Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 112 of 218
Found at i:33070841 original size:101 final size:101
Alignment explanation
Indices: 33070674--33070857 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
33070664 AAAGTGGTGG
* * * * *
33070674 TCACGTGTGTAGTACTATGTGCAGGTTACTACGTGTACCTGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
33070739 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
33070775 TCACGT-TATAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGATA-GTCACATGTGTAGT
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGA-A-TGATAGGTCACATGTGTAGT
33070838 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
33070858 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 30 0.40
101 40 0.53
102 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:33071121 original size:16 final size:16
Alignment explanation
Indices: 33071083--33071114 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33071073 TGATTGAAAG
*
33071083 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
33071099 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
33071115 GCAAAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:33076159 original size:15 final size:16
Alignment explanation
Indices: 33076129--33076160 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33076119 ACTTTAGGGG
33076129 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
33076145 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
33076161 GGACTGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:33076444 original size:50 final size:49
Alignment explanation
Indices: 33076390--33076576 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 49
33076380 GATGGTCACG
33076390 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAGGTCGCA
* * * *
33076440 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCG---GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAG-GTCG--CA
* * * * *
33076489 CGTTATAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACA
1 TG-TGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-A-TGATAGGTCGCA
* *
33076541 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCGA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
33076577 TATCGTTAAT
Statistics
Matches: 108, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
46 5 0.05
47 3 0.03
49 4 0.04
50 59 0.55
51 28 0.26
52 3 0.03
54 2 0.02
55 1 0.01
56 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGGTCGCA
Found at i:33076544 original size:101 final size:101
Alignment explanation
Indices: 33076385--33076568 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
33076375 AAAGTGATGG
* * * *
33076385 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCTGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
*
33076450 TATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
33076486 TCACGT-TATAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGA-A-TGATAGGTCACATGTGTAGT
33076549 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
33076569 TGAACCGATA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 31 0.41
101 40 0.53
102 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTATAGTACTATATGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:33076804 original size:16 final size:16
Alignment explanation
Indices: 33076783--33076814 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33076773 TGATTGAAAG
*
33076783 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
33076799 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
33076815 GCGACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:33079330 original size:3 final size:3
Alignment explanation
Indices: 33079322--33079352 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33079312 AGATGAAGGA
33079322 ATC ATC ATC ATC ATC ATC ATC ATC ATC -TC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
33079353 TGCTGGCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:33092743 original size:44 final size:44
Alignment explanation
Indices: 33092680--33092770 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
33092670 CTTTTTCTTA
33092680 GTACATATTGGACTAGAACTCACCTAGGAGCCATTTGAGATGGG
1 GTACATATTGGACTAGAACTCACCTAGGAGCCATTTGAGATGGG
33092724 GTACATATTGGACTAGAACTCACCTAGGAGCCATTTGAGATGGG
1 GTACATATTGGACTAGAACTCACCTAGGAGCCATTTGAGATGGG
33092768 GTA
1 GTA
33092771 AATGATTCCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
GTACATATTGGACTAGAACTCACCTAGGAGCCATTTGAGATGGG
Found at i:33099347 original size:17 final size:17
Alignment explanation
Indices: 33099307--33099344 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33099297 TACTATCAAG
*
33099307 TTAAGTATTAAATTTAA
1 TTAAATATTAAATTTAA
*
33099324 TTTAATATTAAATTT-A
1 TTAAATATTAAATTTAA
33099340 TTAAA
1 TTAAA
33099345 ATAATGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAATATTAAATTTAA
Found at i:33120733 original size:20 final size:20
Alignment explanation
Indices: 33120705--33120747 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33120695 ACCACTTTAC
*
33120705 TTACATACTTATCTTTCCAT
1 TTACATACTTATCATTCCAT
* *
33120725 TTACTTACTTTTCATTCCAT
1 TTACATACTTATCATTCCAT
33120745 TTA
1 TTA
33120748 TTTAGCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (20 bp):
TTACATACTTATCATTCCAT
Found at i:33127362 original size:11 final size:11
Alignment explanation
Indices: 33127346--33127380 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
33127336 TTAGGTTGAA
33127346 TTTATAATTTG
1 TTTATAATTTG
33127357 TTTATAATTTG
1 TTTATAATTTG
33127368 TTTATAATTTG
1 TTTATAATTTG
33127379 TT
1 TT
33127381 ACTTAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (11 bp):
TTTATAATTTG
Found at i:33127802 original size:24 final size:24
Alignment explanation
Indices: 33127775--33127849 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 24
33127765 TTAATACATG
*
33127775 TTGAATTCATGTGAATGAAATAGA
1 TTGAATACATGTGAATGAAATAGA
*
33127799 TTGAATACA--TG-AT--AA-ACA
1 TTGAATACATGTGAATGAAATAGA
*
33127817 TT--ATTCATGTGAATGAAATAGA
1 TTGAATACATGTGAATGAAATAGA
33127839 TTGAATACATG
1 TTGAATACATG
33127850 ATAAACATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
16 4 0.11
18 6 0.16
19 4 0.11
21 4 0.11
22 6 0.16
24 14 0.37
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (24 bp):
TTGAATACATGTGAATGAAATAGA
Found at i:33127823 original size:40 final size:40
Alignment explanation
Indices: 33127779--33127858 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
33127769 TACATGTTGA
33127779 ATTCATGTGAATGAAATAGATTGAATACATGATAAACATT
1 ATTCATGTGAATGAAATAGATTGAATACATGATAAACATT
33127819 ATTCATGTGAATGAAATAGATTGAATACATGATAAACATT
1 ATTCATGTGAATGAAATAGATTGAATACATGATAAACATT
33127859 GAATTATTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (40 bp):
ATTCATGTGAATGAAATAGATTGAATACATGATAAACATT
Found at i:33129690 original size:20 final size:19
Alignment explanation
Indices: 33129661--33129720 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
33129651 ACCACCTTTT
33129661 TTTCTCTATTCTCTTCTCA
1 TTTCTCTATTCTCTTCTCA
* *
33129680 TTTCATCTATTCACTTCATTA
1 TTTC-TCTATTCTCTTC-TCA
*
33129701 TTTCTCTTTTCT-TTCTCA
1 TTTCTCTATTCTCTTCTCA
33129719 TT
1 TT
33129721 GTTTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 4 0.12
19 7 0.21
20 17 0.50
21 6 0.18
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTCTCTATTCTCTTCTCA
Found at i:33131534 original size:16 final size:18
Alignment explanation
Indices: 33131503--33131540 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
33131493 GATTTGTATG
33131503 AAATATTGATTTTTAACA
1 AAATATTGATTTTTAACA
33131521 AAATA-TGA-TTTTAACA
1 AAATATTGATTTTTAACA
33131537 AAAT
1 AAAT
33131541 TTCTGTTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
AAATATTGATTTTTAACA
Found at i:33133427 original size:17 final size:17
Alignment explanation
Indices: 33133392--33133423 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33133382 AATAATTTTT
33133392 TTATAAATGTTTATATA
1 TTATAAATGTTTATATA
33133409 TTATAAAT-TTTATAT
1 TTATAAATGTTTATAT
33133424 TATTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATAAATGTTTATATA
Found at i:33136507 original size:239 final size:239
Alignment explanation
Indices: 33136082--33136554 Score: 666
Period size: 239 Copynumber: 2.0 Consensus size: 239
33136072 TTCAATTTGG
* * * * *
33136082 CTAAAGTTTTATTTTAAGATGCATCCTGGCATGCTATTTCTACTTAAGTAGCAAATGCTGACGGG
1 CTAAAATTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGG
* * * * * *
33136147 GGTAAACATAGATATAAGTATTGCACTATGTCTAATTGGATTATGTATTTATTTATCCGTAACTT
66 GGTAAACATAGACACAAGTATCGCACTATGTCTAATTGGATTATGTATTAAATGATCCGTAACTT
* * *
33136212 GTATGTCACATCATACTTATTTTGTGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCATTAG
131 GTATGTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAG
33136277 TAATTTT-CCTGATATCCTAAGT-CCAATCTAGATGTACCAGTTGA
196 T-ATTTTCCCTGATATCCTAAGTACCAA-CTAGATGTACCAGTTGA
**
33136321 CTAAAATTTTATTTGAAGATGTGTACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGA-GGG
1 CTAAAATTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGG
** *
33136385 GGTTAAACATAGACACAAGTATCGTGCTACT-TCTAATTGGATTATGTATTAAATGATCTGTAAC
66 GG-TAAACATAGACACAAGTATCGCACTA-TGTCTAATTGGATTATGTATTAAATGATCCGTAAC
* * *
33136449 TTGTATGTCACATCATATTTATTCTATGTGCTTGGATTTCATTGCACTTACAGTTAGTTGTCGCT
129 TTGTATGTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACT
* *
33136514 AGTATTTTCCCTGTTATCCTAAGTACGAACTAGATGTACCA
194 AGTATTTTCCCTGATATCCTAAGTACCAACTAGATGTACCA
33136555 TTTTACTCAG
Statistics
Matches: 206, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
238 10 0.05
239 192 0.93
240 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (239 bp):
CTAAAATTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGG
GGTAAACATAGACACAAGTATCGCACTATGTCTAATTGGATTATGTATTAAATGATCCGTAACTT
GTATGTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAG
TATTTTCCCTGATATCCTAAGTACCAACTAGATGTACCAGTTGA
Found at i:33142501 original size:16 final size:16
Alignment explanation
Indices: 33142480--33142548 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
33142470 TTTGGTTCGC
33142480 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33142496 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
33142512 TGTATTGGGATTAGATG
1 TGTATT-GGATTAGAGG
33142529 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33142545 TGTA
1 TGTA
33142549 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:33142526 original size:33 final size:32
Alignment explanation
Indices: 33142480--33142548 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
33142470 TTTGGTTCGC
33142480 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
*
33142512 TGTATTGGGATTAGATGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
33142545 TGTA
1 TGTA
33142549 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:33142613 original size:44 final size:45
Alignment explanation
Indices: 33142534--33142619 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
33142524 AGATGTGTAT
* *
33142534 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGCAA
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGCAA
***
33142579 TGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAATG
1 TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATG
33142620 GAATAGAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.28, C:0.08, G:0.29, T:0.35
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGCAA
Found at i:33142805 original size:18 final size:19
Alignment explanation
Indices: 33142784--33142820 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33142774 TTATTATTAA
33142784 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
33142802 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
33142821 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:33142928 original size:59 final size:58
Alignment explanation
Indices: 33142862--33143047 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
33142852 CTCAAATCAT
* *
33142862 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
33142921 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
33142981 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
33143041 AATATAT
1 AATATAT
33143048 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:33142979 original size:120 final size:120
Alignment explanation
