Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 84 of 310
Found at i:27081077 original size:29 final size:29
Alignment explanation
Indices: 27080961--27081105 Score: 125
Period size: 29 Copynumber: 5.1 Consensus size: 29
27080951 TGAATATAAG
* * * *
27080961 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * *
27080990 GTGATTTGGACCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * * * *
27081019 ATAAATTAGGCCTGATGGCCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
27081048 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
27081077 GAG-A-TGGGCC-AAGTGGGCCATATGCAT
1 GTGAATTGGGCCTAA-TGGGCCATATGAAT
27081104 GT
1 GT
27081106 ATGTAAGGGT
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 20 0.21
28 1 0.01
29 72 0.77
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:27085464 original size:26 final size:26
Alignment explanation
Indices: 27085428--27085481 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27085418 ACCAGCACAT
* *
27085428 CAATATCGCAGCAAAGCTGCCAATAA
1 CAATAACGCAGCAAAGCTACCAATAA
**
27085454 CAATAACGCAGCGTAGCTACCAATAA
1 CAATAACGCAGCAAAGCTACCAATAA
27085480 CA
1 CA
27085482 GTAAGTGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.15
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTACCAATAA
Found at i:27086154 original size:56 final size:56
Alignment explanation
Indices: 27086068--27086187 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
27086058 ACAAGGGATG
27086068 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
27086124 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
27086180 ATGGGCAA
1 ATGGGCAA
27086188 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:27087423 original size:39 final size:40
Alignment explanation
Indices: 27087327--27087507 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
27087317 ATGATGTCCG
* * * *
27087327 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCA
* * *
27087366 GGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAATTCCA
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
27087407 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* **
27087446 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCA
* *
27087486 GGCTATGTCCGGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
27087508 AACAAGTAGC
Statistics
Matches: 117, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 34 0.29
40 72 0.62
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
Found at i:27094561 original size:48 final size:48
Alignment explanation
Indices: 27094435--27094571 Score: 172
Period size: 47 Copynumber: 2.9 Consensus size: 48
27094425 AACACACCAA
27094435 ATTGTGAACAGTGTCA-CAATAAT-GCAAATAAACTGCCAATAATAAAT
1 ATTGTGAACAGTGTCACCAA-AATCGCAAATAAACTGCCAATAATAAAT
* * * * * *
27094482 ATAGTGGACA-AGCCACCAAAATCGCAAATAAATTGCCAATAATCAAT
1 ATTGTGAACAGTGTCACCAAAATCGCAAATAAACTGCCAATAATAAAT
* *
27094529 ATTGTGAACAGTGTCACCAAAATCGTAGATAAACTGCCAATAA
1 ATTGTGAACAGTGTCACCAAAATCGCAAATAAACTGCCAATAA
27094572 CTTCCACTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
46 6 0.08
47 41 0.55
48 27 0.36
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (48 bp):
ATTGTGAACAGTGTCACCAAAATCGCAAATAAACTGCCAATAATAAAT
Found at i:27097178 original size:40 final size:40
Alignment explanation
Indices: 27097141--27097310 Score: 236
Period size: 40 Copynumber: 4.3 Consensus size: 40
27097131 GCTACTCGTT
* *
27097141 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
27097181 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
27097221 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * * *
27097261 CCAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
27097300 CAAATGCCTTC
1 CAAATGCCTTC
27097311 AGATCTTTTC
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 30 0.25
40 86 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27103224 original size:6 final size:6
Alignment explanation
Indices: 27103213--27103241 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
27103203 TCATTTAAAA
27103213 TCTAAT TCTAAT TCTAAT TCTAA- TCTAAT
1 TCTAAT TCTAAT TCTAAT TCTAAT TCTAAT
27103242 CCCTTGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (6 bp):
TCTAAT
Found at i:27105851 original size:20 final size:20
Alignment explanation
Indices: 27105813--27105856 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
27105803 TCATCATTCG
27105813 AAAAAACTAAAAATCATTAGAA
1 AAAAAACTAAAAA-CATTA-AA
*
27105835 AAAAAATTAAAAA-ATTAAA
1 AAAAAACTAAAAACATTAAA
27105854 AAA
1 AAA
27105857 CTATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
22 12 0.57
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAACTAAAAACATTAAA
Found at i:27109446 original size:20 final size:21
Alignment explanation
Indices: 27109421--27109461 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
27109411 TAAACACAAA
27109421 GAAATAAAAAC-TAAAAAAAT
1 GAAATAAAAACATAAAAAAAT
*
27109441 GAAATAAAAACATATAAAAAT
1 GAAATAAAAACATAAAAAAAT
27109462 ACTATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (21 bp):
GAAATAAAAACATAAAAAAAT
Found at i:27110900 original size:24 final size:24
Alignment explanation
Indices: 27110868--27110919 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
27110858 GTGAGGAAAC
27110868 AACTCTACTCTAAGTTTTTGTACT
1 AACTCTACTCTAAGTTTTTGTACT
27110892 AACTCTACTCTAAGTTTTTGTACT
1 AACTCTACTCTAAGTTTTTGTACT
27110916 AACT
1 AACT
27110920 TGAGGAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (24 bp):
AACTCTACTCTAAGTTTTTGTACT
Found at i:27113714 original size:44 final size:44
Alignment explanation
Indices: 27113649--27113737 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
27113639 GGAACTTTGG
* *
27113649 TACAAAATAAAGAGTGCATGTGCGAAACAAAAATTTTTAATTTT
1 TACAAAATAAAGAGAGCATGTGCAAAACAAAAATTTTTAATTTT
* * *
27113693 TACAAAATAAAGAGAGTATGTGTAAAACAAATATTTTTAATTTT
1 TACAAAATAAAGAGAGCATGTGCAAAACAAAAATTTTTAATTTT
27113737 T
1 T
27113738 TCTCGAATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (44 bp):
TACAAAATAAAGAGAGCATGTGCAAAACAAAAATTTTTAATTTT
Found at i:27117978 original size:33 final size:33
Alignment explanation
Indices: 27117941--27118006 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
27117931 ATATCGAGAC
27117941 AGCACTTAAGAATCAACAAGCGTCGATTCAGGG
1 AGCACTTAAGAATCAACAAGCGTCGATTCAGGG
* *
27117974 AGCACTTAAGAATCAACAGGCGTCGATTTAGGG
1 AGCACTTAAGAATCAACAAGCGTCGATTCAGGG
27118007 GCTCGAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (33 bp):
AGCACTTAAGAATCAACAAGCGTCGATTCAGGG
Found at i:27119792 original size:13 final size:13
Alignment explanation
Indices: 27119774--27119800 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27119764 AATGCAGTAG
27119774 GACACGGCCGTGT
1 GACACGGCCGTGT
27119787 GACACGGCCGTGT
1 GACACGGCCGTGT
27119800 G
1 G
27119801 TACAGACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.41, T:0.15
Consensus pattern (13 bp):
GACACGGCCGTGT
Found at i:27123255 original size:40 final size:40
Alignment explanation
Indices: 27123200--27123392 Score: 246
Period size: 40 Copynumber: 4.8 Consensus size: 40
27123190 TTCGAATGAT
* *
27123200 ATCCGGGTTAGGTCCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
27123240 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * *
27123280 TTTCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
27123319 ATCCGAGTTAAGTCCCGAAGGCATTTGTGTGAGTTATTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * *
27123360 AT-CGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
27123393 AGCCATATCC
Statistics
Matches: 131, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
39 33 0.25
40 95 0.73
41 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:27123344 original size:79 final size:80
Alignment explanation
Indices: 27123211--27123383 Score: 251
Period size: 79 Copynumber: 2.2 Consensus size: 80
27123201 TCCGGGTTAG
* * *
27123211 GTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
1 GTCCCGAAGGCATTGGTACAAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
*
27123276 CTAAT-TTCGGGCTAA
66 -TAATAATCGGGCTAA
* *
27123291 G-CCCGAAGGCATTGGTACGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGTGAGTTA
1 GTCCCGAAGGCATTGGTACAAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
* *
27123355 TTATAATCGGGCTAT
66 TAATAATCGGGCTAA
27123370 GTCCCGAAGGCATT
1 GTCCCGAAGGCATT
27123384 TGAGCGAGTA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
78 3 0.04
79 67 0.81
80 13 0.16
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
GTCCCGAAGGCATTGGTACAAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
TAATAATCGGGCTAA
Found at i:27123408 original size:79 final size:79
Alignment explanation
Indices: 27123211--27123418 Score: 244
Period size: 79 Copynumber: 2.6 Consensus size: 79
27123201 TCCGGGTTAG
* *
27123211 GTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
1 GTCCCGAAGGCATTTGAGCGAGTTACTAAATCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
*
27123276 CTAATTTCGGGCTAA
65 CTAATATCGGGCTAA
* *
27123291 G-CCCGAAGGCATTGGTA-CGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGTGAGTT
1 GTCCCGAAGGCATTTG-AGCGAGTTACTAAATCCG-GTTAAGTCCCGAAGGCATTTGTGCGAGTT
* *
27123354 A-TTATAATCGGGCTAT
64 ACTAAT-ATCGGGCTAA
* * * *
27123370 GTCCCGAAGGCATTTGAGCGAG-TAGCCATATCCGGTTAAATTCCGAAGG
1 GTCCCGAAGGCATTTGAGCGAGTTA-CTAAATCCGGTTAAGTCCCGAAGG
27123419 TATGTGATTC
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.04
79 81 0.74
80 25 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
GTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
TAATATCGGGCTAA
Found at i:27130514 original size:40 final size:40
Alignment explanation
Indices: 27130453--27130638 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
27130443 TTCGAATGAT
* **
27130453 ATCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCTAAAGGCATTTGTGCGAGTTACTAA
* *
27130493 ATCCGGGTTAAGTCTTTAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCTAAAGGCATTTGTGCGAGTTACTAA
* * * *
