Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 98 of 125
Found at i:18975153 original size:109 final size:110
Alignment explanation
Indices: 18974975--18975212 Score: 329
Period size: 109 Copynumber: 2.2 Consensus size: 110
18974965 GGTCTTACAG
* *
18974975 AATCA-GCCTCGAGGTCTTACAGAATCGACTGGGATAACACCACAAATCAAAAGATAAAGAATCG
1 AATCATGCCTGGAGGTCTTACAGAATCGACTGAGATAACACCACAAATCAAAAGATAAAGAATCG
18975039 ATCGAGATAACATCGTGAATCAAATTTATAC-CGGAGGCCTTAGA
66 ATCGAGATAACATCGTGAATCAAATTTATACTCGGAGGCCTTAGA
* * * *
18975083 AATCATGCCTGGAGGTCTTACAGAATCGATTGAGATAACACCATAAGTTAAAAGATAAAGAATCG
1 AATCATGCCTGGAGGTCTTACAGAATCGACTGAGATAACACCACAAATCAAAAGATAAAGAATCG
* ** * * * *
18975148 ATCGAGATAACGTCGTGAATTGAATTTATGCTTGGTGGTCTTAGA
66 ATCGAGATAACATCGTGAATCAAATTTATACTCGGAGGCCTTAGA
18975193 AATCATG-CTCGGAGGTCTTA
1 AATCATGCCT-GGAGGTCTTA
18975213 GAAATCATGC
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
108 5 0.04
109 82 0.72
110 27 0.24
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (110 bp):
AATCATGCCTGGAGGTCTTACAGAATCGACTGAGATAACACCACAAATCAAAAGATAAAGAATCG
ATCGAGATAACATCGTGAATCAAATTTATACTCGGAGGCCTTAGA
Found at i:18975178 original size:241 final size:242
Alignment explanation
Indices: 18974714--18975241 Score: 670
Period size: 241 Copynumber: 2.2 Consensus size: 242
18974704 AATCGATTTA
* * * ** **
18974714 ATGCTCGAAGGTCTTAGAAATCATG-TCCAAAAATCTTACAGAATCGACTGGGATAACACCTTAA
1 ATGCTCGGAGGTCTTACAAATCATGCT-CAGAGGTCTTACAGAATCGACTGGGATAACACCACAA
* * * ** * *
18974778 GTGAAAAGATAAAAAATCGATCGGGATAACATCGCGAATCAAATTTATGTTCGAATGTCTTAAAA
65 ATCAAAAGATAAAAAATCGATCGAGATAACATCGCGAATCAAATTTATGACCGAAGGCCTTAAAA
* *
18974843 ATCATGCCCGAAGGTCTTACAGAATCGACTGGGATAACATCATAAGTCAAAAGATAAAGAATCGA
130 ATCATGCCCGAAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAAAGAATCGA
18974908 TCGAGATAACATCACGAATCAAATTTATGCCCGGAGGCCTTAAAAATC
195 TCGAGATAACATCACGAATCAAATTTATGCCCGGAGGCCTTAAAAATC
18974956 ATGC-CTGGAGGTCTTACAGAATCA-GCCTC-GAGGTCTTACAGAATCGACTGGGATAACACCAC
1 ATGCTC-GGAGGTCTTACA-AATCATG-CTCAGAGGTCTTACAGAATCGACTGGGATAACACCAC
* * * *
18975018 AAATCAAAAGATAAAGAATCGATCGAGATAACATCGTGAATCAAATTTAT-ACCGGAGGCCTTAG
63 AAATCAAAAGATAAAAAATCGATCGAGATAACATCGCGAATCAAATTTATGACCGAAGGCCTTAA
* * * *
18975082 AAATCATGCCTGGAGGTCTTACAGAATCGATTGAGATAACACCATAAGTTAAAAGATAAAGAATC
128 AAATCATGCCCGAAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAAAGAATC
* ** ** ** * * *
18975147 GATCGAGATAACGTCGTGAATTGAATTTATGCTTGGTGGTCTTAGAAATC
193 GATCGAGATAACATCACGAATCAAATTTATGCCCGGAGGCCTTAAAAATC
*
18975197 ATGCTCGGAGGTCTTAGAAATCATGCTCAGAGGTCTTACAGAATC
1 ATGCTCGGAGGTCTTACAAATCATGCTCAGAGGTCTTACAGAATC
18975242 ATGCCTGAAG
Statistics
Matches: 244, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
240 8 0.03
241 140 0.57
242 89 0.36
243 6 0.02
244 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (242 bp):
ATGCTCGGAGGTCTTACAAATCATGCTCAGAGGTCTTACAGAATCGACTGGGATAACACCACAAA
TCAAAAGATAAAAAATCGATCGAGATAACATCGCGAATCAAATTTATGACCGAAGGCCTTAAAAA
TCATGCCCGAAGGTCTTACAGAATCGACTGAGATAACACCATAAGTCAAAAGATAAAGAATCGAT
CGAGATAACATCACGAATCAAATTTATGCCCGGAGGCCTTAAAAATC
Found at i:18975209 original size:22 final size:22
Alignment explanation
Indices: 18975175--18975245 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
18975165 AATTGAATTT
* *
18975175 ATGCTTGGTGGTCTTAGAAATC
1 ATGCTCGGAGGTCTTAGAAATC
18975197 ATGCTCGGAGGTCTTAGAAATC
