43 final size:43
Alignment explanation
Indices: 17334548--17334634 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
17334538 GCCTTGGGAC
17334548 ATAGGGTGTCACAGTGAGGAATTGAAGTGGATAGAGCGAAAAT
1 ATAGGGTGTCACAGTGAGGAATTGAAGTGGATAGAGCGAAAAT
17334591 ATAGGGTGTCACAGTGAGGAATTGAAGTGGATAGAGCGAAAAT
1 ATAGGGTGTCACAGTGAGGAATTGAAGTGGATAGAGCGAAAAT
17334634 A
1 A
17334635 GAAGTGACCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (43 bp):
ATAGGGTGTCACAGTGAGGAATTGAAGTGGATAGAGCGAAAAT
Found at i:17336587 original size:43 final size:43
Alignment explanation
Indices: 17336529--17336732 Score: 216
Period size: 43 Copynumber: 4.7 Consensus size: 43
17336519 CTGATAAGTG
* * *
17336529 TTTTCGTGTAAGACCACGTCAGGGACGATAGCATCGACTTGTG
1 TTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGACTTGTA
* **
17336572 TTTTCGTGTAAGACCACGTCTGGGATGATGGCATTAACTTGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGACTTGTA
*
17336615 TTTTCGTGTAAGACCACGTCTGGGACGATGGCATGGACTTGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGACTTGTA
* * * * *
17336658 TTTTTGAGTAAGATCCTA--TATGGGACAATGGCATCGATTTGTGA
1 TTTTCGTGTAAGA-CC-ACGTCTGGGACGATGGCATCGACTTGT-A
* * * *
17336702 TTAT-ATGTAAGAGCACGTCTGGGACGTTGGC
1 TTTTCGTGTAAGACCACGTCTGGGACGATGGC
17336733 GTTGTACGAA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 125 0.93
44 6 0.04
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGACTTGTA
Found at i:17339791 original size:12 final size:13
Alignment explanation
Indices: 17339776--17339804 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17339766 ATAAGTAGTT
17339776 TTTTCCATT-TTA
1 TTTTCCATTGTTA
17339788 TTTTCCATTGTTA
1 TTTTCCATTGTTA
17339801 TTTT
1 TTTT
17339805 TATTTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTCCATTGTTA
Found at i:17359693 original size:6 final size:7
Alignment explanation
Indices: 17359671--17359696 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17359661 TTCCTTTCAG
17359671 TTTAGTT
1 TTTAGTT
17359678 TTTAGTT
1 TTTAGTT
17359685 TTTAGTT
1 TTTAGTT
17359692 TTTAG
1 TTTAG
17359697 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (7 bp):
TTTAGTT
Found at i:17360538 original size:12 final size:13
Alignment explanation
Indices: 17360516--17360544 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17360506 ATTCACACTC
17360516 TGGACGTATGACT
1 TGGACGTATGACT
17360529 TGGA-GTATGACT
1 TGGACGTATGACT
17360541 TGGA
1 TGGA
17360545 AGCCCACTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.10, G:0.34, T:0.31
Consensus pattern (13 bp):
TGGACGTATGACT
Found at i:17366286 original size:17 final size:17
Alignment explanation
Indices: 17366266--17366323 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
17366256 TTTTATAAAT
*
17366266 AATATATTATACTATTA
1 AATATATTATAATATTA
17366283 AATATATTTATAATATATA
1 AATATA-TTATAATAT-TA
*
17366302 TTAATAAATTATAATATTA
1 --AATATATTATAATATTA
17366321 AAT
1 AAT
17366324 TTTTCTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 9 0.26
18 8 0.23
19 4 0.11
20 9 0.26
21 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATATTATAATATTA
Found at i:17366286 original size:20 final size:20
Alignment explanation
Indices: 17366261--17366323 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
17366251 CATATTTTTA
*
17366261 TAAATAATATATTATACTAT
1 TAAATAATATATTATAATAT
17366281 TAAAT-ATAT-TTATAATA-
1 TAAATAATATATTATAATAT
* *
17366298 TATATTAATAAATTATAATAT
1 TA-AATAATATATTATAATAT
17366319 TAAAT
1 TAAAT
17366324 TTTTCTACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.06
18 9 0.26
19 7 0.20
20 15 0.43
21 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATAATATATTATAATAT
Found at i:17383967 original size:23 final size:22
Alignment explanation
Indices: 17383924--17383967 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17383914 TTCTAAGTCG
17383924 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
17383947 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
17383968 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:17384080 original size:45 final size:45
Alignment explanation
Indices: 17384012--17384099 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
17384002 AACAGATACT
* * ** *
17384012 CGGTGGATTCAGCACATAGCAACCATTTTATTAATCAATGATGAC
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGAC
17384057 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATG
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATG
17384100 TTCGGTTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGAC
Found at i:17384169 original size:51 final size:51
Alignment explanation
Indices: 17384102--17384297 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 51
17384092 CAATGATGTT
* *
17384102 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * *** *
17384153 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGGAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * * * * *
17384204 TGATACGCATAGCAGCCTGCACATAGTACTACACACGCGACC--TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TC
* *
17384254 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
17384298 CACTTTCACT
Statistics
Matches: 119, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 78 0.66
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (51 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
Found at i:17384285 original size:101 final size:101
Alignment explanation
Indices: 17384109--17384293 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
17384099 GTTCGGTTCA
* * *
17384109 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGGTACACGTAGTAGCCTGCA
1 CATAGCAGCCTGCACATAGTACTACACACGCGACCA-TACCATCCGGTACACGTAGTAGCCTGCA
17384174 CATAGTACTACACACGTGATCGGAACTATCTGATACG
65 CATAGTACTACACACGTGATCGGAACTATCTGATACG
* *
17384211 CATAGCAGCCTGCACATAGTACTACACACGCGACC-TATCATTCTGGTACACGTAGTAGCCTGCA
1 CATAGCAGCCTGCACATAGTACTACACACGCGACCATACCA-TCCGGTACACGTAGTAGCCTGCA
17384275 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
17384294 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.53
102 32 0.42
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGCAGCCTGCACATAGTACTACACACGCGACCATACCATCCGGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGGAACTATCTGATACG
Found at i:17388638 original size:35 final size:35
Alignment explanation
Indices: 17388599--17388684 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
17388589 TTTAATGGTA
* * * *
17388599 TCACTCCGTAGAGCCTGTAAATCATTTTCATGATG
1 TCACTCCGTAGAGCCAGTAAACCATTTCCATAATG
* * *
17388634 TCACTCAGTAGAGCCAGTATACCATTTCCTTAATG
1 TCACTCCGTAGAGCCAGTAAACCATTTCCATAATG
*
17388669 TCGCTCCGTAGAGCCA
1 TCACTCCGTAGAGCCA
17388685 ATAGACCACT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (35 bp):
TCACTCCGTAGAGCCAGTAAACCATTTCCATAATG
Found at i:17401416 original size:18 final size:19
Alignment explanation
Indices: 17401381--17401420 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
17401371 TCTTTTACAA
*
17401381 TTTAATCCTTTTAGTTACT
1 TTTAATCCTTTTACTTACT
*
17401400 TTTAAT-CTTTTTCTTACT
1 TTTAATCCTTTTACTTACT
17401418 TTT
1 TTT
17401421 CTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.17, C:0.15, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTAATCCTTTTACTTACT
Found at i:17408703 original size:27 final size:27
Alignment explanation
Indices: 17408673--17408725 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
17408663 CTAGGGAGAT
* *
17408673 TTGTTAGCTTGTTAGTAGGAGTAGAAG
1 TTGTTAGCTTATTAGTAAGAGTAGAAG
17408700 TTGTTAGCTTATTAGTAAGAGTAGAA
1 TTGTTAGCTTATTAGTAAGAGTAGAA
17408726 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (27 bp):
TTGTTAGCTTATTAGTAAGAGTAGAAG
Found at i:17413690 original size:14 final size:14
Alignment explanation
Indices: 17413671--17413700 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17413661 CCACACATTT
17413671 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
17413685 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
17413699 GT
1 GT
17413701 GCTGGTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.23, T:0.50
Consensus pattern (14 bp):
GTTCTTCTCTGCTG
Found at i:17413799 original size:23 final size:24
Alignment explanation
Indices: 17413770--17413824 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
17413760 CTGGTACTGG
17413770 TGTTCCTCTGCT-TG-TTGGTTCTT
1 TGTTCCTCTGCTGTGCTT-GTTCTT
17413793 TGTTCCTCTGCTGGTGCTTGTTCTT
1 TGTTCCTCTGCT-GTGCTTGTTCTT
17413818 TGTTCCT
1 TGTTCCT
17413825 TTTCTCCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.41
25 15 0.52
26 2 0.07
ACGTcount: A:0.00, C:0.24, G:0.22, T:0.55
Consensus pattern (24 bp):
TGTTCCTCTGCTGTGCTTGTTCTT
Found at i:17415752 original size:18 final size:18
Alignment explanation
Indices: 17415729--17415794 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
17415719 AAAATATGAG
*
17415729 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
17415747 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
17415765 AAATGATGTTCACATCTC
1 AAATGATGTTCACATTTC
17415783 AAATGATGTTCA
1 AAATGATGTTCA
17415795 AATGGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:17416319 original size:72 final size:72
Alignment explanation
Indices: 17416220--17416390 Score: 240
Period size: 72 Copynumber: 2.4 Consensus size: 72
17416210 CTGACAATGC
* * *
17416220 TAAA-CTAGTTTTATCAATAGATATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
*
17416284 TTTATGT
66 TTTATAT
* *
17416291 GT-AATCTAGTTTTATTAATAGTTTTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
1 -TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
17416355 ATTTTTAT
65 ATTTATAT
*
17416363 TAAAT-TAGTTTTATCAATAGTTGTTTAT
1 TAAATCTAGTTTTATCAATAGTTATTTAT
17416391 ATATGATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
71 24 0.27
72 64 0.73
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
TTTATAT
Found at i:17417807 original size:21 final size:21
Alignment explanation
Indices: 17417781--17417820 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17417771 TCGAGAAAGT
17417781 GATGAT-GATGATGACGACGAC
1 GATGATAG-TGATGACGACGAC
*
17417802 GATGATAGTGATGATGACG
1 GATGATAGTGATGACGACG
17417821 GTGAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.23
Consensus pattern (21 bp):
GATGATAGTGATGACGACGAC
Found at i:17418513 original size:13 final size:13
Alignment explanation
Indices: 17418495--17418556 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
17418485 CTCAAAATTT
17418495 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
