Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 37 of 295
Found at i:10944921 original size:130 final size:130
Alignment explanation
Indices: 10944757--10944995 Score: 397
Period size: 130 Copynumber: 1.8 Consensus size: 130
10944747 AATTTACAAC
10944757 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGG
*
10944822 GTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGAT
66 GTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGAT
* * * *
10944887 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGG
** * *
10944952 GTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGTAGTAGGG
66 GTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGG
10944996 AAATAGATCG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 100 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (130 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGG
GTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGAT
Found at i:10944943 original size:87 final size:87
Alignment explanation
Indices: 10944851--10945064 Score: 304
Period size: 87 Copynumber: 2.4 Consensus size: 87
10944841 GACCTTAAAT
* * *
10944851 CCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGATCTTAACCCCCTAAGTAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATGTACAGATCTTAAACCCCTAAGTAGTAGGGAAACAGA
* *
10944916 TCGAAGATGATGGGCTTTAACC
66 TCGAAGATGATCGGCCTTAACC
* * * *
10944938 TCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGTAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATGTACAGATCTTAAACCCCTAAGTAGTAGGGAAACAGA
*
10945003 TCGAGGATGATCGGCCTTAACC
66 TCGAAGATGATCGGCCTTAACC
*
10945025 CCCTAAGCAGTAGGGTAATAGGCTGAAAAT-TACAGATCTT
1 CCCTAAGCAGTAGGGTAACAGGCTG--AATGTACAGATCTT
10945065 GTCTTCCTGA
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
87 99 0.88
88 10 0.09
89 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATGTACAGATCTTAAACCCCTAAGTAGTAGGGAAACAGA
TCGAAGATGATCGGCCTTAACC
Found at i:10945304 original size:42 final size:42
Alignment explanation
Indices: 10945258--10945338 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
10945248 GAAATGGCGT
* *
10945258 TGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAG
1 TGGAGCGGATAAAAGCCACAGCAGAACTCCTTGAAGTTTTAG
** **
10945300 TGGAGTTGATTGAAGCCACAGCAGAACTCCTTGAAGTTT
1 TGGAGCGGATAAAAGCCACAGCAGAACTCCTTGAAGTTT
10945339 CAACGAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (42 bp):
TGGAGCGGATAAAAGCCACAGCAGAACTCCTTGAAGTTTTAG
Found at i:10947098 original size:41 final size:41
Alignment explanation
Indices: 10946898--10947100 Score: 232
Period size: 41 Copynumber: 5.0 Consensus size: 41
10946888 GTAAAACACA
*** * *
10946898 GAGCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAA-ACA
1 GAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAGTCG
* * * * * *
10946938 AAGCAATAGCTGCGTTTTTTGTTAAAACGCCGCTAAAA-ACA
1 GAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGTCG
*
10946979 GAGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
10947020 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* * *
10947061 GAGCATTAGCAGCGCTTTTGGTAAAACGCTGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
10947101 ATATAACCCC
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 32 0.22
41 108 0.75
42 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
Found at i:10947181 original size:37 final size:37
Alignment explanation
Indices: 10947139--10947210 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
10947129 AAAAATCATG
* *
10947139 AACACTAATCTATAACTCCTAAAATACTAAACCCCTA
1 AACACTAAACTATAACTCCTAAAACACTAAACCCCTA
* *
10947176 AACACTAAACTATAACTTCTAAAACCCTAAACCCC
1 AACACTAAACTATAACTCCTAAAACACTAAACCCC
10947211 AAAAAACGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (37 bp):
AACACTAAACTATAACTCCTAAAACACTAAACCCCTA
Found at i:10947375 original size:15 final size:15
Alignment explanation
Indices: 10947325--10947389 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 15
10947315 TATTTTTTGG
10947325 TTTATGGTTTAA--T
1 TTTATGGTTTAAGGT
*
10947338 ATTTAAGGTTTAAGG-
1 -TTTATGGTTTAAGGT
* *
10947353 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
10947368 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
10947383 TTAATGG
1 TTTATGG
10947390 CCATGGGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 22 0.54
15 19 0.46
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:10947386 original size:7 final size:7
Alignment explanation
Indices: 10947323--10947386 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
10947313 TTTATTTTTT
*
10947323 GGTTTAT
1 GGTTTAA
10947330 GGTTTAA
1 GGTTTAA
**
10947337 TATTTAA
1 GGTTTAA
10947344 GGTTTAA
1 GGTTTAA
* *
10947351 GGTCTAT
1 GGTTTAA
*
10947358 GGTTTAG
1 GGTTTAA
*
10947365 GGTTTTAT
1 GG-TTTAA
10947373 GGTTTAA
1 GGTTTAA
10947380 GGTTTAA
1 GGTTTAA
10947387 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (7 bp):
GGTTTAA
Found at i:10947988 original size:7 final size:7
Alignment explanation
Indices: 10947978--10948017 Score: 71
Period size: 7 Copynumber: 5.6 Consensus size: 7
10947968 AAATAAACTC
10947978 AAAATTT
1 AAAATTT
10947985 AAAAATTT
1 -AAAATTT
10947993 AAAATTT
1 AAAATTT
10948000 AAAATTT
1 AAAATTT
10948007 AAAATTT
1 AAAATTT
10948014 AAAA
1 AAAA
10948018 ATAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:10947991 original size:8 final size:8
Alignment explanation
Indices: 10947978--10948053 Score: 72
Period size: 8 Copynumber: 10.1 Consensus size: 8
10947968 AAATAAACTC
10947978 AAAATTTA
1 AAAATTTA
10947986 AAAATTT-
1 AAAATTTA
10947993 AAAATTT-
1 AAAATTTA
10948000 AAAATTT-
1 AAAATTTA
10948007 AAAATTTA
1 AAAATTTA
10948015 AAAA--TA
1 AAAATTTA
* *
10948021 AAAAATAA
1 AAAATTTA
* *
10948029 AAAAATAA
1 AAAATTTA
*
10948037 AAAACTTA
1 AAAATTTA
10948045 AAAATTTA
1 AAAATTTA
10948053 A
1 A
10948054 TATTTAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
6 6 0.10
7 21 0.34
8 34 0.56
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATTTA
Found at i:10947998 original size:15 final size:15
Alignment explanation
Indices: 10947978--10948060 Score: 87
Period size: 15 Copynumber: 5.6 Consensus size: 15
10947968 AAATAAACTC
10947978 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
10947993 AAAATTT-AAAATTT
1 AAAATTTAAAAATTT
**
10948007 AAAATTTAAAAATAA
1 AAAATTTAAAAATTT
** **
10948022 AAAATAAAAAAATAA
1 AAAATTTAAAAATTT
*
10948037 AAAACTTAAAAATTT
1 AAAATTTAAAAATTT
*
10948052 AATATTTAA
1 AAAATTTAA
10948061 TATTTTAGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 14 0.25
15 42 0.75
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTTAAAAATTT
Found at i:10948156 original size:20 final size:18
Alignment explanation
Indices: 10948124--10948165 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
10948114 CCAAAAGAAA
*
10948124 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAAAAT-TT
10948143 AAAAATAAAAAAAAAATTT
1 AAAAAT-AAAAAAAAATTT
10948162 AAAA
1 AAAA
10948166 TTAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAAAAAATTT
Found at i:10952383 original size:43 final size:43
Alignment explanation
Indices: 10952318--10952453 Score: 209
Period size: 43 Copynumber: 3.2 Consensus size: 43
10952308 TATCATAATT
* ** * *
10952318 TTTAGCGGCGTTTGTGAGAAAAGTGCTACAAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
10952361 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
* *
10952404 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
10952447 TTTAGCG
1 TTTAGCG
10952454 ACTTTTTTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
Found at i:10952794 original size:26 final size:26
Alignment explanation
Indices: 10952760--10952815 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
10952750 ATTATCATGA
* *
10952760 ATATTTATTTTTTAAACATTATGTAT
1 ATATATATTTTATAAACATTATGTAT
**
10952786 ATATATATTTTATGTACATTATGTAT
1 ATATATATTTTATAAACATTATGTAT
10952812 ATAT
1 ATAT
10952816 TTTAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (26 bp):
ATATATATTTTATAAACATTATGTAT
Found at i:10952829 original size:21 final size:22
Alignment explanation
Indices: 10952787--10952838 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
10952777 ATTATGTATA
*
10952787 TATATATTTTATGTACATTATG
1 TATATATTTTATATACATTATG
*
10952809 TATATATTTTA-ATATATTATG
1 TATATATTTTATATACATTATG
**
10952830 CGTATATTT
1 TATATATTT
10952839 CGTTTTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (22 bp):
TATATATTTTATATACATTATG
Found at i:10960431 original size:19 final size:19
Alignment explanation
Indices: 10960409--10960455 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
10960399 AGCAAATTAG
10960409 TCCTTTCTGTTCAAAATCA
1 TCCTTTCTGTTCAAAATCA
10960428 TCCTTTCTGTTCAAAATCA
1 TCCTTTCTGTTCAAAATCA
10960447 TCCGTTTCT
1 TCC-TTTCT
10960456 ATCATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.21, C:0.28, G:0.06, T:0.45
Consensus pattern (19 bp):
TCCTTTCTGTTCAAAATCA
Found at i:10962537 original size:31 final size:30
Alignment explanation
Indices: 10962502--10962566 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
10962492 GTTGTTATAT
* * *
10962502 ACATGAAAATTTCATTTTGCTTTGGTGGTAA
1 ACATGAAAATTTAATTTTGATTTAGT-GTAA
* *
10962533 ACATGATATTTTAATTTTGATTTAGTGTAA