1 ATGCTCGGAGGTCTTAGAAATC
* *
18975219 ATGCTCAGAGGTCTTACAGAATC
1 ATGCTCGGAGGTCTTAGA-AATC
18975242 ATGC
1 ATGC
18975246 CTGAAGGTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 36 0.82
23 8 0.18
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (22 bp):
ATGCTCGGAGGTCTTAGAAATC
Found at i:18975245 original size:23 final size:22
Alignment explanation
Indices: 18975184--18975261 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
18975174 TATGCTTGGT
* *
18975184 GGTCTTAGAAATCATGCTCGGA
1 GGTCTTACAAATCATGCTCAGA
*
18975206 GGTCTTAGAAATCATGCTCAGA
1 GGTCTTACAAATCATGCTCAGA
*
18975228 GGTCTTACAGAATCATGC-CTGAA
1 GGTCTTACA-AATCATGCTCAG-A
18975251 GGTCTTACAAA
1 GGTCTTACAAA
18975262 ATTGACTGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 33 0.65
23 18 0.35
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (22 bp):
GGTCTTACAAATCATGCTCAGA
Found at i:18975385 original size:155 final size:154
Alignment explanation
Indices: 18975072--18975395 Score: 361
Period size: 155 Copynumber: 2.1 Consensus size: 154
18975062 ATTTATACCG
* * * * * * *
18975072 GAGGCCTTAGAAATCATGCCTGGAGGTCTTACAGAATCGATTGAGATAACACCATAAGTTAAAAG
1 GAGGTCTTACAAATCATGCCTGAAGGTCTTACAAAATCGACTGAAATAACACCATAAGTCAAAAG
* * * ** * *
18975137 ATAAAGAATCGATCGAGATAACGTCGTGAATTGAATTTATGCTTGGTGGTCTTAGAAATCATGCT
66 ATAAAGAATCAATCGAGATAACGACCTGAATCAAATTTATGCTGGGAGGTCTTAGAAATCATGCT
* *
18975202 CGGAGGTCTTAGAAATCATGCTCA
131 CGAAAGTCTTAGAAATCATGCTCA
*
18975226 GAGGTCTTACAGAATCATGCCTGAAGGTCTTACAAAATTGACTGAAATAACACCATAAGTCAAAA
1 GAGGTCTTACA-AATCATGCCTGAAGGTCTTACAAAATCGACTGAAATAACACCATAAGTCAAAA
* * *
18975291 GATAAAGAATCAATCGGGATAAC-ACCTCGAATCAAATTTATGGTGGGAGGTCTT-GAAAGTTAT
65 GATAAAGAATCAATCGAGATAACGACCT-GAATCAAATTTATGCTGGGAGGTCTTAGAAA-TCAT
* *
18975354 GC-CTGAAAGTCTTA-AAGATTATGC-CTG
128 GCTC-GAAAGTCTTAGAA-ATCATGCTC-A
18975381 GAGGTCTTACAAATC
1 GAGGTCTTACAAATC
18975396 TCAAAATCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
154 23 0.16
155 119 0.84
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (154 bp):
GAGGTCTTACAAATCATGCCTGAAGGTCTTACAAAATCGACTGAAATAACACCATAAGTCAAAAG
ATAAAGAATCAATCGAGATAACGACCTGAATCAAATTTATGCTGGGAGGTCTTAGAAATCATGCT
CGAAAGTCTTAGAAATCATGCTCA
Found at i:18975387 original size:22 final size:21
Alignment explanation
Indices: 18975336--18975389 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
18975326 ATTTATGGTG
18975336 GGAGGTCTTGAAAGTTATGCCT
1 GGAGGTCTT-AAAGTTATGCCT
* *
18975358 GAAAGTCTTAAAGATTATGCCT
1 GGAGGTCTTAAAG-TTATGCCT
18975380 GGAGGTCTTA
1 GGAGGTCTTA
18975390 CAAATCTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
GGAGGTCTTAAAGTTATGCCT
Found at i:18976049 original size:15 final size:15
Alignment explanation
Indices: 18976029--18976059 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18976019 ATATCTTTCT
*
18976029 AGTGATGTAAATGCA
1 AGTGATGCAAATGCA
18976044 AGTGATGCAAATGCA
1 AGTGATGCAAATGCA
18976059 A
1 A
18976060 AGACTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (15 bp):
AGTGATGCAAATGCA
Found at i:18978068 original size:32 final size:33
Alignment explanation
Indices: 18977989--18978106 Score: 100
Period size: 33 Copynumber: 3.6 Consensus size: 33
18977979 TTTAAGATTT
* * *
18977989 GGGATTTCGAATTTT-GGAGGGATTTGGATTTTAA
1 GGGATTTTGGATTTTAGG-GGG-TTTGGATTCTAA
* * *
18978023 GAG-TTTCGAATTTTAGGGGGTTTGGA-TCTAA
1 GGGATTTTGGATTTTAGGGGGTTTGGATTCTAA
* * *