27130533 TTCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCTAAAGGCATTTGTGCGAGTTACTAA
* *
27130572 ATCCGGGTTAAGTCCCAAAGGCATTTGTACGAGTTACTATA
1 ATCCGGGTTAAGTCCTAAAGGCATTTGTGCGAGTTACTA-A
* * **
27130613 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGTTAAGTCCTAAAGGCATTTG
27130639 AGCAAGTAGC
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 34 0.27
40 90 0.71
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCTAAAGGCATTTGTGCGAGTTACTAA
Found at i:27130661 original size:79 final size:80
Alignment explanation
Indices: 27130455--27130638 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
27130445 CGAATGATAT
* * ***
27130455 CCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCTTTAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTG
* *
27130520 TGCGAGTTACTAATT
66 TACGAGTTACTAATA
* *
27130535 CCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTG
27130599 TACGAGTTACT-ATAA
66 TACGAGTTACTAAT-A
*
27130614 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27130639 AGCAAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 2 0.02
79 68 0.76
80 20 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTG
TACGAGTTACTAATA
Found at i:27140432 original size:25 final size:25
Alignment explanation
Indices: 27140403--27140453 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
27140393 ATAAAAATAC
*
27140403 ATGAATTACAACATAATTCAAAATT
1 ATGAATTACAACACAATTCAAAATT
27140428 ATGAATTACAACACAATTCAAAATT
1 ATGAATTACAACACAATTCAAAATT
27140453 A
1 A
27140454 AACATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (25 bp):
ATGAATTACAACACAATTCAAAATT
Found at i:27145082 original size:14 final size:14
Alignment explanation
Indices: 27145059--27145093 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
27145049 TATTATATAT
*
27145059 ATTACAAAGTCAAC
1 ATTACCAAGTCAAC
27145073 ATTACCAAGTCAAC
1 ATTACCAAGTCAAC
27145087 ATTACCA
1 ATTACCA
27145094 TCATATACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.23
Consensus pattern (14 bp):
ATTACCAAGTCAAC
Found at i:27147157 original size:40 final size:40
Alignment explanation
Indices: 27147099--27147316 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
27147089 CGGATGATAA
* * *
27147099 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
27147139 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27147179 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27147219 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
27147259 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
27147299 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27147317 TACCTGGCTT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 141 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27152533 original size:28 final size:28
Alignment explanation
Indices: 27152471--27152567 Score: 117
Period size: 29 Copynumber: 3.5 Consensus size: 28
27152461 TATTAAGTCT
*
27152471 GCACACTCAGTGCTATAAAATC-AACTC
1 GCACACTTAGTGCTATAAAATCAAACTC
*
27152498 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATAAAATCAAACTC
* * *
27152526 GCACACTTAGTGCTGA-ACAATTTAAACCC
1 GCACACTTAGTGCT-ATA-AAATCAAACTC
27152555 GCACACTTAGTGC
1 GCACACTTAGTGC
27152568 CAATCTCACG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.33
28 20 0.33
29 21 0.34
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
GCACACTTAGTGCTATAAAATCAAACTC
Found at i:27152562 original size:29 final size:28
Alignment explanation
Indices: 27152471--27152567 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
27152461 TATTAAGTCT
* * *
27152471 GCACACTCAGTGCTATAAAATC-AACTC
1 GCACACTTAGTGCTATACAATCAAACCC
* *
27152498 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATACAATCAAACCC
*
27152526 GCACACTTAGTGCTGA-ACAATTTAAACCC
1 GCACACTTAGTGCT-ATACAA-TCAAACCC
27152555 GCACACTTAGTGC
1 GCACACTTAGTGC
27152568 CAATCTCACG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 20 0.32
28 22 0.35
29 20 0.32
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACCC
Found at i:27153299 original size:39 final size:39
Alignment explanation
Indices: 27153188--27153317 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
27153178 GGACTAAGAT
* * *
27153188 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
27153228 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
27153268 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
27153307 CCGAAGGCATT
1 CCGAAGGCATT
27153318 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:27153337 original size:79 final size:79
Alignment explanation
Indices: 27153188--27153352 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
27153178 GGACTAAGAT
* * * ** ** *
27153188 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
27153253 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
27153268 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
27153332 TATCCGGTTAAATC
66 AATCCGGTTAAATC
27153346 CCGAAGG
1 CCGAAGG
27153353 TACATGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:27156274 original size:40 final size:41
Alignment explanation
Indices: 27156219--27156323 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 41
27156209 CGTCAATTTG
*
27156219 GCTATATATGGCACTTAGTGTGCGAG-TCAAGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATCAAAATAGCTTCA
* * *
27156259 GCTATGTATGGCACTTAGTGTGCGAGATTAAAATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATCAAAATAGCTTCA
27156300 GCTATATATTGGCACTTAGTGTGC
1 GCTATATA-TGGCACTTAGTGTGC
27156324 AAGGTGTGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 25 0.43
41 18 0.31
42 15 0.26
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATCAAAATAGCTTCA
Found at i:27159170 original size:42 final size:42
Alignment explanation
Indices: 27159067--27159227 Score: 128
Period size: 43 Copynumber: 3.8 Consensus size: 42
27159057 TGTGATTTTG
** * * *
27159067 TGTAAGACCACATCTGGGACATTGGCATTG-ATTCGAGATTTACC
1 TGTAAGACCATGTCTGGGACATAGGCATTGTATT--TGATTT-CA
*
27159111 TGTAAGACCATGTCTGGGACATCGGCATTGTATTTGATTTCA
1 TGTAAGACCATGTCTGGGACATAGGCATTGTATTTGATTTCA
* * * * * *
27159153 TGTAAGACCTTGTCTGGGATAGAGCCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATAGGCATTG-TATTTGATTTCA
* * *
27159196 TGTAAGACCACGTCTTGGA-AGTTGGCATTGTA
1 TGTAAGACCATGTCTGGGACA-TAGGCATTGTA
27159228 CGAGCTTTTC
Statistics
Matches: 95, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
42 28 0.29
43 37 0.39
44 27 0.28
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATAGGCATTGTATTTGATTTCA
Found at i:27164270 original size:33 final size:34
Alignment explanation
Indices: 27164233--27164306 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
27164223 TGATTTTGTT
* *
27164233 ATGGGCTTAAGCCC-CACTGCTACTGTTACTGTA
1 ATGGGCTTAAGCCCACACTGCTACTATTACTGCA
* * * *
27164266 ATGGGCTTAGGCCCAGACTGTTACTATTATTGCA
1 ATGGGCTTAAGCCCACACTGCTACTATTACTGCA
27164300 ATGGGCT
1 ATGGGCT
27164307 AAGGCCTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 13 0.38
34 21 0.62
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (34 bp):
ATGGGCTTAAGCCCACACTGCTACTATTACTGCA
Found at i:27172107 original size:16 final size:15
Alignment explanation
Indices: 27172075--27172118 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
27172065 TGATAATAAC
27172075 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
27172091 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
*
27172107 TAATTATTATTA
1 TAATTATAATTA
27172119 ACTTTGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:27175123 original size:3 final size:3
Alignment explanation
Indices: 27175115--27175158 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
27175105 TGTTATAAAA
27175115 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
27175159 CAAAGAGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27177733 original size:20 final size:19
Alignment explanation
Indices: 27177684--27177736 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
27177674 CACTTCATTG
27177684 CCTCTATTTGCACTTTGGT
1 CCTCTATTTGCACTTTGGT
*
27177703 CCTCTAATTGCACATTT-GT
1 CCTCTATTTGCAC-TTTGGT
*
27177722 CCCTCTGTTTGCACT
1 -CCTCTATTTGCACT
27177737 CCAATGACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.43
Consensus pattern (19 bp):
CCTCTATTTGCACTTTGGT
Found at i:27178199 original size:26 final size:26
Alignment explanation
Indices: 27178159--27178240 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
27178149 ATGGTAAGAT
* *
27178159 GAAATGTTTAGATGAAATAGTTATAC
1 GAAATGGTTATATGAAATAGTTATAC
* *
27178185 GAAATGCG-TATATGAAA-AATATATAT
1 GAAATG-GTTATATGAAATAGT-TATAC
*
27178211 GAAATGGTTTTATGAAAT-GTTATAC
1 GAAATGGTTATATGAAATAGTTATAC
*
27178236 AAAAT
1 GAAAT
27178241 ATTTATGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (26 bp):
GAAATGGTTATATGAAATAGTTATAC
Found at i:27182470 original size:69 final size:70
Alignment explanation
Indices: 27182338--27182470 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
27182328 TAGTTTATTA
* * * * *
27182338 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
27182403 CTTAG
66 CTTAG
27182408 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
27182471 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:27183911 original size:47 final size:47
Alignment explanation
Indices: 27183857--27184870 Score: 1920
Period size: 47 Copynumber: 21.6 Consensus size: 47
27183847 TATTTGAATA
* *
27183857 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTAATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27183904 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
27183951 AATCTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