Indices: 33142764--33143053 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
33142754 TTAATAATAT
33142764 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
33142829 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
33142886 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
33142950 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
33143006 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
33143054 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:33146568 original size:20 final size:21
Alignment explanation
Indices: 33146540--33146580 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
33146530 ATAATATATC
* *
33146540 TAAAGAATTAGTTA-ATATTT
1 TAAAAAATTAATTACATATTT
33146560 TAAAAAATTAATTACATATTT
1 TAAAAAATTAATTACATATTT
33146581 ATTATTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAAAATTAATTACATATTT
Found at i:33147497 original size:31 final size:31
Alignment explanation
Indices: 33147459--33147523 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
33147449 TAGTTTCTAT
33147459 GTTGTTTAATCGAAGATAATTGTCGATTTGA
1 GTTGTTTAATCGAAGATAATTGTCGATTTGA
* ** * *
33147490 GTTGTTTAATTGATTATGATTGTTGATTTGA
1 GTTGTTTAATCGAAGATAATTGTCGATTTGA
33147521 GTT
1 GTT
33147524 TTATGAGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.49
Consensus pattern (31 bp):
GTTGTTTAATCGAAGATAATTGTCGATTTGA
Found at i:33150442 original size:9 final size:9
Alignment explanation
Indices: 33150428--33150464 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33150418 TATAGTTTAA
33150428 TATTCGAAT
1 TATTCGAAT
33150437 TATTCGAAT
1 TATTCGAAT
*
33150446 TATTCGAGT
1 TATTCGAAT
33150455 TATTCGAAT
1 TATTCGAAT
33150464 T
1 T
33150465 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33150535 original size:9 final size:9
Alignment explanation
Indices: 33150518--33150548 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33150508 TCGAGTTGAT
33150518 TCGAATAAC
1 TCGAATAAC
*
33150527 TCGATTAAC
1 TCGAATAAC
33150536 TCGAATAAC
1 TCGAATAAC
33150545 TCGA
1 TCGA
33150549 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:33150825 original size:20 final size:20
Alignment explanation
Indices: 33150784--33150826 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
33150774 AAAAGGATAT
*
33150784 ATTTGATTCTAATCAATCTG
1 ATTTGATTCTAATAAATCTG
*
33150804 ATTTGATTTTAATTAAAT-TG
1 ATTTGATTCTAA-TAAATCTG
33150824 ATT
1 ATT
33150827 CAATTGCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTTGATTCTAATAAATCTG
Found at i:33151791 original size:88 final size:86
Alignment explanation
Indices: 33151674--33152157 Score: 265
Period size: 84 Copynumber: 5.6 Consensus size: 86
33151664 CAAAAATGAG
* * * * *
33151674 TAAAATAAATTCCGTTTCGGGATTAATTCCCGTCGTTCAACAATTTTATACCAAATTTTTATTTT
1 TAAAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACAATTTTAT-CCAAATTTTGATTTT
*
33151739 ATTTCCAAAACAAGTATTAAAA
65 ATTTCCAAAACAAGAATTAAAA
*** * *
33151761 TTAAAATAAAATCTGTTTCGAGATTTATTCCTACCGTTCTACAGATTTTATTCC-AATTTTGATG
1 -TAAAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACA-ATTTTA-TCCAAATTTTGATT
** *
33151825 TTATTTCCAAAATGAGCATTAAAA
63 TTATTTCCAAAACAAGAATTAAAA
* * *
33151849 CTAAATTAAAATCTGTTTC-AGGATTTATTCCCGT-TTATCAACGAA-TTTAT-CACATTTTGAT
1 -TAAAATAAAATCTGTTTCGA-GATTTATTCCCGTCGT-TCAAC-AATTTTATCCAAATTTTGAT
* *
33151910 TTTGTTGCCAAAAAAACAAGAAATTAAAA
62 TTTATTTCC---AAAACAAG-AATTAAAA
* * * ** * * * ***
33151939 TCAAATAAAATCTGTTTTGGGATTTATTCCCACCATTTAACAAGAGTTTAT-TTGATTTT-ATTT
1 TAAAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAAC-A-ATTTTATCCAAATTTTGATTT
* ** *
33152002 TGTTTCC-AAATTATAATT-AAA
64 TATTTCCAAAACAAGAATTAAAA
* * * * * *** *
33152023 TTAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTAT-TTGATTAT-ATTT
1 TAAAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAAC-A-ATTTTATCCAAATTTTGATTT
* * **
33152086 TATTTTC-AGATTAGAATT-AAA
64 TATTTCCAAAACAAGAATTAAAA
* * *
33152107 TAAAATAAAATCTGTTTTGGGATTTATTCCCGTCGTTTAACTAGATTTTAT
1 TAAAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAAC-A-ATTTTAT
33152158 TCGATATTGG
Statistics
Matches: 327, Mismatches: 55, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
84 126 0.39
85 5 0.02
86 19 0.06
87 6 0.02
88 95 0.29
89 46 0.14
90 20 0.06
91 10 0.03
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (86 bp):
TAAAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACAATTTTATCCAAATTTTGATTTTA
TTTCCAAAACAAGAATTAAAA
Found at i:33152045 original size:84 final size:84
Alignment explanation
Indices: 33151930--33152261 Score: 382
Period size: 84 Copynumber: 3.9 Consensus size: 84
33151920 AAAAAACAAG
* * *
33151930 AAATTAAAATCAAATAAAATCTGTTTTGGGATTTATTCCCACCATTTAACAAGAGTTTATTTGAT
1 AAATT-AAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGAT
33151995 TTTATTTTGTTTCCAAATTA
65 TTTATTTTGTTTCCAAATTA
* *
33152015 TAATTAAATTAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
1 AAATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
* * * *
33152080 ATATTTTATTTTCAGATTA
66 TTATTTTGTTTCCAAATTA
* * * * * *
33152099 GAATTAAATAAAATAAAATCTGTTTTGGGATTTATTCCCGTCGTTTAACTAGATTTTATTCGATA
1 AAATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
**
33152164 TTGGTTTGTTTCCAAA-TA
66 TTATTTTGTTTCCAAATTA
* * * *
33152182 AAGATGAAATCAAAT-AATTCTGTTTTGAGATTTATTCCCGCCGCCATTTAA-TAGATTTTATTT
1 AA-ATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCG---TTTAACAAGATTTTA-TT
* *
33152245 TGATATAATTTTGTTTC
61 TGATTTTATTTTGTTTC
33152262 GAGATTTAAT
Statistics
Matches: 211, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
83 28 0.13
84 150 0.71
85 13 0.06
86 20 0.09
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (84 bp):
AAATTAAATCAAATAAAATCTGTTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
TTATTTTGTTTCCAAATTA
Found at i:33169571 original size:40 final size:40
Alignment explanation
Indices: 33169527--33169649 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 40
33169517 CAAAATATGT
*
33169527 TCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* *
33169567 TCAGGGGTACCGAAGTACAAACAAGGGCACATATGAGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* * * * **
33169607 TTAGGGATACCAAAGTACGAACAGGGGCAGGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
33169647 TCA
1 TCA
33169650 TTCAGTAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
Found at i:33171700 original size:17 final size:18
Alignment explanation
Indices: 33171667--33171703 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
33171657 ATCAAGCCAT
33171667 AAAATTTCATTAATTATTA
1 AAAATTTCA-TAATTATTA
33171686 AAAATTTCA-AATTATTA
1 AAAATTTCATAATTATTA
33171703 A
1 A
33171704 CATGCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTCATAATTATTA
Found at i:33175672 original size:102 final size:101
Alignment explanation
Indices: 33175541--33175812 Score: 384
Period size: 102 Copynumber: 2.7 Consensus size: 101
33175531 CCAGTGATTC
* * * *
33175541 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAGCCA
1 GGGGAATTAGCACTTAGCAACCCC-TTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
33175606 CCAATGATTCGGGGTATCAGCACTTAGCAACCCCTTG
65 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* *
33175643 GGGGAATTAGCACTTAGCAACCCTCTTCACATTTAAAATACGATGGAATCAGCACTTAG-ATACC
1 GGGGAATTAGCACTTAGCAACCC-CTTCACATTTAAGATACGGTGGAATCAGCACTTAGCA-ACC
33175707 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
64 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * * *
33175745 GGGGAATTAGCACTTAGCAACCCCCTTTATATTCAATGATACGGTGGAATCAGCACTTATCAACC
1 GGGGAATTAGCACTTAGCAA-CCCCTTCACATTTAA-GATACGGTGGAATCAGCACTTAGCAACC
33175810 ACC
64 ACC
33175813 TTATAACCAA
Statistics
Matches: 151, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
101 1 0.01
102 119 0.79
103 30 0.20
104 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (101 bp):
GGGGAATTAGCACTTAGCAACCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:33175809 original size:43 final size:42
Alignment explanation
Indices: 33175747--33175828 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
33175737 ACCCCTTGGG
* * **
33175747 GGAATTAGCACTTAGCAACCCCCTTTATATTCAATGATACGGT
1 GGAATCAGCACTTAGCAACCACC-TTATAACCAATGATACGGT
*
33175790 GGAATCAGCACTTATCAACCACCTTATAACCAATGATAC
1 GGAATCAGCACTTAGCAACCACCTTATAACCAATGATAC
33175829 TCGGTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 14 0.41
43 20 0.59
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTATAACCAATGATACGGT
Found at i:33176014 original size:101 final size:101
Alignment explanation
Indices: 33175838--33176174 Score: 376
Period size: 101 Copynumber: 3.3 Consensus size: 101
33175828 CTCGGTTCAA
* * * * *
33175838 ATAGTAGCCTACACATAGTACTACTCATGTGAC-CATTTCCA-CCCGATACACGTAGTAGCCTGC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACTCA--T-CATTCCGGTACACGTAGTAGCCTGC
33175901 ACATAGTACTACACACGTGATCGAAGCTATTCAGTACGC
63 ACATAGTACTACACACGTGATCGAAGCTATTCAGTACGC
33175940 ATAGTAGCCTGCACATAGTACTACACATGCGACTCATCATTCCGGTACACGTAGTAGCCTGCACA
1 ATAGTAGCCTGCACATAGTACTACACATGCGACTCATCATTCCGGTACACGTAGTAGCCTGCACA
* *
33176005 TAGTACTACACACATGATCGAAGCTATTCGGTACGC
66 TAGTACTACACACGTGATCGAAGCTATTCAGTACGC
* * * *
33176041 ATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGTTATTCGGTACGCATAGTAGC
1 ATAGTAGCCTGCACATAGTACTACACATGCGA--CTCATC--A--T-TCCGGTACACGTAGTAGC
* * * ** * *
33176106 CTACACATAGTACTACACATGCGA-CCCATC-ATTCAGGTACAC
59 CTGCACATAGTACTACACACGTGATCGAAGCTATTCA-GTACGC
*
33176148 GTAGTAGCCTGCACATAGTACTACACA
1 ATAGTAGCCTGCACATAGTACTACACA
33176175 CGTGACCATC
Statistics
Matches: 204, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
100 2 0.01
101 90 0.44
102 30 0.15
103 7 0.03
105 1 0.00
106 4 0.02
107 35 0.17
108 35 0.17
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
ATAGTAGCCTGCACATAGTACTACACATGCGACTCATCATTCCGGTACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAGCTATTCAGTACGC
Found at i:33176107 original size:57 final size:56
Alignment explanation
Indices: 33175982--33176174 Score: 223
Period size: 57 Copynumber: 3.6 Consensus size: 56
33175972 CTCATCATTC
*
33175982 CGGTACACGTAGTAGCCTGCACATAGTACTACACA--C-A---TGATCGAAGCTATT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAG-TATT
*
33176033 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGTTATT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAG-TATT
* *
33176090 CGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCC--ATC-----ATT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGTATT
*
33176139 CAGGTACACGTAGTAGCCTGCACATAGTACTACACA
1 C-GGTACACATAGTAGCCTGCACATAGTACTACACA
33176175 CGTGACCATC
Statistics
Matches: 128, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
49 4 0.03
50 31 0.24
51 33 0.26
53 1 0.01
54 1 0.01
55 3 0.02
57 55 0.43
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (56 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGTATT
Found at i:33176126 original size:158 final size:152
Alignment explanation
Indices: 33175890--33176175 Score: 473
Period size: 158 Copynumber: 1.8 Consensus size: 152
33175880 CCGATACACG
*
33175890 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGCCTACACA
* *
33175955 TAGTACTACACATGCGACTCATCATTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
66 TAGTACTACACATGCGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
33176020 GATCGAAGCTATTCGGTACGCA
131 GATCGAAGCTATTCGGTACGCA
* *
33176042 TAGTAGCCTGCACATAGTACTACACATGCGACCCTGATCGAAGTTATTCGGTACGCATAGTAGCC
1 TAGTAGCCTGCACATAGTACTACACA--CG----TGATCGAAGCTATTCAGTACGCATAGTAGCC
33176107 TACACATAGTACTACACATGCGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACTAC
60 TACACATAGTACTACACATGCGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACTAC
33176172 ACAC
125 ACAC
33176176 GTGACCATCA
Statistics
Matches: 123, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
152 26 0.21
154 2 0.02
158 95 0.77
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (152 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGCCTACACA
TAGTACTACACATGCGACCCATCATTCAGGTACACGTAGTAGCCTGCACATAGTACTACACACAT
GATCGAAGCTATTCGGTACGCA
Found at i:33178816 original size:75 final size:75
Alignment explanation
Indices: 33178693--33178837 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 75
33178683 ACAAGCTTTG
* *
33178693 ATTGCATAGGCTTTAGCTGGTTTTCTCACTTCAGATCGTTCATTCATCTCGCTATTCTTTC-CTC