18978054 GGGATTTTGGATTTTTA-GGAGTTTGGATTTTAG
1 GGGATTTTGGA-TTTTAGGGGGTTTGGATTCTAA
18978087 GGGATTTTGGATTTTAGGGG
1 GGGATTTTGGATTTTAGGGG
18978107 TTTTAGAAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 6 0.09
32 25 0.36
33 35 0.50
34 4 0.06
ACGTcount: A:0.20, C:0.03, G:0.35, T:0.42
Consensus pattern (33 bp):
GGGATTTTGGATTTTAGGGGGTTTGGATTCTAA
Found at i:18978078 original size:16 final size:16
Alignment explanation
Indices: 18977934--18978109 Score: 93
Period size: 16 Copynumber: 11.2 Consensus size: 16
18977924 GATTTAAAGA
* *
18977934 TTTGAATTTTAGGGAT
1 TTTGGATTTTAGGGAG
* *
18977950 TTTGTATTTTTGGG-G
1 TTTGGATTTTAGGGAG
*
18977965 TTTGGA-TTTA-AGAG
1 TTTGGATTTTAGGGAG
*
18977979 TTTAAGA-TTT-GGGA-
1 TTT-GGATTTTAGGGAG
*
18977993 TTTCGAATTTTGGAGGGA-
1 TTT-GGATTTT--AGGGAG
*
18978011 TTTGGATTTTA-AGAG
1 TTTGGATTTTAGGGAG
* *
18978026 TTTCGAATTTTAGGGGG
1 TTT-GGATTTTAGGGAG
* * *
18978043 TTTGGATCTAAGGGAT
1 TTTGGATTTTAGGGAG
18978059 TTTGGATTTTTA-GGAG
1 TTTGGA-TTTTAGGGAG
*
18978075 TTTGGATTTTAGGGGAT
1 TTTGGATTTTA-GGGAG
18978092 TTTGGATTTTAGGG-G
1 TTTGGATTTTAGGGAG
18978107 TTT
1 TTT
18978110 TAGAAACCTA
Statistics
Matches: 121, Mismatches: 26, Indels: 27
0.70 0.15 0.16
Matches are distributed among these distances:
13 1 0.01
14 13 0.11
15 27 0.22
16 45 0.37
17 28 0.23
18 7 0.06
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (16 bp):
TTTGGATTTTAGGGAG
Found at i:18979254 original size:15 final size:15
Alignment explanation
Indices: 18979236--18979265 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18979226 TTTGTTTTTG
18979236 TTTTTTTGTTCGTAT
1 TTTTTTTGTTCGTAT
*
18979251 TTTTTTTGTTGGTAT
1 TTTTTTTGTTCGTAT
18979266 GAGTTCTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.03, G:0.17, T:0.73
Consensus pattern (15 bp):
TTTTTTTGTTCGTAT
Found at i:18979473 original size:11 final size:11
Alignment explanation
Indices: 18979441--18979474 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18979431 AGAACTCCAA
*
18979441 GGTGGCTGTAA
1 GGTGGCTGTAG
*
18979452 GGTAGCTGTAG
1 GGTGGCTGTAG
18979463 GGTGGCTGTAG
1 GGTGGCTGTAG
18979474 G
1 G
18979475 CTGGTGAGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.50, T:0.26
Consensus pattern (11 bp):
GGTGGCTGTAG
Found at i:18979631 original size:3 final size:3
Alignment explanation
Indices: 18979598--18979657 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
18979588 TTTATTAATA
* *
18979598 ATT ATT -TT ATT -TT AATT TTT ATT A-A ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18979641 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
18979658 AGTGAAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 5 0.10
3 42 0.86
4 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18979918 original size:30 final size:30
Alignment explanation
Indices: 18979894--18979977 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
18979884 ATTTATGTAT
18979894 AAATTAAAAGTTAAAAGATTATTTAGATAC
1 AAATTAAAAGTTAAAAGATTATTTAGATAC
* * *
18979924 AAATTAAAAGTTAAATA-CTTATTTAAATGC
1 AAATTAAAAGTTAAA-AGATTATTTAGATAC
**
18979954 AAATTAAAAGTTTGAAGATTATTT
1 AAATTAAAAGTTAAAAGATTATTT
18979978 TGGTATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.96
31 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (30 bp):
AAATTAAAAGTTAAAAGATTATTTAGATAC
Found at i:18981725 original size:2 final size:2
Alignment explanation