17418508 TCAAAAGTACTTC
1 TCAAAAGCACTTC
* *
17418521 TCAAAAGTACTTT
1 TCAAAAGCACTTC
* * *
17418534 TCCACAGCACTTTT
1 TCAAAAGCAC-TTC
17418548 TCAAAAGCA
1 TCAAAAGCA
17418557 ATGAATAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
13 31 0.76
14 10 0.24
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:17422236 original size:35 final size:35
Alignment explanation
Indices: 17422185--17422253 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
17422175 GCGGATGTGA
*
17422185 CCTGTTGGTCATGGGCCCGGGTTCCAATACCCGAG
1 CCTGTTGGTCACGGGCCCGGGTTCCAATACCCGAG
*
17422220 CCTGTTGGTCACGGGCCTGGGTTCCAATACCCGA
1 CCTGTTGGTCACGGGCCCGGGTTCCAATACCCGA
17422254 AAATTATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.14, C:0.32, G:0.30, T:0.23
Consensus pattern (35 bp):
CCTGTTGGTCACGGGCCCGGGTTCCAATACCCGAG
Found at i:17423056 original size:2 final size:2
Alignment explanation
Indices: 17423049--17423073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17423039 AAGTAATGAA
17423049 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17423074 ATCTTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17430632 original size:21 final size:21
Alignment explanation
Indices: 17430595--17430635 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
17430585 GCATATTTTA
17430595 TTTTATTTTTAATAATTGTTAT
1 TTTTATTTTT-ATAATTGTTAT
17430617 TTTTATTTTT-TGAATTGTT
1 TTTTATTTTTAT-AATTGTT
17430636 GTTGACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTATAATTGTTAT
Found at i:17435954 original size:72 final size:72
Alignment explanation
Indices: 17435869--17436020 Score: 295
Period size: 72 Copynumber: 2.1 Consensus size: 72
17435859 GATGTTACAA
17435869 GATCTAACATTTTTTTACAAATTCTCGAATTATATGTATCATTGGTTTAGCCCAGACAAGTAACC
1 GATCTAACATTTTTTTACAAATTCTCGAATTATATGTATCATTGGTTTAGCCCAGACAAGTAACC
17435934 TCGATAT
66 TCGATAT
17435941 GATCTAACATTTTTTTACAAATTCTCGAATTATATGTATCATTGGTTTAGCCCAGACAAGTAACC
1 GATCTAACATTTTTTTACAAATTCTCGAATTATATGTATCATTGGTTTAGCCCAGACAAGTAACC
17436006 TCGATAT
66 TCGATAT
*
17436013 GATGTAAC
1 GATCTAAC
17436021 TATATGAGCA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (72 bp):
GATCTAACATTTTTTTACAAATTCTCGAATTATATGTATCATTGGTTTAGCCCAGACAAGTAACC
TCGATAT
Found at i:17436059 original size:30 final size:29
Alignment explanation
Indices: 17436025--17436119 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
17436015 TGTAACTATA
17436025 TGAGCAATTCTGTTAAAATGTCAGCTTGTG
1 TGAGCAATTCTG-TAAAATGTCAGCTTGTG
17436055 TGAGCAA-TCT-TAAAATACTGTCAGCTTGTG
1 TGAGCAATTCTGT-AAA-A-TGTCAGCTTGTG
* *
17436085 TGAGCAATCCTG-AATATTGTCAGCTTGTG
1 TGAGCAATTCTGTAA-AATGTCAGCTTGTG
17436114 TGAGCA
1 TGAGCA
17436120 TTACATTCCC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 22 0.39
30 28 0.49
31 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (29 bp):
TGAGCAATTCTGTAAAATGTCAGCTTGTG
Found at i:17436110 original size:29 final size:30
Alignment explanation
Indices: 17436043--17436119 Score: 120
Period size: 29 Copynumber: 2.6 Consensus size: 30
17436033 TCTGTTAAAA
*
17436043 TGTCAGCTTGTGTGAGCAATCTTAAAATAC
1 TGTCAGCTTGTGTGAGCAATCCTAAAATAC
* *
17436073 TGTCAGCTTGTGTGAGCAATCCT-GAATAT
1 TGTCAGCTTGTGTGAGCAATCCTAAAATAC
17436102 TGTCAGCTTGTGTGAGCA
1 TGTCAGCTTGTGTGAGCA
17436120 TTACATTCCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (30 bp):
TGTCAGCTTGTGTGAGCAATCCTAAAATAC
Found at i:17438248 original size:12 final size:12
Alignment explanation
Indices: 17438233--17438257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17438223 AATAACCCAA
17438233 ATTATAAAAAAT
1 ATTATAAAAAAT
17438245 ATTATAAAAAAT
1 ATTATAAAAAAT
17438257 A
1 A
17438258 ACTAAAGTTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTATAAAAAAT
Found at i:17442780 original size:20 final size:20
Alignment explanation
Indices: 17442755--17442804 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
17442745 ATCCCTCACG
17442755 CCCGTGTGCTACATCACACA
1 CCCGTGTGCTACATCACACA
* * *
17442775 CTCGTGTGCCACATCACACG
1 CCCGTGTGCTACATCACACA
17442795 CCCGTGTGCT
1 CCCGTGTGCT
17442805 TAGGTCGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.40, G:0.20, T:0.22
Consensus pattern (20 bp):
CCCGTGTGCTACATCACACA
Found at i:17444414 original size:16 final size:16
Alignment explanation
Indices: 17444378--17444418 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
17444368 AAATTTGTAA
*
17444378 TAAAAATTTTAAAACT
1 TAAAAATTTGAAAACT
17444394 T-AAAATTTGAAAACT
1 TAAAAATTTGAAAACT
17444409 TAAAAATTTG
1 TAAAAATTTG
17444419 GAGAAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (16 bp):
TAAAAATTTGAAAACT
Found at i:17444727 original size:57 final size:54
Alignment explanation
Indices: 17444631--17444786 Score: 197
Period size: 57 Copynumber: 2.9 Consensus size: 54
17444621 ATACAAATTA
* *
17444631 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATTTTTACTATTTTCAT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACT-GTTT--T
* * * *
17444688 CAGATAATATTTCCTGTTCATTCGTCTTTTTTTGTAAGGAATATTTACTGTTTT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTGTTTT
** *
17444742 CAGAGAATATTTCCTG-TCACTTATCTTTTCTTGCAGGGAATATTT
1 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTT
17444787 CGTCAGAGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 23 0.27
54 16 0.19
56 3 0.03
57 44 0.51
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (54 bp):
CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTGTTTT
Found at i:17447655 original size:21 final size:23
Alignment explanation
Indices: 17447631--17447673 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
17447621 TCAATTTTTT
*
17447631 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTATTTAG
*
17447652 AAAAGAGATTTGCTTCTATTTA
1 AAAACAGATTTGCTTCTATTTA
17447674 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTATTTAG
Found at i:17455300 original size:66 final size:66
Alignment explanation
Indices: 17455216--17455477 Score: 380
Period size: 66 Copynumber: 4.0 Consensus size: 66
17455206 TTACTAATAG
* * *
17455216 AGTTCCTGTCAATTACAGCTCATAACAGGTGAGTAATGCTCAAACAATAATACAAATAAATTTCA
1 AGTTCCTGTCAATCACAGCTCATAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
17455281 C
66 C
* * * *
17455282 AGTTCCTGTCAACCACAGCTTACAATAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
1 AGTTCCTGTCAATCACAGCTCATAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
17455347 C
66 C
* * * *
17455348 AGTTCTTGTCAATCAAAGCTCATAACATGTGAGTAATGCTCAAAAAATAGTACAAATCAATTTCA
1 AGTTCCTGTCAATCACAGCTCATAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
*
17455413 T
66 C
* * * *
17455414 AATTCCTATCAATCACAACTCATAACAAGTGAGTAATGCTCAAACAATAGTACAAATCAATTTC
1 AGTTCCTGTCAATCACAGCTCATAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTC
17455478 TCACATTTCA
Statistics
Matches: 173, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 173 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (66 bp):
AGTTCCTGTCAATCACAGCTCATAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
C
Found at i:17457298 original size:13 final size:13
Alignment explanation
Indices: 17457280--17457305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17457270 GCGAGATACA
17457280 ATTTTTAATTTTT
1 ATTTTTAATTTTT
17457293 ATTTTTAATTTTT
1 ATTTTTAATTTTT
17457306 TAGGTCGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTTAATTTTT
Found at i:17460017 original size:66 final size:66
Alignment explanation
Indices: 17459907--17460054 Score: 233
Period size: 66 Copynumber: 2.2 Consensus size: 66
17459897 ACGAGACATG
* ** *
17459907 TTTGGTGTGTTGGAGAGTGCTAGATTTATGCTTCACTTATGGGACATGTTTGACTCTATGAGTCT
1 TTTGGTGTGTTGGAGAGTGCTACATTTATAATTCACTTACGGGACATGTTTGACTCTATGAGTCT
17459972 A
66 A
* * *
17459973 TTTGGTGTGTTGGAGAGTGTTACCTTTATAATTCACTTACGGGACATGTTTGACTCTATGAGTTT
1 TTTGGTGTGTTGGAGAGTGCTACATTTATAATTCACTTACGGGACATGTTTGACTCTATGAGTCT
17460038 A
66 A
17460039 TTTGGTGTGTTGGAGA
1 TTTGGTGTGTTGGAGA
17460055 TTCGTGTATC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.20, C:0.11, G:0.28, T:0.42
Consensus pattern (66 bp):
TTTGGTGTGTTGGAGAGTGCTACATTTATAATTCACTTACGGGACATGTTTGACTCTATGAGTCT
A
Found at i:17462706 original size:431 final size:432
Alignment explanation
Indices: 17461902--17462754 Score: 1451
Period size: 431 Copynumber: 2.0 Consensus size: 432
17461892 CATCTGAACC
*
17461902 TAAACTGTCGTAATTCGGTGTAGTAGATTAAACTATTTTTCACATTTAAGGAGTTTAAATACAAG
1 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTATTTTTCACATTTAAGGAGTTTAAATACAAG
* *
17461967 CATTTTTGTTATGTTATAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTGCACATTG
66 AATTTTCGTTATGTTATAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTGCACATTG
* *
17462032 AGTCTTTTATTAACATAAGGGTCGAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAGGAGAC
131 AGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGAC
*
17462097 CATTAGATGGCATTCCAGGGCAATACTGGACGCTATGTCACAACAAGGGGGATCCAATGTCGCAA
196 CATTAGAAGGCATTCCAGGGCAATACTGGACGCTATGTCACAACAAGGGGGATCCAATGTCGCAA
* *
17462162 CATAGAAAGCATAATAAAGAAAGTGAGAAACTGCGTCCAATGCCGCAACACAGGCTGAGGCTATC
261 CATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTCCAATGCCGCAACACAGGCTGAGGCTATC
* * *
17462227 ACGACATATCCCTAAATATGGCTATAGAGGGACATTTGGGTTGCTACGTCACGGCACAAGTCTTG
326 ACGACATATCCATAAATATGGCTATAGAGGAACATTTGGGTTGCTACGTCACGACACAAGTCTTG
17462292 GTGTCAAGACATCGAATTTGTGACGAGAATAAACTAGTAGAT
391 GTGTCAAGACATCGAATTTGTGACGAGAATAAACTAGTAGAT
17462334 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACT-TGTTTTCACATTTAAGGAGTTTAAATACAA
1 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAT-TTTTCACATTTAAGGAGTTTAAATACAA
* *
17462398 GAATTTTCGTTATGTTTTAATTCAGTTTCTTTAGTTTT-TTTACATTCAATAAAATGTGCACATT
65 GAATTTTCGTTATGTTATAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTGCACATT
* *
17462462 GAGTCTTTTATTAACCTAAGGGTCAAATAAGGGGGAGGTAGTGTACATTGTGAGTGTGCAAGAGA
130 GAGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGA
* * *
17462527 CCATTAGAAGGCATTTCGGGGCAATACTGGATGCTATGTCACAACAAGGGGGATCCAATGTCGCA
195 CCATTAGAAGGCATTCCAGGGCAATACTGGACGCTATGTCACAACAAGGGGGATCCAATGTCGCA
* * *
17462592 ACATAGAAAGCAGAATAGAGAAAGTGAGAAACTGCCTTCAATGCCGCAACACAGGCTGAGGCTGT
260 ACATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTCCAATGCCGCAACACAGGCTGAGGCTAT
*
17462657 CACGACATATCCATAAATATGGCTATAGAGGAACATGTT-GGTTGCTACGTCGCGACACAAGTCT
325 CACGACATATCCATAAATATGGCTATAGAGGAACAT-TTGGGTTGCTACGTCACGACACAAGTCT
* *
17462721 TGGTGTCGAGACATCGACTTTGTGACGAGAATAA