1 ATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATCATTCATTCATCTCGCTATTC-TTCACTC
33178757 GACCGGGTCTA
65 GACCGGGTCTA
* *
33178768 ATTGCATAGGCTCTAGCTGGTTTTCTCGCTTTAGA-CTATTCATTCATCTCGCTATTCTTCACTC
1 ATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATC-ATTCATTCATCTCGCTATTCTTCACTC
33178832 GACCGG
65 GACCGG
33178838 ATGGTGTGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 4 0.06
75 60 0.94
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (75 bp):
ATTGCATAGGCTCTAGCTGGTTTTCTCACTTCAGATCATTCATTCATCTCGCTATTCTTCACTCG
ACCGGGTCTA
Found at i:33187104 original size:43 final size:42
Alignment explanation
Indices: 33187043--33187274 Score: 225
Period size: 43 Copynumber: 5.5 Consensus size: 42
33187033 TCATAGAAAT
* *
33187043 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTCTCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTC-CTAA
** **
33187086 AAACGCCGCTAAAGGTCATGTTCTTTAGCGTTGC-AACCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-TAA
* * *
33187128 AAATGCCGCTAAAGGTCAAGTTCATTAGCGGCGC-TTCCATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-TAA
* ** * * **
33187170 AAATGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTCCCGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCTAA
* * * *
33187213 AAATGCCCCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCTAA
33187256 AAACGCCGCTAAAGGTCAT
1 AAACGCCGCTAAAGGTCAT
33187275 TACTTTTAGC
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 66 0.42
43 87 0.55
44 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTAA
Found at i:33187156 original size:42 final size:42
Alignment explanation
Indices: 33187090--33187183 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
33187080 CTCTACAAAC
* * **
33187090 GCCGCTAAAGGTCATGTTCTTTAGCGTTGCAACCATAAAAAT
1 GCCGCTAAAGGTCAAGTTCATTAGCGGCGCAACCATAAAAAT
**
33187132 GCCGCTAAAGGTCAAGTTCATTAGCGGCGCTTCCATAAAAAT
1 GCCGCTAAAGGTCAAGTTCATTAGCGGCGCAACCATAAAAAT
33187174 GCCGCTAAAG
1 GCCGCTAAAG
33187184 AACATGATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAGGTCAAGTTCATTAGCGGCGCAACCATAAAAAT
Found at i:33187283 original size:43 final size:43
Alignment explanation
Indices: 33187192--33187295 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
33187182 AGAACATGAT
* *
33187192 CTTTAGCGGCACTTTTCCCGAAAATGCCCCTAAAGGTCATGTT
1 CTTTAGCGGCACTTTTCCCGAAAACGCCCCTAAAGGTCATGTA
* *
33187235 CTTTAGCGGCGCTTTTCCC-ACAAACGCCGCTAAAGGTCAT-TA
1 CTTTAGCGGCACTTTTCCCGA-AAACGCCCCTAAAGGTCATGTA
33187277 CTTTTAGCGGTCCACTTTT
1 C-TTTAGCGG--CACTTTT
33187296 GTTTGGCGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 3 0.06
43 43 0.83
45 6 0.12
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCACTTTTCCCGAAAACGCCCCTAAAGGTCATGTA
Found at i:33187665 original size:21 final size:21
Alignment explanation
Indices: 33187641--33187690 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
33187631 TTCTGCTTTG
33187641 CTCTGCTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAAC
**
33187662 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAAC
33187683 CTCTGCTT
1 CTCTGCTT
33187691 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.46, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAAC
Found at i:33193184 original size:9 final size:9
Alignment explanation
Indices: 33193157--33193552 Score: 228
Period size: 9 Copynumber: 45.4 Consensus size: 9
33193147 TATGTATTAA
*
33193157 GTAAATTAT
1 GTAAGTTAT
33193166 GTAAAG-TAT
1 GT-AAGTTAT
33193175 GTAAGTTAT
1 GTAAGTTAT
*
33193184 GTACGTGTA-
1 GTAAGT-TAT
33193193 -TAAGTTAT
1 GTAAGTTAT
33193201 GTAAGTTAT
1 GTAAGTTAT
*
33193210 GT-A-TTAA
1 GTAAGTTAT
*
33193217 GTAAGCTAT
1 GTAAGTTAT
*
33193226 GTAAGTTGT
1 GTAAGTTAT
33193235 GT-A-TTAT
1 GTAAGTTAT
33193242 GTAAGTTAT
1 GTAAGTTAT
33193251 GTAAGTTAT
1 GTAAGTTAT
** *
33193260 CAAAGTAAT
1 GTAAGTTAT
*
33193269 GTATGTTAT
1 GTAAGTTAT
*
33193278 GTAAGTTGT
1 GTAAGTTAT
*
33193287 GT-AG-AAT
1 GTAAGTTAT
*
33193294 GTAAGCTAT
1 GTAAGTTAT
33193303 GTAAGTTAT
1 GTAAGTTAT
33193312 GTAAGTTAT
1 GTAAGTTAT
**
33193321 GTAAAG-GGT
1 GT-AAGTTAT
*
33193330 GCATAATGTAAT
1 G--TAA-GTTAT
33193342 -TAAGTTAT
1 GTAAGTTAT
33193350 GTAAGTTAT
1 GTAAGTTAT
33193359 G--AGTTAT
1 GTAAGTTAT
33193366 GTAAGTTAT
1 GTAAGTTAT
*
33193375 GT-A-TAAT
1 GTAAGTTAT
*
33193382 GTACGTTAT
1 GTAAGTTAT
* *
33193391 GTATAATATTAAA
1 G--TAA-GTT-AT
** *
33193404 AAAAATTAT
1 GTAAGTTAT
*
33193413 GTAAGTTGT
1 GTAAGTTAT
*
33193422 GT-A-TAAT
1 GTAAGTTAT
33193429 GTAAGTTAT
1 GTAAGTTAT
*
33193438 GTAAGTAAT
1 GTAAGTTAT
*
33193447 GT--CTTAT
1 GTAAGTTAT
*
33193454 GTAAGTTGT
1 GTAAGTTAT
*
33193463 GT-A-TAAT
1 GTAAGTTAT
*
33193470 GTTAGTTAT
1 GTAAGTTAT
*
33193479 -CAGAGTTAT
1 GTA-AGTTAT
33193488 GT-A-TTAT
1 GTAAGTTAT
33193495 GTAAGTTAT
1 GTAAGTTAT
33193504 GTAAGTTAT
1 GTAAGTTAT
*
33193513 GTAAGTTGT
1 GTAAGTTAT
33193522 GTAAGTTAT
1 GTAAGTTAT
*
33193531 TTAAGTTAT
1 GTAAGTTAT
*
33193540 GTAAGTAAT
1 GTAAGTTAT
33193549 GTAA
1 GTAA
33193553 TATATACTTA
Statistics
Matches: 293, Mismatches: 59, Indels: 70
0.69 0.14 0.17
Matches are distributed among these distances:
7 46 0.16
8 26 0.09
9 199 0.68
10 12 0.04
11 6 0.02
12 3 0.01
13 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:33193221 original size:25 final size:25
Alignment explanation
Indices: 33193172--33193314 Score: 121
Period size: 25 Copynumber: 5.6 Consensus size: 25
33193162 TTATGTAAAG
33193172 TATGTAAGTTATGTACGTGT-A-TAAGT
1 TATGTAAGTTATGTA--T-TAAGTAAGT
*
33193198 TATGTAAGTTATGTATTAAGTAAGC
1 TATGTAAGTTATGTATTAAGTAAGT
* *
33193223 TATGTAAGTTGTGTATTATGTAAGT
1 TATGTAAGTTATGTATTAAGTAAGT
** * *
33193248 TATGTAAGTTATCAAAGTAATGTATGT
1 TATGTAAGTTAT-GTATTAA-GTAAGT
* * *
33193275 TATGTAAGTTGTGTA-GAATGTAAGC
1 TATGTAAGTTATGTATTAA-GTAAGT
33193300 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
33193315 AGTTATGTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 58 0.60
26 19 0.20
27 16 0.17
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (25 bp):
TATGTAAGTTATGTATTAAGTAAGT
Found at i:33193255 original size:34 final size:35
Alignment explanation
Indices: 33193157--33193552 Score: 212
Period size: 34 Copynumber: 11.6 Consensus size: 35
33193147 TATGTATTAA
* * *
33193157 GTAAATTATGTAAAG-TATGTAAGTTATGTACGTGT
1 GTAAGTTATGT-AAGTTATGTAAGTTATGTAAGTAT
* *
33193192 ATAAGTTATGTAAGTTATGT-A-TTAAGTAAGCTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAG-TAT
*
33193226 GTAAGTTGTGT-A-TTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAG-TAT
** * * * *
33193260 CAAAGTAATGTATGTTATGTAAGTTGTGT-AGAAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTAT
* **
33193294 GTAAGCTATGTAAGTTATGTAAGTTATGTAAAGGGT
1 GTAAGTTATGTAAGTTATGTAAGTTATGT-AAGTAT
*
33193330 GCATAATGTAAT-TAAGTTATGTAAGTTATG--AGTTAT
1 G--TAA-GTTATGTAAGTTATGTAAGTTATGTAAG-TAT
* * *
33193366 GTAAGTTATGT-A-TAATGTACGTTATGTATAATAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTA-AGTAT
** * *
33193400 -TAA---A-AAAAATTATGTAAGTTGTGT-A-TAAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGT-AT
* *
33193429 GTAAGTTATGTAAGTAATGT--CTTATGTAAGT-T
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTAT
* * *
33193461 GT--GTATAATGTTAGTTAT-CAGAGTTATGT-ATTAT
1 GTAAGT-T-ATGTAAGTTATGTA-AGTTATGTAAGTAT
*
33193495 GTAAGTTATGTAAGTTATGTAAGTTGTGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAG-TAT
* *
33193531 TTAAGTTATGTAAGTAATGTAA
1 GTAAGTTATGTAAGTTATGTAA
33193553 TATATACTTA
Statistics
Matches: 270, Mismatches: 54, Indels: 73
0.68 0.14 0.18
Matches are distributed among these distances:
28 1 0.00
29 3 0.01
30 7 0.03
31 13 0.05
32 35 0.13
33 21 0.08
34 99 0.37
35 22 0.08
36 45 0.17
38 21 0.08
39 3 0.01
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (35 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTAT
Found at i:33193383 original size:16 final size:16
Alignment explanation
Indices: 33193332--33193397 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
33193322 TAAAGGGTGC
*
33193332 ATAATGTAA-TTAAGT
1 ATAATGTAAGTTATGT
33193347 -T-ATGTAAGTTATG-
1 ATAATGTAAGTTATGT
*
33193360 AGTTATGTAAGTTATGT
1 A-TAATGTAAGTTATGT
*
33193377 ATAATGTACGTTATGT
1 ATAATGTAAGTTATGT
33193393 ATAAT
1 ATAAT
33193398 ATTAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.14
14 5 0.12
15 1 0.02
16 30 0.70
17 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (16 bp):
ATAATGTAAGTTATGT
Found at i:33193432 original size:16 final size:15
Alignment explanation
Indices: 33193411--33193476 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 15
33193401 AAAAAAAATT
33193411 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGT-TA
*
33193427 ATGTAAGTTATG-TA
1 ATGTAAGTTGTGTTA
*
33193441 A-GTAA--TGTCTT-
1 ATGTAAGTTGTGTTA
33193452 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGT-TA
*
33193468 ATGTTAGTT
1 ATGTAAGTT
33193477 ATCAGAGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 3 0.08
12 5 0.13
13 4 0.10
14 7 0.18
15 1 0.03
16 19 0.49
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (15 bp):
ATGTAAGTTGTGTTA
Found at i:33193455 original size:25 final size:25
Alignment explanation
Indices: 33193409--33193550 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 25
33193399 TTAAAAAAAA
33193409 TTATGTAAGT--TGTGTATAATGTAAG
1 TTATGTAAGTAATGTGT-T-ATGTAAG
*
33193434 TTATGTAAGTAATGTCTTATGTAAG
1 TTATGTAAGTAATGTGTTATGTAAG
* *
33193459 TTGTGT-A-TAATGTTAGTTAT-CAGAG
1 TTATGTAAGTAATG-T-GTTATGTA-AG
*
33193484 TTATGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTAATGT--GTTATGTAAG
** *
33193509 TTATGTAAGTTGTGTAAGTTATTTAAG
1 TTATGTAAGTAATGT--GTTATGTAAG
33193536 TTATGTAAGTAATGT
1 TTATGTAAGTAATGT
33193551 AATATATACT
Statistics
Matches: 97, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.05
24 4 0.04
25 52 0.54
26 3 0.03
27 33 0.34
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTAATGTGTTATGTAAG
Found at i:33193630 original size:13 final size:13
Alignment explanation
Indices: 33193612--33193662 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
33193602 AAATTTTAGC
*
33193612 AAGTAATGTATTT
1 AAGTAATATATTT
*
33193625 AAGTAATTTATTT
1 AAGTAATATATTT
*
33193638 AAGTAATATATTC
1 AAGTAATATATTT
33193651 AAGTAATATATT
1 AAGTAATATATT
33193663 AAATTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (13 bp):
AAGTAATATATTT
Found at i:33193696 original size:66 final size:66
Alignment explanation
Indices: 33193571--33193696 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 66
33193561 TAAATTTTAG
* * * ** *
33193571 TAAGTAATGTATTTAAGTAATAAATTTAACCAAATTTTAGCAAGTAATGTATTTAAGTAATTTAT
1 TAAGTAATATATTCAAGTAATAAATTAAACCAAATTTTAGCAAAAAATATATTTAAGTAATTTAT
33193636 T
66 T
* ** * * *
33193637 TAAGTAATATATTCAAGTAATATATTAAATTAAATTTTAGTAAAAAATATGTTTTAGTAA
1 TAAGTAATATATTCAAGTAATAAATTAAACCAAATTTTAGCAAAAAATATATTTAAGTAA
33193697 GTAATGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
66 48 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (66 bp):
TAAGTAATATATTCAAGTAATAAATTAAACCAAATTTTAGCAAAAAATATATTTAAGTAATTTAT
T
Found at i:33195428 original size:60 final size:59
Alignment explanation
Indices: 33195338--33195457 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 59
33195328 CACAAAATTC
* * *
33195338 ATTCGGGCAACTGCTAAATAAATAATTTATACCTAAATCCCTCATACACTATAACCAAA
1 ATTCGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTATAACCAAA
*
33195397 ATTCAGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTGTAACCAAA
1 ATTC-GGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTATAACCAAA
33195457 A
1 A
33195458 GTCACAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.24
Consensus pattern (59 bp):
ATTCGGGCAACTGCTAAATAAACAAATTATACCTAAATCCCTCACACACTATAACCAAA
Found at i:33196607 original size:233 final size:233
Alignment explanation
Indices: 33196198--33196665 Score: 633
Period size: 233 Copynumber: 2.0 Consensus size: 233
33196188 AAATAAATAA
** * * *
33196198 TTCTAAAATTTTTCTAAGTTAAAAATCGTTTATGGAAACAGCGTCGTTTAGCCATTACTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACAAGGAAACAGCGTCGTTTACCCATTACTCTAATA
** * * *
33196263 CCCTTTTGCGGTGTTTTTGGAACAAACACTGCTATTGCTTACACATTTCCGGCGTTTTCCTAAAA
66 CCCTTTTGCGACGTTTCTGGAACAAACACCGCTATTGCTTACACATTTCCGGCGTTTACCTAAAA
* * *
33196328 ACGCCACTAAATATTAAAGTTGTAAAGAGGGACGACGCCATTTTGTTAGTCTCAAATTGTATT-T
131 ACGCCACTAAATATTAAAGTTGTAAAGAGGAACGACGCCATTTTGTTAGTCTCAAATTGCATTAC