Indices: 18981718--18981742 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18981708 TTTTATAGTG
18981718 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18981743 TTTACCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18983410 original size:14 final size:14
Alignment explanation
Indices: 18983393--18983434 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18983383 AATAAAAAGC
18983393 AAAAACTAAA-AAAT
1 AAAAA-TAAATAAAT
18983407 AAAAATAAATAAAT
1 AAAAATAAATAAAT
*
18983421 AGGAAATAAATAAA
1 A-AAAATAAATAAA
18983435 AACATCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 10 0.40
15 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:18983453 original size:82 final size:80
Alignment explanation
Indices: 18983303--18983456 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 80
18983293 TTAAAAATTG
* * * * * * *
18983303 AATAAAAAGGATAAACTGAAAAATAAGAAAAAAACTAGTAAAAAAATAAAAACATCTTTCAAATC
1 AATAAAAAGCAAAAACTAAAAAATAAAAAAAAAAATAGGAAAAAAATAAAAACATCTTTCAAAAC
18983368 GGAATAAAATATTAA
66 GGAATAAAATATTAA
*
18983383 AATAAAAAGCAAAAACTAAAAAATAAAAATAAATAAATAGGAAATAAATAAAAACATCTTTCAAA
1 AATAAAAAGCAAAAACTAAAAAATAAAAA-AAA-AAATAGGAAAAAAATAAAAACATCTTTCAAA
18983448 ACGGAATAA
64 ACGGAATAA
18983457 GTTTTCTGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 25 0.39
81 3 0.05
82 36 0.56
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.19
Consensus pattern (80 bp):
AATAAAAAGCAAAAACTAAAAAATAAAAAAAAAAATAGGAAAAAAATAAAAACATCTTTCAAAAC
GGAATAAAATATTAA
Found at i:18983642 original size:19 final size:20
Alignment explanation
Indices: 18983587--18983655 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 20
18983577 TTATTAATTA
* *
18983587 AAATTATTTATATTTACTATT
1 AAATTA-TTAGATTTACTACT
*
18983608 ACATTATTAGTGATTTACTACT
1 AAATTATTA--GATTTACTACT
*
18983630 AAATTATTA-ATTTATTACT
1 AAATTATTAGATTTACTACT
18983649 AAATTAT
1 AAATTAT
18983656 CAGTGATTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
19 16 0.39
20 3 0.07
21 5 0.12
22 17 0.41
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTATTAGATTTACTACT
Found at i:18983668 original size:22 final size:21
Alignment explanation
Indices: 18983610--18983668 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
18983600 TTACTATTAC
*
18983610 ATTATTAGTGATTTACTACTAA
1 ATTA-TAGTGATTTATTACTAA
*
18983632 ATTAT--TAATTTATTACTAA
1 ATTATAGTGATTTATTACTAA
*
18983651 ATTATCAGTGATTGATTA
1 ATTAT-AGTGATTTATTA
18983669 TTATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 17 0.57
21 1 0.03
22 12 0.40
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (21 bp):
ATTATAGTGATTTATTACTAA
Found at i:18983752 original size:22 final size:22
Alignment explanation
Indices: 18983598--18983952 Score: 146
Period size: 22 Copynumber: 16.4 Consensus size: 22
18983588 AATTATTTAT
* * * *
18983598 ATTTACTATTACATTATTAGTG
1 ATTTACTACTAAATTATCATTG
*
18983620 ATTTACTACTAAA-T-T-ATTA
1 ATTTACTACTAAATTATCATTG
* *
18983639 ATTTATTACTAAATTATCAGTG
1 ATTTACTACTAAATTATCATTG
* * * * * *
18983661 ATTGATTATTATATTTTTATAT-
1 ATTTACTACTAAATTATCAT-TG
* * **
18983683 ATTTATTATTATGTTATCATTG
1 ATTTACTACTAAATTATCATTG
* * *
18983705 ATTTACTACTTAATTTTTAATT-
1 ATTTACTAC-TAAATTATCATTG
*
18983727 ATTTACTACAAAATTATCATTG
1 ATTTACTACTAAATTATCATTG
*
18983749 ATTTA-TCACTAAATTAT-TTATG
1 ATTTACT-ACTAAATTATCAT-TG
* *** *
18983771 ATTCACTA-TCAAA-TATTGCTA
1 ATTTACTACT-AAATTATCATTG
*
18983792 ATTTA-TATTAAATTATACA-TG
1 ATTTACTACTAAATTAT-CATTG
