Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 158 of 295
Found at i:53745519 original size:47 final size:47
Alignment explanation
Indices: 53745449--53745906 Score: 717
Period size: 47 Copynumber: 9.7 Consensus size: 47
53745439 CCCTTCGGGA
* ** * * *
53745449 CTTATCACAT-TATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53745495 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53745542 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53745589 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53745636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53745683 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53745729 CTTATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53745776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53745823 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
53745872 TTTTAT-TCATATATGCA-TGTTCACATCCATCACAT
1 -CTTATCACATATATACACT-TTCACATTCATCACAT
53745907 AATAACCTAA
Statistics
Matches: 389, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
46 55 0.14
47 290 0.75
49 40 0.10
50 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53745526 original size:25 final size:25
Alignment explanation
Indices: 53745498--53745623 Score: 66
Period size: 25 Copynumber: 5.3 Consensus size: 25
53745488 ACTCGGCCCT
53745498 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** *** *
53745523 ATCACAT-CGGCCA-TTGGGCCTT-
1 ATCACATATATACACTTTCACATTC
53745545 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** *** *
53745570 ATCACAT-CGGCCA-TTGGGCCTT-
1 ATCACATATATACACTTTCACATTC
53745592 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
53745617 ATCACAT
1 ATCACAT
53745624 CGGCTATTAG
Statistics
Matches: 63, Mismatches: 32, Indels: 12
0.59 0.30 0.11
Matches are distributed among these distances:
22 14 0.22
23 14 0.22
24 14 0.22
25 21 0.33
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:53745950 original size:234 final size:230
Alignment explanation
Indices: 53745459--53745927 Score: 651
Period size: 234 Copynumber: 2.0 Consensus size: 230
53745449 CTTATCACAT
* ** * *
53745459 TATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCA-TAGGCCCTATCACATATATACACTTTCACATTCA
* *
53745524 TCACATCGGCCATTGGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
65 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53745589 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
130 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * * *
53745654 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
195 TTTCACATCCATCACAT----CAATAGACCTAATCACAAA
*
53745694 TATACACTTTCACATTCATCACATCGGCCATAGGCCTTATCACATATATACACTTTCACATTCAT
1 TATACACTTTCACATTCATCACATCGGCCATAGGCCCTATCACATATATACACTTTCACATTCAT
*
53745759 TACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
66 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
53745824 TTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCTTTTAT-TCATATATGC
131 TTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC-CTTATCACATATATAC
53745888 A-TGTTCACATCCATCACAT-AATA-ACCTAAATCA-AAA
193 ACT-TTCACATCCATCACATCAATAGACCT-AATCACAAA
53745924 TATA
1 TATA
53745928 GATTTTCATG
Statistics
Matches: 211, Mismatches: 18, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
230 9 0.04
231 7 0.03
234 103 0.49
235 27 0.13
236 61 0.29
237 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (230 bp):
TATACACTTTCACATTCATCACATCGGCCATAGGCCCTATCACATATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATCCATCACATCAATAGACCTAATCACAAA
Found at i:53749064 original size:21 final size:22
Alignment explanation
Indices: 53749021--53749065 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
53749011 AAGGAATTCG
53749021 CACACACACAGTGCCTCTAATT
1 CACACACACAGTGCCTCTAATT
* *
53749043 CACACACATAGTG-CTCTTATT
1 CACACACACAGTGCCTCTAATT
53749064 CA
1 CA
53749066 TTCGTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (22 bp):
CACACACACAGTGCCTCTAATT
Found at i:53749363 original size:40 final size:39
Alignment explanation
Indices: 53749262--53749421 Score: 170
Period size: 38 Copynumber: 4.1 Consensus size: 39
53749252 GGGAGCTAGC
* * **
53749262 CCGGATATAACACCAGCACGAATGCTCTTCGGGTTTAG-
1 CCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGT
53749300 CAC-GATATATCACTAGCACGAATGCTCTTCGGAACTTAGT
1 C-CGGATATATCACTAGCACGAATGCTCTTCGG-ACTTAGT
*
53749340 CCGGATACATCACTAGCACGAATGCTCTTC-GACTTAGT
1 CCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGT
* *
53749378 CCGGATATGGTCACTTAGCAC-AA-GC-CTTCGGGACTTAGC
1 CCGGATAT-ATCAC-TAGCACGAATGCTCTTC-GGACTTAGT
53749417 CCGGA
1 CCGGA
53749422 CATCATTCAA
Statistics
Matches: 106, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
37 4 0.04
38 44 0.42
39 25 0.24
40 33 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGT
Found at i:53749790 original size:28 final size:29
Alignment explanation
Indices: 53749725--53749802 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
53749715 CTTAATAATC
*
53749725 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
53749755 AACTCGCACACTTA-TGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
53749783 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53749803 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.07
28 21 0.50
29 15 0.36
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:53749843 original size:42 final size:42
Alignment explanation
Indices: 53749784--53749884 Score: 186
Period size: 42 Copynumber: 2.4 Consensus size: 42
53749774 TGCATTTCAA
53749784 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTT-TT
1 GCCCGCACACTTAGTGCCAATCT-ACAACCGTGAACACTTATT
53749826 GCCCGCACACTTAGTGCCAATCTACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTACAACCGTGAACACTTATT
53749868 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
53749885 TGAAACCAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
41 16 0.28
42 42 0.72
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.23
Consensus pattern (42 bp):
GCCCGCACACTTAGTGCCAATCTACAACCGTGAACACTTATT
Found at i:53751844 original size:62 final size:67
Alignment explanation
Indices: 53751746--53751875 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 67
53751736 TACGAAGTCT
* *
53751746 TACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTA-CCGGAC-AAAT-CCACAC-TAGTCA
1 TACCCGGACATAATCCCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCCCACACGTAGTCA
53751807 TC
66 TC
*
53751809 TACCCGGACA-AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCCCCACACGTAGTC
1 TACCCGGACATAATCCCCACACGAAGTCATCGGGTCTTACCCGGACAAAAT-CCCACACGTAGTC
53751873 ATC
65 ATC
53751876 GGGTCTTTAG
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
62 25 0.42
63 16 0.27
64 4 0.07
66 6 0.10
67 8 0.14
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.20
Consensus pattern (67 bp):
TACCCGGACATAATCCCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCCCACACGTAGTCA
TC
Found at i:53751856 original size:36 final size:37
Alignment explanation
Indices: 53751809--53751882 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
53751799 ACTAGTCATC
53751809 TACCCGGAC-AAATCCCCACACGTAGTCATCGGGTCT
1 TACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
53751845 TACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
1 TACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
53751882 T
1 T
53751883 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 9 0.24
37 28 0.76
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.20
Consensus pattern (37 bp):
TACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
Found at i:53752154 original size:47 final size:47
Alignment explanation
Indices: 53752044--53752450 Score: 698
Period size: 47 Copynumber: 8.7 Consensus size: 47
53752034 GCCACTCGGC
53752044 TATCACATATATACACTTTCACATTCATCACATCGGCCATT-GGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
53752090 TATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
53752137 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
53752184 TATCACATATAT--A-TTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
53752228 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
53752275 TATCACATATATACACTTTCACATTCATTACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
53752322 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
53752369 TATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* * *
53752418 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATTCATCACAT
53752451 AGAATCCTAA
Statistics
Matches: 346, Mismatches: 8, Indels: 13
0.94 0.02 0.04
Matches are distributed among these distances:
44 42 0.12
45 1 0.00
46 43 0.12
47 214 0.62
49 46 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:53752191 original size:22 final size:22
Alignment explanation
Indices: 53752163--53752235 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
53752153 TTTCACATTC
53752163 ATCACATCGGCTATTAGGCCTT
1 ATCACATCGGCTATTAGGCCTT
*** *** *
53752185 ATCACAT-ATATATTTCACATT
1 ATCACATCGGCTATTAGGCCTT
*
53752206 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCTATTAGGCCTT
53752229 ATCACAT
1 ATCACAT
53752236 ATATACACTT
Statistics
Matches: 34, Mismatches: 15, Indels: 4
0.64 0.28 0.08
Matches are distributed among these distances:
21 7 0.21
22 21 0.62
23 6 0.18
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATCGGCTATTAGGCCTT
Found at i:53752247 original size:138 final size:140
Alignment explanation
Indices: 53752044--53752450 Score: 687
Period size: 138 Copynumber: 2.9 Consensus size: 140
53752034 GCCACTCGGC
53752044 TATCACATATATACACTTTCACATTCATCACATCGGCCATT-GGCCTTATCACATATATACACTT
1 TATCACATATATA-ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
*
53752108 TCACATTCATCACATCGGCCATTGGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
65 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
53752173 CTATTAGGCCT
130 CCATTAGGCCT
53752184 TATCACATATAT-A-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
1 TATCACATATATAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
53752247 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATTACATCGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
53752312 CATTAGGCCT
131 CATTAGGCCT
53752322 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACAC
1 TATCACATATATA-ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TATATACAC
* * *
53752387 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
63 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
53752451 AGAATCCTAA
Statistics
Matches: 253, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
137 25 0.10
138 109 0.43
140 13 0.05
141 38 0.15
142 1 0.00
143 67 0.26
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (140 bp):
TATCACATATATAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCT
Found at i:53752355 original size:185 final size:187
Alignment explanation
Indices: 53752044--53752450 Score: 696
Period size: 185 Copynumber: 2.2 Consensus size: 187
53752034 GCCACTCGGC
53752044 TATCACATATATACACTTTCACATTCATCACATCGGCCATTGGCCTTATCACATATATACACTTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTGGCCTTATCACATATATACACTTT
*
53752109 CACATTCATCACATCGGCCATTGGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