*
33196392 TTTCTGGCGTTTTACGTAAAAACGCCACTAATACTTGAT
196 TTT-TGGCGTTTTACGTAAAAACGCCACTAATACTTAAT
33196431 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGGAACGACA-C-T-GTTTACCCATTACTCTA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACA-AGGAA--ACAGCGTCGTTTACCCATTACTCTA
* * * *
33196493 ATACCCTTTTGCGACGTTTACTGTAA-AAACGCCGCTATTGCTTCCACATTTTCGGCGTTTACCT
63 ATACCCTTTTGCGACGTTT-CTGGAACAAACACCGCTATTGCTTACACATTTCCGGCGTTTACCT
* * *
33196557 AAAAATGCCACTAAATATTAAAGTTGTAAAG-GGAAACGGCGCCGTTTTGTTAGTCTCAAATTGC
127 AAAAACGCCACTAAATATTAAAGTTGTAAAGAGG-AACGACGCCATTTTGTTAGTCTCAAATTGC
* *
33196621 ATTACTTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAAT
191 ATTACTTTTGGCGTTTTACGTAAAAACGCCACTAATACTTAAT
33196664 TT
1 TT
33196666 ACTTTAACCC
Statistics
Matches: 206, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
232 2 0.01
233 188 0.91
234 12 0.06
235 1 0.00
236 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (233 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTACAAGGAAACAGCGTCGTTTACCCATTACTCTAATA
CCCTTTTGCGACGTTTCTGGAACAAACACCGCTATTGCTTACACATTTCCGGCGTTTACCTAAAA
ACGCCACTAAATATTAAAGTTGTAAAGAGGAACGACGCCATTTTGTTAGTCTCAAATTGCATTAC
TTTTGGCGTTTTACGTAAAAACGCCACTAATACTTAAT
Found at i:33196924 original size:270 final size:270
Alignment explanation
Indices: 33196431--33196997 Score: 755
Period size: 270 Copynumber: 2.1 Consensus size: 270
33196421 AATACTTGAT
* * *
33196431 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGGAACGACACTGTTTACCCATTACTCTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACCGTTTACACATTACTCTAATA
* * * * *
33196496 CCCTTTTGCGACGTTTACTGTAAAAACGCCGCTATTGCTTCCACATTTTCGGCGTTTACCTAAAA
66 CCCTTTTGCGACATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCAGCGTTTACCTAAAA
* * ** * * *
33196561 ATGCCACTAAATATTAAAGTTGTAAAGGGAAACGGCGCCGTTTTGTTAGTCTCAAATTGCATTAC
131 ACGCCACTAAATATTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATTAC
** *
33196626 TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAATTTACTTTAACCCAAACGGTGATGTTTT
196 TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTT
*
33196691 AAATAAATAG
261 AAATAAATAA
** * * * *
33196701 TTCTAAAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGTCACCGTTTAGACATTATTTTAATA
1 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACCGTTTACACATTACTCTAATA
* * *
33196766 CCCTTTTGCGGCATTTACTGTACAAACGCCGCTATTGCTTCCAAAGTTCCAGCGTTTTGCC-AAA
66 CCCTTTTGCGACATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCAGCG-TTTACCTAAA
*
33196830 AACGCCA-TAAATATTTAAAGTCGTAAACAGAAACAGTGCCGTTTTGCTACTCTCAAATTGCATT
130 AACGCCACTAAATA-TTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATT
* * *
33196894 -GTTTCTGGCGTTTTATGTTAAAAA-GCCACTAATACTTAACGTACTTTAAGCCAAATGGTGACG
194 ACTTT-TGGCGTTTTATG-TAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACG
*
33196957 TTTTAAGTAAATAA
257 TTTTAAATAAATAA
* *
33196971 TTCTAAACTTTTTATAAGTTAAAAATC
1 TTCTAAAATTTTTCTAAGTTAAAAATC
33196998 ATGGAGAGAA
Statistics
Matches: 258, Mismatches: 35, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
269 9 0.03
270 238 0.92
271 11 0.04
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (270 bp):
TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGACACCGTTTACACATTACTCTAATA
CCCTTTTGCGACATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCAGCGTTTACCTAAAA
ACGCCACTAAATATTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATTAC
TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTT
AAATAAATAA
Found at i:33197033 original size:270 final size:270
Alignment explanation
Indices: 33196431--33197079 Score: 707
Period size: 270 Copynumber: 2.4 Consensus size: 270
33196421 AATACTTGAT
* * ** * * * * ** * *
33196431 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGGAACGACACTGTTTACCCATTACTCTAATA
1 TTCTAAAATTTTTATAAGTTAAAAATCATGGACAGAAACGTCACCGTTTACACAAAATTTTAATA
* * * * * *
33196496 CCCTTTTGCGACGTTTACTGTAAAAACGCCGCTATTGCTTCCACATTTTCGGCGTTTACCTAAAA
66 CCCTTTTGCGGCATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCAGCGTTTACCTAAAA
* * ** * * *
33196561 ATGCCACTAAATATTAAAGTTGTAAAGGGAAACGGCGCCGTTTTGTTAGTCTCAAATTGCATTAC
131 ACGCCACTAAATATTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATTAC
** *
33196626 TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAATTTACTTTAACCCAAACGGTGATGTTTT
196 TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTT
*
33196691 AAATAAATAG
261 AAATAAATAA
* * * * **
33196701 TTCTAAAATTTTTCTAAGTTAAAAATCGTGTACAGAAACGTCACCGTTTAGACATTATTTTAATA
1 TTCTAAAATTTTTATAAGTTAAAAATCATGGACAGAAACGTCACCGTTTACACAAAATTTTAATA
* *
33196766 CCCTTTTGCGGCATTTACTGTACAAACGCCGCTATTGCTTCCAAAGTTCCAGCGTTTTGCC-AAA
66 CCCTTTTGCGGCATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCAGCG-TTTACCTAAA
*
33196830 AACGCCA-TAAATATTTAAAGTCGTAAACAGAAACAGTGCCGTTTTGCTACTCTCAAATTGCATT
130 AACGCCACTAAATA-TTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATT
* * *
33196894 -GTTTCTGGCGTTTTATGTTAAAAA-GCCACTAATACTTAACGTACTTTAAGCCAAATGGTGACG
194 ACTTT-TGGCGTTTTATG-TAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACG
*
33196957 TTTTAAGTAAATAA
257 TTTTAAATAAATAA
* * ** * *
33196971 TTCTAAACTTTTTATAAGTTAAAAATCATGGAGAGAAACAGT-GTCGTTTACTCAAAATTTTAAG
1 TTCTAAAATTTTTATAAGTTAAAAATCATGGACAGAAAC-GTCACCGTTTACACAAAATTTTAAT
* * * * * * *
33197035 ACACTTTTTCGGCGTTT-CTTGTAAGAACGCCACTAATGCATCCAA
65 ACCCTTTTGCGGCATTTAC-TGTAAAAACGCCGCTATTGCTTCCAA
33197080 TATTTGCGGT
Statistics
Matches: 320, Mismatches: 53, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
269 10 0.03
270 297 0.93
271 13 0.04
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (270 bp):
TTCTAAAATTTTTATAAGTTAAAAATCATGGACAGAAACGTCACCGTTTACACAAAATTTTAATA
CCCTTTTGCGGCATTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCAGCGTTTACCTAAAA
ACGCCACTAAATATTAAAGTCGTAAACAGAAACAGCGCCGTTTTGCTACTCTCAAATTGCATTAC
TTTTGGCGTTTTATGTAAAAATGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTT
AAATAAATAA
Found at i:33197498 original size:14 final size:14
Alignment explanation
Indices: 33197431--33197500 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
33197421 GATCTGACCT
33197431 TTAAATTCCTAAACCC
1 TTAAA-TCCT-AACCC
*
33197447 -TAAATCATTAACCCC
1 TTAAATC-CTAA-CCC
**
33197462 TTAACCCCTAACCC
1 TTAAATCCTAACCC
*
33197476 TTAATTCCTAACCC
1 TTAAATCCTAACCC
33197490 TTAAATCCTAA
1 TTAAATCCTAA
33197501 ATCCATACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
14 29 0.66
15 11 0.25
16 4 0.09
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30
Consensus pattern (14 bp):
TTAAATCCTAACCC
Found at i:33198650 original size:41 final size:41
Alignment explanation
Indices: 33198592--33198722 Score: 147
Period size: 41 Copynumber: 3.2 Consensus size: 41
33198582 AATTATTTTT
* *
33198592 GCGGCGCTTCATTAAAAACGCCGCTAAAACCCCTAGAATTA
1 GCGGCGCTTCATAAAAAACGCCGCTAAAACCCCTAGCATTA
* * ** *
33198633 GCGGCGATTCATAAAAAACGCTGCTAAAA-GTCTAAGCATTG
1 GCGGCGCTTCATAAAAAACGCCGCTAAAACCCCT-AGCATTA
* *
33198674 GCGGCGCTTCATGAAAAACGCCGCTAAAAACCCCGAGCATTA
1 GCGGCGCTTCATAAAAAACGCCGCT-AAAACCCCTAGCATTA
*
33198716 GCAGCGC
1 GCGGCGC
33198723 ATTTTTATAA
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
40 2 0.03
41 53 0.74
42 16 0.22
43 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCATAAAAAACGCCGCTAAAACCCCTAGCATTA
Found at i:33198764 original size:83 final size:82
Alignment explanation
Indices: 33198592--33198783 Score: 187
Period size: 83 Copynumber: 2.3 Consensus size: 82
33198582 AATTATTTTT
* * *
33198592 GCGGCGCTTCATTAAAAACGCCGCT-AAAACCCCTAGAATTAGCGGCGATTCATAAAAAACGCTG
1 GCGGCGCTTCA-TAAAAACGCCGCTAAAAACCCCGAGAATTAGCAGCGATTCATAAAAAACGCCG
* *
33198656 CTAAAAGTCTAAGCATTG
65 CTAAAAGACTAAGCATTA
* * * *
33198674 GCGGCGCTTCATGAAAAACGCCGCTAAAAACCCCGAGCATTAGCAGCGCATT-TTTATAAACGCC
1 GCGGCGCTTCAT-AAAAACGCCGCTAAAAACCCCGAGAATTAGCAGCG-ATTCATAAAAAACGCC
33198738 GC-AAATA-AC-AAGTCCATTA
64 GCTAAA-AGACTAAG--CATTA
* *
33198757 GCGGCGCTATAATAAAAACGCCACTAA
1 GCGGCGCT-TCATAAAAACGCCGCTAA
33198784 TTCCCCCCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
81 4 0.04
82 27 0.29
83 55 0.60
84 6 0.07
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (82 bp):
GCGGCGCTTCATAAAAACGCCGCTAAAAACCCCGAGAATTAGCAGCGATTCATAAAAAACGCCGC
TAAAAGACTAAGCATTA
Found at i:33199104 original size:123 final size:124
Alignment explanation
Indices: 33198777--33199147 Score: 403
Period size: 123 Copynumber: 3.0 Consensus size: 124
33198767 AATAAAAACG
* * * **
33198777 CCACTAATTCCCCCCGAAAGGTCACCAAACGACGCCGTTGGCTTTTATTA-TTTGCAATATTTTT
1 CCACTAAAT-CCCCCGAAAGGGCACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTT
* * *
33198841 TCAAAAAATGCCACTAATGGTTATTTTTTGCGGCGATTTTAAAGAAACGCTGCTAATGCT
65 CCAAAAAATGCCACTAATGATTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
* * * * *
33198901 CCACTAAATCCCCCGAAAGGGCACCAAACAACGCCGTTGGCATTTAAT-TTTTGCGGCGTTTTCC
1 CCACTAAATCCCCCGAAAGGGCACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTTC
** * * *
33198965 CAAAAAATGCCACTAATGATT-TTTTTTGCGGCGATTTTAGTGTAATGCGGCTGATGCT
66 CAAAAAATGCCACTAATGATTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
** * * * *
33199023 CCACTAAATCCCTTGAAA-GGCGATCAAACGACGCCATTGGGTTTTATTATTTTGTGACGTTTTT
1 CCACTAAATCCCCCGAAAGGGC-ACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTT
* * * * *
33199087 GCAAAAAACGCCACTAAT-ACTTATTTTTTGCGGC-ATTTTTAAGGAAATGCCGCTAATGCT
65 CCAAAAAATGCCACTAATGA-TTATTTTTTGCGGCGA-TTTTAAAGAAACGCGGCTAATGCT
33199147 C
1 C
33199148 ACTCTTTAAC
Statistics
Matches: 205, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
121 3 0.01
122 68 0.33
123 95 0.46
124 39 0.19
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (124 bp):
CCACTAAATCCCCCGAAAGGGCACCAAACGACGCCGTTGGCTTTTATTATTTTGCGACGTTTTTC
CAAAAAATGCCACTAATGATTATTTTTTGCGGCGATTTTAAAGAAACGCGGCTAATGCT
Found at i:33215457 original size:13 final size:13
Alignment explanation
Indices: 33215358--33215457 Score: 62
Period size: 13 Copynumber: 7.6 Consensus size: 13
33215348 CTGTAACTGA
33215358 TTCATAT-ATCCAT
1 TTCATATAAT-CAT
*
33215371 TCCATAT-ATCTAT
1 TTCATATAATC-AT
*
33215384 TTCTATATAA-CTAA
1 TTC-ATATAATC-AT
*
33215398 TTCTTATAATCAT
1 TTCATATAATCAT
* **
33215411 TTCACATACCCAT
1 TTCATATAATCAT
* *
33215424 TTCATATAAACAA
1 TTCATATAATCAT
33215437 TTCATATAATCAT
1 TTCATATAATCAT
*
33215450 TTCGTATA
1 TTCATATA
33215458 GCCATTCCAA
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
12 1 0.01
13 54 0.81
14 11 0.16
15 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (13 bp):
TTCATATAATCAT
Found at i:33215463 original size:39 final size:40
Alignment explanation
Indices: 33215351--33215452 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
33215341 TATTTATCTG
* * * * *
33215351 TAACTGATTCATAT-ATCCATTCCATATATCTATTTCTATA
1 TAACTAATTCATATAAT-CATTTCACATACCCATTTCTATA
*
33215391 TAACTAATTCTTATAATCATTTCACATACCCATTTC-ATA
1 TAACTAATTCATATAATCATTTCACATACCCATTTCTATA
33215430 TAAAC-AATTCATATAATCATTTC
1 T-AACTAATTCATATAATCATTTC
33215453 GTATAGCCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 21 0.40
40 30 0.57
41 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (40 bp):
TAACTAATTCATATAATCATTTCACATACCCATTTCTATA
Found at i:33218310 original size:44 final size:44
Alignment explanation
Indices: 33218213--33218334 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 44
33218203 AGCTGATACG
** * * *
33218213 ATCTACTTTACTGCAACTTCAGAGAGATAAGATCTATTATTTTA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTCA
* *
33218257 ATC-AGCTCCACTGCAACTTCAGGGAGATAAGAT-TACTGGCTTCA
1 ATCTA-CTCCACTGCAACTTCAGAGAGATAAGATCTA-TGACTTCA
*
33218301 ATCTACTCCACTGCAACTT-AGAGAGATAAAATCT
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCT
33218335 GTAATTTTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
43 14 0.22
44 50 0.77
45 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATGACTTCA
Found at i:33218345 original size:44 final size:44
Alignment explanation
Indices: 33218213--33218356 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 44
33218203 AGCTGATACG
** * *
33218213 ATCTACTTTACTGCAACTTCAGAGAGATAAGATCTATTATTTT-A
1 ATCTACTCCACTGCAACTTCAGAGAGATAAAATCT-GTATTTTCA
* * **
33218257 ATC-AGCTCCACTGCAACTTCAGGGAGATAAGATTACTG--GCTTCA
1 ATCTA-CTCCACTGCAACTTCAGAGAGATAA-AAT-CTGTATTTTCA
33218301 ATCTACTCCACTGCAACTT-AGAGAGATAAAATCTGTAATTTTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAAATCTGT-ATTTTCA