* * *
18983813 ATTTACTATTAAATTATTACTG
1 ATTTACTACTAAATTATCATTG
* * *
18983835 ATTAACTATTAAGTTATCGA-TG
1 ATTTACTACTAAATTATC-ATTG
*
18983857 ATTTACTACTAATTTAT-ATTG
1 ATTTACTACTAAATTATCATTG
* * * *
18983878 ATTTACT-TTAAGATTTTTAATG
1 ATTTACTACTAA-ATTATCATTG
* *
18983900 ATTAACTACTAAGTTATCAATT-
1 ATTTACTACTAAATTATC-ATTG
*
18983922 ATTTACTATTAAATTATCATTG
1 ATTTACTACTAAATTATCATTG
18983944 ATTTACTAC
1 ATTTACTAC
18983953 GAAGTTATTT
Statistics
Matches: 251, Mismatches: 58, Indels: 48
0.70 0.16 0.13
Matches are distributed among these distances:
19 14 0.06
20 11 0.04
21 48 0.19
22 162 0.65
23 16 0.06
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAATTATCATTG
Found at i:18983902 original size:65 final size:66
Alignment explanation
Indices: 18983727--18983951 Score: 212
Period size: 65 Copynumber: 3.5 Consensus size: 66
18983717 ATTTTTAATT
* * * * * **
18983727 ATTTACTACAAAATTATCATTGATTTA-TCACTAAATTATTTATGATTCACTA-TCAA-ATATTG
1 ATTTACTACTAAATTATCATTGATTTACT-ATTAAATTATTAATGATTAACTACT-AAGTTATCA
* *
18983789 CTA
64 ATG
* * * *
18983792 ATTTA-TATTAAATTATACA-TGATTTACTATTAAATTATTACTGATTAACTATTAAGTTATCGA
1 ATTTACTACTAAATTAT-CATTGATTTACTATTAAATTATTAATGATTAACTACTAAGTTATCAA
18983855 TG
65 TG
* *
18983857 ATTTACTACTAATTTAT-ATTGATTTACT-TTAAGATTTTTAATGATTAACTACTAAGTTATCAA
1 ATTTACTACTAAATTATCATTGATTTACTATTAA-ATTATTAATGATTAACTACTAAGTTATCAA
*
18983920 TT
65 TG
*
18983922 ATTTACTATTAAATTATCATTGATTTACTA
1 ATTTACTACTAAATTATCATTGATTTACTA
18983952 CGAAGTTATT
Statistics
Matches: 132, Mismatches: 19, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
64 42 0.32
65 70 0.53
66 20 0.15
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (66 bp):
ATTTACTACTAAATTATCATTGATTTACTATTAAATTATTAATGATTAACTACTAAGTTATCAAT
G
Found at i:18983969 original size:22 final size:22
Alignment explanation
Indices: 18983813--18983969 Score: 79
Period size: 22 Copynumber: 7.2 Consensus size: 22
18983803 ATTATACATG
* * * *
18983813 ATTTACTATTAAATTATTACTG
1 ATTTACTACTAAGTTATTAATT
* * ** *
18983835 ATTAACTATTAAGTTATCGATG
1 ATTTACTACTAAGTTATTAATT
*
18983857 ATTTACTACTAATTTA-T-ATT
1 ATTTACTACTAAGTTATTAATT
* * *
18983877 GATTTACT-TTAAGATTTTTAATG
1 -ATTTACTACTAAG-TTATTAATT
* *
18983900 ATTAACTACTAAGTTATCAATT
1 ATTTACTACTAAGTTATTAATT
* * *
18983922 ATTTACTATTAAATTA-TCATT
1 ATTTACTACTAAGTTATTAATT
* *
18983943 GATTTACTACGAAGTTATTTATT
1 -ATTTACTACTAAGTTATTAATT
18983966 ATTT
1 ATTT
18983970 TTTACTATCA
Statistics
Matches: 100, Mismatches: 28, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
20 5 0.05
21 12 0.12
22 73 0.73
23 10 0.10
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAGTTATTAATT
Found at i:18984268 original size:22 final size:22
Alignment explanation
Indices: 18984227--18984278 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
18984217 TAAATTATTT
**
18984227 ATTAAATTATCATTCGTTTACA
1 ATTAAATTATCATTAATTTACA
*
18984249 ATTAAATTATCATTAATTTACT
1 ATTAAATTATCATTAATTTACA
*
18984271 ACTAAATT
1 ATTAAATT
18984279 TTAATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTAAATTATCATTAATTTACA
Found at i:18984387 original size:24 final size:25
Alignment explanation
Indices: 18984360--18984406 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18984350 CATTTATTTA
*
18984360 TGTAT-ATTCAAAAAGAAAGTAATT
1 TGTATGATACAAAAAGAAAGTAATT
* *
18984384 TGTATGATAGAGAAAGAAAGTAA
1 TGTATGATACAAAAAGAAAGTAA