27183998 AATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184045 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184092 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184139 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184186 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184233 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184280 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184327 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184374 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184421 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184468 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184515 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184562 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184609 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184656 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184703 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27184750 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
27184797 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
27184844 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
27184871 TCCCGAAGGG
Statistics
Matches: 952, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 952 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:27199911 original size:52 final size:50
Alignment explanation
Indices: 27199815--27199928 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 50
27199805 GCTGTGAGAA
* ** **
27199815 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGG--TTAGGT
* * *
27199867 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTAGGT
*
27199917 CGCATGTGTAGT
1 CACATGTGTAGT
27199929 GCAGGCTACT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 16 0.31
52 36 0.69
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTAGGT
Found at i:27202583 original size:27 final size:27
Alignment explanation
Indices: 27202566--27202698 Score: 99
Period size: 28 Copynumber: 4.7 Consensus size: 27
27202556 ATATTAAGTC
27202566 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* **
27202593 CGCACACTTAGTGCTATAGCA-C-ACTT
1 CGCACACTCAGTGCTATATAATCAAC-T
* * *
27202619 AGTGCTATATAATCAAGTGCTATATAATCAAACT
1 --CGC---ACACTC-AGTGCTATATAATC-AACT
*
27202653 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
27202681 CGCACACTTAGTGCTATA
1 CGCACACTCAGTGCTATA
27202699 CAATTTAAAC
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 18 0.22
28 39 0.47
29 3 0.04
31 3 0.04
32 12 0.14
33 1 0.01
34 1 0.01
35 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:27202616 original size:17 final size:17
Alignment explanation
Indices: 27202594--27202627 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27202584 TAATCAACTC
27202594 GCACACTTAGTGCTATA
1 GCACACTTAGTGCTATA
27202611 GCACACTTAGTGCTATA
1 GCACACTTAGTGCTATA
27202628 TAATCAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (17 bp):
GCACACTTAGTGCTATA
Found at i:27202639 original size:15 final size:15
Alignment explanation
Indices: 27202619--27202649 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27202609 TAGCACACTT
27202619 AGTGCTATATAATCA
1 AGTGCTATATAATCA
27202634 AGTGCTATATAATCA
1 AGTGCTATATAATCA
27202649 A
1 A
27202650 ACTCGCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (15 bp):
AGTGCTATATAATCA
Found at i:27202718 original size:29 final size:28
Alignment explanation
Indices: 27202634--27202720 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
27202624 TATATAATCA
27202634 AGTGCTATATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
27202662 AGTGCTATATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
* * *
27202690 AGTGCTATACAATTTAAACCCGCACACTT
1 AGTGCTATATAA-TCAAACTCGCACACTT
27202719 AG
1 AG
27202721 CGCCAATCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 39 0.71
29 16 0.29
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (28 bp):
AGTGCTATATAATCAAACTCGCACACTT
Found at i:27205557 original size:27 final size:27
Alignment explanation
Indices: 27205519--27205572 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
27205509 TGCCATACTC
27205519 AAAATGTCGAGACTAACTATACCCAAA
1 AAAATGTCGAGACTAACTATACCCAAA
*
27205546 AAAATGTTGAGACTAACTATACCCAAA
1 AAAATGTCGAGACTAACTATACCCAAA
27205573 TGTCAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAATGTCGAGACTAACTATACCCAAA
Found at i:27205573 original size:23 final size:24
Alignment explanation
Indices: 27205513--27205576 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 24
27205503 TACACATGCC
*
27205513 ATACTCAAAATGTCGAGACTAACT
1 ATACCCAAAATGTCGAGACTAACT
*
27205537 ATACCCAAAAAAATGTTGAGACTAACT
1 ATACCC---AAAATGTCGAGACTAACT
27205564 ATACCC-AAATGTC
1 ATACCCAAAATGTC
27205577 AAATTGATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 6 0.18
24 5 0.15
27 23 0.68
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (24 bp):
ATACCCAAAATGTCGAGACTAACT
Found at i:27214573 original size:13 final size:13
Alignment explanation
Indices: 27214555--27214579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27214545 ATCTATCCTA
27214555 TTTTATTTTATTT
1 TTTTATTTTATTT
27214568 TTTTATTTTATT
1 TTTTATTTTATT
27214580 AATTTTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:27227853 original size:13 final size:13
Alignment explanation
Indices: 27227832--27227872 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
27227822 GATTTGAATG
*
27227832 ATGTATTGATGAT
1 ATGTTTTGATGAT
27227845 ATGTTTTGATGAT
1 ATGTTTTGATGAT
27227858 ATGTTTTGATGAT
1 ATGTTTTGATGAT
27227871 AT
1 AT
27227873 AAATGTGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:27227856 original size:24 final size:26
Alignment explanation
Indices: 27227824--27227872 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
27227814 AGAACTTTGA
27227824 TTTGAATG-ATGTATTGATGATATGT
1 TTTGAATGAATGTATTGATGATATGT
*
27227849 TTTG-ATGATATGTTTTGATGATAT
1 TTTGAATGA-ATGTATTGATGATAT
27227873 AAATGTGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 4 0.19
26 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (26 bp):
TTTGAATGAATGTATTGATGATATGT
Found at i:27235276 original size:38 final size:40
Alignment explanation
Indices: 27235219--27235425 Score: 143
Period size: 38 Copynumber: 4.9 Consensus size: 40
27235209 TCAAATTAAC
* * *
27235219 ATGTATAACTGTGGCATATCCACTTAGCACCACATTA-C-
1 ATGTTTAACCGTGGTATATCCACTTAGCACCACATTATCA
* *
27235257 ATGTTTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCA
1 ATGTTTAACCGTGGTATATCCACTTAGCACCAC----AT-TATCA
* *
27235302 ATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAA
1 ATGT-T-TAACCGTGGTATATCCACTTAGCA-C-C---ACAT-TATC-A
* * *
27235351 TATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA-C-
1 -ATGTTTAACCGTGGTATATCCACTTAGCACCACATTATCA
* *
27235390 ACGTATAACCGTGGTATATCCACTTAGCACCACATT
1 ATGTTTAACCGTGGTATATCCACTTAGCACCACATT
27235426 TTTTTCATTC
Statistics
Matches: 135, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
38 61 0.45
41 1 0.01
42 4 0.03
43 4 0.03
44 1 0.01
45 3 0.02
46 2 0.01
47 23 0.17
48 29 0.21
49 2 0.01
50 3 0.02
52 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (40 bp):
ATGTTTAACCGTGGTATATCCACTTAGCACCACATTATCA
Found at i:27235371 original size:48 final size:48
Alignment explanation
Indices: 27235257--27235395 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
27235247 ACCACATTAC
* *
27235257 ATGTTTAATCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
27235304 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
*
27235352 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTAT
27235396 AACCGTGGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 33 0.40
48 49 0.60
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:27237329 original size:13 final size:13
Alignment explanation
Indices: 27237311--27237335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27237301 CTAAATCATA
27237311 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
27237324 ATTTTAGTAAAA
1 ATTTTAGTAAAA
27237336 CCTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:27238201 original size:18 final size:19
Alignment explanation
Indices: 27238175--27238213 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27238165 TATACATTAA
*
27238175 TTTATATTTTTATAAACAT
1 TTTATATTTTTATAAAAAT
*
27238194 TTTA-ATTTTTTTAAAAAT
1 TTTATATTTTTATAAAAAT
27238212 TT
1 TT
27238214 ATCCCACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATATTTTTATAAAAAT
Found at i:27238419 original size:14 final size:15
Alignment explanation
Indices: 27238388--27238420 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
27238378 CATAAATCAT
27238388 AAATATTATTCTAAA
1 AAATATTATTCTAAA
*
27238403 AAATATT-TTCTAGA
1 AAATATTATTCTAAA
27238417 AAAT
1 AAAT
27238421 TAAAGAAAAG
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:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
AAATATTATTCTAAA
Found at i:27239037 original size:54 final size:54
Alignment explanation
Indices: 27238974--27239145 Score: 326
Period size: 54 Copynumber: 3.2 Consensus size: 54
27238964 TAAATATCAA
* *
27238974 GGTCTCAATGAGCTGGACAGTGAATCTGTGATGGAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
27239028 GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
27239082 GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
27239136 GGTCTCAATG
1 GGTCTCAATG
27239146 GCCCAGAACT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (54 bp):
GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
Found at i:27239311 original size:22 final size:22
Alignment explanation
Indices: 27239283--27239329 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
27239273 GAATAGGATT
* *
27239283 TGTTTTGTACAGTTTTCGTCGG
1 TGTTTTGTACAGTATTAGTCGG
27239305 TGTTTTGTACAGTATTAGTCGG
1 TGTTTTGTACAGTATTAGTCGG
27239327 TGT
1 TGT
27239330 CATTCGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.49
Consensus pattern (22 bp):
TGTTTTGTACAGTATTAGTCGG
Found at i:27242601 original size:92 final size:91
Alignment explanation
Indices: 27242444--27242652 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
27242434 TTGATTTTAG
** *
27242444 TAAATTCATATAAGAACAATTTATTATTGAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
27242509 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