389 TGGTGTCAAGACATCGAATTTGTGACGAGAATAA
17462755 GACACAAAGT
Statistics
Matches: 395, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
431 298 0.75
432 97 0.25
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (432 bp):
TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTATTTTTCACATTTAAGGAGTTTAAATACAAG
AATTTTCGTTATGTTATAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTGCACATTG
AGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGAC
CATTAGAAGGCATTCCAGGGCAATACTGGACGCTATGTCACAACAAGGGGGATCCAATGTCGCAA
CATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTCCAATGCCGCAACACAGGCTGAGGCTATC
ACGACATATCCATAAATATGGCTATAGAGGAACATTTGGGTTGCTACGTCACGACACAAGTCTTG
GTGTCAAGACATCGAATTTGTGACGAGAATAAACTAGTAGAT
Found at i:17469699 original size:23 final size:23
Alignment explanation
Indices: 17469669--17469716 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
17469659 CAAGATTTCC
17469669 ATAGTTCTATTTCTAGAAAATAA
1 ATAGTTCTATTTCTAGAAAATAA
17469692 ATAGTTCTATTTCTAGAAAATAA
1 ATAGTTCTATTTCTAGAAAATAA
17469715 AT
1 AT
17469717 GAAAAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (23 bp):
ATAGTTCTATTTCTAGAAAATAA
Found at i:17477588 original size:109 final size:106
Alignment explanation
Indices: 17477281--17477600 Score: 444
Period size: 107 Copynumber: 3.0 Consensus size: 106
17477271 GATTAAGATA
* *
17477281 TAAAAGGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACCCAGCATATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTA-TTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
* *
17477346 ATCGAATTTCCAAGCGCAAAACATTGCCTTATTTTGAAATTTT
65 -TCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
* * *
17477389 TAAAAGGATATTCGGTTATCTGGTCGAACGAGAAAATCG-AACCCAGCACATTAGGGCACATTTC
1 TAAAAGGATATTTGGCTAT-TGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTT-
*
17477453 CTCGAATTTCGAAACGCAAAACATTACCTTATTTTGAAATTTT
64 CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
* *
17477496 TAAAAGGATATTTGGCTATTAGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATT-GGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* * * *
17477561 TCTCGAACTTCCAAATGCAAAATATTACCTTATTTAGAAA
63 TCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA
17477601 AATTTTCTTT
Statistics
Matches: 188, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
106 1 0.01
107 88 0.47
108 42 0.22
109 54 0.29
110 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (106 bp):
TAAAAGGATATTTGGCTATTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCT
CGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
Found at i:17480192 original size:50 final size:49
Alignment explanation
Indices: 17480133--17480681 Score: 355
Period size: 50 Copynumber: 11.0 Consensus size: 49
17480123 TTAACTGTAA
* *
17480133 TGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACAC
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCAC
** * * * ** * *
17480183 CATCAGGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAA
1 TGTC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCCACTGCAC
* ** *
17480233 TGTTGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCAC
* * * * ** * *
17480283 CGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAA
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATC-TTTCCACTGCAC
*
17480333 TGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCAC
* * * * * * ** * * *
17480383 CGCCTGGGAAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTTAATTACAA
1 TGTC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCCACTGCAC
* * *
17480433 TGTCGGGGAAAG-AAGATTCACTGTTGTAGCTTCAATCTATTCCACTACAC
1 TGTCGGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCAC
* * * * * * ** * *
17480483 TGCCTGGGAAGTAAGATTCACCATTGTGGCTTCAATTTTTTTAATTGCAA
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAA-TCTTTCCACTGCAC
* * ** *
17480533 TATCGGGGAAGCAAGATTCATCGTTGTAGCTTCAATTTGTTCCACTGCAC
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCAC
* * * * * * ** * *
17480583 CGCCTGAGAAGTAAGATTCACCGTTGT-GATTTCAATCTTTTAATTGCAA
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTCCACTGCAC
* * * ** *
17480632 TGTCGGTGAGGCAAGATTCGCTATTGCAGCTTCAATCTGTTCCACTGCAC
1 TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTCCACTGCAC
17480682 CGCTTGGGAA
Statistics
Matches: 367, Mismatches: 119, Indels: 26
0.72 0.23 0.05
Matches are distributed among these distances:
49 92 0.25
50 213 0.58
51 62 0.17
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (49 bp):
TGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTCCACTGCAC
Found at i:17480250 original size:100 final size:99
Alignment explanation
Indices: 17480112--17480700 Score: 766
Period size: 100 Copynumber: 5.9 Consensus size: 99
17480102 GGATTGGCTT
* * * * * *
17480112 CTTCAATCTGTTTAACTGTAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTATTCCA
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* ** *
17480177 CTACACCATCAGGGAAAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * *
17480213 CCTCAATCTTTTAATTGCAATGTTGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
17480278 TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
66 TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
*
17480312 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* *
17480377 CTGCACCGCCTGGGAAAGTAAGATCCGTCGTTGTGG
65 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * *
17480413 CTTCAATCTTTTAATTACAATGTCGGGGAAAG-AAGATTCACTGTTGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTAATTGCAATGTCGGGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* * * *
17480477 CTACACTGCCTGGGAAGTAAGATTCACCATTGTGG
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * *
17480512 CTTCAATTTTTTTAATTGCAATATCGGGGAAGCAAGATTCATCGTTGTAGCTTCAATTTGTTCCA
1 CTTCAA-TCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* * *
17480577 CTGCACCGCCTGAGAAGTAAGATTCACCGTTGTGA
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * ** *
17480612 TTTCAATCTTTTAATTGCAATGTCGGTGAGGCAAGATTCGCTATTGCAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
* *
17480677 TGCACCGCTTGGGAAATAAGATTC
66 TGCACCGCCTGGGAAGTAAGATTC
17480701 ATTGTCTTCG
Statistics
Matches: 428, Mismatches: 55, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
99 124 0.29
100 266 0.62
101 38 0.09
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (99 bp):
CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
Found at i:17480905 original size:132 final size:131
Alignment explanation
Indices: 17480705--17481064 Score: 479
Period size: 132 Copynumber: 2.7 Consensus size: 131
17480695 AGATTCATTG
*
17480705 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTACAATCATTGACCTACTCCACTACT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTGCAATC-TTGACCTACTCCACTACT
* * ** * * *
17480770 GCTTAAGGAAATAGGACTGGTGGCTTAAATCTGCTTC-CCTTCTACCTTTAGAAGATAAGATTCA
65 GCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCC-ACTACATTGAGAAGATAAGATTCA
*
17480834 CCG
129 CCA
* * ** * * * *
17480837 TTTTTGATCTGTTCCACTACTGTTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTATT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTT-GACCTACTCCACTACT
* *
17480902 GCTTAGGGAGATAGGACTAATGGCTTAAATTTGCTTCTCCACTATATTGAGAAGATAAGATTCAC
65 GCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTACATTGAGAAGATAAGATTCAC
17480967 CA
130 CA
* * *
17480969 TCTTCGATCTACTCCACTACTGCTTAAGGAGATAGAATCTGCAATCTTTGACTTATTCCACTACT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTGCAATC-TTGACCTACTCCACTACT
17481034 GCTTAGGGAGATAGGACTAATGGCTTAAATC
65 GCTTAGGGAGATAGGACTAATGGCTTAAATC
17481065 CTTTAATTGC
Statistics
Matches: 194, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
131 2 0.01
132 188 0.97
133 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (131 bp):
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTGACCTACTCCACTACTG
CTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTACATTGAGAAGATAAGATTCACC
A
Found at i:17481186 original size:100 final size:99
Alignment explanation
Indices: 17481066--17481411 Score: 491
Period size: 100 Copynumber: 3.5 Consensus size: 99
17481056 GCTTAAATCC
* * * *
17481066 TTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCGTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCC
*
17481131 TTGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
66 TGGGAAGTAAGATTCACCGTTGTGGCTTCAAT-TT
* *
17481166 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCACCGCC
1 TTTAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCC
* **
17481231 TGGGAAAGTAAGATCCGTCGTTGTGGCTT-AATTCT
66 TGGG-AAGTAAGATTCACCGTTGTGGCTTCAATT-T
* * *
17481266 TTTAATTGCAATATCGGGGAAAG-AAGATTCACTGTTGTAGCTTCAATCTATTCCACTACACTGC
1 TTTAATTGCAATATCGGGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
*
17481330 CTGGGAAGTAAGATTCACCATTGTGGCTTCAATTTT
65 CTGGGAAGTAAGATTCACCGTTGTGGCTTCAA-TTT
*
17481366 TTTAATTGCAATATCGGGGAAGCAAGATTCATCGTTGTA-CTTCAAT
1 TTTAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTCAAT
17481412 TTGTTNNNNN
Statistics
Matches: 221, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
99 31 0.14
100 164 0.74
101 26 0.12
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (99 bp):
TTTAATTGCAATATCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCC
TGGGAAGTAAGATTCACCGTTGTGGCTTCAATTT
Found at i:17481386 original size:50 final size:50
Alignment explanation
Indices: 17481066--17481411 Score: 241
Period size: 50 Copynumber: 6.9 Consensus size: 50
17481056 GCTTAAATCC
** * * *
17481066 TTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCGTCAATCTG
1 TTTAATTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
** * ** * **
17481116 TTCCACTGCACCGCCTTGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
1 TTTAATTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
* * * *
17481166 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTA
1 TTTAATTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
** * ** * * * **
17481216 TTCCACTGCACCGCCTGGGAAAGTAAGATCCGTCGTTGTGGCTT-AAT-TCT
1 TTTAATTGCAATGTC-GGGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-T
* * * *
17481266 TTTAATTGCAATATCGGGGAAAG-AAGATTCACTGTTGTAGCTTCAATCTA
1 TTTAATTGCAATGTCGGGG-AAGTAAGATTCACCGTTGTGGCTTCAATCTT
** * * * * * * *
17481316 TTCCACTACACTGCCTGGGAAGTAAGATTCACCATTGTGGCTTCAATTTT
1 TTTAATTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
* * * *
17481366 TTTAATTGCAATATCGGGGAAGCAAGATTCATCGTTGT-ACTTCAAT
1 TTTAATTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCAAT
17481412 TTGTTNNNNN
Statistics
Matches: 214, Mismatches: 76, Indels: 13
0.71 0.25 0.04
Matches are distributed among these distances:
49 29 0.14
50 161 0.75
51 24 0.11
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
TTTAATTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
Found at i:17481846 original size:132 final size:131
Alignment explanation
Indices: 17481646--17482006 Score: 454
Period size: 132 Copynumber: 2.7 Consensus size: 131
17481636 AGATTCATTG
* * *
17481646 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTACTATCATTGACCTACTCCACTACT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATC-TTGACCTACTCCACTACT
* * ** * * *
17481711 GCTTAAGGAAATAGGACTGGTGGCTTAAATCTGCTTC-CCTTCTACCTTTAGAAGATAAGATTCA
65 GCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCC-ACTACATTGAGAAGATAAGATTCA
17481775 CCA
129 CCA
* * ** * * * *
17481778 TTTTTGATCTGTTCCACTACTGTTTAGGGAGACAAAATCTGCAATCTTCAACCTACTCCACTATT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTT-GACCTACTCCACTACT
* * *
17481843 GCTTAGGGAGATAGCACTAATGGCTTAAATTTGCTTCTCCACTATATTGAGAAGATAAGATTCAC
65 GCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTACATTGAGAAGATAAGATTCAC
17481908 CA
130 CA
* * *
17481910 TCTTCGATCTACTCCACTACTGCTTAAGGAGACAGAATCTGCAATCTTTGACTTATTCCACTACT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATC-TTGACCTACTCCACTACT
*
17481975 GCTTAGGGAGATAGGGCTAATGGCTTAAATCT
65 GCTTAGGGAGATAGGACTAATGGCTTAAATCT
17482007 TTTAATTGCA
Statistics
Matches: 191, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
131 2 0.01
132 185 0.97
133 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (131 bp):
TCTTCGATCTACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTGACCTACTCCACTACTG
CTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTACATTGAGAAGATAAGATTCACC
A
Found at i:17482078 original size:50 final size:50
Alignment explanation
Indices: 17482023--17482485 Score: 238
Period size: 50 Copynumber: 9.3 Consensus size: 50
17482013 TGCAATGTCG
* * *
17482023 GGGAAGCGAGATTCACCGTTGTAGCGTCAATCTGTTCCACTGCACCGCCT
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * * * ** * ** * *
17482073 TGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
*
17482123 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTACACCGCCT
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * ** * * ** * ** * *
17482173 GGGAAAGTAAGATCCGTCGTTGTGGCTTCATTCT-TTTAATTGCAATGTCG
1 GGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
** * * *
17482223 GGGAAAG-AAGATTCACTATTGTAGCTTCAATCTATTCCACTACACTGCTT
1 GGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * * * * ** * ****
17482273 GGGAAGTAAGATTCACCATTGTGGCTTCAATTTTTTTAATTGCAATATC-
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * * *
17482322 GAGGAAGCAAGATTCATCGTTGTA-CTTCAATTTGTTCTACTGCACCGCCT
1 G-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * * ** * ** *
17482372 GGGAAGTAAGATTCACCGTTGT-GATTTCAAT-TTTTTAATTGCAATGTC-
1 GGGAAGCAAGATTCACCGTTGTAG-CTTCAATCTATTCCACTGCACCGCCT
* * ** * *
17482420 GGTGAGGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCTT
1 GG-GAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
**
17482471 GGGAAATAAGATTCA
1 GGGAAGCAAGATTCA
17482486 TTGTCTTCGA
Statistics
Matches: 296, Mismatches: 106, Indels: 22
0.70 0.25 0.05
Matches are distributed among these distances:
48 2 0.01
49 90 0.30
50 178 0.60
51 26 0.09
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
Found at i:17482125 original size:100 final size:100
Alignment explanation
Indices: 17481995--17482485 Score: 618
Period size: 100 Copynumber: 4.9 Consensus size: 100
17481985 ATAGGGCTAA
* * *
17481995 TGGCTTAAATC-TTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCGTCAATCTGTT
1 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
17482059 CCACTGCACCGCCTTGGAAGTAAGATTCACCGTTG
66 CCACTGCACCGCCTTGGAAGTAAGATTCACCGTTG
*
17482094 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
1 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
* * * **
17482159 CCACTACACCGCCTGGGAAAGTAAGATCCGTCGTTG
66 CCACTGCACCGCCTTGG-AAGTAAGATTCACCGTTG
* ** *
17482195 TGGCTTCATTC-TTTTAATTGCAATGTCGGGGAAAG-AAGATTCACTATTGTAGCTTCAATCTAT
1 TGGCTTCAATCTTTTTAATTGCAATGTCGGGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTGT
* * *
17482258 TCCACTACACTG-CTTGGGAAGTAAGATTCACCATTG
65 TCCACTGCACCGCCTT-GGAAGTAAGATTCACCGTTG
* * * * *
17482294 TGGCTTCAATTTTTTTAATTGCAATATCGAGGAAGCAAGATTCATCGTTGTA-CTTCAATTTGTT
1 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
* *
17482358 CTACTGCACCGCCTGGGAAGTAAGATTCACCGTTG
66 CCACTGCACCGCCTTGGAAGTAAGATTCACCGTTG
** * * * **
17482393 TGATTTCAAT-TTTTTAATTGCAATGTCGGTGAGGCAAGATTCGCTATTGTAGCTTCAATCTGTT
1 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
*
17482457 CCACTGCACCG-CTTGGGAAATAAGATTCA
66 CCACTGCACCGCCTT-GGAAGTAAGATTCA
17482486 TTGTCTTCGA
Statistics
Matches: 337, Mismatches: 46, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
98 35 0.10
99 117 0.35
100 157 0.47
101 28 0.08
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (100 bp):
TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTT
CCACTGCACCGCCTTGGAAGTAAGATTCACCGTTG
Found at i:17483065 original size:44 final size:44
Alignment explanation
Indices: 17482885--17483095 Score: 123
Period size: 44 Copynumber: 4.8 Consensus size: 44
17482875 AAGATTCACC
* * * **
17482885 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
* ** * **
17482929 ATCTTTC-ACCTATTACACTACTGCTTAGGGAGATAGGA-CT--A
1 ATC-TTCAATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
* * *
17482970 ATGGCTTAAATCTGCTTCTCCACTA-T-CTT-GGGAAGATAAGAT-TCACC
1 AT--CTTCAATCTG---CTCCACTACTGCTTAGGG-AGATAAAATCT-ACA
*
17483017 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
* * * *
17483061 ATCTTTAACCTACTCCACTATTGCTTAGGGAGATA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATA
17483096 GGACTAATGG
Statistics
Matches: 129, Mismatches: 22, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
41 3 0.02
42 10 0.08
43 10 0.08
44 82 0.64
45 16 0.12
46 6 0.05
47 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
Found at i:17483066 original size:132 final size:132
Alignment explanation
Indices: 17482813--17483108 Score: 511
Period size: 132 Copynumber: 2.2 Consensus size: 132
17482803 NNNNNNNNNN
17482813 CTACTGCTTAGGGAGAATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAG
1 CTACTGCTTAGGGAG-ATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAG
* ** * *
17482878 ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTCACCTATT
65 ATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAAATCTACAATCTTTAACCTACT
17482943 ACA
130 ACA
17482946 CTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGA
1 CTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGA
* *
17483011 TTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTTAACCTACTC
66 TTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAAATCTACAATCTTTAACCTACTA
17483076 CA
131 CA
*
17483078 CTATTGCTTAGGGAGATAGGACTAATGGCTT
1 CTACTGCTTAGGGAGATAGGACTAATGGCTT
17483109 CGATCTACTT
Statistics
Matches: 155, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
132 140 0.90
133 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
CTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGA
TTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAAATCTACAATCTTTAACCTACTA
CA
Found at i:17483259 original size:89 final size:89
Alignment explanation
Indices: 17483106--17483680 Score: 731
Period size: 89 Copynumber: 6.5 Consensus size: 89
17483096 GGACTAATGG
* * * * * *
17483106 CTTCGATCTACTTCGCTGTCAGTACAGGAAGGCAATATCTGCTATCTTTAGTCTGCTCCGCTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGTC
*
17483171 AGTATAGGAAGGCAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * *
17483195 CTTCGATCTGCTTTGCCGTCAGTACAGGAAGGCAACATCTGCTATCTTTAGTCTGCTCCACTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGTC
* *
17483260 AGTACAAGAATGCAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * * *
17483284 CTTCGATTTGCTTCGCCATCAGTACAGGAAGGCATGATCTGCTATCATCAATCTGCTCCACTATC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGTC
17483349 AGTACAGGAAGGCAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * *
17483373 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATA-ATCTGCTATCTTCAATCTGTTCAACTGT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCA-AGATCTGCTATCTTCAATCTGCTCCACTGT
* *
17483437 CAATATAGGAAGGCAAGACTGGTTT
65 CAGTACAGGAAGGCAAGACTGGTTT
* ** * * * * *
17483462 CTTCGATCTGCTTCGCCGCCAGTGTAGGAGGGCAAGATCTGCTATCTTTAGTCTGTTCCGCTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGTC
* *
17483527 AGTATAGGAAGGTAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * * * *
17483551 CTTCGATCTGCTTCACCGTCAGTACAGGAATGCATGATCTGCTATCTTCAATCTACTCCGCTATC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGTC
* *
17483616 AATACAGGAAGGCAAGGA-TGGTGT
66 AGTACAGGAAGGCAA-GACTGGTTT
* *
17483640 CTTCGATCTGCTTTGCCGTCAGTACAGGAAGGCATGATCTG
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTG
17483681 TAACTTCGTT
Statistics
Matches: 424, Mismatches: 59, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
88 1 0.00
89 421 0.99
90 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (89 bp):
CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCCACTGTC
AGTACAGGAAGGCAAGACTGGTTT
Found at i:17483588 original size:267 final size:267
Alignment explanation
Indices: 17483106--17483680 Score: 830
Period size: 267 Copynumber: 2.2 Consensus size: 267
17483096 GGACTAATGG
* * * * **
17483106 CTTCGATCTACTTCGCTGTCAGTACAGGAAGGCA-ATATCTGCTATCTTTAGTCTGCTCCGCTGT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATA-ATCTGCTATCTTCAATCTGCTCAACTGT
* * *
17483170 CAGTATAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTTGCCGTCAGTACAGGAAGGCAACATCT
65 CAATATAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTCGCCGCCAGTACAGGAAGGCAACATCT
* * *
17483235 GCTATCTTTAGTCTGCTCCACTGTCAGTACAAGAATGCAAGACTGGTTTCTTCGATTTGCTTCGC
130 GCTATCTTTAGTCTGCTCCACTGTCAGTACAAGAAGGCAAGACTGGTTTCTTCGATCTGCTTCAC
* *
17483300 CATCAGTACAGGAAGGCATGATCTGCTATCATCAATCTGCTCCACTATCAGTACAGGAAGGCAA-
195 CATCAGTACAGGAAGGCATGATCTGCTATCATCAATCTACTCCACTATCAATACAGGAAGGCAAG
*
17483364 GACTGGTTT
260 GA-TGGTGT
* *
17483373 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATAATCTGCTATCTTCAATCTGTTCAACTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATAATCTGCTATCTTCAATCTGCTCAACTGTC