18984407 CAAAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.28
Consensus pattern (25 bp):
TGTATGATACAAAAAGAAAGTAATT
Found at i:18987650 original size:19 final size:19
Alignment explanation
Indices: 18987626--18987670 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
18987616 TTATTTGATG
* *
18987626 TAAAAAATCATTCTAATTA
1 TAAAAAATCAGTCTAATAA
* *
18987645 TAAAAAGTGAGTCTAATAA
1 TAAAAAATCAGTCTAATAA
18987664 TAAAAAA
1 TAAAAAA
18987671 ATTATTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (19 bp):
TAAAAAATCAGTCTAATAA
Found at i:18989947 original size:2 final size:2
Alignment explanation
Indices: 18989940--18989978 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18989930 ATTTGAAAAG
18989940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18989979 TATTACTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18994186 original size:14 final size:14
Alignment explanation
Indices: 18994153--18994194 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18994143 TTTCTCTTCT
18994153 CCCTCTCTCTCTAA
1 CCCTCTCTCTCTAA
*
18994167 CTCTCTCTCTC-AGA
1 CCCTCTCTCTCTA-A
*
18994181 CCCTCTTTCTCTAA
1 CCCTCTCTCTCTAA
18994195 GCTAATCAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.14, C:0.45, G:0.02, T:0.38
Consensus pattern (14 bp):
CCCTCTCTCTCTAA
Found at i:18994840 original size:22 final size:20
Alignment explanation
Indices: 18994808--18994848 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
18994798 CCTAAAAAGA
*
18994808 AAAGAAGAAGAAGGAAAAAC
1 AAAGAAGAAGAAGAAAAAAC
18994828 AAAGACAGAAAGAAGAAAAAA
1 AAAGA-AG-AAGAAGAAAAAA
18994849 ATAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGAAGAAAAAAC
Found at i:18994869 original size:3 final size:3
Alignment explanation
Indices: 18994863--18994901 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
18994853 AAAAAAAAAT
*
18994863 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18994902 CAAAATGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18995069 original size:45 final size:44
Alignment explanation
Indices: 18995020--18995153 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 44
18995010 TCATCTTTTT
* * *
18995020 ATTTTGAAAATTTTAAAAAGCT-CTTCTAAATAGAGGTTCAACGAC
1 ATTTTGAAAA-TTTAAAAAGCTCCTT-TAAACAGAGGCTCAACAAC
* * *
18995065 ATTTTTGAAACTTTAAAAAGCTCCTTTTAGCAGAGGCTCAACAAC
1 A-TTTTGAAAATTTAAAAAGCTCCTTTAAACAGAGGCTCAACAAC
* * * *
18995110 -TTTTGAAAATTTAAAAAGGTTCCTCTAAGCAAAGGCTCAACAAC
1 ATTTTGAAAATTTAAAAA-GCTCCTTTAAACAGAGGCTCAACAAC
18995154 TTTAAAATTC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
43 16 0.21
44 22 0.29
45 26 0.35
46 11 0.15
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (44 bp):
ATTTTGAAAATTTAAAAAGCTCCTTTAAACAGAGGCTCAACAAC
Found at i:18995254 original size:98 final size:98
Alignment explanation
Indices: 18995130--18995465 Score: 352
Period size: 98 Copynumber: 3.3 Consensus size: 98
18995120 TTAAAAAGGT
*
18995130 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATCATTTTGGAAAAGCTCATCTAAGCAGAGG
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATCATTTT-GAAAAGCTCCTCTAAGCAGAGG
18995195 CTCAATAACTTTAAAACTCTTATCTT-GAAAAGC
65 CTCAATAACTTTAAAACTCTTATCTTAGAAAAGC
* * *
18995228 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATTATCTTCGAAAAGCTCCTCTAAGCAGAAG
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATCAT-TTTGAAAAGCTCCTCTAAGCAGAGG
* * * *