*
33218345 ACCTACTCCACT
1 ATCTACTCCACT
33218357 ACTGCTCAGG
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
41 3 0.04
42 2 0.03
43 12 0.15
44 58 0.73
45 2 0.03
46 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAAATCTGTATTTTCA
Found at i:33218370 original size:87 final size:88
Alignment explanation
Indices: 33218213--33218374 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 88
33218203 AGCTGATACG
** * * * *
33218213 ATCTACTTTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCAGCTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGAGAGATAAAATCTATAATTTTAACCAGCTCCACTACAACTTCA
33218278 GGGAGATAAGATTACTGGCTTCA
66 GGGAGATAAGATTACTGGCTTCA
* **
33218301 ATCTACTCCACTGCAACTT-AGAGAGATAAAATCTGTAATTTTCAACCTA-CTCCACTACTGC-T
1 ATCTACTCCACTGCAACTTCAGAGAGATAAAATCTATAATTTT-AACC-AGCTCCACTACAACTT
33218363 CAGGGAGATAAG
64 CAGGGAGATAAG
33218375 GCTAGTGGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 33 0.52
88 29 0.46
89 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (88 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAAATCTATAATTTTAACCAGCTCCACTACAACTTCA
GGGAGATAAGATTACTGGCTTCA
Found at i:33218462 original size:88 final size:87
Alignment explanation
Indices: 33218350--33218638 Score: 257
Period size: 88 Copynumber: 3.3 Consensus size: 87
33218340 TTTCAACCTA
*
33218350 CTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTGCTCA-GGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
* *
33218415 TCAGATTCGCCGTCTTCGATCTG
65 TAAGATTCACCGTCTTCGATCTG
* * *** * * *
33218438 CTCCACTACTGCTTATGGAGATAAGATCTA-TAATTTTCAACCTAC-TCCACTACT-GCTTAGGG
1 CTCCACTACTGCTCA-GGAGATAAG-GCTAGT-GGCTTAAATCTACTTCC-CTACTACCTT-GGG
* ** * *
33218500 -AGATAAG-GTCTACAATCTTC-AACTTA
61 AAGATAAGATTC-ACCGTCTTCGATC-TG
* *
33218526 CTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATTTACTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTGCTC-AGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
* *
33218591 TAAGATTCACCGTTTTTGATCTG
65 TAAGATTCACCGTCTTCGATCTG
*
33218614 CTCCACTACTGCTTAGGTAGATAAG
1 CTCCACTACTGCTCAGG-AGATAAG
33218639 ATATGTAATT
Statistics
Matches: 151, Mismatches: 36, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
87 25 0.17
88 103 0.68
89 23 0.15
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
CTCCACTACTGCTCAGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGAT
AAGATTCACCGTCTTCGATCTG
Found at i:33218551 original size:44 final size:44
Alignment explanation
Indices: 33218438--33218551 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 44
33218428 CTTCGATCTG
* * * *
33218438 CTCCACTACTGCTTATGGAGATAAGATCTATAATTTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTA
* *
33218482 CTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACTTA
1 CTCCACTACTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTA
* *
33218526 CTCCACTGCTGCTCAAGGAGATAAGG
1 CTCCACTACTGCTTAAGGAGATAAGG
33218552 CTAGTGGCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAAGGAGATAAGGTCTACAATCTTCAACCTA
Found at i:33218555 original size:176 final size:176
Alignment explanation
Indices: 33218341--33218712 Score: 536
Period size: 176 Copynumber: 2.1 Consensus size: 176
33218331 ATCTGTAATT
* * * *
33218341 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACC
* * *
33218406 TTGGGAAGATCAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTATGG-AGATAAGATCTATA
66 TTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA-GGTAGATAAGATATATA
*
33218470 ATTTTCAACCTACTCCACTACTG-CTTAGGGAGATAAGG--TCTACAATC
130 ATTTTCAACCTACTCCACTACTGAC-CAGGGAGAT-AGGATTC-ACAATC
*
33218517 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATTTACTTCCCTACTACC
1 TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACC
* * *
33218582 TTGGGAAGATAAGATTCACCGTTTTTGATCTGCTCCACTACTGCTTAGGTAGATAAGATATGTAA
66 TTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGTAGATAAGATATATAA
* * *
33218647 TTTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATC
131 TTTTCAACCTACTCCACTACTGACCAGGGAGATAGGATTCACAATC
*
33218693 TTCAACTTATTCCACTGCTG
1 TTCAACTTACTCCACTGCTG
33218713 ACCAGGGAGA
Statistics
Matches: 176, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
175 5 0.03
176 168 0.95
177 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (176 bp):
TTCAACTTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACC
TTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGTAGATAAGATATATAA
TTTTCAACCTACTCCACTACTGACCAGGGAGATAGGATTCACAATC
Found at i:33218680 original size:44 final size:43
Alignment explanation
Indices: 33218649--33218868 Score: 297
Period size: 44 Copynumber: 5.1 Consensus size: 43
33218639 ATATGTAATT
* *
33218649 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATT-ACAATC
* * * *
33218693 TTCAACTTATTCCACTGCTGACCAGGGAG--A--A-TCCTATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTACAATC
33218731 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATT-ACAATC
*
33218775 TTCAACCTATTCCACTACTGACCAGGGAGATAGGAATCACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGG-ATTACAATC
*
33218819 TTCAACCTATTCCACTACTGACCAGGGAAATAGGACTTACAATC
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGA-TTACAATC
33218863 TTCAAC
1 TTCAAC
33218869 TTGATCTGCT
Statistics
Matches: 158, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
38 31 0.20
39 1 0.01
40 2 0.01
42 2 0.01
43 2 0.01
44 118 0.75
45 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTACAATC
Found at i:33218752 original size:82 final size:87
Alignment explanation
Indices: 33218649--33218870 Score: 330
Period size: 82 Copynumber: 2.6 Consensus size: 87
33218639 ATATGTAATT
* * *
33218649 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATCTTCAACTTATTCCACTGCTGA
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACTTATTCCACTACTGA
*
33218714 CCA-GG-G-A-GAATC-CTATC
66 CCAGGGAGAAGGAATCACAATC
*
33218731 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACTTATTCCACTACTGA
33218796 CCAGGGAGATAGGAATCACAATC
66 CCAGGGAGA-AGGAATCACAATC
*
33218819 TTCAACCTATTCCACTACTGACCAGGGAAATAGGACTT-ACAATCTTCAACTT
1 TTCAACCTATTCCACTACTGACCAGGGAGATAGGA-TTCACAATCTTCAACTT
33218871 GATCTGCTGT
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
82 64 0.51
83 2 0.02
84 1 0.01
86 1 0.01
87 5 0.04
88 51 0.40
89 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (87 bp):
TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTCAACTTATTCCACTACTGA
CCAGGGAGAAGGAATCACAATC
Found at i:33219142 original size:44 final size:43
Alignment explanation
Indices: 33219090--33219416 Score: 168
Period size: 44 Copynumber: 7.5 Consensus size: 43
33219080 CTACTCTACA
* *
33219090 GCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACT
1 GCAACTTCAGGGAGATAAGAT-TGTGGATTTAATCCGCTCCACT
* * * *
33219134 GCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATT-GTGGATTTAATCCGCTCCACT
* * * ** * *
33219178 ACAAATTTAGGGAGATAAGATTCG-CCACCTTTAGTCTGC-CTCACT
1 GCAACTTCAGGGAGATAAGATT-GTGGA--TTTAATCCGCTC-CACT
* * * * * **
33219223 GCTACTTCA-AGAGGATAAGACTTGCT-TACTTAGTCTACTCCACT
1 GCAACTTCAGGGA-GATAAGA-TTG-TGGATTTAATCCGCTCCACT
* * * *** * *
33219267 ACAACTTCAGGGAGATAAGA--CTAGATGCGATCTGCT-CTCT
1 GCAACTTCAGGGAGATAAGATTGTGGATTTAATCCGCTCCACT
* *
33219307 GCAACTTCAGAGAGATAAGATT-TGTGATTTTAATCCGCTCTACT
1 GCAACTTCAGGGAGATAAGATTGTG-GA-TTTAATCCGCTCCACT
* * * *
33219351 GCAACTTCAGGGAGATAGGATTATTGGCTTTAA-CCTTCTCCACT
1 GCAACTTCAGGGAGATAAGATT-GTGGATTTAATCC-GCTCCACT
33219395 GCAACTTCAGGGAGATAAGATT
1 GCAACTTCAGGGAGATAAGATT
33219417 CGCTATCTTC
Statistics
Matches: 213, Mismatches: 51, Indels: 38
0.71 0.17 0.13
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 2 0.01
43 10 0.05
44 137 0.64
45 30 0.14
46 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
GCAACTTCAGGGAGATAAGATTGTGGATTTAATCCGCTCCACT
Found at i:33219361 original size:217 final size:217
Alignment explanation
Indices: 33218953--33219419 Score: 636
Period size: 217 Copynumber: 2.1 Consensus size: 217
33218943 CTCTAATCCA
* * ** * *
33218953 CTCCACTACAACTTTAGGGAGATAGGATTTGTTTATTTAGTCTGCCCCACTTCAATTTCAGAGGG
1 CTCCACTACAACTTTAGGGAGATAAGATTCG-CCATTTAGTCTGCCCCACTGCAACTTCAGAGGG
* * * * * *
33219018 ATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGATGTGATCTA
65 ATAAGACTTGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTA
33219083 CTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAGGGAG
130 CTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAGGGAG
*
33219148 ATAGGATTATTGGCTTTAATCTG
195 ATAGGATTATTGGCTTTAACCTG
* * *
33219171 CTCCACTACAAATTTAGGGAGATAAGATTCGCCACCTTTAGTCTGCCTCACTGCTACTTCA-AGA
1 CTCCACTACAACTTTAGGGAGATAAGATTCGCCA--TTTAGTCTGCCCCACTGCAACTTCAGAG-
*
33219235 GGATAAGACTTGCTTACTT-AGTCTACTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATC
63 GGATAAGACTTGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATC
* * * * *
33219299 TGCTCT-CTGCAACTTCAGAGAGATAAGATTTGT-GATTTTAATCCGCTCTACTGCAACTTCAGG
128 TACTCTACAGCAACTTCAGAGAGATAAGATCTGTGGA-TTTAATCCACTCCACTGCAACTTCAGG
*
33219362 GAGATAGGATTATTGGCTTTAACCTT
192 GAGATAGGATTATTGGCTTTAACCTG
* *
33219388 CTCCACTGCAACTTCAGGGAGATAAGATTCGC
1 CTCCACTACAACTTTAGGGAGATAAGATTCGC
33219420 TATCTTCAGT
Statistics
Matches: 219, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
216 2 0.01
217 104 0.47
218 74 0.34
219 39 0.18
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CTCCACTACAACTTTAGGGAGATAAGATTCGCCATTTAGTCTGCCCCACTGCAACTTCAGAGGGA
TAAGACTTGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTAC
TCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAGGGAGA
TAGGATTATTGGCTTTAACCTG
Found at i:33219902 original size:260 final size:260
Alignment explanation
Indices: 33219438--33219920 Score: 817
Period size: 260 Copynumber: 1.9 Consensus size: 260
33219428 GTCTTTTTAA
** *
33219438 TTGCAATGTTGGGGAAACAAGATTCGCTGTCGTAGCTTCAATTTGTTCCACTACACCGCCAAGGA
1 TTGCAATGTTAAGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
* * *
33219503 AGTAAGATTCGCCGTTGCGACTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGC
66 AGTAAGATTCACCGTTGCGACTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCTAC
* * *
33219568 CCTCAGTTTCAATCCGCTCCACTTTAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
131 CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
*
33219633 GTTGTGGCTTCAATTTGCTCAGCTACAACGCCAGGAAAGTAAAATTCGCTGTTGCGGCTTCAATC
196 GTCGTGGCTTCAATTTGCTCAGCTACAACGCCAGGAAAGTAAAATTCGCTGTTGCGGCTTCAATC
*
33219698 TTGCAATGTTAAGGAAACAAGATTCG-TCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGG
1 TTGCAATGTTAAGGAAACAAGATTCGCT-GTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGG
33219762 AAGTAAGATTCACCGTTGC-AGCTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCT
65 AAGTAAGATTCACCGTTGCGA-CTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCT
*
33219826 ACCCACAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCA
129 ACCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCA
*
33219891 CCGTCGTGGCTTCAATTTGCTCCGCTACAA
194 CCGTCGTGGCTTCAATTTGCTCAGCTACAA
33219921 TACCACGGAA
Statistics
Matches: 208, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
259 2 0.01
260 206 0.99
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (260 bp):
TTGCAATGTTAAGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
AGTAAGATTCACCGTTGCGACTTCAATCTTTTTCACTGTAAGGCCAAAGAGATAGGATTCGCTAC
CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
GTCGTGGCTTCAATTTGCTCAGCTACAACGCCAGGAAAGTAAAATTCGCTGTTGCGGCTTCAATC
Found at i:33220163 original size:88 final size:88
Alignment explanation
Indices: 33219993--33220165 Score: 247
Period size: 88 Copynumber: 2.0 Consensus size: 88
33219983 AAGACGGGTG
* * * ** *
33219993 TCTTCGATCTGCTTCACTGCCAGCACAGGAAGGTAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
* *
33220058 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGAGAAACAAGGCTGGTA
* *
33220081 TCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGCTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
33220146 TGCTCAGAGAAATAAGGCTG
66 TGCTCAGAGAAACAAGGCTG
33220166 AAGTTTCACC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAACACAAGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAGAGAAACAAGGCTGGTA
Found at i:33221438 original size:19 final size:19
Alignment explanation
Indices: 33221416--33221456 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