** * *
17483438 AATATAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTCGCCGCCAGTGTAGGAGGGCAAGATCTG
66 AATATAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTCGCCGCCAGTACAGGAAGGCAACATCTG
* * * * *
17483503 CTATCTTTAGTCTGTTCCGCTGTCAGTATAGGAAGGTAAGACTGGTTTCTTCGATCTGCTTCACC
131 CTATCTTTAGTCTGCTCCACTGTCAGTACAAGAAGGCAAGACTGGTTTCTTCGATCTGCTTCACC
* * * *
17483568 GTCAGTACAGGAATGCATGATCTGCTATCTTCAATCTACTCCGCTATCAATACAGGAAGGCAAGG
196 ATCAGTACAGGAAGGCATGATCTGCTATCATCAATCTACTCCACTATCAATACAGGAAGGCAAGG
17483633 ATGGTGT
261 ATGGTGT
* *
17483640 CTTCGATCTGCTTTGCCGTCAGTACAGGAAGGCATGATCTG
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATAATCTG
17483681 TAACTTCGTT
Statistics
Matches: 273, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
267 270 0.99
268 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (267 bp):
CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATAATCTGCTATCTTCAATCTGCTCAACTGTC
AATATAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTCGCCGCCAGTACAGGAAGGCAACATCTG
CTATCTTTAGTCTGCTCCACTGTCAGTACAAGAAGGCAAGACTGGTTTCTTCGATCTGCTTCACC
ATCAGTACAGGAAGGCATGATCTGCTATCATCAATCTACTCCACTATCAATACAGGAAGGCAAGG
ATGGTGT
Found at i:17484940 original size:14 final size:14
Alignment explanation
Indices: 17484921--17484979 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
17484911 CCTCTCCTTT
17484921 TTCTTTTCTTTTTC
1 TTCTTTTCTTTTTC
17484935 TTCTTTCTTTCTTTTTC
1 TTC--T-TTTCTTTTTC
* *
17484952 TTTTTTTCTTTCTC
1 TTCTTTTCTTTTTC
*
17484966 TTTTTTTCTCTTTT
1 TTCTTTTCT-TTTT
17484980 TTTTAACAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 21 0.55
15 4 0.11
16 1 0.03
17 12 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:17484943 original size:18 final size:18
Alignment explanation
Indices: 17484920--17484974 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
17484910 GCCTCTCCTT
17484920 TTTCTTTTCTTTTTCTTC
1 TTTCTTTTCTTTTTCTTC
*
17484938 TTTC-TTTCTTTTTCTTTT
1 TTTCTTTTCTTTTTC-TTC
17484956 TTTCTTTCTCTTTTT-TTC
1 TTTCTTT-TCTTTTTCTTC
17484974 T
1 T
17484975 CTTTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 10 0.31
18 13 0.41
19 2 0.06
20 7 0.22
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTTC
Found at i:17484946 original size:22 final size:21
Alignment explanation
Indices: 17484920--17484981 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 21
17484910 GCCTCTCCTT
17484920 TTTCTTTTCTTTTTCTTCTTTC
1 TTTCTTTTCTTTTT-TTCTTTC
17484942 TTTCTTTTTCTTTTTTTCTTTC
1 TTTC-TTTTCTTTTTTTCTTTC
*
17484964 TCTTTTTTTCTCTTTTTT
1 T-TTCTTTTCT-TTTTTT
17484982 TTAACAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTCTTTTCTTTTTTTCTTTC
Found at i:17484949 original size:28 final size:28
Alignment explanation
Indices: 17484917--17484983 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
17484907 TTGGCCTCTC
17484917 CTTTTTCTTTTCTT-TTTCTTCTTTCTTT
1 CTTTTTCTTTTCTTCTTTC-TCTTTCTTT
* *
17484945 CTTTTTCTTTTTTTCTTTCTCTTTTTTT
1 CTTTTTCTTTTCTTCTTTCTCTTTCTTT
17484973 CTCTTTT-TTTT
1 CT-TTTTCTTTT
17484984 AACAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 27 0.77
29 8 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (28 bp):
CTTTTTCTTTTCTTCTTTCTCTTTCTTT
Found at i:17484979 original size:8 final size:8
Alignment explanation
Indices: 17484927--17484980 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
17484917 CTTTTTCTTT
17484927 TCTTTTTC
1 TCTTTTTC
17484935 TTCTTTCTT-
1 -TCTTT-TTC
17484944 TCTTTTTC
1 TCTTTTTC
17484952 T-TTTTT-
1 TCTTTTTC
*
17484958 TCTTTCTC
1 TCTTTTTC
*
17484966 TTTTTTTC
1 TCTTTTTC
17484974 TCTTTTT
1 TCTTTTT
17484981 TTTAACAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
6 1 0.03
7 11 0.30
8 18 0.49
9 5 0.14
10 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TCTTTTTC
Found at i:17487356 original size:109 final size:107
Alignment explanation
Indices: 17487044--17487364 Score: 464
Period size: 108 Copynumber: 3.0 Consensus size: 107
17487034 GATTAAGATA
* *
17487044 TAAAAGGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACTCAGCACATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTA-TTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
* *
17487109 CTGGAATTTCCAAGCACAAAACATTGCCTTATTTTGAAATTTT
65 CTCGAATTTCCAAACACAAAACATTGCCTTATTTTGAAATTTT
* * * *
17487152 TAAAAGGATATTCGGTTATCTGGTTGAACGAGAAAATCGAAACCCAGCACATTAGGGCACATTTC
1 TAAAAGGATATTTGGCTAT-TGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
*
17487217 CTCGAATTTCCAAACACAAAACATTACCTTATTTTGAAATTTT
65 CTCGAATTTCCAAACACAAAACATTGCCTTATTTTGAAATTTT
17487260 TAAAAGGATATTTGGCTATTAGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATT-GGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* ** * *
17487325 T-CTCGAACTTCCAAATGCAAAATATTGCCTTATTTAGAAA
63 TCCTCGAATTTCCAAACACAAAACATTGCCTTATTTTGAAA
17487365 AAAAATTTCT
Statistics
Matches: 190, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
107 2 0.01
108 124 0.65
109 61 0.32
110 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
TAAAAGGATATTTGGCTATTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCC
TCGAATTTCCAAACACAAAACATTGCCTTATTTTGAAATTTT
Found at i:17487800 original size:2 final size:2
Alignment explanation
Indices: 17487793--17487825 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17487783 ATGAATTAAA
17487793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17487826 CACACGTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17487893 original size:20 final size:20
Alignment explanation
Indices: 17487861--17487901 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17487851 AAAGTGAAAC
*
17487861 ATAAAAAATATATATTTATA
1 ATAAAAAATATATATATATA
17487881 ATAAATAAA-ATATATATATA
1 ATAAA-AAATATATATATATA
17487901 A
1 A
17487902 GCATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAAAATATATATATATA
Found at i:17495991 original size:33 final size:33
Alignment explanation
Indices: 17495946--17496035 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 33
17495936 CGGTGTTTAT
17495946 ATGTAAGACCATAGTTGGGCTATGGCA-T-TCAG
1 ATGTAAGACCATAGTTGGGCTATGGCACTAT-AG
** * *
17495978 ATGATAAGACCATAACTGGGTTATGGCACTATGG
1 ATG-TAAGACCATAGTTGGGCTATGGCACTATAG
* *
17496012 GTGTAAGACCATAGTTGGACTATG
1 ATGTAAGACCATAGTTGGGCTATG
17496036 ATACAATAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 3 0.07
33 38 0.83
34 4 0.09
35 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (33 bp):
ATGTAAGACCATAGTTGGGCTATGGCACTATAG
Found at i:17496023 original size:101 final size:101
Alignment explanation
Indices: 17495810--17496036 Score: 310
Period size: 101 Copynumber: 2.2 Consensus size: 101
17495800 AATTATTCAA
* *
17495810 ATGTAACACCATGGTTGGACCATGACAGTGTTTATATGTAAGACTACAACTAGGCTATGGCATTC
1 ATGTAACACCATGGTTGGACAATGACAGTGTTTATATGTAAGACCACAACTAGGCTATGGCATTC
*
17495875 TGATGATAAGACCATAACTGGGTTATGGCACTATGG
66 AGATGATAAGACCATAACTGGGTTATGGCACTATGG
* * * * * * ** *
17495911 ACGGAATACCATGGTTGGACAATGGCGGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTC
1 ATGTAACACCATGGTTGGACAATGACAGTGTTTATATGTAAGACCACAACTAGGCTATGGCATTC
17495976 AGATGATAAGACCATAACTGGGTTATGGCACTATGG
66 AGATGATAAGACCATAACTGGGTTATGGCACTATGG
* * * *
17496012 GTGTAAGACCATAGTTGGACTATGA
1 ATGTAACACCATGGTTGGACAATGA
17496037 TACAATAAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 107 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (101 bp):
ATGTAACACCATGGTTGGACAATGACAGTGTTTATATGTAAGACCACAACTAGGCTATGGCATTC
AGATGATAAGACCATAACTGGGTTATGGCACTATGG
Found at i:17499380 original size:42 final size:41
Alignment explanation
Indices: 17499298--17499434 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 41
17499288 AAATGATTCT
* **
17499298 CGAGCTTAAATTGTTTATCCAAAATATG-TCCCTCGGAAGCA
1 CGAGCTTAAATTGTTTATCCAAAATATGAT-GCTCCTAAGCA
* *
17499339 CGAGTTTAAATTGTTAAATCCAAAATATGATGCTCCTAAGCA
1 CGAGCTTAAATTGTT-TATCCAAAATATGATGCTCCTAAGCA
* * *
17499381 CAAGCTTAAATTGTTTATCCAAAA-AAGCAATGCTCTTAAGCA
1 CGAGCTTAAATTGTTTATCCAAAATATG--ATGCTCCTAAGCA
*
17499423 CGAGATTAAATT
1 CGAGCTTAAATT
17499435 ACCATCCAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 2 0.03
41 22 0.28
42 55 0.69
43 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (41 bp):
CGAGCTTAAATTGTTTATCCAAAATATGATGCTCCTAAGCA
Found at i:17499827 original size:32 final size:32
Alignment explanation
Indices: 17499773--17499835 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
17499763 AGGAAAAATC
*
17499773 AAGAAATCAAATAATTTTAAAAT-ACTTTTATA
1 AAGAAATCAAATAATTTAAAAATGA-TTTTATA
* **
17499805 AAGAAATCATATTCTTTAAAAATGATTTTAT
1 AAGAAATCAAATAATTTAAAAATGATTTTAT
17499836 TTCTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (32 bp):
AAGAAATCAAATAATTTAAAAATGATTTTATA
Found at i:17500905 original size:13 final size:13
Alignment explanation
Indices: 17500887--17500914 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17500877 TATAGCAGAA
17500887 TGATAGGTAGTAT
1 TGATAGGTAGTAT
17500900 TGATAGGTAGTAT
1 TGATAGGTAGTAT
17500913 TG
1 TG
17500915 TACCACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (13 bp):
TGATAGGTAGTAT
Found at i:17514883 original size:15 final size:15
Alignment explanation
Indices: 17514863--17514892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17514853 ATTATACTTC
17514863 CTTTTTCCTTTTGGG
1 CTTTTTCCTTTTGGG
*
17514878 CTTTTTCTTTTTGGG
1 CTTTTTCCTTTTGGG
17514893 AAAGAAGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.20, T:0.63
Consensus pattern (15 bp):
CTTTTTCCTTTTGGG
Found at i:17521733 original size:21 final size:21
Alignment explanation
Indices: 17521695--17521734 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17521685 CCCGGCCCGG
* *
17521695 TTTTTAATAAACACAAAAATA
1 TTTTTAAAAAACAAAAAAATA
*
17521716 TTTTTAAAAAATAAAAAAA
1 TTTTTAAAAAACAAAAAAA
17521735 AAATTTAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTTTAAAAAACAAAAAAATA
Found at i:17521780 original size:31 final size:31
Alignment explanation
Indices: 17521710--17521780 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
17521700 AATAAACACA
*
17521710 AAAATAT-TTTTAAAAAATAAAAAAAAAATT
1 AAAATATATTTTAAAAAATAAAAAAAAAAAT
* * *
17521740 TAAA-GTATTTT-AAAATTAAAAAATAAAAAT
1 AAAATATATTTTAAAAAATAAAAAA-AAAAAT
17521770 AAAATATATTT
1 AAAATATATTT
17521781 ATTTATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
29 12 0.38
30 15 0.47
31 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (31 bp):
AAAATATATTTTAAAAAATAAAAAAAAAAAT
Found at i:17523913 original size:23 final size:23