27242536 TAAATTCATATAAGAAAATTTATTATCAAGTATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
*
27242600 TATGTAATAATTATTATTTTAGATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
27242628 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
27242653 GTTATAATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 70 0.69
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:27242781 original size:66 final size:62
Alignment explanation
Indices: 27242706--27242916 Score: 172
Period size: 66 Copynumber: 3.4 Consensus size: 62
27242696 AAATATATTT
*
27242706 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTAAGTAAATT-ATATAA
27242771 G
62 G
* * * **
27242772 AATATTAATTATTAAGAATTTTA-TTAA--AT--TATA-TAT--TTTAATTAAAATATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTAAGTAAATTATATAAG
* *
27242826 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTAAGTAAATT-ATATA
27242890 AG
61 AG
*
27242892 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
27242917 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 12 0.11
57 1 0.01
58 3 0.03
59 6 0.05
61 6 0.05
62 3 0.03
63 1 0.01
64 12 0.11
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (62 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTAAGTAAATTATATAAG
Found at i:27242814 original size:120 final size:120
Alignment explanation
Indices: 27242675--27242960 Score: 470
Period size: 120 Copynumber: 2.4 Consensus size: 120
27242665 TTAAATTATT
* * * *
27242675 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAG
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
* *
27242737 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
27242795 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
27242860 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
27242915 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
27242961 TAAATATGAT
Statistics
Matches: 157, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
119 6 0.04
120 149 0.95
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
Found at i:27242817 original size:18 final size:17
Alignment explanation
Indices: 27242789--27242823 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27242779 ATTATTAAGA
*
27242789 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27242806 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27242824 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27242937 original size:18 final size:17
Alignment explanation
Indices: 27242909--27242943 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27242899 ATTATTAAGA
*
27242909 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27242926 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27242944 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27243158 original size:44 final size:45
Alignment explanation
Indices: 27243109--27243199 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27243099 ACCTCTATTC
* * *
27243109 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
27243153 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
27243198 CA
1 CA
27243200 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:27243201 original size:16 final size:16
Alignment explanation
Indices: 27243180--27243248 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
27243170 GATTAGCTAT
27243180 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27243196 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
27243213 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
*
27243229 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
27243245 TACA
1 TACA
27243249 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 32 0.67
17 16 0.33
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27243222 original size:33 final size:32
Alignment explanation
Indices: 27243180--27243248 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
27243170 GATTAGCTAT
27243180 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
27243213 TACACCTCTAATTCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
27243245 TACA
1 TACA
27243249 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:27244620 original size:20 final size:20
Alignment explanation
Indices: 27244566--27244613 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
27244556 GATATAAAAA
27244566 ATATTATCTATAATTTTTAG
1 ATATTATCTATAATTTTTAG
27244586 ATATTATCTATAATTTTTAG
1 ATATTATCTATAATTTTTAG
27244606 AT-TTATCT
1 ATATTATCT
27244614 TTAAATTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (20 bp):
ATATTATCTATAATTTTTAG
Found at i:27247271 original size:3 final size:3
Alignment explanation
Indices: 27247265--27247294 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27247255 ACACTACTAT
27247265 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27247295 TAGAAATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27248756 original size:45 final size:43
Alignment explanation
Indices: 27248685--27249272 Score: 180
Period size: 44 Copynumber: 13.5 Consensus size: 43
27248675 ACTTCTGCTA
*
27248685 TGTTTCCCTACTGCTTAGGGAG-TTAAGATTCGTCAATCTTCAGCC
1 TGTTACCCTACTGCTTAGGG-GTTTAAGATTCGTCAAT-TTCA-CC
** * * *
27248730 TGTTACCCTACTATTTAGGGGTTTAAGGCTT-GTCACATTTGATC
1 TGTTACCCTACTGCTTAGGGGTTTAA-GATTCGTCA-ATTTCACC
* * * *
27248774 TGTTTCCCTATTGCTTAGGGGGTTAAGA-TCTGTGAA-TTCAACC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATTC-GTCAATTTC-ACC
* * * *
27248817 TGTTACCCTACTGTTTAGGGGGTTT-AGGTTTGTCAATCTTCGATC
1 TGTTACCCTACTGCTTA-GGGGTTTAAGATTCGTCAAT-TTC-ACC
* * * * ***
27248862 TGCT-CCACTACTGTTTAGGGATATAAGA-TCTGT-AATTTGGTC
1 TGTTACC-CTACTGCTTAGGGGTTTAAGATTC-GTCAATTTCACC
*
27248904 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC---TTCGATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGA---TTCGTCAATTTC-ACC
* * * * *
27248948 TGCT-CCACTACTGCTTAGGAAG-AT-A-ATTTGT-AATTTTCAGCT
1 TGTTACC-CTACTGCTTAGG-GGTTTAAGATTCGTCAA-TTTCA-CC
* *** * * ** *
27248990 TGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTTTGCTA
1 TGTTACCCTACTGCTTAGGGGTTTAAGATTCGTCAATTTCAC-C
* * *
27249034 TGTTTCCCTACTGTTTAGGGGGTTAAGATTCGTCAATCTTCAGCC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATTCGTCAAT-TTCA-CC
** * * * *
27249079 TGTTACCCTACTATTTAGGGGTTTAAGGCTT-GTCACCTTTGATC
1 TGTTACCCTACTGCTTAGGGGTTTAA-GATTCGTCA-ATTTCACC
* * * * *
27249123 TGTTTCCTTATTGCTTAGGGGGTTAAGA-TCTGTGAA-TTCAACC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATTC-GTCAATTTC-ACC
* * *
27249166 TGTTACCCTACTGTTTAGGGGGTTAAGATTTC-TCAATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGA-TTCGTCAAT-TTC-ACC
* * * ***
27249211 TGCT-CCACCACTGCTTAGGGAG-ATAAGA-TCTGT-AATTTGGTC
1 TGTTACC-CTACTGCTTAGGG-GTTTAAGATTC-GTCAATTTCACC
27249253 TGTTACCCTACTGCTTAGGG
1 TGTTACCCTACTGCTTAGGG
27249273 AGATAAGGCT
Statistics
Matches: 393, Mismatches: 101, Indels: 101
0.66 0.17 0.17
Matches are distributed among these distances:
39 4 0.01
41 2 0.01
42 65 0.17
43 73 0.19
44 123 0.31
45 113 0.29
46 13 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (43 bp):
TGTTACCCTACTGCTTAGGGGTTTAAGATTCGTCAATTTCACC
Found at i:27248778 original size:89 final size:86
Alignment explanation
Indices: 27248621--27249272 Score: 497
Period size: 89 Copynumber: 7.5 Consensus size: 86
27248611 TCAGGGAGAA
* * ** *** * *
27248621 AAGATTTGTAATTTTTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTAT
1 AAGATCTGTAA-TTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCACTT-TGATCT
27248686 GTTTCCCTACTGCTTAGGGAGTT
64 GTTTCCCTACTGCTTAGGGAGTT
*
27248709 AAGAT-TCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACATTTGAT
1 AAGATCT-GT-AAT-TTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCAC-TTTGAT
* *
27248773 CTGTTTCCCTATTGCTTAGGGGGTT
62 CTGTTTCCCTACTGCTTAGGGAGTT
* * *
27248798 AAGATCTGTGAA-TTCAACCTGTTACCCTACTGTTTAGGGGGTTT-AGGTTTGTCAATCTTCGAT
1 AAGATCTGT-AATTTCAGCCTGTTACCCTACTGTTTA-GGGGTTTAAGGCTTGTC-A-CTTTGAT
* *
27248861 CTG-CTCCACTACTGTTTAGGGA-TAT
62 CTGTTTCC-CTACTGCTTAGGGAGT-T
* * * * *
27248886 AAGATCTGTAATTT-GGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--CTTCGATC
1 AAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAG--GCTT-GTCACTTTGATC
* * *
27248948 TG-CTCCACTACTGCTTAGGAAGAT
63 TGTTTCC-CTACTGCTTAGGGAGTT
* * ** *** * *
27248972 -A-ATTTGTAATTTTCAGCTTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTTTGCTAT
1 AAGATCTGTAA-TTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCAC-TTTGATCT
* *
27249035 GTTTCCCTACTGTTTAGGGGGTT
64 GTTTCCCTACTGCTTAGGGAGTT
*
27249058 AAGAT-TCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACCTTTGAT
1 AAGATCT-GT-AAT-TTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCA-CTTTGAT
* * *
27249122 CTGTTTCCTTATTGCTTAGGGGGTT
62 CTGTTTCCCTACTGCTTAGGGAGTT
* * ** * *
27249147 AAGATCTGTGAA-TTCAACCTGTTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATC
1 AAGATCTGT-AATTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTC-A-CTTTGATC
* * *
27249211 TG-CTCCACCACTGCTTAGGGAGAT
63 TGTTTCC-CTACTGCTTAGGGAGTT
* * *
27249235 AAGATCTGTAATTT-GGTCTGTTACCCTACTGCTTAGGG
1 AAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAGGG
27249273 AGATAAGGCT
Statistics
Matches: 455, Mismatches: 77, Indels: 65
0.76 0.13 0.11
Matches are distributed among these distances:
83 1 0.00
84 8 0.02
85 5 0.01
86 81 0.18
87 121 0.27
88 85 0.19
89 147 0.32
90 7 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (86 bp):
AAGATCTGTAATTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTCACTTTGATCTGT
TTCCCTACTGCTTAGGGAGTT
Found at i:27248879 original size:132 final size:130
Alignment explanation
Indices: 27248685--27248931 Score: 284
Period size: 132 Copynumber: 1.9 Consensus size: 130
27248675 ACTTCTGCTA
* *
27248685 TGTTTCCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGG
1 TGTTACCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGCTACCCTACTATTTAGGG
* * * * *
27248750 GTTTAAG-GCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCA
66 ATATAAGATC-TGT-A-ATTTGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTGAATTCA
27248814 ACC
128 ACC
* * * * * * *
27248817 TGTTACCCTACTGTTTAGGGGGTTTAGGTTTGTCAATCTTC-GATCTGCT-CCACTACTGTTTAG
1 TGTTACCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAG-CCTGCTACC-CTACTATTTAG
* *
27248880 GGATATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGA
64 GGATATAAGATCTGTAATTTGATCTGTTACCCTACTGCTTAGGGGGTTAAGA
27248932 CCCTTCGTCT
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
130 32 0.33
131 4 0.04
132 59 0.61
133 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (130 bp):
TGTTACCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGCTACCCTACTATTTAGGG
ATATAAGATCTGTAATTTGATCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTGAATTCAACC
Found at i:27249263 original size:349 final size:349
Alignment explanation
Indices: 27248624--27249272 Score: 1181
Period size: 349 Copynumber: 1.9 Consensus size: 349
27248614 GGGAGAAAAG
*
27248624 ATTTGTAATTTTTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
1 ATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
27248689 TCCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
66 TCCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
27248754 AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTG
131 AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTG
* * * * * *
27248819 TTACCCTACTGTTTAGGGGGTTTAGGTTTGTCAATCTTCGATCTGCTCCACTACTGTTTAGGGAT
196 TTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
27248884 ATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
261 ATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
27248949 GCTCCACTACTGCTTAGGAAGATA
326 GCTCCACTACTGCTTAGGAAGATA
* *
27248973 ATTTGTAATTTTCAGCTTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTTTGCTATGTT
1 ATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
* *
27249038 TCCCTACTGTTTAGGGGGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
66 TCCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
* *
27249103 AAGGCTTGTCACCTTTGATCTGTTTCCTTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTG
131 AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTG
27249168 TTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
196 TTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
27249233 ATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGG
261 ATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGG
27249273 AGATAAGGCT
Statistics
Matches: 287, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
349 287 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (349 bp):
ATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
TCCCTACTGCTTAGGGAGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTG
TTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
ATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
GCTCCACTACTGCTTAGGAAGATA
Found at i:27255590 original size:24 final size:24
Alignment explanation
Indices: 27255569--27255618 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
27255559 GAATCTCGTG
27255569 ATCCTATTGATCATGGAACTCGCA
1 ATCCTATTGATCATGGAACTCGCA
* *
27255593 ATCCTCTTGATTATGGAACTCGCA
1 ATCCTATTGATCATGGAACTCGCA
27255617 AT
1 AT
27255619 AATTCTTTAC
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:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (24 bp):
ATCCTATTGATCATGGAACTCGCA
Found at i:27268094 original size:40 final size:40
Alignment explanation
Indices: 27267998--27268182 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
27267988 TTGAATGCTG
* *
27267998 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTAAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
27268037 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27268077 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27268117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27268158 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27268183 AACGAGGAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 19 0.14
40 103 0.78
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27268200 original size:80 final size:79
Alignment explanation
Indices: 27268050--27268215 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
27268040 GGACTAAGAT
* * ** *
27268050 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTA
*
27268115 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
*
27268130 CCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-C
* *
27268193 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
27268209 CCGAAGG
1 CCGAAGG
27268216 TACGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 15 0.20
80 58 0.77
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTA
AATCCGGTTAAATC
Found at i:27272995 original size:46 final size:46
Alignment explanation
Indices: 27272909--27273030 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 46
27272899 AACCCGCCCC
* * * * *
27272909 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGC-TACA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATACA
* *
27272954 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 --TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATACA
*
27273001 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGCGAACTCGGACTCAACTCAACGAGTT
27273031 GGGATGCTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 57 0.89
47 5 0.08
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATACA
Found at i:27280155 original size:40 final size:39
Alignment explanation
Indices: 27280100--27280189 Score: 153
Period size: 40 Copynumber: 2.3 Consensus size: 39
27280090 AAAAGGAAGG
27280100 AGTAAGCATAAATGCTTAGTAAGTTCATATGCAAATAACA
1 AGTAA-CATAAATGCTTAGTAAGTTCATATGCAAATAACA
*
27280140 AGTAACATAGAATGCTTAGTAAGTTCATTTGCAAATAACA
1 AGTAACATA-AATGCTTAGTAAGTTCATATGCAAATAACA
27280180 AGTAACATAA
1 AGTAACATAA
27280190 CAATACAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 5 0.10
40 43 0.90
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (39 bp):
AGTAACATAAATGCTTAGTAAGTTCATATGCAAATAACA
Found at i:27280636 original size:46 final size:48
Alignment explanation
Indices: 27280490--27280636 Score: 123
Period size: 46 Copynumber: 3.2 Consensus size: 48
27280480 GTAACCCGCC
* **
27280490 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGG-TGCTCGCTACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAG-TTGGGATGCTCAATACAT
* * * * *
27280538 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCTCA-ATACAT
*
27280581 CCATAAGTGAACTCGAACTCAACTCAACGAGTTGGGATGCTCAAT-CAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCTCAATACAT
27280629 CCT-AGTGA
1 CCTAAGTGA
27280637 CATGTCACTT
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 1 0.01
45 5 0.06
46 55 0.71
47 4 0.05
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (48 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCTCAATACAT
Found at i:27288118 original size:21 final size:19
Alignment explanation
Indices: 27288094--27288205 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
27288084 CTTTTGGGGT
27288094 TTCAGTTCAGCTCTTGTGTGC
1 TTCAGTT-AGC-CTTGTGTGC
27288115 TTCAGTTAGCCTTCG-G-GC
1 TTCAGTTAGCCTT-GTGTGC
*
27288133 TTCTGTTTAGCACTTGTGTGC
1 TTCAG-TTAGC-CTTGTGTGC
27288154 TTCAGTTAGCCTTCG-G-GC
1 TTCAGTTAGCCTT-GTGTGC
**
27288172 TTTC-GTTTAAAACTTGTGTGC
1 -TTCAG-TT-AGCCTTGTGTGC
27288193 TTCAGTTAGCCTT
1 TTCAGTTAGCCTT
27288206 CGGGCTTCCG
Statistics
Matches: 73, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
18 9 0.12
19 24 0.33
20 24 0.33
21 16 0.22
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.42
Consensus pattern (19 bp):
TTCAGTTAGCCTTGTGTGC
Found at i:27288246 original size:78 final size:78
Alignment explanation
Indices: 27288106--27288251 Score: 233
Period size: 78 Copynumber: 1.9 Consensus size: 78
27288096 CAGTTCAGCT
* * *
27288106 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGG
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGACTTCGGG
27288171 CTTTCGTTTAAAA
66 CTTTCGTTTAAAA
27288184 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGC-TCTA-TCTAGACTTCG
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTC-AGT-TAGACTTCG
27288247 GGCTT
64 GGCTT
27288252 CAGATCACGA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
77 3 0.05
78 60 0.95
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.40
Consensus pattern (78 bp):
CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGACTTCGGG
CTTTCGTTTAAAA
Found at i:27288252 original size:39 final size:39
Alignment explanation
Indices: 27288106--27288232 Score: 209
Period size: 39 Copynumber: 3.3 Consensus size: 39
27288096 CAGTTCAGCT
*
27288106 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCA
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
* **
27288145 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTTCGTTTAAAA
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
27288184 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
*
27288223 CTTATGTGCT
1 CTTGTGTGCT
27288233 CTATCTAGAC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.41
Consensus pattern (39 bp):
CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
Found at i:27294564 original size:29 final size:29
Alignment explanation
Indices: 27294501--27294568 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
27294491 TAATCAACCG
*
27294501 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
27294530 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
27294559 CGCACACTTA
1 CGCACACTTA
27294569 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:27294680 original size:174 final size:174
Alignment explanation
Indices: 27294390--27294717 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
27294380 AACTCAAGGT
* *
27294390 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
27294455 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
27294520 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
27294564 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