1 ACATGAAAATTTAATTTTGATTTAGTGTAA
10962563 ACAT
1 ACAT
10962567 TTTAAGAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (30 bp):
ACATGAAAATTTAATTTTGATTTAGTGTAA
Found at i:10963242 original size:20 final size:20
Alignment explanation
Indices: 10963198--10963242 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
10963188 TATACATTTC
*
10963198 TTTTAAAAAAAAAACACACA
1 TTTTTAAAAAAAAACACACA
*
10963218 ATTTTAAAAAAAAACACACA
1 TTTTTAAAAAAAAACACACA
10963238 TTTTT
1 TTTTT
10963243 CTTTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTTAAAAAAAAACACACA
Found at i:10968454 original size:18 final size:20
Alignment explanation
Indices: 10968408--10968454 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
10968398 AGTTTTAGTC
* *
10968408 TCAAGTTTTGATTCTCAGGT
1 TCAAATTTTGATTCTCAGGG
*
10968428 TCAATTTTTGA-TCTC-GGG
1 TCAAATTTTGATTCTCAGGG
10968446 TCAAATTTT
1 TCAAATTTT
10968455 CAAGTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.42
19 4 0.17
20 10 0.42
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (20 bp):
TCAAATTTTGATTCTCAGGG
Found at i:10969845 original size:15 final size:15
Alignment explanation
Indices: 10969825--10969855 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10969815 ATTTCCCAAC
*
10969825 AACCCTATGTTTTCA
1 AACCCTATATTTTCA
10969840 AACCCTATATTTTCA
1 AACCCTATATTTTCA
10969855 A
1 A
10969856 GATATCCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (15 bp):
AACCCTATATTTTCA
Found at i:10971249 original size:27 final size:27
Alignment explanation
Indices: 10971175--10971237 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10971165 AAGATTCAAC
* *
10971175 ATAAATAAAATAT-AA-ACAATTTGAA
1 ATAAATAATATATAAAGAAAATTTGAA
*
10971200 ATAAATAATATATAAAGAAAATTTTAA
1 ATAAATAATATATAAAGAAAATTTGAA
10971227 ATAAATAATAT
1 ATAAATAATAT
10971238 GCTAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 12 0.36
26 2 0.06
27 19 0.58
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (27 bp):
ATAAATAATATATAAAGAAAATTTGAA
Found at i:10971453 original size:28 final size:28
Alignment explanation
Indices: 10971400--10971454 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10971390 TATATAAAAG
*
10971400 TTTTAAAATAAAGAATATATAAAAAATA
1 TTTTAAAATAAAGAATACATAAAAAATA
*
10971428 TTTTAAAAT-AAGTAATACATAGAAAAT
1 TTTTAAAATAAAG-AATACATAAAAAAT
10971455 TCAAAACGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
TTTTAAAATAAAGAATACATAAAAAATA
Found at i:10971925 original size:3 final size:3
Alignment explanation
Indices: 10971910--10971986 Score: 70
Period size: 3 Copynumber: 26.7 Consensus size: 3
10971900 GAATATAAAT
* * *
10971910 ATA ATA CTA ATA ATA ATA AT- ATA ATA ATG ATA ATA GTA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
10971955 ACA ACA ACA ACA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10971987 GTAAATAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 6 0.09
3 59 0.91
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:10972076 original size:3 final size:3
Alignment explanation
Indices: 10972065--10972301 Score: 95
Period size: 3 Copynumber: 80.3 Consensus size: 3
10972055 TGATGATAGC
* * * *
10972065 AAT AGT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
10972109 ACATT AAT AAG AAT AAT AAT AGT -AT ATT AAT AAT AAC AAT AAT AA-
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
10972154 AA- AAT AAT GAT AA- AAT AAT AAT AAT AA- AA- AACT AAGG AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT
* * * *
10972197 AAT AAT ACT AAC AAT AAT -AT AAAT AAT AAT AA- AAGC AAG AGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT A-AT AAT
** * * * *
10972242 AGC AAC AAT AAT AGT AAT AA- GAG AAT AA- AAGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
**
10972286 AAT AGC AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
10972302 GAATTAACAA
Statistics
Matches: 174, Mismatches: 41, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
2 22 0.13
3 136 0.78
4 14 0.08
5 2 0.01
ACGTcount: A:0.63, C:0.04, G:0.08, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:10972312 original size:18 final size:18
Alignment explanation
Indices: 10972291--10972330 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
10972281 ATAATAATAG
*
10972291 CAATAATAATAGAATTAA-
1 CAATAA-AATAAAATTAAT
10972309 CAATAAAATAAAATTAAT
1 CAATAAAATAAAATTAAT
10972327 CAAT
1 CAAT
10972331 TTTAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (18 bp):
CAATAAAATAAAATTAAT
Found at i:10972323 original size:17 final size:19
Alignment explanation
Indices: 10972274--10972344 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 19
10972264 GAATAAAAGT
*
10972274 AATAATAATAATAA-T-AGC
1 AATAATAATAA-AATTAATC
*
10972292 AATAATAATAGAATTAA-C
1 AATAATAATAAAATTAATC
10972310 AATAA-AATAAAATTAATC
1 AATAATAATAAAATTAATC
10972328 AATTTTAATAATAAAAT
1 AA---TAATAATAAAAT
10972345 AGCAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 12 0.27
18 20 0.45
19 1 0.02
21 3 0.07
22 8 0.18
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (19 bp):
AATAATAATAAAATTAATC
Found at i:10978907 original size:20 final size:20
Alignment explanation
Indices: 10978873--10978923 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
10978863 TACTAACATG
10978873 TATATATAC-TATA-TATTTT
1 TATATATACGTATACT-TTTT
10978892 TATTATATTACGTATACTTTTT
1 TA-TATA-TACGTATACTTTTT
10978914 TATATATACG
1 TATATATACG
10978924 CTATTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.07
20 8 0.29
21 7 0.25
22 10 0.36
23 1 0.04
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (20 bp):
TATATATACGTATACTTTTT
Found at i:10992838 original size:44 final size:44
Alignment explanation
Indices: 10992789--10992875 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
10992779 ATCGAGATAT
10992789 TTACTCCTTTGTTGCTCGCGTTTTCAAATTAATCCCCTTTTTCC
1 TTACTCCTTTGTTGCTCGCGTTTTCAAATTAATCCCCTTTTTCC
10992833 TTACTCCTTTGTTGCTCGCGTTTTCAAATTAATCCCCTTTTTC
1 TTACTCCTTTGTTGCTCGCGTTTTCAAATTAATCCCCTTTTTC
10992876 ATTTTTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.14, C:0.29, G:0.09, T:0.48
Consensus pattern (44 bp):
TTACTCCTTTGTTGCTCGCGTTTTCAAATTAATCCCCTTTTTCC
Found at i:10993557 original size:21 final size:22
Alignment explanation
Indices: 10993532--10993579 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
10993522 TTACTAACAT
*
10993532 TTATATATAC-TATATATTTTA
1 TTATATATACGTATACATTTTA
*
10993553 TTATAT-TACGTATACGTTTTA
1 TTATATATACGTATACATTTTA
10993574 -TATATA
1 TTATATA
10993580 CGCTATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (22 bp):
TTATATATACGTATACATTTTA
Found at i:10997159 original size:3 final size:3
Alignment explanation
Indices: 10997151--10997187 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10997141 AGTAAATTAA
10997151 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10997188 GGATATGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11004172 original size:43 final size:43
Alignment explanation
Indices: 11004003--11004173 Score: 123
Period size: 43 Copynumber: 4.0 Consensus size: 43
11003993 TAGGATTTTT
* ** * * *
11004003 GATATTTGATTTCATGTAAGAAAACATCTGGGACATTGGCATT
1 GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCATC
* * * * * *
11004046 GAT-TTGAGATTTACGTGTAAGACCATGCCTAAGACATCGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGAGACATTGGCATC
* * * * * *
11004090 G-TATTTGATTTCGTATAAGACC-CTGTTTGGGACAGTGGCATC
1 GATATTTGATTACATGTAAGACCAC-GTCTGAGACATTGGCATC
*
11004132 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
11004174 TGTAAGAGCT
Statistics
Matches: 93, Mismatches: 29, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
42 27 0.29
43 39 0.42
44 27 0.29
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCATC
Found at i:11012340 original size:62 final size:62
Alignment explanation
Indices: 11012237--11012361 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
11012227 TTTTTTTTTT
* *
11012237 GCATTCATGCATCAACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
* * * *
11012299 GCATTCATGCATCAACACTACGTTTCATTGCATACAGTAAATTTCCTAAAATCCAAAAGTAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
11012361 G
1 G
11012362 TCGAGTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (62 bp):
GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
Found at i:11014099 original size:12 final size:12
Alignment explanation
Indices: 11014077--11014133 Score: 69
Period size: 12 Copynumber: 4.4 Consensus size: 12
11014067 CTTCACTTAA
11014077 AAAAAACGAAAAG
1 AAAAAA-GAAAAG
*
11014090 AAAAATGAAAAAATG
1 AAAAA--AGAAAA-G
11014105 AAAAAAGAAAAG
1 AAAAAAGAAAAG
11014117 AAAAAAGAAAAG
1 AAAAAAGAAAAG
11014129 AAAAA
1 AAAAA
11014134 GGAGAGGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 18 0.46
13 10 0.26
14 4 0.10
15 7 0.18
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.04
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:11015673 original size:97 final size:97
Alignment explanation
Indices: 11015509--11015801 Score: 536
Period size: 97 Copynumber: 3.0 Consensus size: 97
11015499 GCAGCGAAGC
*
11015509 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
11015572 ATCTCCCTGCATTTGGCAGTAGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTAGAATAGATTGA
11015604 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
11015669 ATCTCCCTGTATTTGGCAGTAGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTAGAATAGATTGA
*
11015701 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGTCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
11015766 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTAGAATAGATTGA
11015798 AGAT
1 AGAT
11015802 TGCAGATCTT
Statistics
Matches: 192, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
95 27 0.14
97 165 0.86
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (97 bp):
AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTAGAATAGATTGA
Found at i:11015885 original size:231 final size:230
Alignment explanation
Indices: 11015604--11016030 Score: 748
Period size: 231 Copynumber: 1.8 Consensus size: 230
11015594 AATAGATTGA
* *
11015604 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
* *
11015669 ATCTCCCTGTATTTGGCAGTAGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCATGTGA
65 ATCTCCCTGCATTTGGCAGTAGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCC--CTGA
* *
11015734 CTACAGTGGAGTACATTGAAGTCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
128 CTACAGTGGAGTACATTGAAGCCAATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
11015799 GATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
193 GATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
*
11015837 AGATCAAAGATGGCAGATTTTACCTCC-CTGACCACAGTGGAGTACATTGAAGTCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
*
11015901 TCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
66 TCTCCCTGCATTTGGCAGTAGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
11015966 CAGTGGAGTACATTGAAGCCAATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
131 CAGTGGAGTACATTGAAGCCAATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
11016031 CAAAGATGGC
Statistics
Matches: 186, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
229 69 0.37
231 90 0.48
233 27 0.15
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (230 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGCATTTGGCAGTAGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
CAGTGGAGTACATTGAAGCCAATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
Found at i:11015922 original size:45 final size:44
Alignment explanation
Indices: 11015871--11016028 Score: 113
Period size: 45 Copynumber: 3.4 Consensus size: 44
11015861 TCCCTGACCA
*
11015871 CAGTGGAGTACATTGAAGTCGATAACTCTATCTCCCTGCATTTGG
1 CAGTGGAATACATTGAAGTCGATAACTCTATCTCCCTG-ATTTGG
* * * * * *
11015916 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA-CT-A
1 CAGTGGAATACATTGAAG-TC---GAT---A-ACTCTATCTCCCTGATTTGG
* * *
11015966 CAGTGGAGTACATTGAAGCCAATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGTCGATAACTCTATCTCCCTG-ATTTGG
*
11016011 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
11016029 ATCAAAGATG
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
44 1 0.01
45 32 0.38
46 4 0.05
49 4 0.05
50 16 0.19
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
CAGTGGAATACATTGAAGTCGATAACTCTATCTCCCTGATTTGG
Found at i:11015945 original size:95 final size:95
Alignment explanation
Indices: 11015837--11016075 Score: 433
Period size: 95 Copynumber: 2.5 Consensus size: 95
11015827 GCAGCGAAGC
* * *
11015837 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGTCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAACTCTAT
11015902 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
11015932 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAACTCTAT
*
11015997 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
11016027 AGATCAAAGATGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTG
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTG
11016076 GAGCTGATAG
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 139 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:11015981 original size:50 final size:50
Alignment explanation
Indices: 11015916--11016075 Score: 147
Period size: 50 Copynumber: 3.3 Consensus size: 50
11015906 CTGCATTTGG
* *
11015916 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGATTA
* * * * * *
11015966 CAGTGGAGTACATTGAAG--C-CA-AT---A-ACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-TT-A
*
11016011 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGATTA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGATTA
*
11016061 CAGTGGAGTACATTG
1 CAGTGGAATACATTG
11016076 GAGCTGATAG
Statistics
Matches: 82, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
44 1 0.01
45 16 0.20
46 2 0.02
47 2 0.02
48 2 0.02
49 2 0.02
50 29 0.35
51 2 0.02
52 2 0.02
53 11 0.13
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (50 bp):
CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGATTA
Found at i:11016158 original size:44 final size:45
Alignment explanation
Indices: 11016108--11016549 Score: 386
Period size: 44 Copynumber: 10.0 Consensus size: 45
11016098 GGGCAAGAAA
* * * *
11016108 TAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAA
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* * *
11016152 TGGATCGAAGAT-GCAGATCTTGTCTTCCCAT-TTGGT-GACGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAG-TGAAG
* * * * * *
11016195 TAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* ** *
11016239 TAGATCGAAGATAGCAGGTCCGGTCTTTCTATATTGGTAG-GAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* * * * *
11016283 TGGATCGACGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* * * * *
11016327 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* * * *
11016371 TAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* * * * *
11016415 TGGATCCAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGTGAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* * * * *
11016459 TAGATCGCAAAAAAAACAGATCTTGTATTCATATATTGGT-GTGAAG
1 TAGATCG--AAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
* *
11016505 TAGATCGAAGATAGCAGATCCTGCCTTCCTATATTGGTAG-GAAG
1 TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
11016549 T
1 T
11016550 GGATTGAAAA
Statistics
Matches: 309, Mismatches: 75, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 68 0.22
44 170 0.55
45 29 0.09
46 16 0.05
47 20 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
TAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
Found at i:11016376 original size:132 final size:132
Alignment explanation
Indices: 11016108--11016553 Score: 678
Period size: 132 Copynumber: 3.4 Consensus size: 132
11016098 GGGCAAGAAA
* *
11016108 TAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTT
1 TAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
* *
11016173 GTCTTCCCAT-TTGGTGACGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
11016237 AG
131 AG
* ** * *
11016239 TAGATCGAAGATAGCAGGTCCGGTCTTTCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTT
1 TAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
11016304 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
11016369 AG
131 AG
* * *
11016371 TAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTT
1 TAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
* * * * * * *
11016436 GTCTTCCCATACTGGTGGTGAAGTAGATCGCAAAAAAAACAGATCTTGTATTCATATATTGGTGT
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGC--AGAAAGCAGATCTTGTCTTCATGTATTGGCGT
11016501 GAAG
129 GAAG
**
11016505 TAGATCGAAGATAGCAGATCCTGCCTTCCTATATTGGTAGGAAGTGGAT
1 TAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGAT
11016554 TGAAAACAGA
Statistics
Matches: 286, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
131 68 0.24
132 142 0.50
134 76 0.27
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
TAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
AG
Found at i:11016650 original size:52 final size:52
Alignment explanation
Indices: 11016583--11016749 Score: 154
Period size: 52 Copynumber: 3.3 Consensus size: 52
11016573 CCTGTATTGG
*
11016583 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACTA
1 CAGTGGAATACATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACTA
* * * * * * * *
11016635 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGT-ATTTGG
1 CAGTGGAATACATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGA-CT-A
*
11016680 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACTA
1 CAGTGGAATACATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACTA
*
11016732 CAGTGGAGTACATTGAAG
1 CAGTGGAATACATTGAAG
11016750 CCGATAACTC
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.14
45 17 0.20
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 33 0.39
53 12 0.14
54 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (52 bp):
CAGTGGAATACATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACTA
Found at i:11016695 original size:97 final size:97
Alignment explanation
Indices: 11016566--11016891 Score: 604
Period size: 97 Copynumber: 3.4 Consensus size: 97
11016556 AAAACAGATC
11016566 CTATCTCCCTGTA-TTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGT
1 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGT
11016630 GACTACAGTGGAGTACATTGAAGCCGATAACT