Alignment explanation
Indices: 17523883--17523962 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
17523873 ACCACATCAG
* *
17523883 TATAACATGCACAAGGTGTTGAA
1 TATAACATGCACAAGGTGCTAAA
*
17523906 TATAACATGCATATA-GTGCTAAA
1 TATAACATGCACA-AGGTGCTAAA
* * *
17523929 TGTAACACGCACAAGGCGCTAAA
1 TATAACATGCACAAGGTGCTAAA
*
17523952 TATAACCTGCA
1 TATAACATGCA
17523963 TAAAGTGTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
22 1 0.02
23 43 0.96
24 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (23 bp):
TATAACATGCACAAGGTGCTAAA
Found at i:17526752 original size:152 final size:152
Alignment explanation
Indices: 17526458--17526755 Score: 436
Period size: 152 Copynumber: 2.0 Consensus size: 152
17526448 AGGCCTCAAG
* *
17526458 GGCTCGAATAAGGGACGATATGCATGTATCTTAATGGATTTTTCTATGATTATGAAATGTTTGGA
1 GGCTCAAATAAGGGACGATATGCATGTATCTTAATGGATTTTGCTATGATTATGAAATGTTTGGA
* * * *
17526523 TATTGATGATTTTAAGTTATGTTTTTACGGTAATGCTCTATAACCCTAACCCGACGACGGATACG
66 AATTGATGATTTTAAGTTACGTTTTTACGGTAATGCTCTATAACCCTAACCCGACCACGGATACA
* *
17526588 GGTGAAGTGTGTTACATTTAGT
131 GATGAAGGGTGTTACATTTAGT
* *
17526610 GGCTCAAATAAGGGACGATATGCATGTGT-TTGAATGGATTTTGCTATGGTTATGAAATGTTTGG
1 GGCTCAAATAAGGGACGATATGCATGTATCTT-AATGGATTTTGCTATGATTATGAAATGTTTGG
* ** * *
17526674 AAATTGATGATTTTAAGTTACGTTTTTACGGTAATGCTCTGTAACCCTATTCTGGCCACGGATAC
65 AAATTGATGATTTTAAGTTACGTTTTTACGGTAATGCTCTATAACCCTAACCCGACCACGGATAC
*
17526739 AGATTAAGGGTGTTACA
130 AGATGAAGGGTGTTACA
17526756 CTACCATATA
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 2 0.02
152 127 0.98
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (152 bp):
GGCTCAAATAAGGGACGATATGCATGTATCTTAATGGATTTTGCTATGATTATGAAATGTTTGGA
AATTGATGATTTTAAGTTACGTTTTTACGGTAATGCTCTATAACCCTAACCCGACCACGGATACA
GATGAAGGGTGTTACATTTAGT
Found at i:17528700 original size:15 final size:14
Alignment explanation
Indices: 17528680--17528719 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
17528670 AATTTGACCC
17528680 AATATAATATTACA
1 AATATAATATTACA
*
17528694 TAATATAATAATACA
1 -AATATAATATTACA
17528709 AATTATAATAT
1 AA-TATAATAT
17528720 CAATGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATATTACA
Found at i:17528906 original size:17 final size:16
Alignment explanation
Indices: 17528881--17528930 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
17528871 TCAGTTATGA
17528881 TATATAAAATATCTAT
1 TATATAAAATATCTAT
*
17528897 TATAATAAAACATCT-T
1 TAT-ATAAAATATCTAT
*
17528913 TATA-AAAATTTCTAT
1 TATATAAAATATCTAT
17528928 TAT
1 TAT
17528931 TTAGGAGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 7 0.24
17 10 0.34
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATAAAATATCTAT
Found at i:17529123 original size:17 final size:17
Alignment explanation
Indices: 17529088--17529132 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
17529078 GGATTGAGAA
* *
17529088 AATCTAAA-CTCAGACT
1 AATCTAAACCTTAAACT
17529104 AATCTAAACCTTAAACT
1 AATCTAAACCTTAAACT
*
17529121 AATCTCAACCTT
1 AATCTAAACCTT
17529133 CCTAAAGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (17 bp):
AATCTAAACCTTAAACT
Found at i:17530315 original size:20 final size:17
Alignment explanation
Indices: 17530294--17530327 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17530284 AATAGATGTA
17530294 ATAATTGAACAAGATAC
1 ATAATTGAACAAGATAC
17530311 ATAATTGAACAAGATAC
1 ATAATTGAACAAGATAC
17530328 TATCTTACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
ATAATTGAACAAGATAC
Found at i:17537631 original size:42 final size:41
Alignment explanation
Indices: 17537571--17537660 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
17537561 TCCTTTAGTT
* * * *
17537571 TCACTCATTTGCACTAAAAATTTTTTAAAAAAATTCAAATAA
1 TCACTCACTTACACTAAAAA-TCTTGAAAAAAATTCAAATAA
*
17537613 TCACTCACTTACATTAAAAATCTTGAAAAAAATTCAAATAA
1 TCACTCACTTACACTAAAAATCTTGAAAAAAATTCAAATAA
17537654 TCACTCA
1 TCACTCA
17537661 ACAGCACGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 26 0.60
42 17 0.40
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (41 bp):
TCACTCACTTACACTAAAAATCTTGAAAAAAATTCAAATAA
Found at i:17549429 original size:9 final size:8
Alignment explanation
Indices: 17549406--17549468 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 8
17549396 ACAATTTGGC
17549406 ATAAAAT-
1 ATAAAATA
17549413 ATATAAATA
1 ATA-AAATA
17549422 ATGAAAATA
1 AT-AAAATA
17549431 ATGAAAACT-
1 AT-AAAA-TA
17549440 ATAAAATA
1 ATAAAATA
17549448 ATAATAATA
1 ATAA-AATA
17549457 ATAATAATA
1 ATAA-AATA
17549466 ATA
1 ATA
17549469 GTAACGAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.08
8 12 0.24
9 32 0.64
10 2 0.04
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (8 bp):
ATAAAATA
Found at i:17549446 original size:26 final size:26
Alignment explanation
Indices: 17549408--17549458 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17549398 AATTTGGCAT
17549408 AAAATATATAAATAATGAA-AATAATG
1 AAAATATATAAATAAT-AATAATAATG
17549434 AAAACTATA-AAATAATAATAATAAT
1 AAAA-TATATAAATAATAATAATAAT
17549459 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 17 0.74
27 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAATATATAAATAATAATAATAATG
Found at i:17549487 original size:3 final size:3
Alignment explanation
Indices: 17549440--17549468 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17549430 AATGAAAACT
17549440 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17549469 GTAACGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:17550359 original size:31 final size:31
Alignment explanation
Indices: 17550324--17550422 Score: 123
Period size: 30 Copynumber: 3.3 Consensus size: 31
17550314 AAAATTTTAG
17550324 TTTAAAAATAAAAAAAGTATTTTAAAAATAT
1 TTTAAAAATAAAAAAAGTATTTTAAAAATAT
* * * * *
17550355 TTT-AAAATTAAAAAA-TAATATATATAT-T
1 TTTAAAAATAAAAAAAGTATTTTAAAAATAT
17550383 TATTAAAAATAAAAAAAGTATTTTAAAAATAT
1 T-TTAAAAATAAAAAAAGTATTTTAAAAATAT
17550415 TTTAAAAA
1 TTTAAAAA
17550423 GCGGGGCCCA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.04
29 10 0.19
30 22 0.41
31 18 0.33
32 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (31 bp):
TTTAAAAATAAAAAAAGTATTTTAAAAATAT
Found at i:17550415 original size:11 final size:12
Alignment explanation
Indices: 17550395--17550423 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
17550385 TTAAAAATAA
17550395 AAAAAGTATTTT
1 AAAAAGTATTTT
17550407 AAAAA-TATTTT
1 AAAAAGTATTTT
17550418 AAAAAG
1 AAAAAG
17550424 CGGGGCCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
AAAAAGTATTTT
Found at i:17551190 original size:25 final size:25
Alignment explanation
Indices: 17551140--17551186 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
17551130 AATTCTGGGC
*
17551140 TTTGGTTTTTTTATATTTTTTTGTA
1 TTTGGTTTTATTATATTTTTTTGTA
*
17551165 TTTGG-TTTATTAT-TTTCTTTGT
1 TTTGGTTTTATTATATTTTTTTGT
17551187 GTATGCGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.74
Consensus pattern (25 bp):
TTTGGTTTTATTATATTTTTTTGTA
Found at i:17551816 original size:217 final size:217
Alignment explanation
Indices: 17551435--17551935 Score: 675
Period size: 217 Copynumber: 2.3 Consensus size: 217
17551425 TCTGTCTACT
* * * * **
17551435 CCACTACAACTTCAGCGGTATAAGATCTGCTTGCTTAGTCTACTCCGTTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
17551500 AAGACTAGATGTGATCTGCTCTCTGCAATTTCAGAGAGGTAAGATCTGTCATTTTAATCCACTCG
66 AAGACTAGATGCGATCTGCTCTCTGCAATTTCAGACAGATAAGATCTGTCATTTTAATCCACTCC
* * * * * * *
17551565 GCTACAATTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTTAGGGGGATAA
131 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
*
17551630 GATTCG-TCATCTTCAATCCGCC
196 GATTGGCT-ATCTTCAATCCGCC
* *
17551652 CCATTGCAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTGCTCCACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* **
17551717 AAGACTAGATGCGATCTGCTCTTTGCAACTTT-AGACAGATAAGATCTGTCATTTTAATCTGCTC
66 AAGACTAGATGCGATCTGCTCTCTGCAA-TTTCAGACAGATAAGATCTGTCATTTTAATCCACTC
17551781 CACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
130 CACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATA
*
17551846 AGATTGGCTATCTTCAATCCGCT
195 AGATTGGCTATCTTCAATCCGCC
* * * * * *
17551869 CTACTGCAACTTCAGGGAGATAGGATTTACTAT-CTTCAGTCCGCTCCACTGCAACTTCAGGGAG
1 CCACTGCAACTTCAGGGGGATAAGATCTGCT-TGCTT-AGTCTGCTCCACTGCAACTTCAGGGAG
17551933 ATA
64 ATA
17551936 GGATTTGTAT
Statistics
Matches: 248, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
217 215 0.87
218 33 0.13
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (217 bp):
CCACTGCAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTAGATGCGATCTGCTCTCTGCAATTTCAGACAGATAAGATCTGTCATTTTAATCCACTCC
ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
GATTGGCTATCTTCAATCCGCC
Found at i:17551889 original size:45 final size:44
Alignment explanation
Indices: 17551599--17551984 Score: 270
Period size: 44 Copynumber: 8.8 Consensus size: 44
17551589 TATTGGCTTT
* *
17551599 AATCTGCTCCACTGCAACTTTAGGGGGATAAGATT-CGTCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGC-T-ATCTTC
* * * *
17551644 AATCCGCCCCATTGCAACTTCAGGGGGATAAGATCTGCT-TGCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTAT-CTTC
* * ** *
17551688 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGA---CTAGATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTC
* ** * ** *
17551729 GATCTGCT-CTTTGCAACTTTAGACAGATAAGATCTG-TCAT-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCT-ATCTTC
* * * ** ** *
17551772 AATCTGCTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTC
*
17551816 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTC
* * * *
17551861 AATCCGCTCTACTGCAACTTCAGGGAGATAGGATTTACTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTC
* * *
17551906 AGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTTG-TATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTC
* * * * *
17551950 AATCCGCTCCACTGTAACTTTAGGAAGATAGGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
17551985 TGTGGTTTCA
Statistics
Matches: 275, Mismatches: 51, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
40 23 0.08
41 6 0.02
43 12 0.04
44 121 0.44
45 108 0.39
46 4 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTC
Found at i:17551892 original size:89 final size:89
Alignment explanation
Indices: 17551599--17551984 Score: 290
Period size: 89 Copynumber: 4.4 Consensus size: 89
17551589 TATTGGCTTT
* * * * * * *
17551599 AATCTGCTCCACTGCAACTTTAGGGGGATAAGATT-CGTCATCTTCAATCCGCCCCATTGCAACT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAC-T-AGCTTCAATCCGCTCCACTGCAACT