18995293 TTTAATAACTTTACAACTCTTATCTTGGAAAAGC
65 CTCAATAACTTTAAAACTCTTATCTTAGAAAAGC
** * * * * * * *
18995327 TCCTCTAAATAAAGGTTTAACAACTTTAAAGTTTAAAAATTCTATCTCTAAAAAACTCCTCTAAG
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAA-ATT---CA-TC-AT-TTTGAAAAGCTCCTCTAAG
* * *
18995392 CCGAGGCTCAACAACTTTAAAAACT-TTATCTTAAAAAAGGC
59 CAGAGGCTCAATAACTTT-AAAACTCTTATCTTAGAAAA-GC
* * *
18995433 TCTTCTAAGCAGAGGCTCTACAACTTTAAAATT
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATT
18995466 TTCATCTATT
Statistics
Matches: 194, Mismatches: 34, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
98 81 0.42
99 35 0.18
100 2 0.01
103 1 0.01
104 1 0.01
105 44 0.23
106 30 0.15
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (98 bp):
TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATCATTTTGAAAAGCTCCTCTAAGCAGAGGC
TCAATAACTTTAAAACTCTTATCTTAGAAAAGC
Found at i:18995345 original size:49 final size:49
Alignment explanation
Indices: 18995130--18995463 Score: 273
Period size: 50 Copynumber: 6.6 Consensus size: 49
18995120 TTAAAAAGGT
* * *
18995130 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATCATTTTGGAAAAGC
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAACTC-TTATCTTGGAAAAGC
* * *
18995180 TCATCTAAGCAGAGGCTCAATAACTTTAAAACTCTTATCTT-GAAAAGC
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAACTCTTATCTTGGAAAAGC
* *
18995228 TCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCATTATCTTCGAAAAGC
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAACTC-TTATCTTGGAAAAGC
* * * *
18995278 TCCTCTAAGCAGAA-GTTTAATAACTTTACAACTCTTATCTTGGAAAAGC
1 TCCTCTAAGCA-AAGGCTCAACAACTTTAAAACTCTTATCTTGGAAAAGC
** * * * * *
18995327 TCCTCTAAATAAAGGTTTAACAACTTTAAAGTTTAAAAAT-TCTATCTCT-AAAAAAC
1 TCCTCTAAGCAAAGG-CT--CAAC----AACTTTAAAACTCT-TATCT-TGGAAAAGC
** **
18995383 TCCTCTAAGCCGAGGCTCAACAACTTTAAAAACT-TTATCTTAAAAAAGGC
1 TCCTCTAAGCAAAGGCTCAACAACTTT-AAAACTCTTATCTTGGAAAA-GC
* * *
18995433 TCTTCTAAGCAGAGGCTCTACAACTTTAAAA
1 TCCTCTAAGCAAAGGCTCAACAACTTTAAAA
18995464 TTTTCATCTA
Statistics
Matches: 232, Mismatches: 36, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
48 40 0.17
49 55 0.24
50 96 0.41
51 2 0.01
52 2 0.01
53 4 0.02
55 2 0.01
56 30 0.13
57 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (49 bp):
TCCTCTAAGCAAAGGCTCAACAACTTTAAAACTCTTATCTTGGAAAAGC
Found at i:18999726 original size:32 final size:36
Alignment explanation
Indices: 18999689--18999757 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 36
18999679 AGGGTGAGAT
*
18999689 AAAGAAAAT-ATT-GGC-ACATAAAAA-TGAAATAA
1 AAAGAAAATGATTAGGCAAAATAAAAAGTGAAATAA
18999721 AAAGAAAATGATTAAGGCAAAATAAAAAGTGAAATAA
1 AAAGAAAATGATT-AGGCAAAATAAAAAGTGAAATAA
18999758 TTCGAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 9 0.29
33 3 0.10
35 3 0.10
36 8 0.26
37 8 0.26
ACGTcount: A:0.64, C:0.04, G:0.14, T:0.17
Consensus pattern (36 bp):
AAAGAAAATGATTAGGCAAAATAAAAAGTGAAATAA
Found at i:19005694 original size:16 final size:19
Alignment explanation
Indices: 19005673--19005721 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
19005663 TTTTATGTAT
19005673 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
19005690 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
19005708 TGTATATATTTATT
1 TGTAT-TATTTATT
19005722 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:19005795 original size:63 final size:64
Alignment explanation