53752174 TATTAGGCCTTATCACA-TATAT-A-TTTCACATTCATCACATCGGCCATTAGGCCT
131 CATTAGGCCTTATCACAGTATATAACTTTCACATTCATCACATCGGCCATTAGGCCT
53752228 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATT-GGCCTTATCACATATATACACTT
*
53752293 TCACATTCATTACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
65 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
53752358 CCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
130 CCATTAGGCCTTATCACA-GTATATA-ACTTTCACATTCATCACATCGGCCATTAGGCCT
* * *
53752418 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATTCATCACAT
53752451 AGAATCCTAA
Statistics
Matches: 210, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
184 41 0.20
185 103 0.49
187 5 0.02
189 2 0.01
190 59 0.28
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (187 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTGGCCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTTATCACAGTATATAACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:53763579 original size:47 final size:47
Alignment explanation
Indices: 53763344--53763759 Score: 663
Period size: 47 Copynumber: 8.7 Consensus size: 47
53763334 TTAGGATTCT
*
53763344 ATGTGATGGATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
53763393 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
53763442 ATGTGAT-AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53763488 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
53763537 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
53763584 ATGTGATAAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53763631 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
53763678 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
53763725 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53763760 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 33 0.10
47 201 0.58
48 12 0.03
49 101 0.29
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:53763933 original size:36 final size:37
Alignment explanation
Indices: 53763878--53763955 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
53763868 CCGAGCTCTA
* *
53763878 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53763914 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53763951 AAGAC
1 AAGAC
53763956 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53769101 original size:46 final size:46
Alignment explanation
Indices: 53769051--53769220 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
53769041 TGGTTGAGCA
53769051 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
53769097 TCCGAACTCGTTGAGTTGAGTCC-AGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
53769141 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53769187 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53769221 GGGGCGGTTA
Statistics
Matches: 104, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 35 0.34
45 5 0.05
46 46 0.44
47 5 0.05
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53776132 original size:46 final size:46
Alignment explanation
Indices: 53776082--53776254 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
53776072 TGGTTGAGCA
53776082 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
53776128 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
53776173 CATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53776221 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53776255 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53776238 original size:93 final size:93
Alignment explanation
Indices: 53776079--53776249 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53776069 GGATGGTTGA
* * *
53776079 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53776144 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
53776172 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53776237 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53776250 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:53782723 original size:17 final size:18
Alignment explanation
Indices: 53782701--53782742 Score: 77
Period size: 17 Copynumber: 2.4 Consensus size: 18
53782691 TACGAGGATT
53782701 TTAAAAATATGAAGAGC-
1 TTAAAAATATGAAGAGCA
53782718 TTAAAAATATGAAGAGCA
1 TTAAAAATATGAAGAGCA
53782736 TTAAAAA
1 TTAAAAA
53782743 CGGGGCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (18 bp):
TTAAAAATATGAAGAGCA
Found at i:53784147 original size:25 final size:24
Alignment explanation
Indices: 53784101--53784147 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
53784091 TGATGAAAAC
* *
53784101 ATTAAATATGAATCATATAAATCA
1 ATTAAATATGAATCAAACAAATCA
*
53784125 ATTAAATTTTGAATCAAACAAAT
1 ATTAAA-TATGAATCAAACAAAT
53784148 AATGCAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (24 bp):
ATTAAATATGAATCAAACAAATCA
Found at i:53786992 original size:24 final size:24
Alignment explanation
Indices: 53786965--53787024 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
53786955 ACTAATTTTA
* *
53786965 TTTATTTTATTTTTCTT-TTTTCTT
1 TTTATTTT-TTTTACTTATTTTATT
53786989 TTTAATTTTTTTTACTTATTTTATT
1 TTT-ATTTTTTTTACTTATTTTATT
53787014 TTTATTTTTTT
1 TTTATTTTTTT
53787025 AGACTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTATTTTTTTTACTTATTTTATT
Found at i:53787015 original size:14 final size:14
Alignment explanation
Indices: 53786959--53787015 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 14
53786949 AAGATCACTA
*
53786959 ATTTTATTTATTTT
1 ATTTTACTTATTTT
*
53786973 ATTTTTCTT-TTTT
1 ATTTTACTTATTTT
* *
53786986 CTTTT--TAATTTT
1 ATTTTACTTATTTT
53786998 -TTTTACTTATTTT
1 ATTTTACTTATTTT
53787011 ATTTT
1 ATTTT
53787016 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
11 5 0.15
12 4 0.12
13 14 0.41
14 11 0.32
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTACTTATTTT
Found at i:53787030 original size:25 final size:23
Alignment explanation
Indices: 53786965--53787049 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 23
53786955 ACTAATTTTA
** *
53786965 TTTATTTTATTTTTCTTTTTTCTT
1 TTTATTTT-TTTGACTTTTTTATT
*
53786989 TTTAATTTTTTTTACTTATTTTATT
1 TTT-ATTTTTTTGACTT-TTTTATT
53787014 TTTATTTTTTTAGACTTTTTTCATT
1 TTTATTTTTTT-GACTTTTTT-ATT
*
53787039 TATTATCTTTT
1 T-TTATTTTTT
53787050 GAACTATGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
24 22 0.42
25 22 0.42
26 8 0.15
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTATTTTTTTGACTTTTTTATT
Found at i:53791865 original size:19 final size:18
Alignment explanation
Indices: 53791833--53791884 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
53791823 ATCCGACGAA
*
53791833 GCCC-AATAAGTGATAAT
1 GCCCGAATAAATGATAAT
*
53791850 GCCTGAAATAAATGATAAT
1 GCCCG-AATAAATGATAAT
53791869 GCCCG-ATAAATGATAA
1 GCCCGAATAAATGATAA
53791885 ATGATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 14 0.47
19 16 0.53
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (18 bp):
GCCCGAATAAATGATAAT
Found at i:53798565 original size:32 final size:32
Alignment explanation
Indices: 53798515--53798579 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
53798505 ATCCGAAACC
* * *
53798515 TTTTGCTTTCTTCGATCTAGTTCCGTAGTTGG
1 TTTTACTTTCCTCAATCTAGTTCCGTAGTTGG
53798547 TTTTACTTTCCTCAATCTAGTTCCGTAGTTGG
1 TTTTACTTTCCTCAATCTAGTTCCGTAGTTGG
53798579 T
1 T
53798580 CTTTTCAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.49
Consensus pattern (32 bp):
TTTTACTTTCCTCAATCTAGTTCCGTAGTTGG
Found at i:53803143 original size:23 final size:23
Alignment explanation
Indices: 53803040--53803154 Score: 90
Period size: 23 Copynumber: 5.0 Consensus size: 23
53803030 TACCGATATA
* *
53803040 TCAGCCCAAAAGAGCTTACTGTTT
1 TCAGCTCAATAGAGCTTACTG-TT
* * * *
53803064 TTAGCTCATTGGAGCTTACCGTT
1 TCAGCTCAATAGAGCTTACTGTT
* * *
53803087 TTAGCTCGTATA-AACTTACTG-T
1 TCAGCTC-AATAGAGCTTACTGTT
**
53803109 TCAGCTTGATAGAGCTTACTGTT
1 TCAGCTCAATAGAGCTTACTGTT
*
53803132 TCAGCTCAATAGAGCTTATTGTT
1 TCAGCTCAATAGAGCTTACTGTT
53803155 CATCAACTTA
Statistics
Matches: 70, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
21 3 0.04
22 14 0.20
23 37 0.53
24 16 0.23
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (23 bp):
TCAGCTCAATAGAGCTTACTGTT
Found at i:53803750 original size:36 final size:36
Alignment explanation
Indices: 53803703--53803787 Score: 170
Period size: 36 Copynumber: 2.4 Consensus size: 36
53803693 ATATTAAGAC
53803703 TTTGGCTTATTTTTGTGTATAAGTTAAGCCATGTGA
1 TTTGGCTTATTTTTGTGTATAAGTTAAGCCATGTGA
53803739 TTTGGCTTATTTTTGTGTATAAGTTAAGCCATGTGA
1 TTTGGCTTATTTTTGTGTATAAGTTAAGCCATGTGA
53803775 TTTGGCTTATTTT
1 TTTGGCTTATTTT
53803788 GATGTTATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.20, C:0.08, G:0.21, T:0.51
Consensus pattern (36 bp):
TTTGGCTTATTTTTGTGTATAAGTTAAGCCATGTGA
Found at i:53806529 original size:40 final size:40
Alignment explanation
Indices: 53806286--53806517 Score: 387
Period size: 40 Copynumber: 5.8 Consensus size: 40
53806276 CGGATGATAA
* *
53806286 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
53806326 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
53806366 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
53806406 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
**
53806446 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
53806486 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53806518 GGCTATATCC
Statistics
Matches: 184, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 182 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:53814444 original size:40 final size:40
Alignment explanation
Indices: 53814389--53814605 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
53814379 CGGATGATAA
* *
53814389 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53814429 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
53814469 CCGGGCTAAGTCCCGAAGGCATTTGGGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
53814509 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
53814549 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53814589 CC-GGTTAAG-CCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53814606 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 8 0.05
39 6 0.04
40 147 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53822821 original size:46 final size:46
Alignment explanation
Indices: 53822771--53822940 Score: 229
Period size: 46 Copynumber: 3.7 Consensus size: 46
53822761 TGGTTGAGCA
*
53822771 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * *
53822817 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-AC-TAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAACG
53822861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
53822907 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53822941 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
44 35 0.33
45 4 0.04
46 67 0.63
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:53822841 original size:20 final size:20
Alignment explanation
Indices: 53822816--53822885 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
53822806 GGATGCGAAT
53822816 GTCCGAACTCGTTGAGTTGA
1 GTCCGAACTCGTTGAGTTGA
**
53822836 GTCCGAGTTCG-TGAATGTAACT-A
1 GTCCGAACTCGTTG-A-GT---TGA
53822859 GGTCCGAACTCGTTGAGTTGA
1 -GTCCGAACTCGTTGAGTTGA
53822880 GTCCGA
1 GTCCGA
53822886 GTTCACTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 17 0.45