27294629 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
27294694 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
27294718 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:27294709 original size:29 final size:30
Alignment explanation
Indices: 27294670--27294748 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
27294660 CTTAATAATC
27294670 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
27294700 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
27294729 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27294749 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:27302710 original size:29 final size:29
Alignment explanation
Indices: 27302647--27302714 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
27302637 TAATCAACCG
27302647 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
27302676 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
27302705 CGCACACTTA
1 CGCACACTTA
27302715 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:27302827 original size:174 final size:174
Alignment explanation
Indices: 27302536--27302863 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
27302526 AACTCAAGGT
* *
27302536 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
27302601 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
27302666 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
27302710 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
27302775 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
27302840 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
27302864 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:27302855 original size:29 final size:30
Alignment explanation
Indices: 27302816--27302894 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
27302806 CTTAATAATC
27302816 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
27302846 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
27302875 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27302895 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:27304500 original size:27 final size:27
Alignment explanation
Indices: 27304459--27304804 Score: 367
Period size: 27 Copynumber: 12.9 Consensus size: 27
27304449 GGGCTGTTAC
* * *
27304459 AATACCCCCACAGGGTTAAATGACCGA
1 AATACCCCTATAGGGTAAAATGACCGA
*
27304486 AATAGCCCTATAGGGTAAAATGACCGA
1 AATACCCCTATAGGGTAAAATGACCGA
* * **
27304513 AATACCCCCATAGGATAAAATGATTGA
1 AATACCCCTATAGGGTAAAATGACCGA
27304540 AATA-CCCTCATAGGGTAAAATGACCGA
1 AATACCCCT-ATAGGGTAAAATGACCGA
* * *
27304567 AGTACCCCTATCGGGTAAAATGACTGA
1 AATACCCCTATAGGGTAAAATGACCGA
* **
27304594 AATA-CCCTATAGTGTAAAATGAATGA
1 AATACCCCTATAGGGTAAAATGACCGA
* * *
27304620 AATACCCCCATAGGGTAAAATAACCAA
1 AATACCCCTATAGGGTAAAATGACCGA
*
27304647 AATACCTCTATAGGGTAAAATGACCGA
1 AATACCCCTATAGGGTAAAATGACCGA
* *
27304674 AATACCCCTATAAGGT-AAATGATCGA
1 AATACCCCTATAGGGTAAAATGACCGA
* * *
27304700 AATACCCCCATAAGGTAAAATGACTGA
1 AATACCCCTATAGGGTAAAATGACCGA
** * *
27304727 AATA-GTCTCATAAGGTAAAATGACCAA
1 AATACCCCT-ATAGGGTAAAATGACCGA
* * *
27304754 AATTCCCTTATAGGGTAAAATGACCAA
1 AATACCCCTATAGGGTAAAATGACCGA
*
27304781 AATACCCCCATAGGGTAAAATGAC
1 AATACCCCTATAGGGTAAAATGAC
27304805 TGGTATATCT
Statistics
Matches: 264, Mismatches: 49, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 51 0.19
27 208 0.79
28 5 0.02
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACCGA
Found at i:27304650 original size:107 final size:107
Alignment explanation
Indices: 27304459--27304806 Score: 407
Period size: 107 Copynumber: 3.2 Consensus size: 107
27304449 GGGCTGTTAC
* * * * * *
27304459 AATACCCCCACAGGGTTAAATGACCGAAATAGCCCTATAGGGTAAAATGACCGAAATACCCCCAT
1 AATACCCCTATAGGGTAAAATGACTGAAATACCCCTATA-GGTAAAATGACTGAAATACCCCCAT
* ***
27304524 AGGATAAAATGATTGAAATACCCTCATAGGGTAAAATGACCGA
65 AGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGA
* * *
27304567 AGTACCCCTATCGGGTAAAATGACTGAAATA-CCCTATAGTGTAAAATGAATGAAATACCCCCAT
1 AATACCCCTATAGGGTAAAATGACTGAAATACCCCTATAG-GTAAAATGACTGAAATACCCCCAT
*
27304631 AGGGTAAAATAACCAAAATA-CCTCTATAGGGTAAAATGACCGA
65 AGGGTAAAATGACCAAAATACCCTC-ATAGGGTAAAATGACCGA
* * ** *
27304674 AATACCCCTATAAGGT-AAATGA-TCGAAATACCCCCATAAGGTAAAATGACTGAAATAGTCTCA
1 AATACCCCTATAGGGTAAAATGACT-GAAATACCCCTAT-AGGTAAAATGACTGAAATACCCCCA
* * * *
27304737 TAAGGTAAAATGACCAAAATTCCCTTATAGGGTAAAATGACCAA
64 TAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGA
*
27304781 AATACCCCCATAGGGTAAAATGACTG
1 AATACCCCTATAGGGTAAAATGACTG
27304807 GTATATCTCT
Statistics
Matches: 204, Mismatches: 28, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
105 1 0.00
106 17 0.08
107 148 0.73
108 37 0.18
109 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (107 bp):
AATACCCCTATAGGGTAAAATGACTGAAATACCCCTATAGGTAAAATGACTGAAATACCCCCATA
GGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGA
Found at i:27304831 original size:81 final size:80
Alignment explanation
Indices: 27304619--27304806 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 80
27304609 AAAATGAATG
* * ** * * * *
27304619 AAATACCCCCATAGGGTAAAATAACCAAAATA-CCTCTATAGGGTAAAATGACCGAAATACCCCT
1 AAATACCCCCATAAGGTAAAATGACTGAAATAGTCTC-ATAAGATAAAATGACCAAAATACCCCT
* *
27304683 ATAAGGTAAATGATCG
65 ATAAGGTAAATGACCA
* * *
27304699 AAATACCCCCATAAGGTAAAATGACTGAAATAGTCTCATAAGGTAAAATGACCAAAATTCCCTTA
1 AAATACCCCCATAAGGTAAAATGACTGAAATAGTCTCATAAGATAAAATGACCAAAATACCCCTA
*
27304764 TAGGGTAAAATGACCA
66 TAAGGT-AAATGACCA
*
27304780 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAAGGTAAAATGACTG
27304807 GTATATCTCT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 57 0.61
81 36 0.39
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (80 bp):
AAATACCCCCATAAGGTAAAATGACTGAAATAGTCTCATAAGATAAAATGACCAAAATACCCCTA
TAAGGTAAATGACCA
Found at i:27304933 original size:25 final size:25
Alignment explanation
Indices: 27304899--27304948 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27304889 TGAGCATGAC
27304899 ATTTTGCATACACGTATGATATTAT
1 ATTTTGCATACACGTATGATATTAT
27304924 ATTTTGCATACACGTATGATATTAT
1 ATTTTGCATACACGTATGATATTAT
27304949 GTACTGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (25 bp):
ATTTTGCATACACGTATGATATTAT
Found at i:27308045 original size:51 final size:51
Alignment explanation
Indices: 27307965--27308067 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
27307955 GAGGAGAAAG
*
27307965 GCAACGAGACTTGGGTACTAATTTACCTATAACGTTTCCTCCATCGAGCAT
1 GCAACGAGACTTGGGTACTAATTTACCTATAACATTTCCTCCATCGAGCAT
* * *
27308016 GCAACGAGACTTGGGTACTAATTTGCCTATAACATTTCGTCCATTGAGCAT
1 GCAACGAGACTTGGGTACTAATTTACCTATAACATTTCCTCCATCGAGCAT
27308067 G
1 G
27308068 ATCCCTATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (51 bp):
GCAACGAGACTTGGGTACTAATTTACCTATAACATTTCCTCCATCGAGCAT
Found at i:27313283 original size:39 final size:40
Alignment explanation
Indices: 27313079--27313301 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
27313069 TTGAATGCTG
* * * * * *
27313079 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
27313119 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
27313159 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
27313199 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
27313239 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
27313278 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27313302 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:27313321 original size:79 final size:80
Alignment explanation
Indices: 27313154--27313336 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
27313144 GTGCGAGATA
* * *
27313154 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
27313219 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
27313234 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
27313298 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
27313313 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
27313337 TACGTCATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:27320775 original size:42 final size:44
Alignment explanation
Indices: 27320729--27320824 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
27320719 GTTCCAGCAG
27320729 GGTCTTACA-AGAAATCA-AA-TACAATGCCAACATCCCAAACGT
1 GGTCTTACACAGAAATCATAAGT-CAATGCCAACATCCCAAACGT
* * * *
27320771 GGTCTTACACATAAATCATAAGTCGATGCCAACGTCCCAGACGT
1 GGTCTTACACAGAAATCATAAGTCAATGCCAACATCCCAAACGT
27320815 GGTCTTACAC
1 GGTCTTACAC
27320825 GATAACACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 9 0.19
43 7 0.15
44 30 0.64
45 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (44 bp):
GGTCTTACACAGAAATCATAAGTCAATGCCAACATCCCAAACGT
Found at i:27323888 original size:43 final size:44
Alignment explanation
Indices: 27323817--27323951 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
27323807 TATCGAAATG
*
27323817 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
27323861 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
27323904 T-ATTATTCGAGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
27323949 TGA
1 TGA
27323952 AATGTTATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 37 0.47
44 8 0.10
45 31 0.40
46 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:27324282 original size:38 final size:38
Alignment explanation
Indices: 27324248--27324412 Score: 269
Period size: 38 Copynumber: 4.3 Consensus size: 38
27324238 GCAGGCTATA
*
27324248 TGCTGG-AATTATATCCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
*
27324286 TGCTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* *
27324324 TGCTGGTAATATATCCGGGTTAATTCCCGTAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
27324362 TGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
27324400 TGCTGGTAATATA
1 TGCTGGTAATATA
27324413 GCTTCGTGCT
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 116 0.98
39 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:27324418 original size:19 final size:19