66 GACTACAGTGGAGTACATTGAAGCCGATAACT
11016662 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGT
1 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGT
11016727 GACTACAGTGGAGTACATTGAAGCCGATAACT
66 GACTACAGTGGAGTACATTGAAGCCGATAACT
* *
11016759 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGAGGGCAGATTTTACCTCC--CT
1 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGT
11016822 GACTACAGTGGAGTACATTGAAGCCGATAACT
66 GACTACAGTGGAGTACATTGAAGCCGATAACT
*
11016854 CTATCTCCCTATATTTGGCAGTGGAATAGATTGAAGAT
1 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
11016892 TACAGATCTT
Statistics
Matches: 226, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
95 70 0.31
96 13 0.06
97 143 0.63
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (97 bp):
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGT
GACTACAGTGGAGTACATTGAAGCCGATAACT
Found at i:11020030 original size:27 final size:27
Alignment explanation
Indices: 11019984--11020036 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
11019974 AAGCTCTTTA
*
11019984 AGTGTAATGGGAAGCTTAATTTGACAT
1 AGTGTAATGGGAAGCCTAATTTGACAT
*
11020011 AGTGTAATGGGGAGCCTAATTTGACA
1 AGTGTAATGGGAAGCCTAATTTGACA
11020037 CGACAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (27 bp):
AGTGTAATGGGAAGCCTAATTTGACAT
Found at i:11023463 original size:38 final size:36
Alignment explanation
Indices: 11023421--11023521 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 36
11023411 TATTGGTTGA
*
11023421 ATGCCTATTGTCACTATTGAATTGACTACATGTTAAAC
1 ATGCCTATT-TCACTATTGAATT-AATACATGTTAAAC
*
11023459 ATGCCTACTATT-ACTATTGAACTTAATACATGTTAAGC
1 ATGCCTA-T-TTCACTATTGAA-TTAATACATGTTAAAC
* *
11023497 ATGCCAATTTCTACTGTTGAATTAA
1 ATGCCTATTTC-ACTATTGAATTAA
11023522 ACTTTTCTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
36 2 0.04
37 5 0.09
38 42 0.78
39 4 0.07
40 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (36 bp):
ATGCCTATTTCACTATTGAATTAATACATGTTAAAC
Found at i:11024827 original size:31 final size:31
Alignment explanation
Indices: 11024767--11024841 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
11024757 ATTTCTTTAA
* * * *
11024767 ATGTATACAATTGAATCAAAATTAGAGTTTT
1 ATGTATACAATTGAACCAAAATCAAAGTTTC
* *
11024798 ATGTATACATTTGAACCACAATCAAAGTTTC
1 ATGTATACAATTGAACCAAAATCAAAGTTTC
* *
11024829 ATGTGTATAATTG
1 ATGTATACAATTG
11024842 CACTGAATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (31 bp):
ATGTATACAATTGAACCAAAATCAAAGTTTC
Found at i:11026879 original size:17 final size:18
Alignment explanation
Indices: 11026840--11026882 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11026830 AAAATTCAAA
* *
11026840 AAAAACTTTATAAAAATT
1 AAAAATTTTATAAAAAGT
*
11026858 TAAAATTTTAT-AAAAGT
1 AAAAATTTTATAAAAAGT
11026875 AAAAATTT
1 AAAAATTT
11026883 CTGAAAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAAATTTTATAAAAAGT
Found at i:11030207 original size:15 final size:15
Alignment explanation
Indices: 11030187--11030231 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
11030177 CTACTACATA
*
11030187 TATTATTCTCATTAT
1 TATTATTATCATTAT
11030202 TATTATTATCATTAT
1 TATTATTATCATTAT
*
11030217 TATTACTATCATTAT
1 TATTATTATCATTAT
11030232 AATTTAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATTATCATTAT
Found at i:11033347 original size:29 final size:29
Alignment explanation
Indices: 11033313--11033372 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
11033303 TTGAATAATA
* *
11033313 GAGTGACCATTTTGTAACTTTTCATAGTT
1 GAGTGACAATTTTATAACTTTTCATAGTT
11033342 GAGTGACAATTTTATAACTTTTCATAGTT
1 GAGTGACAATTTTATAACTTTTCATAGTT
11033371 GA
1 GA
11033373 ATAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (29 bp):
GAGTGACAATTTTATAACTTTTCATAGTT
Found at i:11033379 original size:29 final size:29
Alignment explanation
Indices: 11033321--11033379 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
11033311 TAGAGTGACC
* * *
11033321 ATTTTGTAACTTTTCATAGTTGAGTGACA
1 ATTTTATAACTTTTCATAGTTGAATAACA
11033350 ATTTTATAACTTTTCATAGTTGAATAACA
1 ATTTTATAACTTTTCATAGTTGAATAACA
11033379 A
1 A
11033380 AAAGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (29 bp):
ATTTTATAACTTTTCATAGTTGAATAACA
Found at i:11035513 original size:22 final size:22
Alignment explanation
Indices: 11035485--11035528 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11035475 ACATTTATAT
11035485 TTTTTATAT-TTTGATAAATTTA
1 TTTTTATATCTTT-ATAAATTTA
*
11035507 TTTTTATATCTTTATACATTTA
1 TTTTTATATCTTTATAAATTTA
11035529 ATGACAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTATATCTTTATAAATTTA
Found at i:11037779 original size:30 final size:30
Alignment explanation
Indices: 11037745--11037802 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
11037735 TTTTATTATT
11037745 AATTTTGTTATTATTTTAAAGGCATTTGTC
1 AATTTTGTTATTATTTTAAAGGCATTTGTC
*
11037775 AATTTTGTTATTATTTTAGAGGCATTTG
1 AATTTTGTTATTATTTTAAAGGCATTTG
11037803 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGGCATTTGTC
Found at i:11040543 original size:21 final size:21
Alignment explanation
Indices: 11040485--11040599 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
11040475 CGTGTTTTAC
* *
11040485 TTTCTGTTTAGCTCGTAAGAG
1 TTTCTGTTCAGCTCTTAAGAG
* * *
11040506 CTTT-TGTTTAACTCTTATGAG
1 -TTTCTGTTCAGCTCTTAAGAG
* *
11040527 TTTCTATTCAGCTCTTACGAG
1 TTTCTGTTCAGCTCTTAAGAG
* *
11040548 CTTCTGTTCAACTCTTAAGAG
1 TTTCTGTTCAGCTCTTAAGAG
* *
11040569 TTTCTGTTCAGCTCTCACGAG
1 TTTCTGTTCAGCTCTTAAGAG
*
11040590 CTTCTGTTCA
1 TTTCTGTTCA
11040600 ACTTTCGAGC
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
20 3 0.04
21 70 0.92
22 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (21 bp):
TTTCTGTTCAGCTCTTAAGAG
Found at i:11040665 original size:41 final size:41
Alignment explanation
Indices: 11040485--11040720 Score: 149
Period size: 42 Copynumber: 5.7 Consensus size: 41
11040475 CGTGTTTTAC
* * ** * * *
11040485 TTTCTGTTTAGCTCGTAAGAGCTTTTGTTTAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTTGAGCTTCTG-TTAACCCTTATGGG
* ** * * *
11040527 TTTCTATTCAGCTCTTACGAGCTTCTGTTCAACTCTTAAGAG
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTT-AACCCTTATGGG
*** *
11040569 TTTCTGTTCAGCTCTCACGAGCTTCTGTTCAA--CTT-TCGAGC
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTT-AACCCTTAT-G-GG
*
11040610 TTT-AGTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGG
* * *
11040650 TTT-TCGTTCAGCTCTTTTAAGCTTCTATTTGACCCTTATGGG
1 TTTCT-GTTCAGCTCTTTTGAGCTTCT-GTTAACCCTTATGGG
* ** *
11040692 TTTCTGTTTAGCTCTCATGAGTTTCTGTT
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTT
11040721 TAGCCTCCGA
Statistics
Matches: 159, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.01
40 29 0.18
41 31 0.19
42 96 0.60
43 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.45
Consensus pattern (41 bp):
TTTCTGTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGG
Found at i:11040706 original size:42 final size:41
Alignment explanation
Indices: 11040614--11040694 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
11040604 TCGAGCTTTA
*
11040614 GTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGGTTTTC
1 GTTCAGCTCTTTTAAGCTTCTGTTAACCCTTATGGGTTTTC
* *
11040655 GTTCAGCTCTTTTAAGCTTCTATTTGACCCTTATGGGTTT
1 GTTCAGCTCTTTTAAGCTTCT-GTTAACCCTTATGGGTTT
11040695 CTGTTTAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 20 0.56
42 16 0.44
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (41 bp):
GTTCAGCTCTTTTAAGCTTCTGTTAACCCTTATGGGTTTTC
Found at i:11048286 original size:17 final size:18
Alignment explanation
Indices: 11048261--11048300 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11048251 TGTTTTTAGG
* *
11048261 AAAATCATTGTTTGC-AT
1 AAAACCATTGTTTCCAAT
11048278 AAAACCATTGTTTCCAAT
1 AAAACCATTGTTTCCAAT
11048296 AAAAC
1 AAAAC
11048301 GTTTTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAACCATTGTTTCCAAT
Found at i:11049729 original size:6 final size:6
Alignment explanation
Indices: 11049718--11049751 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
11049708 CTTATTATTT
*
11049718 ATTTTG ATTTTG ATTTT- ATTTTG ATTTTT ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
11049752 TTTTCATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (6 bp):
ATTTTG
Found at i:11049735 original size:17 final size:17
Alignment explanation
Indices: 11049715--11049755 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
11049705 TTACTTATTA
11049715 TTTATTTTGATTTTGAT
1 TTTATTTTGATTTTGAT
*
11049732 TTTATTTTGATTTTTAT
1 TTTATTTTGATTTTGAT
11049749 TTT-TTTT
1 TTTATTTT
11049756 CATGTTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (17 bp):
TTTATTTTGATTTTGAT
Found at i:11049746 original size:12 final size:12
Alignment explanation
Indices: 11049718--11049751 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11049708 CTTATTATTT
*
11049718 ATTTTGATTTTG
1 ATTTTTATTTTG
11049730 A-TTTTATTTTG
1 ATTTTTATTTTG
11049741 ATTTTTATTTT
1 ATTTTTATTTT
11049752 TTTTCATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
ATTTTTATTTTG
Found at i:11051661 original size:20 final size:20
Alignment explanation
Indices: 11051636--11051673 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11051626 TTGTATAGGA