21 3 0.08
23 3 0.08
24 11 0.29
25 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (20 bp):
GTCCGAACTCGTTGAGTTGA
Found at i:53822924 original size:90 final size:90
Alignment explanation
Indices: 53822771--53822935 Score: 303
Period size: 90 Copynumber: 1.8 Consensus size: 90
53822761 TGGTTGAGCA
* *
53822771 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
53822836 GTCCGAGTTCGTGAATGTAACTAGG
66 GTCCGAGTTCGTGAATGTAACTAGG
*
53822861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
53822926 GTCCGAGTTC
66 GTCCGAGTTC
53822936 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (90 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAATGTAACTAGG
Found at i:53828503 original size:39 final size:39
Alignment explanation
Indices: 53828406--53828615 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
53828396 TCTTCGGAAT
* * *
53828406 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* * * *
53828445 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
*
53828484 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
53828524 TTAG-CCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
53828563 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
53828603 TTAGCCCGGATAT
1 TTAGCCCGGATAT
53828616 CATTCAAATG
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 72 0.47
40 80 0.53
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:53828566 original size:79 final size:79
Alignment explanation
Indices: 53828397--53828614 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 79
53828387 ACCCAAGTTT
* * * * * * * *
53828397 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGG-ACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTT-AGCCGGATAAAAG
*
53828460 CAACTCGCACAAATGC
64 CAACTAGCACAAATGC
* * * *
53828476 CTTCGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCGGATAAAATC
1 CTTCGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCGGATAAAAGC
*
53828540 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
53828554 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTC-GGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATA
53828615 TCATTCAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
78 28 0.25
79 75 0.66
80 11 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCGGATAAAAGCA
ACTAGCACAAATGC
Found at i:53846269 original size:130 final size:130
Alignment explanation
Indices: 53846009--53846401 Score: 563
Period size: 129 Copynumber: 3.0 Consensus size: 130
53845999 TTACCTTCAT
* * * * * * * *
53846009 TTTAAAGGATTATTAGAAGACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAACAAATG
1 TTTAAGGGATT-TTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAACG
* * ** * ** * *
53846074 GGAAATTGCAACCCAATACGTTAGGGCACGATTCCACGAATTGCCAAATATCGCATATCGCCTTC
65 CGAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCAAACATCAAATCTCGTCTTC
53846139 G
130 G
* *
53846140 TTTAAGGGATTTTAAAAGGCATGAGTGAAATTTTGAAGTGATATTCAATTATTTTGAGCAAACGC
1 TTTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAACGC
* * *
53846205 GAAATTGCAACCTAACACGTTAGGGCATGATACTGCGAATTGCCAAACATCAAATCTCGTCTTCG
66 GAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCAAACATCAAATCTCGTCTTCG
53846270 -TTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAACGC
1 TTTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAACGC
*
53846334 GAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCAAACATCAAATCTCATCTTCG
66 GAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCAAACATCAAATCTCGTCTTCG
53846399 TTT
1 TTT
53846402 TGAAGAGTTT
Statistics
Matches: 233, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
129 123 0.53
130 100 0.43
131 10 0.04
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (130 bp):
TTTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAACGC
GAAATTGCAACCCAACACGTTAGGGCACGATTCTGCGAATTGCCAAACATCAAATCTCGTCTTCG
Found at i:53849302 original size:132 final size:132
Alignment explanation
Indices: 53848979--53850157 Score: 1856
Period size: 132 Copynumber: 8.9 Consensus size: 132
53848969 GCGATCTTCG
* *
53848979 GCCTACTCCACTACAACTTTGGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTTAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
** * * * * * **
53849044 GAAGCCAAGATTCATCGTCTTCGATCTGCTTCACTACAACTTCATGGAGACAAAATCTACTATCT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAAT-T
*
53849109 TCA
130 TTA
* * *
53849112 GCCTACTCCACTACAACTTTAGGAAGCTAGGTTGGTGGCTTAAATCTGCTTCATTGCAACTTCTG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * * * * * *
53849177 GAAGCCAAGATTTGTCGTCTTCGATTTGCTCCACTGCAACTTCAGCGAAACGAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
53849242 TA
131 TA
* *
53849244 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTAGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* *
53849309 GAAGCCAAGATTCGCC-TCTTTGATCTGCTTCACTGCAATTTCAAGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
*
53849373 CA
131 TA
*
53849375 GCCTACTTCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * * * *
53849440 GAAGCCAAAATTCACCATCTTCGATCTGTTTCACTGCGATTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
53849505 TA
131 TA
*
53849507 GCGTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * * * * *
53849572 GAAGCCTAGATTCACCGTCTTTGATCTGCTCCACTGCAACTTCAGGGAAACGAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
*
53849637 GA
131 TA
* *
53849639 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCTG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* *
53849704 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGTAATTTTAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
53849769 TA
131 TA
*
53849771 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCATTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
53849836 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCATTGCAATTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
*
53849901 AA
131 TA
*
53849903 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTAGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
53849968 GAAGCCAAGATTCGCCGTCTTCAATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
*
53850033 GA
131 TA
53850035 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * *
53850100 GAAGCCAAGATTCGCCGTCTTCAATCTGCCTCACTGCAACTTCAGGGAAACAAGATCT
66 GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCT
53850158 GTAGGATTTG
Statistics
Matches: 963, Mismatches: 82, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
131 118 0.12
132 734 0.76
133 111 0.12
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
GAAGCCAAGATTCGCCGTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
TA
Found at i:53849964 original size:43 final size:43
Alignment explanation
Indices: 53849647--53850147 Score: 125
Period size: 45 Copynumber: 11.4 Consensus size: 43
53849637 GAGCCTACTC
* * *
53849647 CACTACAACTTTAGGGAGCTAGGA-TGGTGGCTTAAATCTGCTT
1 CACTGCAACTTTAGGGAGC-AAGATTGGTAGCTTAAATCTGCTT
* * ** **
53849690 CACTGCAACTTCT-GGAAGCCAAGATTCGCCGTCTTCGATCTGCTT
1 CACTGCAACTT-TAGGGAG-CAAGATTGGTAG-CTTAAATCTGCTT
* * * ** ** * ** * *
53849735 CACTGTAATTTTAGGGAAACAAGATCT-AAAATTTTAGCCTACTC
1 CACTGCAACTTTAGGG-AGCAAGAT-TGGTAGCTTAAATCTGCTT
* * * *
53849779 CACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTT
1 CACTGCAACTTTAGGGAGCAAGATTGGTAGCTTAAATCTGCTT
* * * * ** **
53849822 CATTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCGATCTGCTT
1 CACTGCAACTTTAGGGAG-CAAGATTGGTAG-CTTAAATCTGCTT
* * ** ** ** * *
53849867 CATTGCAA-TTTCAGGGAAACAAGATCT-AAAATTTAAGCCTACTC
1 CACTGCAACTTT-AGGG-AGCAAGAT-TGGTAGCTTAAATCTGCTT
* * *
53849911 CACTACAACTTTAGGGAGCTAGGTTGGTAGCTTAAATCTGCTT
1 CACTGCAACTTTAGGGAGCAAGATTGGTAGCTTAAATCTGCTT
* * * ** *
53849954 CACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCAATCTGCTT
1 CACTGCAACTTTAGGGAG-CAAGATTGGTAG-CTTAAATCTGCTT
* ** ** * ** * *
53849999 CACTGCAA-TTTCAGGGAAACAAGATCT-AAAATTTGAGCCTACTC
1 CACTGCAACTTT-AGGG-AGCAAGAT-TGGTAGCTTAAATCTGCTT
* * * *
53850043 CACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTT
1 CACTGCAACTTTAGGGAGCAAGATTGGTAGCTTAAATCTGCTT
* * * ** * *
53850086 CACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTCAATCTGCCT
1 CACTGCAACTTTAGGGAG-CAAGATTGGTAG-CTTAAATCTGCTT
*
53850131 CACTGCAACTTCAGGGA
1 CACTGCAACTTTAGGGA
53850148 AACAAGATCT
Statistics
Matches: 310, Mismatches: 124, Indels: 46
0.65 0.26 0.10
Matches are distributed among these distances:
42 3 0.01
43 99 0.32
44 84 0.27
45 118 0.38
46 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTTAGGGAGCAAGATTGGTAGCTTAAATCTGCTT
Found at i:53849995 original size:45 final size:45
Alignment explanation
Indices: 53849813--53850145 Score: 166
Period size: 45 Copynumber: 7.5 Consensus size: 45
53849803 TGGTGGCTTA
* *
53849813 AATCTGCTTCATTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCAGTCTTC
* * * * ** *
53849858 GATCTGCTTCATTGCAATTTCAGGGAA-ACAAGA-TCTAAAAT-TT-
1 AATCTGCTTCACTGCAACTTCA-GGAAGCCAAGATTC-GCAGTCTTC
* * * * * * * * * * *
53849901 AAGCCTACTCCACTACAACTTTAGGGAG-CTAGGTTGGTAG-CTTA
1 AA-TCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCAGTCTTC
*
53849945 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCAGTCTTC
* * ** * *
53849990 AATCTGCTTCACTGCAATTTCAGGGAA-ACAAGA-TCTAAAAT-TTG
1 AATCTGCTTCACTGCAACTTCA-GGAAGCCAAGATTC-GCAGTCTTC
** * * * * * * * ** * *
53850034 AGCCTACTCCACTACAACTTTAGGGAG-CTAGGTT-GGTGGCTTA
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCAGTCTTC
*
53850077 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCAGTCTTC
*
53850122 AATCTGCCTCACTGCAACTTCAGG
1 AATCTGCTTCACTGCAACTTCAGG
53850146 GAAACAAGAT
Statistics
Matches: 201, Mismatches: 71, Indels: 32
0.66 0.23 0.11
Matches are distributed among these distances:
43 57 0.28
44 52 0.26
45 84 0.42
46 8 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
AATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGCAGTCTTC
Found at i:53853306 original size:27 final size:27
Alignment explanation
Indices: 53853098--53853303 Score: 322
Period size: 27 Copynumber: 7.6 Consensus size: 27
53853088 TTAGTTTACC
* *
53853098 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
53853125 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
53853152 AAATCACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
53853179 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
53853206 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
53853233 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
53853260 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
53853287 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
53853304 CTGTAGGGTA
Statistics
Matches: 163, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:53853318 original size:27 final size:27
Alignment explanation
Indices: 53853261--53854096 Score: 929
Period size: 27 Copynumber: 31.3 Consensus size: 27
53853251 TTGTTTATAA
* ** *
53853261 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
53853288 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853315 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853342 AATTACTGAAATACCCCTGTA--G--G
1 AATTACCGAAATACCCCTGTAGGGTAG
53853365 -A-TA--G-AATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