* *
17551663 TCAGGGGGATAAGATCT-GCT-TGCTT-
64 TCAGAGAGATAAGAT-TGGCTAT-CTTC
* * * * * * * * ** *
17551688 AGTCTGCTCCACTGCAACTTTAGGGAGATA--A-GACTAGATGCGATCTGCT-CTTTGCAACTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTAGCTTCAATCCGCTCCACTGCAACTTC
* * *
17551749 AGACAGATAAGATCTGTC-AT-TTT
66 AGAGAGATAAGAT-TGGCTATCTTC
* * * * * * *
17551772 AATCTGCTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTAGCTTCAATCCGCTCCACTGCAACTTC
17551837 AGAGAGATAAGATTGGCTATCTTC
66 AGAGAGATAAGATTGGCTATCTTC
* * *
17551861 AATCCGCTCTACTGCAACTTCAGGGAGATAGGATTTACTATCTTCAGTCCGCTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTACTAGCTTCAATCCGCTCCACTGCAACTT
* * *
17551926 CAGGGAGATAGGATTTG-TATCTTC
65 CAGAGAGATAAGATTGGCTATCTTC
* * *
17551950 AATCCGCTCCACTGTAACTTTAGGAAGATAGGATT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
17551985 TGTGGTTTCA
Statistics
Matches: 237, Mismatches: 49, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
83 2 0.01
84 48 0.20
85 10 0.04
86 2 0.01
87 16 0.07
88 25 0.11
89 95 0.40
90 39 0.16
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (89 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTAGCTTCAATCCGCTCCACTGCAACTTC
AGAGAGATAAGATTGGCTATCTTC
Found at i:17560585 original size:82 final size:82
Alignment explanation
Indices: 17560448--17560607 Score: 311
Period size: 82 Copynumber: 2.0 Consensus size: 82
17560438 AAAATAAATT
*
17560448 TCTTTACATAAAATGAACTACAAATAGGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
1 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
17560513 TAACGAGGCCAACAGAA
66 TAACGAGGCCAACAGAA
17560530 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
1 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
17560595 TAACGAGGCCAAC
66 TAACGAGGCCAAC
17560608 TTCTGTCCCC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (82 bp):
TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
TAACGAGGCCAACAGAA
Found at i:17560768 original size:91 final size:91
Alignment explanation
Indices: 17560613--17560790 Score: 356
Period size: 91 Copynumber: 2.0 Consensus size: 91
17560603 CCAACTTCTG
17560613 TCCCCGATCTGATTCCAACTCATACTTCACACTCAACGTATCAGCCTGTATTACCAAAGTTTGCA
1 TCCCCGATCTGATTCCAACTCATACTTCACACTCAACGTATCAGCCTGTATTACCAAAGTTTGCA
17560678 GGTAATCCGCTATCTCTCGAATTTGA
66 GGTAATCCGCTATCTCTCGAATTTGA
17560704 TCCCCGATCTGATTCCAACTCATACTTCACACTCAACGTATCAGCCTGTATTACCAAAGTTTGCA
1 TCCCCGATCTGATTCCAACTCATACTTCACACTCAACGTATCAGCCTGTATTACCAAAGTTTGCA
17560769 GGTAATCCGCTATCTCTCGAAT
66 GGTAATCCGCTATCTCTCGAAT
17560791 CTGAACCACA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (91 bp):
TCCCCGATCTGATTCCAACTCATACTTCACACTCAACGTATCAGCCTGTATTACCAAAGTTTGCA
GGTAATCCGCTATCTCTCGAATTTGA
Found at i:17564273 original size:9 final size:8
Alignment explanation
Indices: 17564242--17564313 Score: 58
Period size: 9 Copynumber: 8.4 Consensus size: 8
17564232 ACAATTTGGC
17564242 ATAAAAT-
1 ATAAAATA
17564249 ATATAAATAA
1 ATA-AAAT-A
17564259 ATAAAATA
1 ATAAAATA
17564267 ATGAAAACT-
1 AT-AAAA-TA
17564276 ATAAAATA
1 ATAAAATA
17564284 ATAATAATA
1 ATAA-AATA
*
17564293 ATAATAGTA
1 ATAA-AATA
17564302 ATAATAATA
1 ATAA-AATA
17564311 ATA
1 ATA
17564314 GTAACGAAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
7 4 0.07
8 15 0.27
9 33 0.59
10 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (8 bp):
ATAAAATA
Found at i:17564288 original size:3 final size:3
Alignment explanation
Indices: 17564276--17564313 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
17564266 AATGAAAACT
*
17564276 ATA A-A ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17564314 GTAACGAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17565380 original size:24 final size:23
Alignment explanation
Indices: 17565352--17565397 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
17565342 AATTCTGGGC
* *
17565352 TTTGGTTTTTTATATTTTTTTGTA
1 TTTGGTTTATTAT-TTTCTTTGTA
17565376 TTTGGTTTATTATTTTCTTTGT
1 TTTGGTTTATTATTTTCTTTGT
17565398 GTATGTGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.74
Consensus pattern (23 bp):
TTTGGTTTATTATTTTCTTTGTA
Found at i:17577564 original size:21 final size:24
Alignment explanation
Indices: 17577520--17577564 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
17577510 GATTGCAAAT
17577520 TAAATACAGGGTGAAAGCATTAAAA
1 TAAATACAGGGTGAAAGCA-TAAAA
17577545 TAAA-ACAGGG-GAAAGC-TAAA
1 TAAATACAGGGTGAAAGCATAAA
17577565 TTGGATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
23 6 0.30
24 6 0.30
25 4 0.20
ACGTcount: A:0.53, C:0.09, G:0.22, T:0.16
Consensus pattern (24 bp):
TAAATACAGGGTGAAAGCATAAAA
Found at i:17580218 original size:21 final size:20
Alignment explanation
Indices: 17580194--17580236 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
17580184 TCCATACATT
*
17580194 ATCTTTAAATTTACATTTATC
1 ATCTTCAAATTTACATTT-TC
*
17580215 ATCTTCAAATTTTCATTTTC
1 ATCTTCAAATTTACATTTTC
17580235 AT
1 AT
17580237 GCATGACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.53
Consensus pattern (20 bp):
ATCTTCAAATTTACATTTTC
Found at i:17580621 original size:18 final size:18
Alignment explanation
Indices: 17580598--17580632 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17580588 ATAAGCAATT
*
17580598 TTTTTTATTCTTTTTTTA
1 TTTTTTATCCTTTTTTTA
17580616 TTTTTTATCCTTTTTTT
1 TTTTTTATCCTTTTTTT
17580633 TCTTTCTTCT
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:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATCCTTTTTTTA
Found at i:17587837 original size:21 final size:22
Alignment explanation
Indices: 17587757--17587832 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
17587747 CAAAACAACA
* *
17587757 GTTTCTCCCCTCGTTCCTGCTG
1 GTTTCTCCCCTCGTTCTTACTG
*
17587779 GTTTCT-CCCTTGTTCTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
* *
17587800 GTTTGT-CCCTCGTTTTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
17587821 GTTTCTCCCCTC
1 GTTTCTCCCCTC
17587833 TTTTTTGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
21 35 0.76
22 11 0.24
ACGTcount: A:0.03, C:0.34, G:0.16, T:0.47
Consensus pattern (22 bp):
GTTTCTCCCCTCGTTCTTACTG
Found at i:17589900 original size:6 final size:6
Alignment explanation
Indices: 17589889--17589927 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
17589879 AGCAACCGTA
17589889 AATGGG AATGGG AAATGGG AATGGG AATGGG AAATGGG A
1 AATGGG AATGGG -AATGGG AATGGG AATGGG -AATGGG A
17589928 GGAGGGGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.15
Consensus pattern (6 bp):
AATGGG
Found at i:17589906 original size:13 final size:13
Alignment explanation
Indices: 17589888--17590015 Score: 70
Period size: 13 Copynumber: 9.6 Consensus size: 13
17589878 AAGCAACCGT
17589888 AAATGGGAATGGG
1 AAATGGGAATGGG
17589901 AAATGGGAATGGG
1 AAATGGGAATGGG
17589914 -AATGGGAAATGGG
1 AAATGGG-AATGGG
* * *
17589927 AGGAGGGGAAT-CG
1 A-AATGGGAATGGG
*
17589940 --AT-GGAAGAGGG
1 AAATGGGAA-TGGG
17589951 AAAATGGGAATGGG
1 -AAATGGGAATGGG
17589965 AAATGGGAGGA-GGG
1 AAATGGGA--ATGGG
* **
17589979 CACGGTGGAATAGGGG
1 AAATG-GGAAT--GGG
17589995 AAATGGGAATGGG
1 AAATGGGAATGGG
17590008 AAATGGGA
1 AAATGGGA
17590016 GGAGGGCACG
Statistics
Matches: 87, Mismatches: 13, Indels: 30
0.67 0.10 0.23
Matches are distributed among these distances:
9 4 0.05
10 1 0.01
11 1 0.01
12 6 0.07
13 40 0.46
14 13 0.15
15 17 0.20
16 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.48, T:0.12
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:17590038 original size:43 final size:43
Alignment explanation
Indices: 17589908--17590039 Score: 201
Period size: 43 Copynumber: 3.0 Consensus size: 43
17589898 GGGAAATGGG
* * *
17589908 AATGGGAATGGGAAATGGGAGGAGGGGAATCGATGGAAGAGGGAA
1 AATGGGAATGGGAAATGGGAGGA-GGGCA-CGGTGGAAGAGGGGA
*
17589953 AATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAATAGGGGA
1 AATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGA
*
17589996 AATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGGGGGGA
1 AATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGA
17590039 A
1 A
17590040 TCGATGGAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 54 0.67
44 4 0.05
45 23 0.28
ACGTcount: A:0.34, C:0.04, G:0.52, T:0.11
Consensus pattern (43 bp):
AATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAGGGGA
Found at i:17590121 original size:30 final size:28
Alignment explanation
Indices: 17590085--17590158 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 28
17590075 CATTGTATTT
17590085 TGTATTTTAAAAATAAATATATATATGTAA
1 TGTATTTTAAAAATAAA-A-ATATATGTAA
*
17590115 TGTATTTT--AAA-AAAAATATATGTAG
1 TGTATTTTAAAAATAAAAATATATGTAA
17590140 TGTATTTTAAAAATAAAAA
1 TGTATTTTAAAAATAAAAA
17590159 ANNNNNNNNN
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 17 0.43
26 1 0.03
27 6 0.15
28 8 0.20
30 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (28 bp):
TGTATTTTAAAAATAAAAATATATGTAA
Found at i:17590346 original size:28 final size:28
Alignment explanation
Indices: 17590285--17590498 Score: 184
Period size: 28 Copynumber: 7.1 Consensus size: 28
17590275 TTTTAAAAAT
17590285 AAAAAAATATATGTAAGTGT-ATTTTAAAATA
1 AAAAAAATATATGT-AGTGTAATTTT--AA-A
*
17590316 AAAAAATATATATGTTGTGTAATTTTAAAA
1 AAAAAA-ATATATGTAGTGTAATTTT-AAA
17590346 ATAAAAAATATATGTAGTGTAGTATTTAAAATTAAA
1 A-AAAAAATATATGTAGTGTA--A-TT----TTAAA
*
17590382 AAATAAATATATGTTAGTGTAA-TTTAAA
1 AAAAAAATATATG-TAGTGTAATTTTAAA
17590410 AATAAAAATATATGTAGTGT-ATTTTAAA
1 AA-AAAAATATATGTAGTGTAATTTTAAA
*
17590438 AATAAAAATATATGTAGTGTATTTTTAAAAA
1 AA-AAAAATATATGTAGTGTAATTTT--AAA
*
17590469 TAAAAAAATATATGTAATGT-ATTTTAAA
1 -AAAAAAATATATGTAGTGTAATTTTAAA
17590497 AA
1 AA
17590499 CAAATCGATT
Statistics
Matches: 159, Mismatches: 7, Indels: 38
0.78 0.03 0.19
Matches are distributed among these distances:
27 3 0.02
28 42 0.26
29 14 0.09
30 19 0.12
31 37 0.23
32 17 0.11
33 2 0.01
34 1 0.01
35 11 0.07
36 11 0.07
37 2 0.01
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (28 bp):
AAAAAAATATATGTAGTGTAATTTTAAA
Found at i:17590498 original size:30 final size:30
Alignment explanation
Indices: 17590260--17590498 Score: 283
Period size: 31 Copynumber: 7.7 Consensus size: 30
17590250 NNNNNNNNNN
17590260 TATATGTAAGTCGTATTTTAAAAATAAAAAAA
1 TATATGT-AGT-GTATTTTAAAAATAAAAAAA
17590292 TATATGTAAGTGTATTTT-AAAATAAAAAAATA
1 TATATGT-AGTGTATTTTAAAAAT-AAAAAA-A
*
17590324 TATATGTTGTGTAATTTTAAAAAT-AAAAAA
1 TATATGTAGTGT-ATTTTAAAAATAAAAAAA
*