*
11051636 TTGCACTTTGGTCCCTCTAT
1 TTGCACATTGGTCCCTCTAT
*
11051656 TTGCACATTGGTTCCTCT
1 TTGCACATTGGTCCCTCT
11051674 GTTAGCAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.29, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGCACATTGGTCCCTCTAT
Found at i:11058131 original size:22 final size:22
Alignment explanation
Indices: 11058105--11058149 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
11058095 AGCCCATGTA
*
11058105 AAGAGGGGCATAC-GCTCGTGTG
1 AAGAGGGGCACACGGC-CGTGTG
11058127 AAGAGGGGCACACGGCCGTGTG
1 AAGAGGGGCACACGGCCGTGTG
11058149 A
1 A
11058150 CTAAGGTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.24, C:0.20, G:0.42, T:0.13
Consensus pattern (22 bp):
AAGAGGGGCACACGGCCGTGTG
Found at i:11059898 original size:27 final size:27
Alignment explanation
Indices: 11059860--11059923 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
11059850 GACTCAGTTT
* *
11059860 GTAAAATCACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
11059887 GTAAAATGACCGTAATACCCTTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
11059914 GTAAAATGAC
1 GTAAAATGAC
11059924 GATTATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:11062758 original size:20 final size:20
Alignment explanation
Indices: 11062733--11062771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11062723 CCTATAGTGT
11062733 AGACAAGCCACCAGTAATGC
1 AGACAAGCCACCAGTAATGC
*
11062753 AGACAAGCTACCAGTAATG
1 AGACAAGCCACCAGTAATG
11062772 TGATAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.26, G:0.21, T:0.13
Consensus pattern (20 bp):
AGACAAGCCACCAGTAATGC
Found at i:11070420 original size:22 final size:23
Alignment explanation
Indices: 11070371--11070420 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
11070361 AATTTCGTAG
11070371 ACCAAAATCGTTGTTTTAATAAA
1 ACCAAAATCGTTGTTTTAATAAA
11070394 A-CAAAAT-GTT-TTATTAA-AATA
1 ACCAAAATCGTTGTT-TTAATAA-A
11070415 ACCAAA
1 ACCAAA
11070421 TTTCTAGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 10 0.42
23 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (23 bp):
ACCAAAATCGTTGTTTTAATAAA
Found at i:11073311 original size:19 final size:19
Alignment explanation
Indices: 11073289--11073325 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11073279 TTGCATTCAT
* *
11073289 TCATTTGCATTACATTTCG
1 TCATATGCATTAAATTTCG
11073308 TCATATGCATTAAATTTC
1 TCATATGCATTAAATTTC
11073326 ATGAAAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (19 bp):
TCATATGCATTAAATTTCG
Found at i:11074477 original size:17 final size:16
Alignment explanation
Indices: 11074429--11074483 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
11074419 TAGGAAATTC
*
11074429 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
11074444 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
11074460 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
11074477 TAATTTT
1 T-ATTTT
11074484 CTTAAGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:11078564 original size:17 final size:17
Alignment explanation
Indices: 11078525--11078572 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
11078515 TAATCCCAAT
*
11078525 TAAATCCAATACCCACA
1 TAAACCCAATACCCACA
* *
11078542 TAAACCCAATACCTATA
1 TAAACCCAATACCCACA
*
11078559 TGAACCCAA-ACCCA
1 TAAACCCAATACCCA
11078573 AATCATCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (17 bp):
TAAACCCAATACCCACA
Found at i:11078763 original size:14 final size:15
Alignment explanation
Indices: 11078744--11078780 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
11078734 TAGGTGACCC
11078744 AAAAGAAAAAAAA-G
1 AAAAGAAAAAAAAGG
11078758 AAAAGAAAAAAAAGG
1 AAAAGAAAAAAAAGG
11078773 AAAA-AAAA
1 AAAAGAAAA
11078781 GGAAGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAGG
Found at i:11081769 original size:17 final size:16
Alignment explanation
Indices: 11081721--11081775 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
11081711 TAGGAAATTC
*
11081721 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
11081736 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
11081752 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
11081769 TAATTTT
1 T-ATTTT
11081776 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:11091301 original size:106 final size:106
Alignment explanation
Indices: 11091108--11091310 Score: 372
Period size: 106 Copynumber: 1.9 Consensus size: 106
11091098 GAAGTTGTAG
11091108 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
*
11091173 ACAAATTTTATCTTCCTAAAGTTGCAGAGGAGCAAACAAAA
66 ACAAATTTTATCTTCCTAAAGTTACAGAGGAGCAAACAAAA
11091214 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
*
11091279 ACAAATTTTATC-TCCTTGAAGTTACAGAGGAG
66 ACAAATTTTATCTTCC-TAAAGTTACAGAGGAG
11091311 AAGATGAAAG
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
105 3 0.03
106 91 0.97
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (106 bp):
TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
ACAAATTTTATCTTCCTAAAGTTACAGAGGAGCAAACAAAA
Found at i:11091336 original size:44 final size:44
Alignment explanation
Indices: 11091281--11091672 Score: 226
Period size: 44 Copynumber: 8.8 Consensus size: 44
11091271 AGATCAAAAC
* * * *
11091281 AAATTTTATCTCCTTGAAGTTACAGAGGAGAAGATGAAAGATAT
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATGAAAGATAT
* * * * * *
11091325 GAATCTTATCTCCCTAAAGTTGCGGTGGAGAAGACTG-AAGATGAC
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGA-TGAAAGAT-AT
* * *
11091370 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTG-AAGCTATAAATT
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGA-TGAAAG--AT--A-T
* * * *
11091419 ATAGATCTCATCTCTCTGAAGTTGCGGTA-GAGCAGAT-CAA-A-AT
1 A-A-ATCTTATCTCCCTGAAGTTGCAG-AGGAGCAGATGAAAGATAT
* * *
11091462 AAATCGTATCTCCCTGAAGTTGCAGAGGAGCATATGAAATATAT
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATGAAAGATAT
* * * *
11091506 GAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAGA-ATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGA-TGAAAGATA-T
* * * **
11091551 AAATCTTATCTCCTTAAAGTTGCAAAGGAGCAGATGAAAGCCAT
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATGAAAGATAT
* ** * * *
11091595 -TATCCTTATCTCCCCAAAGTTGCAGTGGAGTGAGTTGAAA-ATAT
1 AAAT-CTTATCTCCCTGAAGTTGCAGAGGAG-CAGATGAAAGATAT
* * * * *
11091639 GAGTCTCATCTCCTTGAAGTTGCAGTGGAGCAGA
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGA
11091673 CTGGAGTGGG
Statistics
Matches: 267, Mismatches: 61, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 26 0.10
42 3 0.01
43 7 0.03
44 118 0.44
45 78 0.29
47 3 0.01
48 1 0.00
49 1 0.00
50 4 0.01
51 25 0.09
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATGAAAGATAT
Found at i:11091518 original size:181 final size:181
Alignment explanation
Indices: 11091214--11091543 Score: 552
Period size: 181 Copynumber: 1.8 Consensus size: 181
11091204 GCAAACAAAA
11091214 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
** *
11091279 ACAAATTTTATCTCCTTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
66 ACAAATCGTATCTCCCTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
11091344 TTGCGGTGGAGAAGACTGAAGATGACAAATCTTATTTCCCTGAAGTTGCAG
131 TTGCGGTGGAGAAGACTGAAGATGACAAATCTTATTTCCCTGAAGTTGCAG
* *
11091395 TGGAACAGATTGAAGCTATAAATTATAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
* * * * * *
11091460 ATAAATCGTATCTCCCTGAAGTTGCAGAGGAGCATATGAAATATATGAATCTTATCTCCCTGAAG
66 ACAAATCGTATCTCCCTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
*
11091525 TTGCGGTGGAGCAGACTGA
131 TTGCGGTGGAGAAGACTGA
11091544 GAATAGTAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
181 137 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (181 bp):
TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
ACAAATCGTATCTCCCTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
TTGCGGTGGAGAAGACTGAAGATGACAAATCTTATTTCCCTGAAGTTGCAG
Found at i:11091580 original size:89 final size:85
Alignment explanation
Indices: 11091423--11091589 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 85
11091413 TAAATTATAG
* * *
11091423 ATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAAATAAATCGTATCTCCCTGAAGTTGCAGA
1 ATCTCATCTCCCTGAAGTTGCGGTAGAGCAGATCAAAATAAATCGTATCTCCCTAAAGTTGCAAA
*
11091488 GGAGCATATGAAATATATGA
66 GGAGCAGATGAAATATATGA
* * * * *
11091508 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAGAATAGTAAATCTTATCTCCTTAAAGTTG
1 ATCTCATCTCCCTGAAGTTGCGGTAGAGCAGA-TCA-AA-A-TAAATCGTATCTCCCTAAAGTTG
11091573 CAAAGGAGCAGATGAAA
62 CAAAGGAGCAGATGAAA
11091590 GCCATTATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 29 0.42
86 2 0.03
87 2 0.03
88 1 0.01
89 35 0.51
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (85 bp):
ATCTCATCTCCCTGAAGTTGCGGTAGAGCAGATCAAAATAAATCGTATCTCCCTAAAGTTGCAAA
GGAGCAGATGAAATATATGA
Found at i:11091603 original size:89 final size:85
Alignment explanation
Indices: 11091423--11091624 Score: 208
Period size: 89 Copynumber: 2.3 Consensus size: 85
11091413 TAAATTATAG
* * * * *
11091423 ATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAAATAAATCGTATCTCCCTGAAGTTGCAGA
1 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATCAAAATAAATCGTATCTCCCTAAAGTTGCAAA
* * *