53853387 AATTACCGAAATACCCCTGTA----AG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853410 --GTA--G-AATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
53853432 AATTACAGAAATACCCTTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
53853459 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853486 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
53853513 AATTACCGAAATACCCTTGTAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853540 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853567 AATTATCGAAATACCCCTGTAGGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853594 AGTTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
53853621 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853648 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853675 AATAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
1 AAT----T---A--CCG-AAATACCCCTGTAGGGTAG
* *
53853712 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853739 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
53853766 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
53853793 AATTACCGAAATACCCCTATAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853820 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53853847 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853874 AGTTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
53853901 AATTACTAAAATACCCCTATATGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
53853928 AATTATCTATATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53853955 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
53853982 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
53854009 AATTACCAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53854036 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
53854063 AATTACC-AAGATACCCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
53854090 AATTACC
1 AATTACC
53854097 ATTTTGCCCC
Statistics
Matches: 687, Mismatches: 92, Indels: 60
0.82 0.11 0.07
Matches are distributed among these distances:
18 24 0.03
19 2 0.00
20 1 0.00
21 4 0.01
22 4 0.01
23 4 0.01
24 4 0.01
25 1 0.00
26 6 0.01
27 612 0.89
30 1 0.00
31 1 0.00
33 1 0.00
34 1 0.00
36 1 0.00
37 20 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:53853374 original size:18 final size:18
Alignment explanation
Indices: 53853351--53853389 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53853341 GAATTACTGA
53853351 AATACCCCTGTAGGATAG
1 AATACCCCTGTAGGATAG
*
53853369 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGATAG
53853387 AAT
1 AAT
53853390 TACCGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (18 bp):
AATACCCCTGTAGGATAG
Found at i:53853388 original size:45 final size:45
Alignment explanation
Indices: 53853324--53853515 Score: 235
Period size: 45 Copynumber: 4.1 Consensus size: 45
53853314 GAATTATCGA
53853324 AATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGATAG
1 AATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGATAG
*
53853369 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGG-TAG
1 AATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT-AGGATAG
* *
53853414 AATACCCCTGTAGGGTAGAATTACAGAAATACCCTTCTAGGGTAGAATTACCG
1 AATACCCCTGTAGGGTAGAATTACTGAAATACCC--CT---GTAGGA-TA--G
*
53853467 AAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAG
1 -AATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGATAG
53853513 AAT
1 AAT
53853516 TACCGAAATA
Statistics
Matches: 129, Mismatches: 6, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
45 76 0.59
46 4 0.03
47 2 0.02
48 2 0.02
49 6 0.05
50 2 0.02
51 2 0.02
52 2 0.02
53 1 0.01
54 32 0.25
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
AATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGATAG
Found at i:53853419 original size:18 final size:18
Alignment explanation
Indices: 53853396--53853434 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53853386 GAATTACCGA
53853396 AATACCCCTGTAAGGTAG
1 AATACCCCTGTAAGGTAG
*
53853414 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAAGGTAG
53853432 AAT
1 AAT
53853435 TACAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (18 bp):
AATACCCCTGTAAGGTAG
Found at i:53853690 original size:37 final size:37
Alignment explanation
Indices: 53853640--53853714 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
53853630 AATACCCCTG
* *
53853640 TAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAA
1 TAGGGTAAAATTACCAAAATACCCCTATAAGGTAGAA
* *
53853677 TAGGGTAAAATTACCAAAATACCCCTGTAGGGTAGAA
1 TAGGGTAAAATTACCAAAATACCCCTATAAGGTAGAA
53853714 T
1 T
53853715 TACTGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (37 bp):
TAGGGTAAAATTACCAAAATACCCCTATAAGGTAGAA
Found at i:53854457 original size:22 final size:22
Alignment explanation
Indices: 53854424--53854482 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
53854414 CACGTTATCG
53854424 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
53854446 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
53854468 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
53854483 ACATATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:53854679 original size:27 final size:27
Alignment explanation
Indices: 53854649--53854706 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
53854639 TAAGTAGCTT
* *
53854649 TGCCAC-ATTATCTGATTCTGGTGGCTA
1 TGCCACAAATATCTG-TTCTGGAGGCTA
*
53854676 TGCCACAAATATCTGTTCTGGAGGCTT
1 TGCCACAAATATCTGTTCTGGAGGCTA
53854703 TGCC
1 TGCC
53854707 TCAACTTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGAGGCTA
Found at i:53854880 original size:6 final size:6
Alignment explanation
Indices: 53854849--53854942 Score: 95
Period size: 6 Copynumber: 15.3 Consensus size: 6
53854839 TTGCATTCAC
* *
53854849 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
53854898 ATTCTG -TCACTTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
53854943 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.07
6 60 0.81
7 6 0.08
8 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:53854900 original size:37 final size:37
Alignment explanation
Indices: 53854849--53854933 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
53854839 TTGCATTCAC
* *
53854849 ATTCTGATTTTGATTCTATTACCTGATACTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTGATTCTG
* * *
53854886 ATTCTGATTCTGATTCTGTCACTTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTGATTCTG
53854923 ATTCTGATTCT
1 ATTCTGATTCT
53854934 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTATCACCTGATACTGATTCTG
Found at i:53873538 original size:9 final size:9
Alignment explanation
Indices: 53873524--53873678 Score: 211
Period size: 9 Copynumber: 17.2 Consensus size: 9
53873514 TATTTATGTA
53873524 TTATGTAAG
1 TTATGTAAG
*
53873533 TTATGTAAA
1 TTATGTAAG
53873542 TTATGTAAG
1 TTATGTAAG
*
53873551 TTCTGTAAG
1 TTATGTAAG
*
53873560 TTTTGTAAG
1 TTATGTAAG
*
53873569 TTATGTGAG
1 TTATGTAAG
53873578 TTATGTAAG
1 TTATGTAAG
53873587 TTATGTAAG
1 TTATGTAAG
*
53873596 TTATATAAG
1 TTATGTAAG
*
53873605 TTATGTGAG
1 TTATGTAAG
*
53873614 TTATGTGAG
1 TTATGTAAG
53873623 TTATGTAAG
1 TTATGTAAG
53873632 TTATGTAAG
1 TTATGTAAG
* *
53873641 TTATATGAG
1 TTATGTAAG
53873650 TTATGTAAG
1 TTATGTAAG
* *
53873659 TTATATGAG
1 TTATGTAAG
53873668 TTATGTAAG
1 TTATGTAAG
53873677 TT
1 TT
53873679 CAAGCATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 127 1.00
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:53873991 original size:29 final size:28
Alignment explanation
Indices: 53873947--53874014 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 28
53873937 ATCACATGGA
*
53873947 AAAAAATTTATTTTAATTAAATAATATTT
1 AAAAAA-TTATATTAATTAAATAATATTT
*
53873976 ATAAAAATTATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
53874005 AAATAAATTA
1 AAA-AAATTA
53874015 ATCCAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 28 0.80
30 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:53874046 original size:47 final size:47
Alignment explanation
Indices: 53873982--53874115 Score: 194
Period size: 39 Copynumber: 3.0 Consensus size: 47
53873972 ATTTATAAAA
*
53873982 ATTATATTAATTTAATAATATTTAAATAAATTAATCCAAATTATATT
1 ATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATT
*
53874029 ATTATATTAATTAAATAATATTTAAAAAAATTAATCC-----A-A--
1 ATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATT
53874068 ATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATT
1 ATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATT
53874115 A
1 A
53874116 ATTAAAATAA
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
39 36 0.47
41 1 0.01
42 1 0.01
44 1 0.01
45 1 0.01
47 36 0.47
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (47 bp):
ATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATT
Found at i:53874081 original size:19 final size:19
Alignment explanation
Indices: 53874057--53874120 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
53874047 TATTTAAAAA
53874057 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* *
53874076 AATTAAAT--AATATTTAAATA
1 AATT-AATCCAA-A-TTATATT
53874096 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
53874115 AATTAA
1 AATTAA
53874121 AATAAGATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 13 0.36
21 2 0.06
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:53874368 original size:24 final size:24
Alignment explanation
Indices: 53874336--53874382 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
53874326 TTAACTTAAA
*
53874336 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGAGAATATTTG
53874360 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGAGAATATTT
53874383 CAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGAGAATATTTG
Found at i:53875477 original size:59 final size:59
Alignment explanation
Indices: 53875385--53875503 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
53875375 ACCTATATCA
53875385 TTAACCTATAAGTTGAATTCTATCAATTTGTAAATAAGTAAAGAAAAATGAAATGGCAT
1 TTAACCTATAAGTTGAATTCTATCAATTTGTAAATAAGTAAAGAAAAATGAAATGGCAT
53875444 TTAACCTATAAGTTGAATTCTATCAATTTGTAAATAAGTAAAGAAAAATGAAATGGCAT
1 TTAACCTATAAGTTGAATTCTATCAATTTGTAAATAAGTAAAGAAAAATGAAATGGCAT
53875503 T
1 T
53875504 ACTCTATGTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (59 bp):
TTAACCTATAAGTTGAATTCTATCAATTTGTAAATAAGTAAAGAAAAATGAAATGGCAT
Found at i:53876748 original size:39 final size:38
Alignment explanation
Indices: 53876704--53876781 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 38
53876694 TAAATATATT
* * *
53876704 TATATGGATGTAATTGAGATATATTATGTATATATAACA
1 TATATGGATGTAATTGAAATAAATCATGTAT-TATAACA
53876743 TATATGGATGTAATTGAAATAAATCATGTATTATAACA
1 TATATGGATGTAATTGAAATAAATCATGTATTATAACA
53876781 T
1 T
53876782 TTAAGTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 8 0.22
39 28 0.78
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (38 bp):
TATATGGATGTAATTGAAATAAATCATGTATTATAACA
Found at i:53878105 original size:75 final size:74
Alignment explanation
Indices: 53878018--53878163 Score: 177
Period size: 75 Copynumber: 1.9 Consensus size: 74
53878008 TGGCGTTTAT
* *
53878018 AAAAGCGCCACTAATAAAAGGCTATAAAATGACGACGTTTTAAAATCTCTT-TAGATGTTTTGTG
1 AAAAGCGCCACTAATAAAAGGCTA-AAAACGACGACGTTTTAAAATCTATTATAGATG-TTTGTG