33221406 TGACCTCTCC
33221416 TTTTCCTCTTCTTCTTTCT
1 TTTTCCTCTTCTTCTTTCT
* * *
33221435 TTTTCTTTTTCTTTTTTCT
1 TTTTCCTCTTCTTCTTTCT
33221454 TTT
1 TTT
33221457 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCCTCTTCTTCTTTCT
Found at i:33221466 original size:6 final size:6
Alignment explanation
Indices: 33221424--33221474 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
33221414 CCTTTTCCTC
*
33221424 TTCTTCT TTCTTT TTCTTT TTCTTT TT-TCTT TTCTTT TTCTTT TCCTTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTTT
33221473 TT
1 TT
33221475 TCCATCATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 1 0.03
6 33 0.82
7 6 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:33221473 original size:24 final size:23
Alignment explanation
Indices: 33221415--33221476 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
33221405 TTGACCTCTC
*
33221415 CTTTTCCTCTTCTTCTTTCTTTTT
1 CTTTTCCT-TTTTTCTTTCTTTTT
*
33221439 CTTTTTCTTTTTTCTTTTCTTTTT
1 CTTTTCCTTTTTTC-TTTCTTTTT
33221463 CTTTTCCTTTTTTC
1 CTTTTCCTTTTTTC
33221477 CATCATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
CTTTTCCTTTTTTCTTTCTTTTT
Found at i:33227614 original size:41 final size:41
Alignment explanation
Indices: 33227566--33227856 Score: 435
Period size: 41 Copynumber: 7.2 Consensus size: 41
33227556 TTTTTTAGAA
*
33227566 AAGCGCCGCTAATGCTTTGGTCTTTAGCGGCGTTTTTGGGG
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
33227607 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
* * **
33227648 AAGCACCGCTAATGCTCTGGTCTTTAGAGGCGTTTTTGGAA
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
*
33227689 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCGGGG
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
* *
33227730 AAGCGCCGCTAATGCTCTGGTCTTTAGCGACGTTTTTGGGA
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
* * * *
33227771 AAGCGCCGCTAATACTCTGGTGTTT---TGCGTTTTTGGAG
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
* *
33227809 AAGCGCCACTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGA
1 AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
33227850 AAGCGCC
1 AAGCGCC
33227857 ACAAAAACAT
Statistics
Matches: 222, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
38 31 0.14
41 191 0.86
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGGG
Found at i:33228033 original size:29 final size:30
Alignment explanation
Indices: 33227991--33228047 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
33227981 TAATTTGAAA
33227991 TAAAAAATAGAAAAA-TATT-TGTTAAAAAT
1 TAAAAAATAGAAAAACTATTAT-TTAAAAAT
33228020 TAAAAAATTA-AAAAACTATTATTTAAAA
1 TAAAAAA-TAGAAAAACTATTATTTAAAA
33228048 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 12 0.48
30 12 0.48
31 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (30 bp):
TAAAAAATAGAAAAACTATTATTTAAAAAT
Found at i:33228048 original size:29 final size:28
Alignment explanation
Indices: 33227983--33228048 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 28
33227973 CGTAGAAATA
*
33227983 ATTTGAAA-TAAAAAATAGAAAAATATT
1 ATTTAAAATTAAAAAATAGAAAAATATT
33228010 -TGTTAAAAATTAAAAAATTA-AAAAACTATT
1 AT-TT-AAAATTAAAAAA-TAGAAAAA-TATT
33228040 ATTTAAAAT
1 ATTTAAAAT
33228049 AATTTTAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 3 0.09
29 17 0.53
30 8 0.25
31 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
ATTTAAAATTAAAAAATAGAAAAATATT
Found at i:33228274 original size:14 final size:14
Alignment explanation
Indices: 33228257--33228296 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
33228247 AGTTTAGGGG
33228257 TTATGGTTTACAG-T
1 TTATGGTTTA-AGAT
33228271 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
33228285 TTATGGTTTAAG
1 TTATGGTTTAAG
33228297 GGTTACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.50
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:33228345 original size:14 final size:15
Alignment explanation
Indices: 33228326--33228369 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
33228316 AGGGTATAGA
33228326 TTAAGGGTT-GGGGT
1 TTAAGGGTTAGGGGT
*
33228340 TTAAGGTTTAGGGG-
1 TTAAGGGTTAGGGGT
*
33228354 TTAGGGGTTAGGGGT
1 TTAAGGGTTAGGGGT
33228369 T
1 T
33228370 GAGAGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (15 bp):
TTAAGGGTTAGGGGT
Found at i:33228407 original size:22 final size:21
Alignment explanation
Indices: 33228360--33228401 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33228350 GGGGTTAGGG
*
33228360 GTTAGGGGTTGAGAGTTAAGA
1 GTTAGGGGTTAAGAGTTAAGA
*
33228381 GTTAGGGGTTTAAGATTTAAG
1 GTTAGGGG-TTAAGAGTTAAG
33228402 GTTTAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (21 bp):
GTTAGGGGTTAAGAGTTAAGA
Found at i:33228747 original size:21 final size:22
Alignment explanation
Indices: 33228731--33228771 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
33228721 ATGATTTATT
33228731 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
*
33228752 GTTTAAGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
33228772 GGATTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:33235423 original size:43 final size:42
Alignment explanation
Indices: 33235290--33235514 Score: 179
Period size: 43 Copynumber: 5.3 Consensus size: 42
33235280 ATGTTATGTT
* * * * *
33235290 TTTAGTGG-GTTTTTGCAAGAAGCGTCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAAAGGTCATGGTC
* * * * * *
33235331 TATAGCGGCGTTTGTAGTAAAAGCGCTGCTAAAGGTCTTTAG-C
1 TTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAAAGGTC-ATGGTC
* * * * * *
33235374 TATAGCGGCGTTTCTCGTAAAAGTGTCGCTAAAGGCCATGGTC
1 TTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
33235417 TTTAGCGGCGTTTGTTGGAGAAGCGCCGCTAAAGATTA-GGATC
1 TTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAAAGGTCATGG-TC
33235460 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGTCATGGTC
*
33235502 CTTAGCGGCGTTT
1 TTTAGCGGCGTTT
33235515 ATTACTAAAA
Statistics
Matches: 147, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
41 6 0.04
42 57 0.39
43 82 0.56
44 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:33238119 original size:40 final size:39
Alignment explanation
Indices: 33238064--33238142 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
33238054 GACCAATTTG
*
33238064 ATCTTTGATCTCACGTATTTGGCTAATTTGGTCATGTTTT
1 ATCTTTGATCTCACGTATTTGACTAATTTGGTCAT-TTTT
33238104 ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
1 ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
33238143 GACTAGAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (39 bp):
ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
Found at i:33238133 original size:23 final size:23
Alignment explanation
Indices: 33238067--33238133 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
33238057 CAATTTGATC
*
33238067 TTTGATCTCACGTATTTGGCTAA
1 TTTGATCTCACGTATTTGACTAA
* * *
33238090 TTTG--GTCATGT-TTT-A-T-C
1 TTTGATCTCACGTATTTGACTAA
33238107 TTTGATCTCACGTATTTGACTAA
1 TTTGATCTCACGTATTTGACTAA
33238130 TTTG
1 TTTG
33238134 GTCATTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 5 0.16
20 6 0.19
21 6 0.19
22 1 0.03
23 8 0.26
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.49
Consensus pattern (23 bp):
TTTGATCTCACGTATTTGACTAA
Found at i:33238684 original size:14 final size:14
Alignment explanation
Indices: 33238652--33238678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33238642 AGTACAGTAA
33238652 AATATTTATAAAAT
1 AATATTTATAAAAT
33238666 AATATTTATAAAA
1 AATATTTATAAAA
33238679 ATATATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATTTATAAAAT
Found at i:33238687 original size:12 final size:12
Alignment explanation
Indices: 33238650--33238689 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
33238640 GGAGTACAGT
33238650 AAAATATTTATAA
1 AAAATATTTAT-A
33238663 AATAATATTTATA
1 AA-AATATTTATA
*
33238676 AAAATATATATA
1 AAAATATTTATA
33238688 AA
1 AA
33238690 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:33242834 original size:23 final size:22
Alignment explanation
Indices: 33242782--33242834 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
33242772 TCCTTGTCTT
*
33242782 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
33242804 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
33242827 TTTCTTTT
1 TTTCTTTT
33242835 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:33242848 original size:18 final size:18
Alignment explanation
Indices: 33242827--33242866 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33242817 CTTTCTTCAA
* * *
33242827 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
33242845 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
33242863 TTTC
1 TTTC
33242867 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:33246625 original size:2 final size:2
Alignment explanation
Indices: 33246618--33246661 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33246608 TCTCATAGTT
33246618 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33246660 AG
1 AG
33246662 TTATTAATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33268902 original size:13 final size:13
Alignment explanation
Indices: 33268881--33268914 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33268871 GAAGTTTCAT
* *
33268881 TCCTCACACGTTA
1 TCCTAACACGCTA
33268894 TCCTAACACGCTA
1 TCCTAACACGCTA
33268907 TCCTAACA
1 TCCTAACA
33268915 TTTATGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.38, G:0.06, T:0.26
Consensus pattern (13 bp):
TCCTAACACGCTA
Found at i:33284238 original size:27 final size:27
Alignment explanation
Indices: 33284200--33284584 Score: 470
Period size: 27 Copynumber: 14.3 Consensus size: 27
33284190 GATTCATGGG
* *
33284200 AAAATGATCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
33284227 AAAATGACCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
33284254 AAAATGACCGAAATACCCCCAAAGGAT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
33284281 AAAATGACCGAAATACTCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
33284308 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
33284335 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
33284362 AAAATGACTAAAATACCCTCGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
33284389 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
33284416 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
33284443 AAAATGACTGAACTACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
33284470 AAAATGATCGAAAGACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
33284497 AAAATTACTGAAATAACCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
33284524 AAAATTATCAAAATATCCC-C-AGAGGGT
1 AAAATGACCGAAATA-CCCTCGA-AGGGT
* *
33284551 AAAATGACTGAAATGCCCTC-ATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
33284578 AAAATGA
1 AAAATGA
33284585 TTGTTATACT
Statistics
Matches: 310, Mismatches: 45, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.01
27 304 0.98
28 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:33284758 original size:27 final size:27
Alignment explanation
Indices: 33284719--33284995 Score: 355
Period size: 27 Copynumber: 10.3 Consensus size: 27
33284709 ATTCATGGGC
33284719 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* **
33284746 AAATGATCAAAATACCCTCGAAGGACA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
33284773 AAATGATCGAAATACCCTCGAATGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* * *
33284800 AAATGA-CTGAAATACTCTTGAAGGGTT
1 AAATGATC-GAAATACCCTCGAAGGGTA
*
33284827 AAATAATCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
33284854 AAATGA-CTGAAATACCCTCGAAGGGTA
1 AAATGATC-GAAATACCCTCGAAGGGTA
* *
33284881 AAATGACCGAAAGACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
*
33284908 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* *
33284935 AAATAATCGAAATACCCTCGGAGGGTA
1 AAATGATCGAAATACCCTCGAAGGGTA
* *
33284962 AAATTA-CTGAAATACCCTC-ATAGTGTA
1 AAATGATC-GAAATACCCTCGA-AGGGTA
33284989 AAATGAT
1 AAATGAT
33284996 TGTTATACTC
Statistics
Matches: 217, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.01
27 212 0.98
28 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (27 bp):
AAATGATCGAAATACCCTCGAAGGGTA
Found at i:33285072 original size:410 final size:410
Alignment explanation
Indices: 33284309--33285093 Score: 1272
Period size: 410 Copynumber: 1.9 Consensus size: 410