11091488 GGAGCATATGAAATATATGA
66 GGAGCAGATGAAAGACATGA
* * *
11091508 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAGAATAGTAAATCTTATCTCCTTAAAGTTG
1 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGA-TCA-AA-A-TAAATCGTATCTCCCTAAAGTTG
* *
11091573 CAAAGGAGCAGATGAAAGCCAT-T
62 CAAAGGAGCAGATGAAAGACATGA
** *
11091596 ATCCTTATCTCCCCAAAGTTGCAGTGGAG
1 AT-CTTATCTCCCTGAAGTTGCGGTGGAG
11091625 TGAGTTGAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
85 29 0.30
86 2 0.02
87 2 0.02
88 3 0.03
89 60 0.62
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (85 bp):
ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATCAAAATAAATCGTATCTCCCTAAAGTTGCAAA
GGAGCAGATGAAAGACATGA
Found at i:11093622 original size:25 final size:24
Alignment explanation
Indices: 11093592--11093664 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 24
11093582 AGGAAACTGA
11093592 ATTATTTATATTACCTATAGTTATT
1 ATTATTTATATTACCTAT-GTTATT
11093617 ATTATTGT-TATTA-CTAT-TTA-T
1 ATTATT-TATATTACCTATGTTATT
*
11093638 ATTTATTTAT-CTACCTATGTT-TT
1 A-TTATTTATATTACCTATGTTATT
11093661 ATTA
1 ATTA
11093665 CAAATTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
21 5 0.12
22 16 0.39
23 4 0.10
24 4 0.10
25 11 0.27
26 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTATTTATATTACCTATGTTATT
Found at i:11093769 original size:3 final size:3
Alignment explanation
Indices: 11093747--11093794 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
11093737 TTATATTTAT
* *
11093747 TTA TTCA TTA TTA CTT- TTA TTA TTA TCA TCA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11093793 TT
1 TT
11093795 TATTTCATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11093802 original size:24 final size:24
Alignment explanation
Indices: 11093743--11093810 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
11093733 TCCCTTATAT
11093743 TTATTTA-TTCATTATTACTTTTA
1 TTATTTATTTCATTATTACTTTTA
*
11093766 TTA-TTATCATCATTATTA-TTATTA
1 TTATTTAT-TTCATTATTACTT-TTA
11093790 TTATTTATTTCATCT-TTACTT
1 TTATTTATTTCAT-TATTACTT
11093811 ATTCATATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 3 0.08
23 5 0.14
24 22 0.59
25 7 0.19
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTTATTTCATTATTACTTTTA
Found at i:11098526 original size:46 final size:46
Alignment explanation
Indices: 11098479--11098706 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
11098469 GCTCTCTGAT
** * *
11098479 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
11098525 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
11098571 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
11098617 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
11098663 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
11098707 TCAAAGATAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:11099006 original size:16 final size:17
Alignment explanation
Indices: 11098987--11099019 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11098977 ATGATGAAAC
11098987 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
11099003 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
11099020 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:11101829 original size:90 final size:89
Alignment explanation
Indices: 11101601--11101829 Score: 255
Period size: 89 Copynumber: 2.5 Consensus size: 89
11101591 TTTTTATGGC
* * ** * *
11101601 AAAAG-CCCTTAAA-CTTTTAAAAAAAAGGCAATTAAGTCCCTCCTTTTTTTTTTTGCATTCAAT
1 AAAAGACCCTCAAACCTTTTCAAAAAAA-GCAATTAAG--CC-CCTACTTTTTTTTGCACTAAAT
* * *
11101664 TGAGCACTTAAACTTTTAAAATGCATTA
62 TGAGCACTTAAACTTTCAAAATGAATCA
* * * *
11101692 AAAAGGCCCTCAAACCTTTTCCAAAAAAGTAATTAAGCCCCTACTTTTTTTTGCACTAAATTGGG
1 AAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCACTAAATTGAG
*
11101757 TACTTAAACTTTCAAAATGAATCA
66 CACTTAAACTTTCAAAATGAATCA
* *
11101781 AAAAGACCCTCAAACTTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTT
1 AAAAGACCCTCAAAC-CTTTTCAAAAAAAGCAATTAAGCCCCTACTTTT
11101830 ATTAAAAATT
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
89 55 0.47
90 31 0.26
91 5 0.04
92 15 0.13
93 11 0.09
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (89 bp):
AAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCACTAAATTGAG
CACTTAAACTTTCAAAATGAATCA
Found at i:11101849 original size:11 final size:11
Alignment explanation
Indices: 11101833--11101857 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11101823 TGCTTTTATT
11101833 AAAAATTATAA
1 AAAAATTATAA
11101844 AAAAATTATAA
1 AAAAATTATAA
11101855 AAA
1 AAA
11101858 GTTAAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:11101979 original size:27 final size:27
Alignment explanation
Indices: 11101926--11102001 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
11101916 AAAATTAGAA
* * * *
11101926 AAATATAAAAATTTGTAGAATTTTATAA
1 AAATATAAAAATTTATA-AAATATATAG
11101954 AAATCATAAAAAATTTATAAAATATATAG
1 AAAT-AT-AAAAATTTATAAAATATATAG
*
11101983 AAATATAAAATTTTATAAA
1 AAATATAAAAATTTATAAA
11102002 GTCATTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.29
28 6 0.15
29 13 0.32
30 10 0.24
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (27 bp):
AAATATAAAAATTTATAAAATATATAG
Found at i:11102040 original size:48 final size:47
Alignment explanation
Indices: 11101944--11102042 Score: 128
Period size: 48 Copynumber: 2.1 Consensus size: 47
11101934 AAATTTGTAG
* *
11101944 AATTTTATAAAAATCATAAAAAATTTATAAAATATATAGAAATATAA
1 AATTTTATAAAAATCATAAAAAATTTACAAAATATAAAGAAATATAA
* * *
11101991 AATTTTAT-AAAGTCATTAGAAAATTATACAAAATGTAAAGAAATATAA
1 AATTTTATAAAAATCA-TAAAAAATT-TACAAAATATAAAGAAATATAA
11102039 AATT
1 AATT
11102043 ATCGTACCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 6 0.13
47 16 0.36
48 23 0.51
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (47 bp):
AATTTTATAAAAATCATAAAAAATTTACAAAATATAAAGAAATATAA
Found at i:11102099 original size:17 final size:17
Alignment explanation
Indices: 11102060--11102102 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
11102050 CAAAAGAAGC
*
11102060 ATTTTATATTTTTTTAT
1 ATTTTTTATTTTTTTAT
*
11102077 AATTTTTATTTATTTT-T
1 ATTTTTTATTT-TTTTAT
11102094 ATTTTTTAT
1 ATTTTTTAT
11102103 CATTTTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTATTTTTTTAT
Found at i:11102266 original size:17 final size:19
Alignment explanation
Indices: 11102246--11102281 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11102236 ATAAAAAATT
11102246 ATAA-TTTT-TAAAATTTA
1 ATAATTTTTCTAAAATTTA
11102263 ATAATTTTTCTAAAATTTA
1 ATAATTTTTCTAAAATTTA
11102282 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTTTTCTAAAATTTA
Found at i:11102506 original size:85 final size:84
Alignment explanation
Indices: 11102330--11102537 Score: 258
Period size: 85 Copynumber: 2.5 Consensus size: 84
11102320 AAAAGCGGAG
* * * *
11102330 GCTTAATTGATTTTTTGAAAAATTTTGAAGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCA
1 GCTTAATTGCTTTTTTGAAAAAGTTTG-AGGGCTTTTTAATGCATTTTGAAAGTTTAAGTACCCA
* * *
11102395 ATTGAGTGAAAAATAAAGGG
65 ATTAAGTGAAAAATAAACGA
* * *
11102415 GTTTAATTGCTTTTTTGAATAAGTTTGAGGGCCTTTTTAATGCATTTTAGAAAGTTTAAGTACTC
1 GCTTAATTGCTTTTTTGAAAAAGTTTGAGGG-CTTTTTAATGCATTTT-GAAAGTTTAAGTACCC
*
11102480 AATTAAGTGTAAAA-AAACGA
64 AATTAAGTGAAAAATAAACGA
*
11102500 GCTTAATTGCTTATTTTAAAAAAG-TTGAGGGCTTTTTA
1 GCTTAATTGCTT-TTTTGAAAAAGTTTGAGGGCTTTTTA
11102538 CACCCTTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
84 10 0.09
85 60 0.57
86 36 0.34
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (84 bp):
GCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTAATGCATTTTGAAAGTTTAAGTACCCAA
TTAAGTGAAAAATAAACGA
Found at i:11103372 original size:11 final size:11
Alignment explanation
Indices: 11103356--11103385 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11103346 TTTGCTTCAG
11103356 TAATTTAACTA
1 TAATTTAACTA
11103367 TAATTTAACTA
1 TAATTTAACTA
11103378 TAATTTAA
1 TAATTTAA
11103386 TCCTGTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTTAACTA
Found at i:11104402 original size:14 final size:16
Alignment explanation
Indices: 11104383--11104417 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11104373 TGATTAAATA
11104383 TAATTTT-A-ATATTT
1 TAATTTTGATATATTT
11104397 TAATTTTGATATATTT
1 TAATTTTGATATATTT
11104413 TAATT
1 TAATT
11104418 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TAATTTTGATATATTT
Found at i:11105155 original size:73 final size:74
Alignment explanation
Indices: 11105072--11105212 Score: 194
Period size: 73 Copynumber: 1.9 Consensus size: 74
11105062 CTTGCTCTTA
* * * *
11105072 TAAACGAAAAAAACATTCAAATTTGTGTATTATTTCGG-GAAAAAATACAATATTGACTAAAATT
1 TAAACGAAAAAAACATTCAAATTTGTGTACTACTTCGGACAAAAAATACAATATTAACTAAAATT
11105136 ATGCTTGTG
66 ATGCTTGTG
* * *
11105145 TAAACGAAAAACATATTCAAATTTGTGTACTGCTTCGGAAACAAAAAATACAATATTAACTAAAA
1 TAAACGAAAAAAACATTCAAATTTGTGTACTACTTCGG--ACAAAAAATACAATATTAACTAAAA
11105210 TTA
64 TTA
11105213 AAGTAGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
73 33 0.57
76 25 0.43
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (74 bp):
TAAACGAAAAAAACATTCAAATTTGTGTACTACTTCGGACAAAAAATACAATATTAACTAAAATT
ATGCTTGTG
Found at i:11105504 original size:29 final size:30