53878082 GCATTTTTCGA
64 GCATTTTTCGA
* * * * * **
53878093 AAAAGTGCCACTAATAATAGGGTAATAACGACGCCGTTTTGCAATCTATTAATAGATGTTTGTGG
1 AAAAGCGCCACTAATAAAAGGCTAAAAACGACGACGTTTTAAAATCTATT-ATAGATGTTTGTGG
53878158 CATTTT
65 CATTTT
53878164 CTAGTGAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
74 20 0.33
75 34 0.57
76 6 0.10
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (74 bp):
AAAAGCGCCACTAATAAAAGGCTAAAAACGACGACGTTTTAAAATCTATTATAGATGTTTGTGGC
ATTTTTCGA
Found at i:53878332 original size:188 final size:184
Alignment explanation
Indices: 53877954--53878351 Score: 414
Period size: 188 Copynumber: 2.1 Consensus size: 184
53877944 TTGCAAACTG
* * * * *
53877954 TTAATAGATTTTTGTGGCGTTTCTAGTGAAAACGCCAGTATTTAACACCTTTTGTGGCGTTTATA
1 TTAATAGATGTTTGTGGCTTTTCTAGTGAAAACGCCAGTATTTAACACCTGTTGCGGCATTTATA
53878019 AAAGCGCCACTAATAAAAGGCTATAAAATGACGACGTTTTAAAATCTCTTTAGATGTTTTGTGGC
66 AAAGCGCCACTAATAAAAGGC-ATAAAATGACGACGTTTTAAAATCTCTTTAGATGTTTTGTGGC
* * * * * *
53878084 ATTTTTCGAAAAAGTGCCACTAATAATAGGGTAATAACGACGCCGTTTTGCAATCTA
130 ATTTTTC-AAAAAGTGCCACTAATAAAAGCGTAATAACAACACAGTTTT-CAAGCTA
*
53878141 TTAATAGATGTTTGTGGCATTTTCTAGTGAAAACGCCGGTAATTT-ACACCTGTTGCGGCATTTA
1 TTAATAGATGTTTGTGGC-TTTTCTAGTGAAAACGCCAGT-ATTTAACACCTGTTGCGGCATTTA
* * * *
53878205 TATAAGCGCCACTAATAACAAGG-ATGAAAATGACG-CTGTTTTACATTCTCTTAATGGATGTTT
64 TAAAAGCGCCACTAATAA-AAGGCAT-AAAATGACGAC-GTTTTAAAATCTCTT--TAGATG-TT
* * * *
53878268 TTGTGGCATTTTT-TAAAAGTGCCACTACTAACAAAGCTTCAA-AACAACATAG-TTT-AAGCTA
123 TTGTGGCATTTTTCAAAAAGTGCCACTAAT-A-AAAGCGT-AATAACAACACAGTTTTCAAGCTA
* *
53878329 TTAATACATGTTTGCGGCGTTTT
1 TTAATAGATGTTTGTGGC-TTTT
53878352 TTTTTCTAAT
Statistics
Matches: 177, Mismatches: 23, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
187 20 0.11
188 99 0.56
189 22 0.12
190 9 0.05
191 25 0.14
192 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (184 bp):
TTAATAGATGTTTGTGGCTTTTCTAGTGAAAACGCCAGTATTTAACACCTGTTGCGGCATTTATA
AAAGCGCCACTAATAAAAGGCATAAAATGACGACGTTTTAAAATCTCTTTAGATGTTTTGTGGCA
TTTTTCAAAAAGTGCCACTAATAAAAGCGTAATAACAACACAGTTTTCAAGCTA
Found at i:53878511 original size:28 final size:27
Alignment explanation
Indices: 53878459--53878511 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
53878449 GGTCTCTCTA
*
53878459 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
53878486 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
53878512 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:53878801 original size:21 final size:21
Alignment explanation
Indices: 53878766--53878821 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
53878756 ACTGTCTATA
* **
53878766 ATTTAAGGTTTTATGGTTTTGG
1 ATTT-AGGGTTTATGGTTTAAG
53878788 ATTTAGGGTTTATGGTTTAAG
1 ATTTAGGGTTTATGGTTTAAG
53878809 ATTTAGGGTTTAT
1 ATTTAGGGTTTAT
53878822 AATTTAGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (21 bp):
ATTTAGGGTTTATGGTTTAAG
Found at i:53878827 original size:21 final size:21
Alignment explanation
Indices: 53878787--53878827 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53878777 TATGGTTTTG
**
53878787 GATTTAGGGTTTATGGTTTAA
1 GATTTAGGGTTTATAATTTAA
53878808 GATTTAGGGTTTATAATTTA
1 GATTTAGGGTTTATAATTTA
53878828 GGCCAGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
GATTTAGGGTTTATAATTTAA
Found at i:53878926 original size:29 final size:29
Alignment explanation
Indices: 53878871--53878926 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
53878861 GATTTAGGAA
*
53878871 TCTATATTTAAGGGTTTAAGGGTTTAGTG
1 TCTATATTTAAGGGTTTAAGGGCTTAGTG
* *
53878900 TCTATAGTTT-AGGGTTTTATGGCTTAG
1 TCTATA-TTTAAGGGTTTAAGGGCTTAG
53878927 GATTCAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.21, C:0.05, G:0.27, T:0.46
Consensus pattern (29 bp):
TCTATATTTAAGGGTTTAAGGGCTTAGTG
Found at i:53879245 original size:10 final size:10
Alignment explanation
Indices: 53879230--53879256 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53879220 AGACCTTATT
53879230 TAATTTGTTA
1 TAATTTGTTA
53879240 TAATTTGTTA
1 TAATTTGTTA
53879250 TAATTTG
1 TAATTTG
53879257 GTCCTATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (10 bp):
TAATTTGTTA
Found at i:53879964 original size:153 final size:150
Alignment explanation
Indices: 53879552--53879983 Score: 559
Period size: 153 Copynumber: 2.8 Consensus size: 150
53879542 CGTTTTCCAT
* *
53879552 AAAGCGCCGCTAATGCCACTGAAGCTCAAAGAAAAACGACATCGTT-TGTTTAATCTTTTAGTGG
1 AAAGCGCCGCTAATGCCACTGAAGCT-AAAGAAAAACGTCA-CGTTCTCTTTAATCTTTTAGTGG
* * * *
53879616 CTTTTTTTTAAAAGCGCCGCTATAGATCAACTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGT
64 C-GTTTTTAAAAAGCGCCGCTATAGTTGAACTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGT
53879681 TGGATCTATTGCGGCATTTTTGG
128 TGGATCTATTGCGGCATTTTTGG
* * * * * *
53879704 GAAGCGCTGCTAATGCCACTGAAGCTAAATAAACAACGT--TGTTCTCTTTAATCTTTTAGCGTC
1 AAAGCGCCGCTAATGCCACTGAAGCTAAAGAAA-AACGTCACGTTCTCTTTAATCTTTTAGTGGC
* *
53879767 GTTTTTAAAAAAGCGCCGTTATAGATTGACCTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGT
65 GTTTTT-AAAAAGCGCCGCTATAG-TTGAACTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGT
*
53879832 TGGATCTATTGCAGTG-TTTTTTGG
128 TGGATCTATTGC-G-GCATTTTTGG
*
53879856 AAAGCTCCGCTAATGCCACTGAAGCTAAA-AAAAACGTCACCGTTCTCTTTAATCTTTTAGTGGC
1 AAAGCGCCGCTAATGCCACTGAAGCTAAAGAAAAACGTCA-CGTTCTCTTTAATCTTTTAGTGGC
* * *
53879920 GTTTTTAAAAATGCGCCGCTATAAGTTGATCTATAGCGGCGCTTTCTCAAAAACGTCGCTAATG
65 GTTTTTAAAAA-GCGCCGCTAT-AGTTGAACTATAGCGGCGCTTTCTTAAAAACGCCGCTAATG
53879984 CTCTATCTTT
Statistics
Matches: 244, Mismatches: 25, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
149 8 0.03
150 36 0.15
151 58 0.24
152 67 0.27
153 73 0.30
154 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (150 bp):
AAAGCGCCGCTAATGCCACTGAAGCTAAAGAAAAACGTCACGTTCTCTTTAATCTTTTAGTGGCG
TTTTTAAAAAGCGCCGCTATAGTTGAACTATAGCGGCGCTTTCTTAAAAACGCCGCTAATGTTGG
ATCTATTGCGGCATTTTTGG
Found at i:53880863 original size:15 final size:15
Alignment explanation
Indices: 53880831--53880859 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53880821 ATATTTTGTG
53880831 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
53880846 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
53880860 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:53893740 original size:22 final size:22
Alignment explanation
Indices: 53893687--53893732 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
53893677 CCCAATTTTA
* *
53893687 TTTTATTTTATTTATTTTTAAT
1 TTTTATATTATTTATTCTTAAT
53893709 TTTTATATTATTTATTCTT-AT
1 TTTTATATTATTTATTCTTAAT
53893730 TTT
1 TTT
53893733 ACTAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATATTATTTATTCTTAAT
Found at i:53893815 original size:23 final size:24
Alignment explanation
Indices: 53893789--53893833 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
53893779 AAAATATTTT
*
53893789 TATTTTTATTATTTT-TATTTTAC
1 TATTTCTATTATTTTCTATTTTAC
*
53893812 TATTTCTATTTTTTTCTATTTT
1 TATTTCTATTATTTTCTATTTT
53893834 TTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (24 bp):
TATTTCTATTATTTTCTATTTTAC
Found at i:53893836 original size:11 final size:11
Alignment explanation
Indices: 53893814--53893852 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
53893804 TATTTTACTA
53893814 TTTCTA-TTTT
1 TTTCTATTTTT
53893824 TTTCTATTTTT
1 TTTCTATTTTT
53893835 TTTC-ATTTTT
1 TTTCTATTTTT
*
53893845 TTACTATT
1 TTTCTATT
53893853 ATCATTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 15 0.58
11 11 0.42
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTCTATTTTT
Found at i:53893838 original size:21 final size:22
Alignment explanation
Indices: 53893783--53893852 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 22
53893773 ATTTTTAAAA
* *
53893783 TATTTTTATTTTTATTATTTT-
1 TATTTTTATTTCTATTTTTTTC
53893804 TATTTTACTATTTCTATTTTTTTC
1 TATTTT--TATTTCTATTTTTTTC
53893828 TATTTTT-TTTC-ATTTTTTTAC
1 TATTTTTATTTCTATTTTTTT-C
53893849 TATT
1 TATT
53893853 ATCATTACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.19
21 15 0.35
22 1 0.02
23 13 0.30
24 6 0.14
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTTATTTCTATTTTTTTC
Found at i:53893926 original size:20 final size:19
Alignment explanation
Indices: 53893893--53893972 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
53893883 TATCATTGAG
*
53893893 TTTTTT-ATTATTTTTATT
1 TTTTTTAATTTTTTTTATT
53893911 ATTTTTTAATTTTTTTCT-TT
1 -TTTTTTAATTTTTTT-TATT
* *
53893931 CTTTTTAATTTTGTTTTAGT
1 TTTTTTAATTTT-TTTTATT
* * *
53893951 TGTTTT-ATTATTATTATT
1 TTTTTTAATTTTTTTTATT
53893969 TTTT
1 TTTT
53893973 CTCTTCAACT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
18 8 0.17
19 22 0.46
20 17 0.35
21 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTTAATTTTTTTTATT
Found at i:53903244 original size:27 final size:27
Alignment explanation
Indices: 53903202--53903298 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
53903192 TATGAATGGA
*
53903202 AATTAGCACTTCGGTGCTCTCTTTTCT
1 AATTAGCACTTTGGTGCTCTCTTTTCT
*
53903229 AATTAGCACTTTGGTGCTCACTGTTT-T
1 AATTAGCACTTTGGTGCTCTCT-TTTCT
* * * **
53903256 GATTAGCATTTTGGTGCTTTCCGTTCT
1 AATTAGCACTTTGGTGCTCTCTTTTCT
* *
53903283 GACTAGCACTTTGGTG
1 AATTAGCACTTTGGTG
53903299 TTTTTTGACT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.03
27 53 0.91
28 3 0.05
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (27 bp):
AATTAGCACTTTGGTGCTCTCTTTTCT
Found at i:53903333 original size:22 final size:22
Alignment explanation
Indices: 53903280--53903334 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
53903270 TGCTTTCCGT
* *
53903280 TCTGACTAGCACTTTGGTGTTT
1 TCTGACTAGCACTTCGGTGTTG
*
53903302 TTTGACTAGCACTTCGGTGTTG
1 TCTGACTAGCACTTCGGTGTTG
*
53903324 TCTGAATAGCA
1 TCTGACTAGCA
53903335 TTATGGTGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (22 bp):
TCTGACTAGCACTTCGGTGTTG
Found at i:53905110 original size:31 final size:30
Alignment explanation
Indices: 53905038--53905150 Score: 131
Period size: 31 Copynumber: 3.7 Consensus size: 30
53905028 TCAGTCTTGA
* *
53905038 CATATACTGGGCCGAAGCC-TTTCGTTTAAT
1 CATATACTGGGCCGAAGCCTTTTC-ATAAAT
*
53905068 GAT-TACTGGGCCGAAGCCTTTTCATAAAT
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
*
53905097 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
* *
53905128 CATTTCACTGGGCTGAAGCCTTT
1 CATAT-ACTGGGCCGAAGCCTTT
53905151 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 21 0.29
30 7 0.10
31 44 0.61
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:53905221 original size:42 final size:42
Alignment explanation
Indices: 53905174--53905265 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
53905164 TGGCCTATAG
* ** *
53905174 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
53905216 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
53905258 GCCCATTT
1 GCCCATTT
53905266 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:53905462 original size:26 final size:26
Alignment explanation
Indices: 53905410--53905533 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
53905400 CCTCTTTAAT
**
53905410 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
53905435 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
53905461 AACTGGGGCATAAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