33284299 TTGAAGGGTA
* **
33284309 AAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACTAAA
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCTCGAAGGACAAAATGACTAAA
* *
33284374 ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAA
66 ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAA
* * *
33284439 GGGTAAAATGACTGAACTACCCTTGAAGGGTAAAATGATCGAAAGACCCTCGAAGGGTAAAATTA
131 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATTA
* *
33284504 CTGAAATAACCTCGAAGGGTAAAATTATCAAAATATCCCCAGAGGGTAAAATGACTGAAATGCCC
196 CTGAAATAACCTCGAAGGGTAAAATAATCAAAATATCCCCAGAGGGTAAAATGACTGAAATACCC
33284569 TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
261 TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
* *
33284634 GTCATTTACATGACTGTTACTAAGTATGACATACTACGTACACGTATGATCGCTCAAGTGGAAGC
326 GTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGATCGCTCAAGTGGAAGC
33284699 CCAACTTGTGATTCATGGGC
391 CCAACTTGTGATTCATGGGC
*
33284719 AAATGATCGAAATACCCTCGAAGGGTAAAATGA-TCAAAATACCCTCGAAGGACAAAATGA-TCG
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGACT-AAAATACCCTCGAAGGACAAAATGACT-A
** * * *
33284782 AAATACCCTCGAATGGTAAAATGACTGAAATACTCTTGAAGGGTTAAATAATCGAAATACCCTCG
64 AAATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCG
33284847 AAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAAT
129 AAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAAT
* * * *
33284912 TA-TCGAAATACCCTCGAAGGGTAAAATAATCGAAATA-CCCTCGGAGGGTAAAATTACTGAAAT
194 TACT-GAAATAACCTCGAAGGGTAAAATAATCAAAATATCCC-CAGAGGGTAAAATGACTGAAAT
* *
33284975 ACCCTCATAGTGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACTGATTTGTT
257 ACCCTCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTT
* *
33285040 CTATGTTATTTACATGACTATTACTGAGTATGACATACTACATACACGTATGAT
322 CTATGTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGAT
33285094 TTATGACATG
Statistics
Matches: 345, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
409 6 0.02
410 339 0.98
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (410 bp):
AAATGATCGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCTCGAAGGACAAAATGACTAAA
ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAA
GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATTA
CTGAAATAACCTCGAAGGGTAAAATAATCAAAATATCCCCAGAGGGTAAAATGACTGAAATACCC
TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
GTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGATCGCTCAAGTGGAAGC
CCAACTTGTGATTCATGGGC
Found at i:33285226 original size:26 final size:26
Alignment explanation
Indices: 33285144--33285243 Score: 89
Period size: 26 Copynumber: 3.8 Consensus size: 26
33285134 AGGGGAAGTA
** * *
33285144 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTACGT
* *
33285169 ATACTGTTACTGGAAGCTATGCTACGT
1 -TACTGTTACTGGCAGCTTTGCTACGT
33285196 TACTGTTACTGGCAGCTTTG-T-CGT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
33285220 ATCACTGTTACTAGCAGCTTTGCT
1 -T-ACTGTTACTGGCAGCTTTGCT
33285244 GCGATATTAG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 41 0.66
27 16 0.26
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:33285392 original size:28 final size:28
Alignment explanation
Indices: 33285350--33285441 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
33285340 TTACTGCATT
*
33285350 ACACTGATTATTGTATTGGGCTAAGGCCC
1 ACACT-ATTACTGTATTGGGCTAAGGCCC
*
33285379 CCACTATTACTGTATTGGGCTAAGGCCTAC
1 ACACTATTACTGTATTGGGCTAAGGCC--C
* * *
33285409 ACACTATCACTGTAATAGGCTAAGGCCC
1 ACACTATTACTGTATTGGGCTAAGGCCC
33285437 ACACT
1 ACACT
33285442 GTACTGATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 27 0.49
29 4 0.07
30 24 0.44
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (28 bp):
ACACTATTACTGTATTGGGCTAAGGCCC
Found at i:33285421 original size:30 final size:29
Alignment explanation
Indices: 33285361--33285441 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
33285351 CACTGATTAT
* *
33285361 TGTATTGGGCTAAGGCC-CCCACTATTAC
1 TGTATTGGGCTAAGGCCACACACTATCAC
33285389 TGTATTGGGCTAAGGCCTACACACTATCAC
1 TGTATTGGGCTAAGGCC-ACACACTATCAC
* *
33285419 TGTAATAGGCTAAGGCC-CACACT
1 TGTATTGGGCTAAGGCCACACACT
33285442 GTACTGATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 23 0.49
30 24 0.51
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (29 bp):
TGTATTGGGCTAAGGCCACACACTATCAC
Found at i:33292208 original size:27 final size:27
Alignment explanation
Indices: 33292178--33292561 Score: 450
Period size: 27 Copynumber: 14.2 Consensus size: 27
33292168 ATTCATTAGC
*
33292178 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
33292205 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33292232 AAATGACTGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33292259 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33292286 AAATGACCGAAATACTCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33292313 AAATGATCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
33292340 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
33292367 AAATAACCAAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33292394 AAATGATCGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * * **
33292421 AAATTATCAAAATACCCCCGAAATGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** *
33292448 AAATGATTGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* ** *
33292475 ATATGATTGATATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
33292502 AAATGACCGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
33292529 AAATGACTGAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
33292556 AAATGA
1 AAATGA
33292562 GTGTTATACT
Statistics
Matches: 310, Mismatches: 42, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.01
27 305 0.98
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:33292775 original size:26 final size:26
Alignment explanation
Indices: 33292742--33292792 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
33292732 ACATATACTG
* *
33292742 TTACTGGCAGCTTTGCTGCATCATTA
1 TTACTGGCAGCTTTACTGCAACATTA
33292768 TTACTGGCAGCTTTACTGCAACATT
1 TTACTGGCAGCTTTACTGCAACATT
33292793 GGTGTATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (26 bp):
TTACTGGCAGCTTTACTGCAACATTA
Found at i:33292975 original size:33 final size:32
Alignment explanation
Indices: 33292893--33292989 Score: 103
Period size: 33 Copynumber: 3.0 Consensus size: 32
33292883 ACTGTATTGC
*
33292893 ACTGATTACTGTATTGGGCTAAGGCCCACAC--
1 ACTGA-TACTGTATAGGGCTAAGGCCCACACTG
33292924 ACTG-TCACTGTA-ATGGGCTAAGGCCCACACTG
1 ACTGAT-ACTGTATA-GGGCTAAGGCCCACACTG
* *
33292956 TACTGATACTGTATAGGGCTCAGGCCCAGACTG
1 -ACTGATACTGTATAGGGCTAAGGCCCACACTG
33292989 A
1 A
33292990 TTATGCATGT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
29 1 0.02
30 22 0.39
31 4 0.07
32 1 0.02
33 26 0.46
34 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (32 bp):
ACTGATACTGTATAGGGCTAAGGCCCACACTG
Found at i:33294038 original size:16 final size:16
Alignment explanation
Indices: 33294006--33294040 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33293996 CATTTCACTA
*
33294006 TTATGTCTTTTGCATT
1 TTATGTCTTTTACATT
*
33294022 TTATGTCTTTTATATT
1 TTATGTCTTTTACATT
33294038 TTA
1 TTA
33294041 CATGCATAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.66
Consensus pattern (16 bp):
TTATGTCTTTTACATT
Found at i:33295735 original size:68 final size:69
Alignment explanation
Indices: 33295646--33295780 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 69
33295636 TTTAATAGTT
* * * *
33295646 TAATATTAAATTAAATTTAATACTTATCTTA-ATAGTATTTT-ATT-AATTTAATATTAAATTGA
1 TAATATTAAATTAAATCTAATACTTATC-AAGATA-AATTTTAATTAAATTTAATATTAAAGTGA
33295708 TTATTC
64 TTATTC
* *
33295714 TAATATTAAATTTAATCTAATATTTATCAAGATAAATTTTAGATTAAATTTAATATTAAAGTGAT
1 TAATATTAAATTAAATCTAATACTTATCAAGATAAATTTTA-ATTAAATTTAATATTAAAGTGAT
33295779 TA
65 TA
33295781 AGTTTAATCA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
67 6 0.11
68 28 0.49
69 3 0.05
70 20 0.35
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (69 bp):
TAATATTAAATTAAATCTAATACTTATCAAGATAAATTTTAATTAAATTTAATATTAAAGTGATT
ATTC
Found at i:33316243 original size:50 final size:50
Alignment explanation
Indices: 33316110--33316456 Score: 374
Period size: 50 Copynumber: 6.8 Consensus size: 50
33316100 ATTTGGGTAA
* * *
33316110 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
*
33316166 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * ** *
33316216 AGAGGTCACATGTAAGAGCATACCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
33316266 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** * * *
33316316 AGGGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * *
33316366 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** *
33316415 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
33316457 TGTTATTATC
Statistics
Matches: 250, Mismatches: 40, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.00
49 39 0.16
50 166 0.66
53 3 0.01
55 1 0.00
56 40 0.16
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:33316358 original size:150 final size:153
Alignment explanation
Indices: 33316110--33316457 Score: 418
Period size: 150 Copynumber: 2.3 Consensus size: 153
33316100 ATTTGGGTAA
*
33316110 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAGA-TATGAGAGGTCCC
* * * ** *
33316175 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCACATGTAAGAGCATACC
64 ACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCACATGTAAGACCATACC
* *
33316240 TGGGACATGGCGTTGGCACCG-AGACG
129 TGGGACATGGCATTGGCA--GTACACG
* * * *
33316266 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-T-TGAGGGGTCCCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATATGAGAGGTCCCAC
* * * *
33316327 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
66 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCACATGTAAGACCATACCTG
* * *
33316392 GGATATGGCATTGGTAGTACATG
131 GGACATGGCATTGGCAGTACACG
* * *
33316415 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
33316458 GTTATTATCA
Statistics
Matches: 166, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
148 1 0.01
149 41 0.25
150 79 0.48
151 1 0.01
153 3 0.02
155 1 0.01
156 40 0.24
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (153 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATATGAGAGGTCCCAC
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCACATGTAAGACCATACCTG
GGACATGGCATTGGCAGTACACG
Found at i:33324957 original size:61 final size:61
Alignment explanation
Indices: 33324858--33325010 Score: 161
Period size: 61 Copynumber: 2.5 Consensus size: 61
33324848 AAACACCAAT
* * ** *
33324858 TAAAGGAA-ACCTTTGTGGCAAAAATCTAGACAGGAAAGCC-ATTGTGGGGAGTACTAAATT
1 TAAAGGAACGCCTTTGTGACAAAAATCTAGACACAAAAGCCTA-TGTGGGGAGTACTAAATC
* * * *
33324918 TAAAGG-ACTGCCTTTGTGACAAAAATTTGGACACAAAAGCCTATGTGGGGAGTTCTGAATC
1 TAAAGGAAC-GCCTTTGTGACAAAAATCTAGACACAAAAGCCTATGTGGGGAGTACTAAATC
*
33324979 TAAAGGAACGCCTTTGCGA-AAAAACTCTAGAC
1 TAAAGGAACGCCTTTGTGACAAAAA-TCTAGAC
33325011 GGGAAAACCT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
59 1 0.01
60 11 0.14
61 61 0.80
62 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (61 bp):
TAAAGGAACGCCTTTGTGACAAAAATCTAGACACAAAAGCCTATGTGGGGAGTACTAAATC
Found at i:33335629 original size:32 final size:30
Alignment explanation
Indices: 33335583--33335641 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
33335573 GTTTTGAGCT
*
33335583 TTCACAATCAAGTGACCTTTCAAGATGGAG
1 TTCACAATCAAGTGACCATTCAAGATGGAG
33335613 TTCACACATCAAAGTGACCATTCAAGATG
1 TTCACA-ATC-AAGTGACCATTCAAGATG
33335642 CTTATTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 6 0.23
31 3 0.12
32 17 0.65
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (30 bp):
TTCACAATCAAGTGACCATTCAAGATGGAG
Found at i:33338660 original size:115 final size:114
Alignment explanation
Indices: 33338076--33338915 Score: 970
Period size: 114 Copynumber: 7.4 Consensus size: 114
33338066 TTTTGAGCAT
* * * * * *
33338076 TCAGGGCTTTAGCGGCGTTTTTAAGAAAGTGCTGTAAAAAAACATAAGCCCAACGACGCTGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* * * * *
33338141 TTG-GCATTCGGGGATTTAGCGGCATTTTTGAGGAAA-CGCTGCTAATGC
66 CTGAGCTTTCGGGGATTTAGCGGCGTTTTT-AAGAAAGCGCCGCTAATGC
* * * *
33338189 TCAGGGCTTTAGCGGCATTTTTGAGAAAACGCCGC-AAAAAACCTGAGCCCAACGACACCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* * * * *