Alignment explanation
Indices: 11105472--11105528 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
11105462 ATGGTTTAAT
11105472 TGCAACTATATACATG-AACTTTGATTTTA
1 TGCAACTATATACATGAAACTTTGATTTTA
* * *
11105501 TGCAATTTTATACATGAAATTTTGATTT
1 TGCAACTATATACATGAAACTTTGATTT
11105529 AATTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (30 bp):
TGCAACTATATACATGAAACTTTGATTTTA
Found at i:11105539 original size:30 final size:29
Alignment explanation
Indices: 11105450--11105531 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
11105440 AATATCAAAA
* *
11105450 TTATACAT-AA-TTATGGTTTAATTGCAACT
1 TTATACATGAACTT-TGATTTAA-TGCAATT
* *
11105479 ATATACATGAACTTTGATTTTATGCAATT
1 TTATACATGAACTTTGATTTAATGCAATT
*
11105508 TTATACATGAAATTTTGATTTAAT
1 TTATACATG-AACTTTGATTTAAT
11105532 TTAATTTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 21 0.49
30 20 0.47
31 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (29 bp):
TTATACATGAACTTTGATTTAATGCAATT
Found at i:11108838 original size:75 final size:77
Alignment explanation
Indices: 11108720--11108869 Score: 214
Period size: 75 Copynumber: 2.0 Consensus size: 77
11108710 ATATGCCATT
* * *
11108720 TGCTTGTATAAACCAAAAAAGCATTAAAATTTGTATGCTGTTTCGAAAAT-AAAAAATACAATAT
1 TGCTCGTATAAACCAAAAAAGCACTAAAATTTGTATACTGTTTCGAAAATAAAAAAATACAATAT
11108784 TGACTAAAATTA
66 TGACTAAAATTA
* * * *
11108796 TGCTCGTATAATCCAAAAAA-CACTCAAATTTGTGTATTGTTTCGAAAATAAAAAAAATACAATA
1 TGCTCGTATAAACCAAAAAAGCACTAAAATTTGTATACTGTTTCGAAAAT-AAAAAAATACAATA
11108860 TTGACTAAAA
65 TTGACTAAAA
11108870 ATAAAGTCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 24 0.37
76 18 0.28
77 23 0.35
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (77 bp):
TGCTCGTATAAACCAAAAAAGCACTAAAATTTGTATACTGTTTCGAAAATAAAAAAATACAATAT
TGACTAAAATTA
Found at i:11112302 original size:63 final size:62
Alignment explanation
Indices: 11112234--11112394 Score: 193
Period size: 62 Copynumber: 2.6 Consensus size: 62
11112224 TTCACATGAT
* * *
11112234 CAGGGACAAGGACGTGTACCCAAGCTGTGTAACTCACTATTTGTA-GTATAAAAA-TCACACGAC
1 CAGGGAC-ACGACGTGTGCCCAGGCTGTGTAACTCACTATTT-TAGGTATAAAAACT-ACACGAC
* * *
11112297 TAGGGACACGA-GTGTGCACCAGGCCGTGTAACTCACTATTTTAGGTATAAAAACTACACGGC
1 CAGGGACACGACGTGTGC-CCAGGCTGTGTAACTCACTATTTTAGGTATAAAAACTACACGAC
*
11112359 CAGGGACACGAGCATGTGCCCAGGCTGTGTAACTCA
1 CAGGGACACGA-CGTGTGCCCAGGCTGTGTAACTCA
11112395 TTGTTTGTGC
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
61 7 0.08
62 49 0.58
63 23 0.27
64 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (62 bp):
CAGGGACACGACGTGTGCCCAGGCTGTGTAACTCACTATTTTAGGTATAAAAACTACACGAC
Found at i:11112410 original size:62 final size:61
Alignment explanation
Indices: 11112252--11112451 Score: 183
Period size: 62 Copynumber: 3.2 Consensus size: 61
11112242 AGGACGTGTA
* * * *
11112252 CCCAAGCTGTGTAACTCACTATTTGTAGTATAAAAA-TCACACGACTAGGGACACGAG--TGTG
1 CCCAGGCTGTGTAACTCA-TTTTTGT-GTATAAAAACT-ACACGGCCAGGGACACGAGCATGTG
*
11112313 CACCAGGCCGTGTAACTCACTATTTTAG-GTATAAAAACTACACGGCCAGGGACACGAGCATGTG
1 C-CCAGGCTGTGTAACTCA-T-TTTT-GTGTATAAAAACTACACGGCCAGGGACACGAGCATGTG
** * * * * *
11112377 CCCAGGCTGTGTAACTCATTGTTTGTGCCTAAAAACCACACAGCCAAGGCACATGGGCATGTG
1 CCCAGGCTGTGTAACTCATT-TTTGTGTATAAAAACTACACGGCC-AGGGACACGAGCATGTG
11112440 CCCAGGCTGTGT
1 CCCAGGCTGTGT
11112452 GGCAGGATAT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
61 3 0.03
62 62 0.53
63 46 0.39
64 6 0.05
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (61 bp):
CCCAGGCTGTGTAACTCATTTTTGTGTATAAAAACTACACGGCCAGGGACACGAGCATGTG
Found at i:11116746 original size:21 final size:22
Alignment explanation
Indices: 11116720--11116772 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
11116710 ATGATGACGG
* *
11116720 ATCTGAG-AGCAATATTAGTTC
1 ATCTGAGTAGAAATATTAGCTC
11116741 ATCTGAGTTTAGAAATATTAGCTC
1 ATCTGAG--TAGAAATATTAGCTC
11116765 ATCTGAGT
1 ATCTGAGT
11116773 GTATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 1 0.04
24 19 0.70
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (22 bp):
ATCTGAGTAGAAATATTAGCTC
Found at i:11116782 original size:24 final size:24
Alignment explanation
Indices: 11116730--11116775 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11116720 ATCTGAGAGC
* *
11116730 AATATTAGTTCATCTGAGTTTAGA
1 AATATTAGCTCATCTGAGTGTAGA
11116754 AATATTAGCTCATCTGAGTGTA
1 AATATTAGCTCATCTGAGTGTA
11116776 TATATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (24 bp):
AATATTAGCTCATCTGAGTGTAGA
Found at i:11117147 original size:21 final size:21
Alignment explanation
Indices: 11117121--11117167 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11117111 TGTACATGAT
*
11117121 ATATATAAAAAAATATACATA
1 ATATATAAAAAAATAGACATA
* *
11117142 ATATATTAAAATATAGACATA
1 ATATATAAAAAAATAGACATA
11117163 ATATA
1 ATATA
11117168 CATAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATATAAAAAAATAGACATA
Found at i:11117177 original size:11 final size:11
Alignment explanation
Indices: 11117098--11117184 Score: 67
Period size: 11 Copynumber: 8.1 Consensus size: 11
11117088 ATATTCAAAG
11117098 TATATACATAA
1 TATATACATAA
*
11117109 TATGTACATGATA
1 TATATACAT-A-A
*
11117122 TATATA-AAAA
1 TATATACATAA
*
11117132 AATATACATAA
1 TATATACATAA
11117143 TATATTA-A-AA
1 TATA-TACATAA
*
11117153 TATAGACAT-A
1 TATATACATAA
11117163 -ATATACATAA
1 TATATACATAA
*
11117173 TATATATATAA
1 TATATACATAA
11117184 T
1 T
11117185 GTTTAAAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
9 8 0.14
10 15 0.25
11 26 0.44
12 4 0.07
13 6 0.10
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (11 bp):
TATATACATAA
Found at i:11117181 original size:55 final size:56
Alignment explanation
Indices: 11117054--11117183 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 56
11117044 TTAATAACAT
* * *
11117054 TACATAAATATATATTGAAAATAAATATATGATAATATTCAAAGTATATACATAATATG
1 TACATAAATATATA-T-AAAATAAATATATCATAATATTCAAAATATAGACATAATA-G
* *
11117113 TACAT-GATATATATAAAA-AAATATA-CATAATATATTAAAATATAGACATAATA-
1 TACATAAATATATATAAAATAAATATATCATAATAT-TCAAAATATAGACATAATAG
11117166 TACATAATATATATATAA
1 TACATAA-ATATATATAA
11117184 TGTTTAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
53 5 0.08
54 7 0.11
55 33 0.53
56 4 0.06
57 1 0.02
58 7 0.11
59 5 0.08
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (56 bp):
TACATAAATATATATAAAATAAATATATCATAATATTCAAAATATAGACATAATAG
Found at i:11119127 original size:87 final size:87
Alignment explanation
Indices: 11118980--11119182 Score: 316
Period size: 87 Copynumber: 2.3 Consensus size: 87
11118970 AGATAGGATA
* * * * *
11118980 GTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAGGGCCCATCGCCTACGATCTGTTTCCCT
1 GTAAATTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTACGATCTGTTTCCCT
11119045 ACTGCTTAAGAGGTTAAGATCT
66 ACTGCTTAAGAGGTTAAGATCT
* * *
11119067 GTAAATTTAGCCTGTTACCCTGCTGCTTAAGGGTTTAAGGCCCATCACCTTCGATTTGTTTCCCT
1 GTAAATTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTACGATCTGTTTCCCT
* *
11119132 ACTGCTTAGGGGGTTAAGATCT
66 ACTGCTTAAGAGGTTAAGATCT
11119154 GTAAATTTAGCCTGTTACCCTACTGCTTA
1 GTAAATTTAGCCTGTTACCCTACTGCTTA
11119183 GGGAGATAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 105 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (87 bp):
GTAAATTTAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTACGATCTGTTTCCCT
ACTGCTTAAGAGGTTAAGATCT
Found at i:11119185 original size:43 final size:43
Alignment explanation
Indices: 11119035--11119182 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
11119025 CGCCTACGAT
* *
11119035 CTGTTTCCCTACTGCTTAAGAGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
* * ** ** * ** * *
11119078 CTGTTACCCTGCTGCTTAAGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAG-C
* * *
11119122 TTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
11119165 CTGTTACCCTACTGCTTA
1 CTGTTACCCTACTGCTTA
11119183 GGGAGATAAG
Statistics
Matches: 75, Mismatches: 29, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
43 46 0.61
44 29 0.39
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
Found at i:11119366 original size:64 final size:64
Alignment explanation
Indices: 11119265--11119392 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
11119255 TCATGTATCT
*
11119265 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
11119329 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
11119393 TTATGAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:11131652 original size:23 final size:21
Alignment explanation
Indices: 11131614--11131656 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
11131604 ATATATAAAT
*
11131614 ACATAATATATTAAAATATAG
1 ACATAATATATAAAAATATAG
11131635 ACATAATATACATAAAAATATA
1 ACATAATAT--ATAAAAATATA
11131657 TATATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
ACATAATATATAAAAATATAG
Found at i:11136618 original size:14 final size:15
Alignment explanation
Indices: 11136599--11136631 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11136589 TCTTGGCACA
11136599 ATTAAAATTAT-TTT
1 ATTAAAATTATATTT
*
11136613 ATTAAATTTATATTT
1 ATTAAAATTATATTT
11136628 ATTA
1 ATTA
11136632 TAACTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAAAATTATATTT
Found at i:11136748 original size:29 final size:30
Alignment explanation
Indices: 11136711--11136797 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 30
11136701 ATTTACAATT
11136711 AAATCTAAATTTTAAATTTTAAAAAATA-AA
1 AAAT-TAAATTTTAAATTTTAAAAAATATAA
**
11136741 AAATTAAATTTCTAAA-AAT-AAAAATATAA
1 AAATTAAATTT-TAAATTTTAAAAAATATAA
*
11136770 AAATTAAATTCTAAATTTATAAAAAATA
1 AAATTAAATTTTAAATTT-TAAAAAATA
11136798 CGTAGCTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 11 0.23
29 20 0.43
30 9 0.19
31 7 0.15
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (30 bp):
AAATTAAATTTTAAATTTTAAAAAATATAA
Found at i:11136757 original size:15 final size:14
Alignment explanation
Indices: 11136739--11136784 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
11136729 TTAAAAAATA
11136739 AAAAATTAAATTTCT
1 AAAAATTAAA-TTCT
* * *
11136754 AAAAATAAAAATAT
1 AAAAATTAAATTCT
11136768 AAAAATTAAATTCT
1 AAAAATTAAATTCT
11136782 AAA
1 AAA
11136785 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATTCT
Found at i:11136770 original size:22 final size:22
Alignment explanation
Indices: 11136722--11136764 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11136712 AATCTAAATT
11136722 TTAAATTTTAAAAAATAAAAAA
1 TTAAATTTTAAAAAATAAAAAA
11136744 TTAAATTTCT-AAAAATAAAAA
1 TTAAATTT-TAAAAAATAAAAA
11136765 TATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAATTTTAAAAAATAAAAAA
Found at i:11139404 original size:13 final size:13
Alignment explanation
Indices: 11139380--11139416 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11139370 AAAGGATTTG
*
11139380 CAATGTGCGGCTT
1 CAATGTGAGGCTT
*
11139393 CATTGTGAGGCTT
1 CAATGTGAGGCTT
11139406 CAATGTGAGGC
1 CAATGTGAGGC
11139417 CATAGAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (13 bp):
CAATGTGAGGCTT
Found at i:11147191 original size:22 final size:21
Alignment explanation
Indices: 11147166--11147207 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11147156 TAATAACAAC
11147166 TAATATATTATTATATT-TTATA
1 TAATATA-TATTA-ATTGTTATA
11147188 TAATATATATTAATTGTTAT
1 TAATATATATTAATTGTTAT
11147208 TAACCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TAATATATATTAATTGTTATA
Found at i:11149785 original size:43 final size:42
Alignment explanation
Indices: 11149628--11149786 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 42
11149618 AATGTGTTAT
*
11149628 CGTGTAAGACCACATCTGGGAAGTTGGCATC-TACTTATGATTTA
1 CGTGTAAGACCACTTCTGGGAAGTTGGCATCGTA-TT-TGA-TTA
* * * *
11149672 CGTGTAAGACTACGTCTGGGACA-TTGGCAACGTATTTGATTT
1 CGTGTAAGACCACTTCTGGGA-AGTTGGCATCGTATTTGATTA
* *
11149714 CGTGTAAGACC-CTGTTTGAGAAAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACT-TCTG-GGAAGTTGGCATCG-TATTTGATTA
* *
11149757 CATGTAAGACCACTTCTGGGACGTTGGCAT
1 CGTGTAAGACCACTTCTGGGAAGTTGGCAT
11149787 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 33 0.35
44 30 0.32
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACTTCTGGGAAGTTGGCATCGTATTTGATTA
Found at i:11155239 original size:96 final size:97
Alignment explanation
Indices: 11155106--11155298 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 97
11155096 TAATTTAATT
* * ** *
11155106 TTTTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCC
1 TTTTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCC
*
11155171 CATCCCAGTTACTCAGCCCAACATACTCTTAA
66 CACCCCAGTTACTCAGCCCAACATACTCTTAA
* * *
11155203 TTTTTATTTTT-CTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGATAGCCAAGTACCT
1 TTTTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCC
* *
11155267 CACCCCGGTTACTCAGCCCAACATATTCTTAA
66 CACCCCAGTTACTCAGCCCAACATACTCTTAA
11155299 AAATTAATTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 74 0.87
97 11 0.13
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (97 bp):
TTTTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCC
CACCCCAGTTACTCAGCCCAACATACTCTTAA
Found at i:11159354 original size:23 final size:22
Alignment explanation
Indices: 11159327--11159383 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
11159317 TCAATTTAAT
11159327 TTAATTTAATTTATTATTATTTA
1 TTAATTTAATTTATTATTA-TTA
*
11159350 TTAATTTACTTTATTATTATTA
1 TTAATTTAATTTATTATTATTA
*
11159372 TTTA-TTAATTTA
1 TTAATTTAATTTA
11159384 CTTTCTCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 7 0.23
22 6 0.19
23 18 0.58
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTTAATTTATTATTATTA
Found at i:11159373 original size:26 final size:28
Alignment explanation
Indices: 11159322--11159387 Score: 109
Period size: 26 Copynumber: 2.4 Consensus size: 28
11159312 TTCTTTCAAT
*
11159322 TTAATTTAATTTAATTTATTATTATTTA
1 TTAATTTACTTTAATTTATTATTATTTA
11159350 TTAATTTACTTT-A-TTATTATTATTTA
1 TTAATTTACTTTAATTTATTATTATTTA
11159376 TTAATTTACTTT
1 TTAATTTACTTT
11159388 CTCTTGGCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
26 25 0.68
27 1 0.03
28 11 0.30
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (28 bp):
TTAATTTACTTTAATTTATTATTATTTA
Found at i:11167978 original size:28 final size:28
Alignment explanation
Indices: 11167909--11167977 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
11167899 ATTAATATCC
*
11167909 AAAATAAAAAT-AAATAATTAAGTAATA
1 AAAATAAAAATAAAATAATAAAGTAATA
11167936 AATAAT-AAAATAAAATAATAAAG-AA-A
1 AA-AATAAAAATAAAATAATAAAGTAATA
11167962 GAAAATAAAAATAAAA
1 -AAAATAAAAATAAAA
11167978 AAAATTTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
26 4 0.11
27 20 0.54
28 13 0.35
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (28 bp):
AAAATAAAAATAAAATAATAAAGTAATA
Found at i:11175520 original size:73 final size:73
Alignment explanation
Indices: 11175437--11175582 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
11175427 GTGTCTCAGC
*
11175437 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCTGGGGTACCTTACGATTTTAAGTCA
1 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCAGGGGTACCTTACGATTTTAAGTCA
11175502 GTCTTGAG
66 GTCTTGAG
*
11175510 TGTGTGCACACATGGTCATGTTGCACGCCCGTGTGTCCCCAGGGGTACCTTACGATTTTAAGTCA
1 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCAGGGGTACCTTACGATTTTAAGTCA
11175575 GTCTTGAG
66 GTCTTGAG
11175583 CATGACCAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.30
Consensus pattern (73 bp):
TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCAGGGGTACCTTACGATTTTAAGTCA
GTCTTGAG
Found at i:11175905 original size:13 final size:13
Alignment explanation
Indices: 11175887--11175915 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11175877 GGTTATTTAT
11175887 TAAACTAATTAAC
1 TAAACTAATTAAC
11175900 TAAACTAATTAAC
1 TAAACTAATTAAC
11175913 TAA
1 TAA
11175916 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:11182944 original size:13 final size:13
Alignment explanation
Indices: 11182926--11182954 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11182916 GGTTGTTTAT
11182926 TAAACTAATTAAC
1 TAAACTAATTAAC
11182939 TAAACTAATTAAC
1 TAAACTAATTAAC
11182952 TAA
1 TAA
11182955 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:11185838 original size:14 final size:15
Alignment explanation
Indices: 11185819--11185847 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11185809 TTTACAAACC
11185819 AAAAT-ATCATAAAT
1 AAAATAATCATAAAT
11185833 AAAATAATCATAAAT
1 AAAATAATCATAAAT
11185848 CAATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATCATAAAT
Found at i:11193371 original size:24 final size:24
Alignment explanation
Indices: 11193344--11193393 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
11193334 GGGCAGTGTG
*
11193344 TTGGGCCAAATGCTGGCTAATCTT
1 TTGGGCCAAATGCAGGCTAATCTT
*
11193368 TTGGGCCAAATGCAGGCTAATTTT
1 TTGGGCCAAATGCAGGCTAATCTT
11193392 TT
1 TT
11193394 AGGTAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (24 bp):
TTGGGCCAAATGCAGGCTAATCTT
Found at i:11199992 original size:29 final size:28
Alignment explanation
Indices: 11199957--11200012 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
11199947 TCAATTTGAC
11199957 CATTATTATCT-TTTTTAGCTAAAATTTGT
1 CATTATTAT-TATTTTTAG-TAAAATTTGT
*
11199986 CATTATTATTATTTTTAGTTAAATTTG
1 CATTATTATTATTTTTAGTAAAATTTG
11200013 ACTCTTAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (28 bp):
CATTATTATTATTTTTAGTAAAATTTGT
Found at i:11203683 original size:26 final size:25
Alignment explanation
Indices: 11203645--11203702 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
11203635 ATTTAGTTTC
*
11203645 TAAAAATATTTTTTATTTTCATTTT
1 TAAAAATAATTTTTATTTTCATTTT
*
11203670 TAAAAACTAATTTTTATTTTTATTTT
1 TAAAAA-TAATTTTTATTTTCATTTT
*
11203696 TTAAAAT
1 TAAAAAT
11203703 TGAAAAGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAAAATAATTTTTATTTTCATTTT
Found at i:11203690 original size:27 final size:24
Alignment explanation
Indices: 11203636--11203702 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
11203626 TGAGGCTCCA
* *
11203636 TTTAGTTTCTAAAAATATTTTTTAT
1 TTTA-TTTTTAAAAATAATTTTTAT
11203661 TTTCATTTTTAAAAACTAATTTTTATT
1 TTT-ATTTTTAAAAA-TAATTTTTA-T
*
11203688 TTTATTTTTTAAAAT
1 TTTATTTTTAAAAAT
11203703 TGAAAAGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 13 0.36
26 19 0.53
27 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
TTTATTTTTAAAAATAATTTTTAT
Done.