53905487 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
53905513 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
53905534 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 10 0.11
26 80 0.89
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:53906436 original size:27 final size:27
Alignment explanation
Indices: 53906336--53906419 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
53906326 GGGCATATTC
* *
53906336 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
53906363 TTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
53906390 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
53906417 GTC
1 GTC
53906420 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:53906511 original size:27 final size:27
Alignment explanation
Indices: 53906481--53906737 Score: 156
Period size: 27 Copynumber: 9.4 Consensus size: 27
53906471 GTACATCTAC
* *
53906481 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
53906508 AAACCAATGGTATTTCTA-TAATTTTTAT
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
53906536 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
53906564 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
53906591 AAATTGAGGGTATTTCAGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
53906618 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
53906645 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
53906672 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *** *
53906699 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
53906726 AAATCGAGGGTA
1 AAACCAAGGGTA
53906738 AAACGGTAAT
Statistics
Matches: 188, Mismatches: 38, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
27 158 0.84
28 16 0.09
29 14 0.07
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:53906682 original size:54 final size:54
Alignment explanation
Indices: 53906478--53906683 Score: 216
Period size: 54 Copynumber: 3.8 Consensus size: 54
53906468 TTGGTACATC
* * *
53906478 TACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTT-TGGTAA-TTT
* * * * * *
53906533 TATAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
*** ***
53906588 TACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
* * *
53906642 TACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTA
53906684 AAACAGTAAT
Statistics
Matches: 121, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
54 72 0.60
55 14 0.12
56 35 0.29
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (54 bp):
TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
Found at i:53906693 original size:54 final size:54
Alignment explanation
Indices: 53906635--53906842 Score: 177
Period size: 54 Copynumber: 3.9 Consensus size: 54
53906625 GGGTATTTTG
* **** * *
53906635 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** * *
53906689 GTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** *** * *
53906743 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAAC-
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * * * * *
53906796 GATAATTATATAAATCAGGGGTAAAACAGTAATTATGTAAATC-AGGG
1 G-TAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGG
53906843 GGTACTTTGG
Statistics
Matches: 129, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 5 0.04
54 124 0.96
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:53906720 original size:81 final size:81
Alignment explanation
Indices: 53906635--53906842 Score: 213
Period size: 81 Copynumber: 2.6 Consensus size: 81
53906625 GGGTATTTTG
* **** * *
53906635 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
53906700 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * * *
53906716 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* *
53906781 AGTCGAGGGTAAAAC-
66 AATCAAGGGTAAAACA
* * * * *
53906796 GATAATTATATAAATCAGGGGTAAAACAGTAATTATGTAAATC-AGGG
1 G-TAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGG
53906843 GGTACTTTGG
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
80 5 0.05
81 100 0.95
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:53906843 original size:27 final size:27
Alignment explanation
Indices: 53906661--53906842 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
53906651 AGGGTATTTT
*
53906661 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
53906688 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
53906715 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
53906742 GGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
53906769 GGTAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
53906796 -GATAATTATATAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
*
53906823 AGTAATTATGTAAATC-AGGG
1 AGTAATTCTGTAAATCGAGGG
53906843 GGTACTTTGG
Statistics
Matches: 139, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
26 5 0.04
27 133 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:53906900 original size:82 final size:81
Alignment explanation
Indices: 53906661--53906900 Score: 214
Period size: 81 Copynumber: 3.0 Consensus size: 81
53906651 AGGGTATTTT
* * * ** * * *
53906661 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAAAACAGTAATTCTA
1 AGTAATTATGTAAATAGAGGGTAAAACGGTAATTCTACAAGTCGAA-GGTAAAACAATAATTATA
53906725 TAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* * * * * *
53906742 GGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATAT
1 AGTAATTATGTAAATAGAGGGTAAAACGGTAATTCTACAAGTCGAAGGTAAAACAATAATTATAT
53906807 AAATC-AGGGGTAAAAC
66 AAATCGA-GGGTAAAAC
* **** * *** *
53906823 AGTAATTATGTAAATCAGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAATAATTTTA
1 AGTAATTATGTAAAT-AGAGGGTAAAACGGTAATTCTACAAGTCGAAGGTAAAACAATAATTATA
*
53906888 CAAATCGAGGGTA
65 TAAATCGAGGGTA
53906901 TTTCAGTATT
Statistics
Matches: 128, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
80 1 0.01
81 80 0.62
82 46 0.36
83 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
AGTAATTATGTAAATAGAGGGTAAAACGGTAATTCTACAAGTCGAAGGTAAAACAATAATTATAT
AAATCGAGGGTAAAAC
Found at i:53906940 original size:27 final size:27
Alignment explanation
Indices: 53906489--53906941 Score: 153
Period size: 27 Copynumber: 16.7 Consensus size: 27
53906479 ACAAACCAAA
** * * *
53906489 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
53906516 GGTATTTCTA-TAATTTTTATAAAGTCAAG
1 GGTATTTC-AGTAA-TTTTACAAA-TCGAG
* * **
53906545 GGTATTTCTGTAACTTTGTAAATC-AGG
1 GGTATTTCAGTAATTTTACAAATCGA-G
** *
53906572 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
53906599 GGTATTTCAGTAATTTCACAAACCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** * *
53906626 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* **
53906653 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * ** *
53906680 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * *
53906707 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * * ** *
53906734 GGTAAAACGGTAATTCTGTAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * * * *
53906761 GGTAAAACGGTAATTCTATAAGTCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*** * *
53906788 GGTAAAAC-GATAATTATATAAATC-AGG
1 GGTATTTCAG-TAATTTTACAAATCGA-G
*** * ** *
53906815 GGTAAAACAGTAATTATGTAAATCAGGG
1 GGTATTTCAGTAATTTTACAAATC-GAG
* * *
53906843 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAG
*
53906870 GGTATTTCAATAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
*
53906897 GGTATTTCAGTATTTTTACAAA-CTGAG
1 GGTATTTCAGTAATTTTACAAATC-GAG
**
53906924 GGTATTTTGGTAATTTTA
1 GGTATTTCAGTAATTTTA
53906942 GTAAACTAAA
Statistics
Matches: 349, Mismatches: 63, Indels: 28
0.79 0.14 0.06
Matches are distributed among these distances:
26 7 0.02
27 294 0.84
28 34 0.10
29 14 0.04
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:53909248 original size:46 final size:46
Alignment explanation
Indices: 53909181--53909355 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
53909171 AACCCGCCCC
*
53909181 TAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC-GGATGTTCGCATCCA
* **
53909227 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG--T--TCGCATCCA
* * * **
53909275 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
*
53909320 TAAGTGAACTCAGACTCAACTCAACGAGTTCAGATG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
53909356 CTCAACCATC
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 5 0.05
46 58 0.55
47 29 0.28
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
Found at i:53909314 original size:93 final size:93
Alignment explanation
Indices: 53909186--53909356 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
53909176 GCCCCTAAGT
** *
53909186 GAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
53909251 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
53909279 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
53909343 ACGAGTTCAGATGC
65 ACGAGTTCAGATGC
53909357 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:53909813 original size:30 final size:30
Alignment explanation
Indices: 53909779--53909838 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
53909769 ATTTAATACG
53909779 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
53909809 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
53909839 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:53911236 original size:46 final size:46
Alignment explanation
Indices: 53911092--53911263 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
53911082 TGTGTGAGGT
* * **
53911092 AGTGTAAGACATATCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGAGCC
* * * * * *
53911138 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTAAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGAGCC
* *
53911186 AGTGTAAGACATGTTTGGGACATACATCGGCCTCAAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGAGCC
53911232 AGTGTAAGACATGTCTGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
53911264 ATGAAATCTG
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 54 0.52
47 25 0.24
48 24 0.23
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGAGCC
Found at i:53917741 original size:20 final size:20
Alignment explanation
Indices: 53917716--53917760 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
53917706 ATAAAGTGCA
53917716 AAAGTCCTAATTTGATAGCT
1 AAAGTCCTAATTTGATAGCT
53917736 AAAGTCCTAATTTGATAGCT
1 AAAGTCCTAATTTGATAGCT
53917756 AAAGT
1 AAAGT
53917761 TATCAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
AAAGTCCTAATTTGATAGCT
Found at i:53918425 original size:30 final size:30
Alignment explanation
Indices: 53918380--53918455 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
53918370 GCTTAGAGGT
* *
53918380 AAAA-TGGTCATTTTGCAAAAGTCTAGGGG
1 AAAATTGGTTATTTTGCAAAAGTCCAGGGG
***
53918409 CGTATTGGTTATTTTGCAAAAGTCCAGGGG
1 AAAATTGGTTATTTTGCAAAAGTCCAGGGG
53918439 AAAATTGGTTATTTTGC
1 AAAATTGGTTATTTTGC
53918456 CCAACTATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATTGGTTATTTTGCAAAAGTCCAGGGG
Found at i:53918955 original size:46 final size:46
Alignment explanation
Indices: 53918799--53919020 Score: 193
Period size: 46 Copynumber: 4.8 Consensus size: 46
53918789 TCACTTGTGT
* * * **
53918799 GAGCTAGTGTAAGACATGTCTGGGATATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * ** *
53918845 GAGCCAGTGTAAGACCATGCCTGGGACATGGCA-CTGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GGCCTCAAGATGA