Alignment explanation
Indices: 27324394--27324431 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27324384 AATCCCGCAG
27324394 GCTTCGTGCTGGTAATATA
1 GCTTCGTGCTGGTAATATA
27324413 GCTTCGTGCTGGTAATATA
1 GCTTCGTGCTGGTAATATA
27324432 TCCGGGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (19 bp):
GCTTCGTGCTGGTAATATA
Found at i:27324447 original size:57 final size:57
Alignment explanation
Indices: 27324356--27324469 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
27324346 ATTCCCGTAG
27324356 GCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATA
1 GCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATA
* * * *
27324413 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCATGCTTCGTGCTGGTATTATA
1 GCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATA
27324470 TCCGAGTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (57 bp):
GCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATA
Found at i:27324464 original size:38 final size:38
Alignment explanation
Indices: 27324413--27324514 Score: 141
Period size: 38 Copynumber: 2.7 Consensus size: 38
27324403 TGGTAATATA
* * *
27324413 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAT
1 GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAG
*
27324451 GCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGCAG
1 GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAG
* * *
27324489 GCCTAGTGCTGGTATTATATTCGGGT
1 GCTTCGTGCTGGTATTATATCCGGGT
27324515 CTTTGAGCCT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (38 bp):
GCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAG
Found at i:27324481 original size:95 final size:95
Alignment explanation
Indices: 27324318--27324507 Score: 310
Period size: 95 Copynumber: 2.0 Consensus size: 95
27324308 AATCCTGCAG
*
27324318 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGTAGGCTTCGTGCTGGTAATATATCCAGGTT
1 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTT
* *
27324383 AAATCCCGCAGGCTTCGTGCTGGTAATATA
66 AAATCCCGCAGGCCTAGTGCTGGTAATATA
* *
27324413 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCATGCTTCGTGCTGGTATTATATCC-GAGT
1 GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTAATATATCCAG-GT
*
27324477 TAAATCCCGCAGGCCTAGTGCTGGTATTATA
65 TAAATCCCGCAGGCCTAGTGCTGGTAATATA
27324508 TTCGGGTCTT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 1 0.01
95 87 0.99
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.33
Consensus pattern (95 bp):
GCTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTT
AAATCCCGCAGGCCTAGTGCTGGTAATATA
Found at i:27324555 original size:45 final size:44
Alignment explanation
Indices: 27324505--27324631 Score: 173
Period size: 45 Copynumber: 2.8 Consensus size: 44
27324495 TGCTGGTATT
*
27324505 ATATTCGGGTCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACA
1 ATATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
* * *
27324550 ATATTCGGGCCCTTGGGCCTAGCAGGCTATAATGCCGGTGAGATA
1 ATATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
* *
27324595 CTATTCGGGCTTTCAAGCCTAGCAGGCTATAATGCCG
1 ATATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCG
27324632 ATAAAATGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 3 0.04
45 69 0.96
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (44 bp):
ATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACA
Found at i:27329386 original size:25 final size:24
Alignment explanation
Indices: 27329358--27329417 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
27329348 CTTCTTTTTT
* *
27329358 TTTTTGTTTTCTTTTTTAGATTAGG
1 TTTTTGTTTTCTTTTTAAG-TTAGA
27329383 TTTTCTCG-TTTCTTTTTAAGTTAGA
1 TTTT-T-GTTTTCTTTTTAAGTTAGA
*
27329408 TTTTAGTTTT
1 TTTTTGTTTT
27329418 GTTGTTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 12 0.41
26 12 0.41
27 1 0.03
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (24 bp):
TTTTTGTTTTCTTTTTAAGTTAGA
Found at i:27330640 original size:85 final size:85
Alignment explanation
Indices: 27330508--27330667 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 85
27330498 TTCACCATAG
* * * * * *
27330508 GTAAGATAATGTTAGAGATCATGTTAGAATCCAATTTCGAATGATCCTGTGTCATACCTGCAACA
1 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTCCGAATGATCCTGTGACATACCTGCAACA
*
27330573 ACACACGTATTTCAAAATAA
66 ACACAAGTATTTCAAAATAA
*
27330593 GTAAGACAATGTTAGAGATTAGGTCAAAATCCAATTCC-AGATGATCCTGTGACATACCTGCAAC
1 GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTCCGA-ATGATCCTGTGACATACCTGCAAC
27330657 AACACAAGTAT
65 AACACAAGTAT
27330668 GTGAAACGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
84 1 0.02
85 65 0.98
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
GTAAGACAATGTTAGAGATCAGGTCAAAATCCAATTCCGAATGATCCTGTGACATACCTGCAACA
ACACAAGTATTTCAAAATAA
Found at i:27344374 original size:3 final size:3
Alignment explanation
Indices: 27344366--27344400 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
27344356 AAAGAACGAG
*
27344366 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA GGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
27344401 TGATTTAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:27345246 original size:16 final size:15
Alignment explanation
Indices: 27345217--27345250 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
27345207 CTATAAATCC
27345217 TAAAAAAATATATTA
1 TAAAAAAATATATTA
*
27345232 TAAAAATAATTTATTA
1 TAAAAA-AATATATTA
27345248 TAA
1 TAA
27345251 CTTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAAAATATATTA
Found at i:27347169 original size:23 final size:24
Alignment explanation
Indices: 27347120--27347169 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
27347110 ATACTATATA
*
27347120 TTATAAAAATAATAATATACTTAT
1 TTATAAAAATAATAATATAATTAT
* * *
27347144 TTATAAAAA-AGTATTATAATTTT
1 TTATAAAAATAATAATATAATTAT
27347167 TTA
1 TTA
27347170 CCATAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TTATAAAAATAATAATATAATTAT
Found at i:27347867 original size:6 final size:6
Alignment explanation
Indices: 27347856--27347881 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27347846 AGGGTTACAA
27347856 ATTCAG ATTCAG ATTCAG ATTCAG AT
1 ATTCAG ATTCAG ATTCAG ATTCAG AT
27347882 GATGATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (6 bp):
ATTCAG
Found at i:27348222 original size:16 final size:16
Alignment explanation
Indices: 27348183--27348224 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
27348173 AAAATAACGA
*
27348183 TATAATTACACTTTGT
1 TATAATTACAATTTGT
*
27348199 TA-AATTACAATTTTT
1 TATAATTACAATTTGT
27348214 TATAATTACAA
1 TATAATTACAA
27348225 AAGAGTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (16 bp):
TATAATTACAATTTGT
Found at i:27354341 original size:20 final size:20
Alignment explanation
Indices: 27354291--27354342 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
27354281 GTGGTCATAC
*
27354291 ACACGCCCGTGTGTCTTGGG
1 ACACGCCCGTGTGGCTTGGG
* *
27354311 ACATGCTCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
27354331 ACACGCCCGTGT
1 ACACGCCCGTGT
27354343 CCTCAGCCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.29, G:0.35, T:0.25
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:27356075 original size:45 final size:45
Alignment explanation
Indices: 27356025--27356114 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
27356015 CAAAACATGA
27356025 GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
* *
27356070 GTCACATATATCATGAACTCAGATCACAACTCAATGAGTTCAGAT
1 GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
27356115 TTCATAGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (45 bp):
GTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
Found at i:27356112 original size:21 final size:21
Alignment explanation
Indices: 27356043--27356114 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
27356033 CATCATGAAC
*
27356043 TCAGACCACAACTCAATGAGT
1 TCAGATCACAACTCAATGAGT
* **
27356064 TCAGATGTCACATATATC-ATGAAC
1 TCAGA--TCACA-A-CTCAATGAGT
27356088 TCAGATCACAACTCAATGAGT
1 TCAGATCACAACTCAATGAGT
27356109 TCAGAT
1 TCAGAT
27356115 TTCATAGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 5 0.13
23 4 0.10
24 10 0.26
25 2 0.05
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (21 bp):
TCAGATCACAACTCAATGAGT
Found at i:27359543 original size:27 final size:27
Alignment explanation
Indices: 27359481--27359543 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
27359471 AGTTTGACAG
* *
27359481 GACATTAAACACGGGATAGTCTGCCAG
1 GACATTAAAAACGGGATAGTCTGCCAA
* * *
27359508 GACGA-TAAAAATGGGGTTGTCTGCCAA
1 GAC-ATTAAAAACGGGATAGTCTGCCAA
27359535 GACATTAAA
1 GACATTAAA
27359544 TATCGAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
GACATTAAAAACGGGATAGTCTGCCAA
Found at i:27367909 original size:17 final size:17
Alignment explanation
Indices: 27367884--27367923 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
27367874 CTCAATTAAT
27367884 TTAAA-TAATTTCTCAA
1 TTAAATTAATTTCTCAA
27367900 TTAAATTAATTTCTCAA
1 TTAAATTAATTTCTCAA
*
27367917 TCAAATT
1 TTAAATT
27367924 CTAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTAATTTCTCAA
Found at i:27371296 original size:28 final size:27
Alignment explanation
Indices: 27371233--27371302 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
27371223 ATATTAAGTC
*
27371233 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
27371260 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
27371288 CGCATACTTAGTGCT
1 CGCACACTTAGTGCT
27371303 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:27371325 original size:29 final size:28
Alignment explanation
Indices: 27371232--27371328 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 28
27371222 TATATTAAGT
* *
27371232 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
27371259 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * * *
27371287 TCGCATACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
27371316 CCGCACACTTAGT
1 CCGCACACTTAGT