33338253 CTGAGCTTTGCGGGGATTTAGCGGCGTTTTGAAGAAGGCACCACTAATTC
66 CTGAGCTTT-CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* * *
33338303 TCAGGGCTTTATG-GGCGTTTTTGAGAAAGCTCCGC-AGAAAACCTAAGCCCAACGACGCTGTTT
1 TCAGGGCTTTA-GCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
* * * * *
33338366 TCTAAGCATTCGGGGATTTAGCGGCGTTTTTCAGGAAGCGTCGCTAATGC
65 TCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* *
33338416 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCATTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* * ** * * *
33338481 CTGAGCATTCAGGGATTTAGCGGCGTTTTCCAGGAAGCGTCGCTAATCC
66 CTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* * *
33338530 TCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* ** * *
33338595 CTGAGCTTTTCAGGGATTTAGTAGCATTTTTAAGAAAGCGCCGCTACTGC
66 CTGAGC-TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* * * *
33338645 TCAGGGCTTTAGCGGCGTTTTTGACAAAGCGTCGCAAAAAAACCTAAACCCAACGATGCCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* * * *
33338710 CTGAACTTTCAGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGC
66 CTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* * * * * *
33338759 TTAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGTAAAAAAACATAAGCCCAACGTCGCCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
* * * * * * *
33338824 TTTACCTTTCGGGGGCTTTAGCGGCGTTTTTAATACAGTGCCGCTAATGC
66 CTGAGCTTTC-GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
* * * *
33338874 TCTGGGATTTAGCTGCGTTTTTGGGAAAGCGCCGCAAAAAAA
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA
33338916 TTATTTGTCT
Statistics
Matches: 626, Mismatches: 93, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
112 28 0.04
113 101 0.16
114 330 0.53
115 167 0.27
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (114 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT
CTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGC
Found at i:33338688 original size:229 final size:227
Alignment explanation
Indices: 33338076--33338915 Score: 972
Period size: 229 Copynumber: 3.7 Consensus size: 227
33338066 TTTTGAGCAT
* * * * *
33338076 TCAGGGCTTTAGCGGCGTTTTTAAGAAAGTGCTGTAAAAAAACATAAGCCCAACGACGCTGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTT
* * *
33338141 TTG-GCATTCGGGGATTTAGCGGCATTTTTGAGGAAA-CGCTGCTAATGCTCAGGGCTTTAGCGG
66 CTGAGCATTCGGGGATTTAGCGGCATTTTT-AAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * * * *
33338204 CATTTTTGAGAAAACGCCGC-AAAAAACCTGAGCCCAACGACACCGTTTTCTGAGCTTTGCGGGG
130 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT-CAGGG
** * *
33338268 ATTTAGCGGCGTTTTGAA-GAAGGCACCACTAATTC
194 ATTTAGCGGCGTTTT-AAGGAA-GCGTCGCTAATCC
* * * *
33338303 TCAGGGCTTTATG-GGCGTTTTTGAGAAAGCTCCGC-AGAAAACCTAAGCCCAACGACGCTGTTT
1 TCAGGGCTTTA-GCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTT
* * * * *
33338366 TCTAAGCATTCGGGGATTTAGCGGCGTTTTTCAGGAAGCGTCGCTAATGCTCAGGGCTTTAGCGG
65 TCTGAGCATTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * *
33338431 CGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCAGGGA
130 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGA
*
33338496 TTTAGCGGCGTTTTCCAGGAAGCGTCGCTAATCC
195 TTTAGCGGCGTTTT-AAGGAAGCGTCGCTAATCC
* * * *
33338530 TCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTT
* * ** *
33338595 CTGAGCTTTTCAGGGATTTAGTAGCATTTTTAAGAAAGCGCCGCTACTGCTCAGGGCTTTAGCGG
66 CTGAGC-ATTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
* * * * *
33338660 CGTTTTTGACAAAGCGTCGCAAAAAAACCTAAACCCAACGATGCCGTTTTCTGAACTTTCAGGGA
130 CGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGA
* * *
33338725 TTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGC
195 TTTAGCGGC-GTTTTAAGGAAGCGTCGCTAATCC
* * * * *
33338759 TTAGGGATTTAGCGGCGTTTTTGATAAAGCGCCGTAAAAAAACATAAGCCCAACGTCGCCGTTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTT
* * * * * * * * * * * *
33338824 TTTACCTTTCGGGGGCTTTAGCGGCGTTTTTAATACAGTGCCGCTAATGCTCTGGGATTTAGCTG
66 CTGAGCATTC-GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGG
*
33338889 CGTTTTTGGGAAAGCGCCGCAAAAAAA
130 CGTTTTTGAGAAAGCGCCGCAAAAAAA
33338916 TTATTTGTCT
Statistics
Matches: 520, Mismatches: 83, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
226 32 0.06
227 154 0.30
228 73 0.14
229 257 0.49
230 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (227 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTT
CTGAGCATTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC
GTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGAT
TTAGCGGCGTTTTAAGGAAGCGTCGCTAATCC
Found at i:33343197 original size:87 final size:87
Alignment explanation
Indices: 33343048--33343207 Score: 223
Period size: 87 Copynumber: 1.8 Consensus size: 87
33343038 CCACAGTTGA
* * * * * *
33343048 GGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGTAGAGGCAGCAGGAAGGGAAGCAG
1 GGTTCAAAAGAAATATGAAAAACTCCAGCTACAACTTAAAGCAGAGGCAGCACGAAGAGAAGCAA
33343113 AGGCTGCAACGAGAGAAGCAGG
66 AGGCTGCAACGAGAGAAGCAGG
* *
33343135 GGTTCAAAAGAAATATGAAAAACTCCAGCTACAACTTAAAGCAGATGCGGCATCG-AGAGAAGCA
1 GGTTCAAAAGAAATATGAAAAACTCCAGCTACAACTTAAAGCAGAGGCAGCA-CGAAGAGAAGCA
*
33343199 AATGCTGCA
65 AAGGCTGCA
33343208 GCAAGGGAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 62 0.98
88 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.14
Consensus pattern (87 bp):
GGTTCAAAAGAAATATGAAAAACTCCAGCTACAACTTAAAGCAGAGGCAGCACGAAGAGAAGCAA
AGGCTGCAACGAGAGAAGCAGG
Found at i:33343646 original size:43 final size:43
Alignment explanation
Indices: 33343571--33343839 Score: 378
Period size: 43 Copynumber: 6.3 Consensus size: 43
33343561 ACCAAACAAA
*
33343571 TAGCGGCGTTTGTGTAAAAA-CGCCGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGACCTT
* ** * * * *
33343614 TAGTGGCGTTTACGGAAGAAGCACCACTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
* * *
33343657 TAGCGGCGTTTGTGGAAAAAGTGCCACTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
* * * *
33343700 TAGTGGCATTTGTGGAAAAAGCGCCGCTAAGGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
33343743 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
*
33343786 TAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
33343829 TAGCGGCGTTT
1 TAGCGGCGTTT
33343840 ATAAAAATAA
Statistics
Matches: 201, Mismatches: 24, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
43 196 0.98
44 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:33344198 original size:7 final size:7
Alignment explanation
Indices: 33344186--33344220 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
33344176 AGAATAAGAA
33344186 GAAGGGT
1 GAAGGGT
33344193 GAAGGGT
1 GAAGGGT
33344200 GAAGGGT
1 GAAGGGT
33344207 GAAGGGT
1 GAAGGGT
33344214 GAAGGGT
1 GAAGGGT
33344221 TTATTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.57, T:0.14
Consensus pattern (7 bp):
GAAGGGT
Found at i:33345447 original size:22 final size:22
Alignment explanation
Indices: 33345413--33345454 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33345403 GCAACATATG
*
33345413 GAATACGCCACAAAGGCTAACA
1 GAATACGCAACAAAGGCTAACA
*
33345435 GAATGCGCAACAAAGGCTAA
1 GAATACGCAACAAAGGCTAA
33345455 TACAGTACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.21, T:0.10
Consensus pattern (22 bp):
GAATACGCAACAAAGGCTAACA
Found at i:33347093 original size:25 final size:25
Alignment explanation
Indices: 33347030--33347095 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
33347020 AGCCCATTTC
*
33347030 ATAGCTTGTGTGAGCATTTACAATT
1 ATAGCTTGTGTGAGCAATTACAATT
* * *
33347055 ATAACTCGTGTGAGCAATTACAGTT
1 ATAGCTTGTGTGAGCAATTACAATT
*
33347080 ATAGCTTGTATGAGCA
1 ATAGCTTGTGTGAGCA
33347096 TTATTCTCGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (25 bp):
ATAGCTTGTGTGAGCAATTACAATT
Found at i:33347192 original size:29 final size:29
Alignment explanation
Indices: 33347156--33347226 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
33347146 ACGAATATAT
*
33347156 AAAATGATTATATGAATCTGTTATATGGA
1 AAAATGATTATATGAATCGGTTATATGGA
*
33347185 AAAATGATTATATGATTCGGTTATATGGA
1 AAAATGATTATATGAATCGGTTATATGGA
*
33347214 AAAATGAATATAT
1 AAAATGATTATAT
33347227 AAAATGAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.37
Consensus pattern (29 bp):
AAAATGATTATATGAATCGGTTATATGGA
Found at i:33347197 original size:16 final size:15
Alignment explanation
Indices: 33347156--33347348 Score: 52
Period size: 13 Copynumber: 13.9 Consensus size: 15
33347146 ACGAATATAT
33347156 AAAATGATTATAT-G
1 AAAATGATTATATGG
**
33347170 AATCTG-TTATATGG
1 AAAATGATTATATGG
33347184 AAAAATGATTATAT-G
1 -AAAATGATTATATGG
* *
33347199 --ATTCGGTTATATGG
1 AAAAT-GATTATATGG
*
33347213 AAAAATGAATATAT--
1 -AAAATGATTATATGG
*
33347227 AAAATGAATATAT-G
1 AAAATGATTATATGG
** *
33347241 -AACCGGTTATATGG
1 AAAATGATTATATGG
* *
33347255 AAAATAAATATAT--
1 AAAATGATTATATGG
33347268 AAAATGATTATAT-G
1 AAAATGATTATATGG
*
33347282 --AATCGGTTATATGG
1 AAAAT-GATTATATGG
*
33347296 -AAATAGA-TATACGG
1 AAAAT-GATTATATGG
33347310 --AATGATTATAT-G
1 AAAATGATTATATGG
33347322 --AATCGATTATATGG
1 AAAAT-GATTATATGG
*
33347336 AAATTG-TTATATG
1 AAAATGATTATATG
33347349 AATTGTGTAT
Statistics
Matches: 133, Mismatches: 26, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
12 11 0.08
13 67 0.50
14 22 0.17
15 17 0.13
16 14 0.11
17 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (15 bp):
AAAATGATTATATGG
Found at i:33347277 original size:83 final size:81
Alignment explanation
Indices: 33347185--33347338 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
33347175 GTTATATGGA
* * *
33347185 AAAATGATTATATGATTCGGTTATATGGAAAAATGAATATATAAAATGAATATATGAACCGGTTA
1 AAAATGATTATATGAATCGGTTATATGGAAAAA-G-ATATACAAAATGAATATATGAACCGATTA
33347250 TATGGAAAATAAATATAT
64 TATGGAAAATAAATATAT
* ** * *
33347268 AAAATGATTATATGAATCGGTTATATGGAAATAGATATACGGAATGATTATATGAATCGATTATA
1 AAAATGATTATATGAATCGGTTATATGGAAAAAGATATACAAAATGAATATATGAACCGATTATA
33347333 TGGAAA
66 TGGAAA
33347339 TTGTTATATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 31 0.49
82 1 0.02
83 31 0.49
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (81 bp):
AAAATGATTATATGAATCGGTTATATGGAAAAAGATATACAAAATGAATATATGAACCGATTATA
TGGAAAATAAATATAT
Found at i:33347314 original size:40 final size:40
Alignment explanation
Indices: 33347185--33347339 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 40
33347175 GTTATATGGA
* *
33347185 AAAATGATTATATGATTCGGTTATATGGAAAAATGAATATAT
1 AAAATGATTATATGAATCGGTTATATGGAAATA-G-ATATAT
* * *
33347227 AAAATGAATATATGAACCGGTTATATGGAAAATAAATATAT
1 AAAATGATTATATGAATCGGTTATATGG-AAATAGATATAT
*
33347268 AAAATGATTATATGAATCGGTTATATGGAAATAGATATAC
1 AAAATGATTATATGAATCGGTTATATGGAAATAGATATAT
** *
33347308 GGAATGATTATATGAATCGATTATATGGAAAT
1 AAAATGATTATATGAATCGGTTATATGGAAAT
33347340 TGTTATATGA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
40 39 0.39
41 32 0.32
42 25 0.25
43 4 0.04
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (40 bp):
AAAATGATTATATGAATCGGTTATATGGAAATAGATATAT
Found at i:33347329 original size:13 final size:13
Alignment explanation
Indices: 33347273--33347334 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
33347263 TATATAAAAT
33347273 GATTATATGAATC
1 GATTATATGAATC
* *
33347286 GGTTATATGGAAATA
1 GATTATAT-G-AATC
*
33347301 GA-TATACGGAAT-
1 GATTATA-TGAATC
33347313 GATTATATGAATC
1 GATTATATGAATC
33347326 GATTATATG
1 GATTATATG
33347335 GAAATTGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.15
13 23 0.59
14 6 0.15
15 4 0.10
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (13 bp):
GATTATATGAATC
Found at i:33352012 original size:28 final size:27
Alignment explanation
Indices: 33351961--33352013 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
33351951 GTTTATTGAT
**
33351961 TTTAGTCATTTGTTATTTTCTTTCTTG
1 TTTAGTCATTTGTTATTTAATTTCTTG
*
33351988 TTTATTCATTTAGTTATTTAATTTCT
1 TTTAGTCATTT-GTTATTTAATTTCT
33352014 CTTAATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.17, C:0.09, G:0.08, T:0.66
Consensus pattern (27 bp):
TTTAGTCATTTGTTATTTAATTTCTTG
Found at i:33361238 original size:3 final size:3
Alignment explanation
Indices: 33361230--33361254 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33361220 AATGACCATT
33361230 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
33361255 TTAATAGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Done.