* * * *
53918893 GTGCTAATGTAAGACATGTCTGGGACATGCATCGACCTCAAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
* *
53918940 -AGCCAGTGTAAGACATGTCTGGGACATGCATCTGCCATGAA-AT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAAGATGA
*
53918983 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
53919021 ACCTTACCTC
Statistics
Matches: 140, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 63 0.45
47 31 0.22
48 20 0.14
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:53928777 original size:27 final size:27
Alignment explanation
Indices: 53928747--53928799 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
53928737 AGCATAATCA
*
53928747 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGCATTACGG
* * *
53928774 TCATTTTGCCCTATAGGGGCATTACG
1 TCATTTTACCATACAGGGGCATTACG
53928800 ATTTTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGCATTACGG
Found at i:53939122 original size:27 final size:26
Alignment explanation
Indices: 53939074--53939133 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53939064 GCGAGACTGC
*
53939074 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
53939101 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
53939127 TAGATAT
1 CAGATAT
53939134 ATATATATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53941180 original size:40 final size:40
Alignment explanation
Indices: 53941145--53941221 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
53941135 GTATAAGCAT
53941145 TTCACAAAAGCACTT-CATATAACTATTTCCATATAACAGA
1 TTCACAAAAGCA-TTCCATATAACTATTTCCATATAACAGA
* * * *
53941185 TTCATAAAATCATTCCATGTATCTATTTCCATATAAC
1 TTCACAAAAGCATTCCATATAACTATTTCCATATAAC
53941222 CAATTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (40 bp):
TTCACAAAAGCATTCCATATAACTATTTCCATATAACAGA
Found at i:53942700 original size:93 final size:93
Alignment explanation
Indices: 53942541--53942712 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
53942531 GCCCATAAGT
* * * *
53942541 GAACTCGGACTCAACTCAACGAGCTGGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53942606 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
53942634 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53942699 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53942713 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53942705 original size:46 final size:46
Alignment explanation
Indices: 53942533--53942708 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
53942523 TGTAACCCGC
* * * * *
53942533 CCATAAGTGAACTCGGACTCAACTCAACGAGCTGGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
53942579 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
53942629 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
53942672 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53942709 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:53942727 original size:46 final size:46
Alignment explanation
Indices: 53942584--53942727 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
53942574 CGCATCCATG
* * *
53942584 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
53942632 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
53942677 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
53942723 AGTGA
1 AGTGA
53942728 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:53955511 original size:50 final size:50
Alignment explanation
Indices: 53955436--53955829 Score: 398
Period size: 50 Copynumber: 7.8 Consensus size: 50
53955426 ACCGAAGCTC
* * *
53955436 TCTGGTACGCATAGTAGCCAGCACTTAGTACTACATATGTGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
53955486 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * *
53955536 TCTGATACACACAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* * * * *
53955587 TCGGGTA-ACATAATAGCCTGCACTTGGTACTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * ** * * * *
53955636 TCTGATATATGTAGTAGCCTACACTTAGTACTACACATGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* * *
53955687 TCTGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
53955737 TATAGTACACGTAGTAGCCTGCACTTAGTACTACACACT-TGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA-TGTGACCTAACAA
* ** *
53955786 CCGTATTAGACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TC-TGGT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
53955830 TTCTCATAAT
Statistics
Matches: 283, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
49 9 0.03
50 195 0.69
51 48 0.17
52 31 0.11
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:53957732 original size:25 final size:24
Alignment explanation
Indices: 53957666--53957732 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
53957656 CTATCTGGAG
* *
53957666 CTTCCTAATATAGTTCTTTGTGAA
1 CTTCCCAATATAGTTCTTTGTCAA
*
53957690 CTTCCCGATATAGTTCTTTGTCAA
1 CTTCCCAATATAGTTCTTTGTCAA
*
53957714 CTTCCCAATTATAGCTCTT
1 CTTCCCAA-TATAGTTCTT
53957733 ATGAGCTTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 28 0.76
25 9 0.24
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.43
Consensus pattern (24 bp):
CTTCCCAATATAGTTCTTTGTCAA
Found at i:53959206 original size:42 final size:42
Alignment explanation
Indices: 53959147--53959241 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
53959137 TACAGGGATT
*
53959147 TTCACAAGGCCTAGTACACGCCTGTGTACCTGGCCCGTGTCC
1 TTCACAAGGCCTAGTACACGCCAGTGTACCTGGCCCGTGTCC
* **
53959189 TTCACACGGCCTAGTACACGCCAGTGTACCTGGCTTGTGTCC
1 TTCACAAGGCCTAGTACACGCCAGTGTACCTGGCCCGTGTCC
*
53959231 TTCACATGGCC
1 TTCACAAGGCC
53959242 ATGCACGCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (42 bp):
TTCACAAGGCCTAGTACACGCCAGTGTACCTGGCCCGTGTCC
Found at i:53960357 original size:46 final size:46
Alignment explanation
Indices: 53960274--53960487 Score: 152
Period size: 46 Copynumber: 4.6 Consensus size: 46
53960264 GTGTTGATGC
53960274 CATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTA-GCCAATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTATCATCTCG-AGGCCAATG
* * *
53960321 CATGTCCCAAACATGTCTTACACTAGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTAT-CATCTCGAGGCCAATG
* * * * * *
53960367 CATGTCCCGGACATGTATTACACTAGC-ACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTA-TCATCTCGAGGCCAATG
* * * * * * **
53960413 CCGTGTCCTAGACATGGTCTTACAATGGCTCTCATAAT--ATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CTCGA-GGCCAATG
53960461 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
53960488 CCTCAATAAC
Statistics
Matches: 134, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.01
46 73 0.54
47 39 0.29
48 19 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCTCGAGGCCAATG
Found at i:53960881 original size:30 final size:30
Alignment explanation
Indices: 53960824--53960881 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
53960814 CAATTCACAT
* * *
53960824 TTTTGGTAAAATGACCATTTAGCCCCTAGA
1 TTTTGATAAAATGACAATTTAGACCCTAGA
53960854 TTTTGATAAAATGACAATTTTA-ACCCTA
1 TTTTGATAAAATGACAA-TTTAGACCCTA
53960882 AGCCCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (30 bp):
TTTTGATAAAATGACAATTTAGACCCTAGA
Found at i:53965886 original size:40 final size:40
Alignment explanation
Indices: 53965831--53965972 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
53965821 TATTCGAATG
53965831 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
53965871 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
53965911 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
53965951 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
53965973 TACTTTGGTT
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.14
40 81 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:53969472 original size:52 final size:52
Alignment explanation
Indices: 53969394--53969499 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
53969384 AAACATAATG
*
53969394 TAAGATTATATCAAAAACATCATTCATTCTCAAATCATGAACTCACCAAACT
1 TAAGATTATATAAAAAACATCATTCATTCTCAAATCATGAACTCACCAAACT
*
53969446 TAAGATTATATAAAAAACGTCATTCATTCTCAAATCATGAACTCACCAAACT
1 TAAGATTATATAAAAAACATCATTCATTCTCAAATCATGAACTCACCAAACT
53969498 TA
1 TA
53969500 CCTTCTCCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (52 bp):
TAAGATTATATAAAAAACATCATTCATTCTCAAATCATGAACTCACCAAACT
Found at i:53977345 original size:30 final size:30
Alignment explanation
Indices: 53977309--53977366 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
53977299 TCAAGTAGCC
53977309 AAAGCTAGTGTAAATCGCACACTTAGTGGA
1 AAAGCTAGTGTAAATCGCACACTTAGTGGA
* *
53977339 AAAGCTAGTTTAAATCGCCCACTTAGTG
1 AAAGCTAGTGTAAATCGCACACTTAGTG
53977367 CCAAAACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (30 bp):
AAAGCTAGTGTAAATCGCACACTTAGTGGA
Found at i:53987519 original size:15 final size:15
Alignment explanation
Indices: 53987501--53987530 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53987491 AAGCATGTAA
53987501 AGAAATCCAAGATAG
1 AGAAATCCAAGATAG
*
53987516 AGAAATCCGAGATAG
1 AGAAATCCAAGATAG
53987531 GATACCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:53994167 original size:56 final size:56
Alignment explanation
Indices: 53994096--53994214 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
53994086 ACAAGGGATG
53994096 ATGGGC-AAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53994151 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
53994207 ATGGGCAA
1 ATGGGCAA
53994215 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 6 0.10
56 56 0.90
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53995435 original size:40 final size:39
Alignment explanation
Indices: 53995345--53995568 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 39
53995335 TCGAATGATG
* * * *
53995345 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
53995385 TGCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
53995425 TCCAGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
53995464 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
53995504 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
53995544 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
53995569 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 66 0.43
40 81 0.52
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53995492 original size:79 final size:79
Alignment explanation
Indices: 53995398--53995568 Score: 236
Period size: 79 Copynumber: 2.2 Consensus size: 79
53995388 GGACTAAGAT
*
53995398 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTA-
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAT
*
53995462 AATCCGGGTTAAGTC
66 AA-CCGGGCTAAGTC
* * * * * *
53995477 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAT
*
53995542 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
*
53995556 CCAAAGGCATTTG
1 CCGAAGGCATTTG
53995569 AACGAGTAGC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 79 0.98
80 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAT
AACCGGGCTAAGTC
Found at i:53995575 original size:40 final size:40
Alignment explanation
Indices: 53995401--53995568 Score: 225
Period size: 39 Copynumber: 4.2 Consensus size: 40
53995391 CTAAGATCCG
* * * *
53995401 AAGGCATTTGTGCGAGATACTAATTCCAGGCTAAG-CCCA
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCA
* *
53995440 AAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCA
*