17590354 TATATGTAGTGTAGTATTTAAAATTAAAAAATAAA
1 TATATGTAGTGTA-T-TTTAAAA--ATAAAA-AAA
*
17590389 TATATGTTAGTGTAATTTAAAAAT--AAAAA
1 TATATG-TAGTGTATTTTAAAAATAAAAAAA
17590418 TATATGTAGTGTATTTTAAAAAT--AAAAA
1 TATATGTAGTGTATTTTAAAAATAAAAAAA
17590446 TATATGTAGTGTATTTTTAAAAATAAAAAAA
1 TATATGTAGTGTA-TTTTAAAAATAAAAAAA
*
17590477 TATATGTAATGTATTTTAAAAA
1 TATATGTAGTGTATTTTAAAAA
17590499 CAAATCGATT
Statistics
Matches: 186, Mismatches: 7, Indels: 30
0.83 0.03 0.13
Matches are distributed among these distances:
28 34 0.18
29 20 0.11
30 29 0.16
31 46 0.25
32 25 0.13
33 6 0.03
34 10 0.05
35 9 0.05
36 7 0.04
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
TATATGTAGTGTATTTTAAAAATAAAAAAA
Found at i:17594086 original size:21 final size:21
Alignment explanation
Indices: 17594062--17594112 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
17594052 CATTGTTTCT
*
17594062 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
17594083 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
17594104 AATCTCACC
1 AATCTCACC
17594113 ACCACCGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.37, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:17598214 original size:11 final size:10
Alignment explanation
Indices: 17598185--17598248 Score: 71
Period size: 10 Copynumber: 6.4 Consensus size: 10
17598175 AATCACGTTC
17598185 AAAATTA-TA
1 AAAATTATTA
17598194 GAAAATTATTA
1 -AAAATTATTA
17598205 AAATATTATTA
1 AAA-ATTATTA
17598216 AAAATTA-TA
1 AAAATTATTA
17598225 AAAATATATT-
1 AAAAT-TATTA
*
17598235 GAAATTATTA
1 AAAATTATTA
17598245 AAAA
1 AAAA
17598249 CGTCCATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
9 11 0.23
10 23 0.49
11 13 0.28
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:17598219 original size:21 final size:19
Alignment explanation
Indices: 17598195--17598247 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
17598185 AAAATTATAG
17598195 AAAATTATTAAAATATTATT
1 AAAATTATTAAAATA-TATT
*
17598215 AAAAATTATAAAAATATATT
1 -AAAATTATTAAAATATATT
*
17598235 GAAATTATTAAAA
1 AAAATTATTAAAA
17598248 ACGTCCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.38
20 4 0.14
21 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAATATATT
Found at i:17598220 original size:31 final size:29
Alignment explanation
Indices: 17598185--17598248 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 29
17598175 AATCACGTTC
17598185 AAAATTATAGAAAAT-TATTAAAATATTATTA
1 AAAATTATA-AAAATATATT-AAA-ATTATTA
*
17598216 AAAATTATAAAAATATATTGAAATTATTA
1 AAAATTATAAAAATATATTAAAATTATTA
17598245 AAAA
1 AAAA
17598249 CGTCCATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.35
30 7 0.23
31 13 0.42
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTATAAAAATATATTAAAATTATTA
Found at i:17598248 original size:21 final size:19
Alignment explanation
Indices: 17598196--17598248 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
17598186 AAATTATAGA
*
17598196 AAATTATTAAAATATTATT
1 AAATTATTAAAAAATTATT
*
17598215 AAA-AATTATAAAAATATATT
1 AAATTATTA-AAAAAT-TATT
17598235 GAAATTATTAAAAA
1 -AAATTATTAAAAA
17598249 CGTCCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.15
19 8 0.30
20 4 0.15
21 7 0.26
22 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATTATTAAAAAATTATT
Found at i:17599367 original size:16 final size:16
Alignment explanation
Indices: 17599342--17599374 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17599332 CTTAAGGTTG
*
17599342 GTTTAGGGTTTTGTTT
1 GTTTAAGGTTTTGTTT
17599358 GTTTAAGGTTTTGTTT
1 GTTTAAGGTTTTGTTT
17599374 G
1 G
17599375 AGGGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.30, T:0.61
Consensus pattern (16 bp):
GTTTAAGGTTTTGTTT
Found at i:17605160 original size:37 final size:37
Alignment explanation
Indices: 17605109--17605184 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
17605099 TTCCAAAAAT
*
17605109 AATATTATTTTAATAGT-TTAATATTAAATTAA-ATTA
1 AATATTATCTTAATAGTGTT-ATATTAAATTAATATTA
* *
17605145 AATATTTATCTTAATAGTGTTTTATTAATTTAATATTA
1 AATA-TTATCTTAATAGTGTTATATTAAATTAATATTA
17605183 AA
1 AA
17605185 GTGATTAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 4 0.12
37 22 0.65
38 8 0.24
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
AATATTATCTTAATAGTGTTATATTAAATTAATATTA
Found at i:17605785 original size:29 final size:29
Alignment explanation
Indices: 17605743--17605802 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17605733 CTTCCCAAAG
17605743 CCTTATATTTATAGTAGAGCAATGGGGTT
1 CCTTATATTTATAGTAGAGCAATGGGGTT
17605772 CCTTATATTTATAGTAGAGCAATGGGGTT
1 CCTTATATTTATAGTAGAGCAATGGGGTT
17605801 CC
1 CC
17605803 CAAAAAACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (29 bp):
CCTTATATTTATAGTAGAGCAATGGGGTT
Found at i:17607111 original size:2 final size:2
Alignment explanation
Indices: 17607104--17607140 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17607094 NNNNNNNNNN
17607104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17607141 GATAAGAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17608907 original size:23 final size:22
Alignment explanation
Indices: 17608881--17608924 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
17608871 AATATGTTAC
*
17608881 TTTTATAGTTTATCGCACACTTA
1 TTTTATAGTTTAT-GCAAACTTA
* *
17608904 TTTTCTGGTTTATGCAAACTT
1 TTTTATAGTTTATGCAAACTT
17608925 TCACATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (22 bp):
TTTTATAGTTTATGCAAACTTA
Found at i:17611690 original size:15 final size:13
Alignment explanation
Indices: 17611626--17611716 Score: 60
Period size: 13 Copynumber: 6.9 Consensus size: 13
17611616 TTTGATAAAA
*
17611626 ACATAAAAATAAT
1 ACATAAATATAAT
*
17611639 A-ATACATGATAAT
1 ACATAAAT-ATAAT
* * **
17611652 GCATGAATGCAAT
1 ACATAAATATAAT
17611665 ACATAAATATAAT
1 ACATAAATATAAT
17611678 ACAT-AATAATATAT
1 ACATAAAT-ATA-AT
* *
17611692 ATATAAATGTAAT
1 ACATAAATATAAT
*
17611705 ATATAAATATAA
1 ACATAAATATAA
17611717 CAAGGATATG
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
12 7 0.12
13 38 0.64
14 11 0.19
15 3 0.05
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (13 bp):
ACATAAATATAAT
Found at i:17613512 original size:102 final size:98
Alignment explanation
Indices: 17613360--17613621 Score: 328
Period size: 102 Copynumber: 2.6 Consensus size: 98
17613350 GCTTCGCTGT
* * * *
17613360 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAGTC
1 AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAGTC
*
17613425 GCCATAATTTGTAGCTTTAATCTATTCCATCCGCTAC
66 GCCATAATTTGTAGCTTTAATCT-TT---TCCACTAC
*
17613462 AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGATTC
1 AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAGTC
*
17613527 GTCATAATTTGTAGCTTTAATCTTTTCCACTAC
66 GCCATAATTTGTAGCTTTAATCTTTTCCACTAC
* * * * * ** *
17613560 AA-TGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAGGGAGATAAG
1 AACTTC-AGGGAGATAAGACT-GGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG
17613622 GCTGGTGGCT
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
97 2 0.01
98 21 0.15
99 36 0.25
101 2 0.01
102 82 0.57
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (98 bp):
AACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAGTC
GCCATAATTTGTAGCTTTAATCTTTTCCACTAC
Found at i:17613640 original size:143 final size:143
Alignment explanation
Indices: 17613458--17613804 Score: 437
Period size: 143 Copynumber: 2.4 Consensus size: 143
17613448 ATTCCATCCG
*
17613458 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG
1 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * ** * * *
17613523 ATTCGTCATAATTTGTAGCTTTAATCTTTTCCACTACAATGCTAGGGAAATAAGATTCGCTGTCT
66 ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
**
17613588 TCAGTCTGCTCTG
131 TCAGTCTGCTCCA
* * * **
17613601 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCTACTTTTGGAAGATAAG
1 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
**
17613666 ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTGTAACACCAAGGAAATAAGATTCGATGTCT
66 ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
*
17613731 TCAGTTTGCTCCA
131 TCAGTCTGCTCCA
* ** * * * *
17613744 CTACAACTTCAGGGAGATAAAACT--TCACTTCAATCCGCTCCATTGCAACTTTAGGGAGATA
1 CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
17613805 GGATTATTGG
Statistics
Matches: 174, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
141 30 0.17
143 144 0.83
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (143 bp):
CTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
ATCCGCCATAATTTGCAGCTTTAATCTGTTCCACTACAACACCAAGGAAATAAGATTCGATGTCT
TCAGTCTGCTCCA
Found at i:17613646 original size:245 final size:245
Alignment explanation
Indices: 17613216--17613698 Score: 765
Period size: 245 Copynumber: 2.0 Consensus size: 245
17613206 TACTCCACTG
*
17613216 CAACTTCAGGGAGATAAGGCTGGTGGCTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAAATT
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAAATT
* * *
17613281 CGCCATAACTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTTTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGTCTTCA
*
17613346 GTCTGCTTCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCA
131 GTCTGCTTCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCA
*
17613411 GGAAGATAAGAGT-CGCCATAATTTGTAGCTTTAATCTATTCCATCCGCTA
196 GGAAGATAAGA-TCCGCCATAATTTGCAGCTTTAATCTATTCCATCCGCTA
*
17613461 CAACTTCAGGGAGATAAGACTGGTGGCTTC-AGTCTGCTCCACTGCAACTTCAGGAAGATAAGAT
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCGA-TCTGCTCCACTGCAACTTCAGGAAGATAAAAT
* * * *
17613525 TCGTCATAATTTGTAGCTTTAATCTTTTCCACTACAATGCTAGGGAAATAAGATTCGCTGTCTTC
65 TCGCCATAACTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGTCTTC
* * *
17613590 AGTCTGC-TCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCTACTT
130 AGTCTGCTTC-GCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTT
** *
17613654 TTGGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTGTTCCA
194 CAGGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTATTCCA
17613699 CTGTAACACC
Statistics
Matches: 218, Mismatches: 17, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
244 4 0.02
245 214 0.98
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (245 bp):
CAACTTCAGGGAGATAAGACTGGTGGCTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAAATT
CGCCATAACTTGTAGCTTTAATCTGTTCCACTACAATGCCAGGGAAATAAGATTCGCTGTCTTCA
GTCTGCTTCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCA
GGAAGATAAGATCCGCCATAATTTGCAGCTTTAATCTATTCCATCCGCTA
Done.