27371329 TCCAATCTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.37
28 22 0.37
29 16 0.27
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:27371790 original size:2 final size:2
Alignment explanation
Indices: 27371783--27371814 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
27371773 CATACTTATG
*
27371783 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27371815 CTTCGGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27374827 original size:31 final size:31
Alignment explanation
Indices: 27374792--27374863 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
27374782 AAGTATTAGG
*
27374792 TACTATGTACCGATGTTTATATTGTATCAGA
1 TACTATGTACCGATGTTTATATTATATCAGA
* *
27374823 TACTATGTATCGATGTTTATATTATATCAGG
1 TACTATGTACCGATGTTTATATTATATCAGA
27374854 TACTATGTAC
1 TACTATGTAC
27374864 TGGTGTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (31 bp):
TACTATGTACCGATGTTTATATTATATCAGA
Found at i:27376289 original size:28 final size:28
Alignment explanation
Indices: 27376249--27376307 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
27376239 GAAGCAGTTA
* *
27376249 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
*
27376277 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
27376305 GGC
1 GGC
27376308 TTAAAGGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTG
Found at i:27376653 original size:27 final size:27
Alignment explanation
Indices: 27376623--27376988 Score: 329
Period size: 27 Copynumber: 13.6 Consensus size: 27
27376613 CGTAAAAAGG
* *
27376623 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCGAAATACCCCTGATTTGT
* **
27376650 AAAATTACCTAAATACCCCCAATTTGT
1 AAAATTACCGAAATACCCCTGATTTGT
* *
27376677 AAAA-TATCCAAAATACCCTTGA-TTGT
1 AAAATTA-CCGAAATACCCCTGATTTGT
* ** *
27376703 GAAATTACTAAAATACCCTTGATTTGT
1 AAAATTACCGAAATACCCCTGATTTGT
* *
27376730 AAAATCATCGAAATA-CCCTCGATTTGT
1 AAAATTACCGAAATACCCCT-GATTTGT
*
27376757 GAAATTACC-AAA-ACACCCTCGATTTGT
1 AAAATTACCGAAATAC-CCCT-GATTTGT
* * *
27376784 AAAATTATCGAAACACCCTTGATTTGT
1 AAAATTACCGAAATACCCCTGATTTGT
27376811 AAAATTACCGGAAA-A-CCCTGATTTGT
1 AAAATTACC-GAAATACCCCTGATTTGT
* * * *
27376837 GAAATTATCGAAACA-CCCTCGATTTAT
1 AAAATTACCGAAATACCCCT-GATTTGT
* * *
27376864 AAAATTACCGAAACACCCTTGATTTAT
1 AAAATTACCGAAATACCCCTGATTTGT
27376891 AAAATTACCGAAATACCCTCT-ATTTGT
1 AAAATTACCGAAATACCC-CTGATTTGT
*
27376918 AAAATTATCGAAATA-CCCTCGATTTGT
1 AAAATTACCGAAATACCCCT-GATTTGT
* * *
27376945 AAAATTATCGAAACACCCCCGATTTGT
1 AAAATTACCGAAATACCCCTGATTTGT
*
27376972 AAAATTATCGAAATACC
1 AAAATTACCGAAATACC
27376989 TTTGTAGTGT
Statistics
Matches: 286, Mismatches: 37, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
25 7 0.02
26 53 0.19
27 207 0.72
28 17 0.06
29 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGATTTGT
Found at i:27376781 original size:54 final size:54
Alignment explanation
Indices: 27376645--27376988 Score: 399
Period size: 54 Copynumber: 6.4 Consensus size: 54
27376635 ATACCCCTGG
* * * * * *
27376645 TTTGTAAAATTACCTAAATACCCCCAATTTGTAAAA-TATCCAAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTAT-CGAAACACCCTCGA
* ** * * *
27376699 -TTGTGAAATTACTAAAATACCCTTGATTTGTAAAATCATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGA
* * * *
27376752 TTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTATCGAAACACCCTTGA
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGA
*
27376806 TTTGTAAAATTACCGGAAA-ACCCT-GATTTGTGAAATTATCGAAACACCCTCGA
1 TTTGTAAAATTACC-GAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGA
* * * * * * *
27376859 TTTATAAAATTACCGAAACACCCTTGATTTATAAAATTACCGAAATACCCTCTA
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGA
* *
27376913 TTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCCCGA
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGA
*
27376967 TTTGTAAAATTATCGAAATACC
1 TTTGTAAAATTACCGAAATACC
27376989 TTTGTAGTGT
Statistics
Matches: 251, Mismatches: 34, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
52 4 0.02
53 86 0.34
54 158 0.63
55 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGA
Found at i:27376867 original size:134 final size:134
Alignment explanation
Indices: 27376623--27376984 Score: 410
Period size: 134 Copynumber: 2.7 Consensus size: 134
27376613 CGTAAAAAGG
* * * * *
27376623 AAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCTAAATACCCCCAATTTGTAAAA-TATCC
1 AAAATTACCAAAATACCCTC-GATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTA-CC
* * * * * * * *
27376686 AAAATACCCTTGA-TTGTGAAATTA-CTAAAATACCCTTGATTTGTAAAATCATCGAAATACCCT
64 GAAACACCC-TGATTTGTGAAATTATC-GAAACACCCTCGATTTATAAAATCACCGAAACACCCT
*
27376749 CGATTTGT
127 CGATTTAT
* * * *
27376757 GAAATTACCAAAACACCCTCGATTTGTAAAATTATCGAAACACCCTTGATTTGTAAAATTACCGG
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACC-G
* *
27376822 AAA-ACCCTGATTTGTGAAATTATCGAAACACCCTCGATTTATAAAATTACCGAAACACCCTTGA
65 AAACACCCTGATTTGTGAAATTATCGAAACACCCTCGATTTATAAAATCACCGAAACACCCTCGA
27376886 TTTAT
130 TTTAT
* * *
27376891 AAAATTACCGAAATACCCTCTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGA
* *
27376956 AACACCCCCGATTTGTAAAATTATCGAAA
66 AACA-CCCTGATTTGTGAAATTATCGAAA
27376985 TACCTTTGTA
Statistics
Matches: 193, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
133 7 0.04
134 157 0.81
135 29 0.15
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (134 bp):
AAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGA
AACACCCTGATTTGTGAAATTATCGAAACACCCTCGATTTATAAAATCACCGAAACACCCTCGAT
TTAT
Found at i:27376999 original size:27 final size:27
Alignment explanation
Indices: 27376674--27377057 Score: 150
Period size: 27 Copynumber: 14.3 Consensus size: 27
27376664 ACCCCCAATT
* *
27376674 TGTAAAA-TATCCAAAATACCCTTG-AT
1 TGTAAAATTAT-CGAAATACCCTTGTAG
* * *
27376700 TGTGAAATTA-CTAAAATACCCTTG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
* * *
27376727 TGTAAAATCATCGAAATACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* * * * * *
27376754 TGTGAAATTACCAAAACACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
27376781 TGTAAAATTATCGAAACACCCTTG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
27376808 TGTAAAATTACCGGAAA-ACCC-TG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
* * * *
27376834 TGTGAAATTATCGAAACACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* * * *
27376861 TATAAAATTACCGAAACACCCTTG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* * * *
27376888 TATAAAATTACCGAAATACCC-TCTATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
27376915 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* ** *
27376942 TGTAAAATTATCGAAACACCCCCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
*
27376969 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* *
27376996 TGTAAAATTATCAAAATACCATTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
27377023 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
27377050 GGTAAAAT
1 TGTAAAAT
27377058 GACTGTTTGC
Statistics
Matches: 304, Mismatches: 44, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
25 5 0.02
26 39 0.13
27 254 0.84
28 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:27377030 original size:81 final size:81
Alignment explanation
Indices: 27376645--27377015 Score: 405
Period size: 81 Copynumber: 4.6 Consensus size: 81
27376635 ATACCCCTGG
* *** * * *
27376645 TTTGTAAAATTACCTAAATACCCCCAATTTGTAAAA-TATCCAAAATACCCTTGA-TTGTGAAAT
1 TTTGTAAAATTACCGAAATACCCTGTATTTGTAAAATTAT-CGAAATACCCTCGATTTGTAAAAT
* *
27376708 TA-CTAAAATACCCTTGA
65 TATC-GAAACACCCTTGA
* * * * * *
27376725 TTTGTAAAATCATCGAAATACCCTCG-ATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAAT
1 TTTGTAAAATTACCGAAATACCCT-GTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAAT
27376789 TATCGAAACACCCTTGA
65 TATCGAAACACCCTTGA
* * *
27376806 TTTGTAAAATTACCGGAAA-ACCCTG-ATTTGTGAAATTATCGAAACACCCTCGATTTATAAAAT
1 TTTGTAAAATTACC-GAAATACCCTGTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAAT
*
27376869 TACCGAAACACCCTTGA
65 TATCGAAACACCCTTGA
* *
27376886 TTTATAAAATTACCGAAATACCCTCTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTGTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATT
**
27376951 ATCGAAACACCCCCGA
66 ATCGAAACACCCTTGA
* * * *
27376967 TTTGTAAAATTATCGAAATACCTTTGTA-GTGTAAAATTATCAAAATACC
1 TTTGTAAAATTACCGAAATACC-CTGTATTTGTAAAATTATCGAAATACC
27377016 ATTGTAGTGT
Statistics
Matches: 251, Mismatches: 32, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.02
80 111 0.44
81 128 0.51
82 8 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
TTTGTAAAATTACCGAAATACCCTGTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATT
ATCGAAACACCCTTGA
Found at i:27377635 original size:27 final size:27
Alignment explanation
Indices: 27377568--27377635 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
27377558 TGAGGCTAAG
* * *
27377568 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
27377594 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
27377621 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
27377636 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:27385734 original size:42 final size:42
Alignment explanation
Indices: 27385623--27385742 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
27385613 TACCGTACCA
* * **
27385623 ATGCCATATCTTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTAATATCG
* *
27385665 ATGCCAATAGCCTAGCTATGGTCTTACACG-AAGTCTAATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAA-TCTAATATCG
*
27385708 ATGCCATATCCTAGATATGGTCTTACAAGTAATCT
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCT
27385743 TAGTAACCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAATCTAATATCG
Found at i:27388598 original size:4 final size:4
Alignment explanation
Indices: 27388589--27388619 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
27388579 TTTAGTTTAG
27388589 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
27388620 ATGGTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Done.