53995480 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT-CCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCA
* *
53995519 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCA
1 AAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCA
53995559 AAGGCATTTG
1 AAGGCATTTG
53995569 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 64 0.55
40 52 0.45
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCA
Found at i:53995598 original size:79 final size:79
Alignment explanation
Indices: 53995440--53995601 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 79
53995430 GCTAAGCCCA
* * **
53995440 AAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 AAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAAT
*
53995505 CCGGGTTAAGTCCG
66 CCGAGTTAAGTCCG
* * *
53995519 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTA-CTAA
*
53995582 ATCC-AGTTAAATTCCG
64 ATCCGAGTT-AAGTCCG
53995598 AAGG
1 AAGG
53995602 TACATGATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 5 0.07
79 64 0.90
80 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
AAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAAT
CCGAGTTAAGTCCG
Found at i:54000285 original size:39 final size:39
Alignment explanation
Indices: 54000224--54000324 Score: 136
Period size: 39 Copynumber: 2.6 Consensus size: 39
54000214 TAGCCGGTTA
* *
54000224 TAGT-ACTCGCA-AAATTCCTTCGGGACTTAACCC-GATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGAAT
*
54000261 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
*
54000300 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
54000325 ATCTTAGTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 4 0.07
38 14 0.25
39 39 0.68
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
Found at i:54080528 original size:93 final size:93
Alignment explanation
Indices: 54080422--54080593 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
54080412 CGCCCCTAAG
* * *
54080422 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54080487 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
54080515 TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGTATCCATAGGTGAACTCGGACTCAACTTA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54080580 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54080594 TCAACCATCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54080590 original size:46 final size:46
Alignment explanation
Indices: 54080418--54080590 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
54080408 AACCCGCCCC
* * * *
54080418 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
* * *
54080464 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--TCCA
* *
54080510 TCTCA-TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
* *
54080557 TAGGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54080591 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 63 0.60
47 31 0.30
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
Found at i:54085519 original size:49 final size:49
Alignment explanation
Indices: 54085426--54085519 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
54085416 TGTGAGAGCT
* * *
54085426 AGTGTAAGACCATGTTTAGGACATGGCATAGGCCTCGATAATGATAGTA
1 AGTGTAAGACCATGTTTAGGACATGGCATACGACTCGAGAATGATAGTA
* *
54085475 AGTGTAAGACCATGTTTGGGACATGGCAT-CGACTTGAGACATGAT
1 AGTGTAAGACCATGTTTAGGACATGGCATACGACTCGAGA-ATGAT
54085520 CCAGTGTAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 6 0.15
49 33 0.85
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTAGGACATGGCATACGACTCGAGAATGATAGTA
Found at i:54089712 original size:31 final size:31
Alignment explanation
Indices: 54089674--54089740 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
54089664 TCCTTGAACG
* *
54089674 GGTTAGGATGTGTGCTCTTCCAAGAAGGCAA
1 GGTTAGGATGTGAGCTCATCCAAGAAGGCAA
**
54089705 GGTTAGGATGTGAGCTCATGTAAGAAGGCAA
1 GGTTAGGATGTGAGCTCATCCAAGAAGGCAA
54089736 GGTTA
1 GGTTA
54089741 TATCCTATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.25
Consensus pattern (31 bp):
GGTTAGGATGTGAGCTCATCCAAGAAGGCAA
Found at i:54092592 original size:49 final size:49
Alignment explanation
Indices: 54092293--54092647 Score: 298
Period size: 49 Copynumber: 7.5 Consensus size: 49
54092283 TGAGCTAGTA
* * * *
54092293 TAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAAAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTG
* * * *
54092339 TAAGACCATGTCTGGGACATGGCATTGGCATTGA-GATGAGAG-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC-AGTG
* ** * *
54092387 TAAGA-CATGTCTAGGACAT-GCATTAGCCTCG-TGAAG-TAAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAT-AGTCAGTG
* * * * *
54092433 TAAGA-CATGTCTGGGATAT-ACATCAG-CT--ATGA-GATGTGTCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAT-AGTCAGTG
* * *
54092477 TAAGACCATGTCTGGGACATGGCATCGGCAC-AGACATG-CGAGAG-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-CTCG--ATGATGATAGTC-AGTG
54092527 TAAGACCATG-CTTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTG
1 TAAGACCATGTC-TGGGACATGGCATCGGCCTCGATGATGATAGTCAGTG
**
54092576 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGACAATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTG
54092625 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
54092648 GTCAGTATTC
Statistics
Matches: 253, Mismatches: 32, Indels: 45
0.77 0.10 0.14
Matches are distributed among these distances:
43 1 0.00
44 14 0.06
45 15 0.06
46 50 0.20
47 28 0.11
48 26 0.10
49 80 0.32
50 34 0.13
51 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTG
Found at i:54094093 original size:50 final size:48
Alignment explanation
Indices: 54094039--54094294 Score: 186
Period size: 46 Copynumber: 5.5 Consensus size: 48
54094029 AAGTCGATGC
54094039 CATGTCCCAGACATGGTCTTACACTGACTCTCACATATCAGTGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGACTCTCACATATCAGTGCCAATG
* **
54094088 CCATGTCCCAAACATGGTCTTACACTGA----CACAT-TTTGTAGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTCTCACATATCAGT-GCCAATG
* *
54094134 CATGTCCC-GAACATGTCTTACACTGGCT-T-ACATCTCGAG-GCCAATG
1 CATGTCCCAG-ACATGTCTTACACTGACTCTCACATATC-AGTGCCAATG
* * * *
54094180 CATGTCCCAGACATGTCTTACACT-AGCTCT--CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGA-CTCTCACATATCAGTGCCAATG
* * *
54094226 CCATGTCCCAGACATGATCATACACT-AGCTCTCATA-AT--GTGGCCGATG
1 -CATGTCCCAGACATG-TCTTACACTGA-CTCTCACATATCAGT-GCCAATG
54094274 CATGTCCCAG-CATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
54094295 ATAGCACACA
Statistics
Matches: 173, Mismatches: 17, Indels: 37
0.76 0.07 0.16
Matches are distributed among these distances:
44 11 0.06
45 22 0.13
46 62 0.36
47 29 0.17
48 22 0.13
49 1 0.01
50 26 0.15
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGACTCTCACATATCAGTGCCAATG
Found at i:54094250 original size:94 final size:92
Alignment explanation
Indices: 54094009--54094302 Score: 255
Period size: 94 Copynumber: 3.2 Consensus size: 92
54093999 GGGTGCTACA
* * * * *
54094009 CTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACA
1 CTTACACTAGCACATTC-TCAAGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCT-ACA
*
54094074 TATC-AGTGCCAATGCCATGTCCCAAACATGGT
63 TATCGAG-GCCAATG-CATGTCCCAGACAT-GT
* ** *
54094106 CTTACACT-GACACATTTTGTAGCCAATG-CATGTCCC-GAACATGTCTTACACTGGCT-TACAT
1 CTTACACTAG-CACATTCTCAAGCCGATGCCATGTCCCAG-ACATGTCTTACACTGGCTCTACAT
*
54094167 CTCGAGGCCAATGCATGTCCCAGACATGT
64 ATCGAGGCCAATGCATGTCCCAGACATGT
* * *
54094196 CTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAGACATGATCATACACTAGCTCT-C
1 CTTACACTAGCACAT--TCTCAA-GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTCTAC
* *
54094259 ATAAT-GTGGCCGATGCATGTCCCAG-CATGT
62 AT-ATCGAGGCCAATGCATGTCCCAGACATGT
*
54094289 CTTACAATAGCACA
1 CTTACACTAGCACA
54094303 CAAATGACCC
Statistics
Matches: 162, Mismatches: 22, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
89 1 0.01
90 12 0.07
91 17 0.10
92 19 0.12
93 32 0.20
94 47 0.29
95 14 0.09
96 8 0.05
97 12 0.07
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (92 bp):
CTTACACTAGCACATTCTCAAGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTACATAT
CGAGGCCAATGCATGTCCCAGACATGT
Found at i:54094271 original size:48 final size:46
Alignment explanation
Indices: 54094172--54094299 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 46
54094162 TACATCTCGA
* * *
54094172 GGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCATACACTAGCTCTCG-ATCAAT
54094219 -GCCGATGCCATGTCCCAGACATGATCATACACTAGCTCTC-AT-AATGT
1 GGCCGATG-CATGTCCCAGACATG-TCATACACTAGCTCTCGATCAA--T
* *
54094266 GGCCGATGCATGTCCCAG-CATGTCTTACAATAGC
1 GGCCGATGCATGTCCCAGACATGTCATACACTAGC
54094300 ACACAAATGA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
45 12 0.17
46 11 0.15
47 26 0.37
48 22 0.31
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCATACACTAGCTCTCGATCAAT
Found at i:54098852 original size:47 final size:47
Alignment explanation
Indices: 54098780--54099047 Score: 237
Period size: 47 Copynumber: 5.7 Consensus size: 47
54098770 TGATTTGTGC
* *
54098780 GCCAGTATAAGACATGTATGGGACATGCTTCGGC-TGCACTATGAGA
1 GCCAGTATAAGACATGTCTGGGACATGCATCGGCATGCACTATGAGA
* * ** *
54098826 GCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATCCA-GACAAGG
1 GCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCATGCACTATGAGA
* * * * * *
54098874 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCAT--ATTATGAGT
1 GCCAGTATAAGACATGTCTGGGACATGCATC-GGCATGCACTATGAGA
54098920 GCCAG-AGTAAGACATGTCTGGGACATGCATCGGCAT-CGAC-A-GAGATA
1 GCCAGTA-TAAGACATGTCTGGGACATGCATCGGCATGC-ACTATGAG--A
* * * *
54098967 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGA
1 GCCAGTATAAGACATGTCTGGGACATGCATCGGCATGCA-CTATGAGA
54099015 GCCAGTATAAGACCATGTCTGGGACATGGCATC
1 GCCAGTATAAGA-CATGTCTGGGACAT-GCATC
54099048 CGCAATTTAT
Statistics
Matches: 179, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
45 8 0.04
46 47 0.26
47 65 0.36
48 33 0.18
49 18 0.10
50 8 0.04
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
GCCAGTATAAGACATGTCTGGGACATGCATCGGCATGCACTATGAGA
Found at i:54098984 original size:93 final size:93
Alignment explanation
Indices: 54098780--54099047 Score: 332
Period size: 93 Copynumber: 2.8 Consensus size: 93
54098770 TGATTTGTGC
* * * *
54098780 GCCAGTATAAGACATGTATGGGACATGCTTCGGCTGCA-CTATGAGAGCCAGTATAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGC--CATATATGAGAGCCAGTATAAGACCATGT
*
54098844 CTGGGACATGGCATCGGCATCCAGACAAGG
64 CTGGGACATGGCATCGGCATCCAGACAAGA
* *
54098874 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGTGCCAG-AGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCATA-TATGAGAGCCAGTA-TAAGACCATGT
54098937 CTGGGACAT-GCATCGGCAT-C-GACAGAGATA
64 CTGGGACATGGCATCGGCATCCAGACA-AG--A
*
54098967 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCCAGTATAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCAG--C-CATATATGAGAGCCAGTATAAGACCATG
54099032 TCTGGGACATGGCATC
63 TCTGGGACATGGCATC
54099048 CGCAATTTAT
Statistics
Matches: 152, Mismatches: 10, Indels: 21
0.83 0.05 0.11
Matches are distributed among these distances:
90 4 0.03
91 3 0.02
92 12 0.08
93 46 0.30
94 46 0.30
95 17 0.11
96 19 0.12
97 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATATGAGAGCCAGTATAAGACCATGTCT
GGGACATGGCATCGGCATCCAGACAAGA
Done.