Indices: 19005682--19005863 Score: 153
Period size: 65 Copynumber: 2.8 Consensus size: 64
19005672 TTGTATTATT
* * *
19005682 TATTATTATTA-TTATGTATTAATATATGTATATATTTATTTATTTATTTTT-TGTTAAT-ATTT
1 TATT-TTATTATTTATGTA-T-ATATATATATAT-TTTTTTTATCTATTTTTATGTTAATCATTT
19005744 ATGTG
62 -T-TG
* *
19005749 TATTTTATTATTTATGTATATATATATATATTTTTTTTATCT-TTTTTATTTTATTCATTTTTG
1 TATTTTATTATTTATGTATATATATATATATTTTTTTTATCTATTTTTATGTTAATCATTTTTG
* *
19005812 TATTTTTACTTATCTAAT-TATATATCTGATATA-TTTTTTTAT-TATTATTTAT
1 TA-TTTTA-TTAT-TTATGTATATATAT-ATATATTTTTTTTATCTATT-TTTAT
19005864 CTTATAATAT
Statistics
Matches: 99, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
63 9 0.09
64 21 0.21
65 38 0.38
66 20 0.20
67 11 0.11
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.65
Consensus pattern (64 bp):
TATTTTATTATTTATGTATATATATATATATTTTTTTTATCTATTTTTATGTTAATCATTTTTG
Found at i:19005809 original size:55 final size:60
Alignment explanation
Indices: 19005678--19005809 Score: 134
Period size: 63 Copynumber: 2.2 Consensus size: 60
19005668 TGTATTGTAT
* *
19005678 TATTTATTATTATTATTATGTATTAATATATGTATATATTTATTTATTTATTTTTTGTTAA
1 TATTTATTATT-TTATTATGTATTAATATATATATATATTTATTTATTTATCTTTTGTTAA
*
19005739 TATTTATGTGTATTTTATTATTTATGT-ATATATATATATA-TT-TTT-TTTATCTTTT-TT-A
1 TATTTA--T-TATTTTATTATGTAT-TAATATATATATATATTTATTTATTTATCTTTTGTTAA
19005797 T-TTTATTCATTTT
1 TATTTATT-ATTTT
19005810 TGTATTTTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
54 1 0.02
55 6 0.10
57 4 0.06
58 2 0.03
59 2 0.03
60 9 0.14
61 9 0.14
62 2 0.03
63 23 0.37
64 5 0.08
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (60 bp):
TATTTATTATTTTATTATGTATTAATATATATATATATTTATTTATTTATCTTTTGTTAA
Found at i:19006233 original size:25 final size:26
Alignment explanation
Indices: 19006179--19006233 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
19006169 CTGGGAGTGA
* * *
19006179 GAAAAATTTTTTTAGAGATTTTTGGC
1 GAAAAATTTTTCTAGAAATTTCTGGC
*
19006205 GAAAAATTTTTCTGGAAATTTCTGG-
1 GAAAAATTTTTCTAGAAATTTCTGGC
19006230 GAAA
1 GAAA
19006234 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (26 bp):
GAAAAATTTTTCTAGAAATTTCTGGC
Found at i:19006389 original size:19 final size:20
Alignment explanation
Indices: 19006365--19006410 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
19006355 TCCGGCCAAC
19006365 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
19006384 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
19006404 ATCCGGC
1 TTCCGGC
19006411 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:19007006 original size:57 final size:58
Alignment explanation
Indices: 19006869--19007147 Score: 406
Period size: 59 Copynumber: 4.7 Consensus size: 58
19006859 AAATTCCAAA
19006869 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AG-AAAATAAATTTCC
19006930 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCC
1 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
*
19006989 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTTC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
19007046 AAAAAA-AGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAATA---TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAATTTCC
*
19007107 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
19007148 CTAAAAAAAA
Statistics
Matches: 205, Mismatches: 2, Indels: 22
0.90 0.01 0.10
Matches are distributed among these distances:
56 1 0.00
57 62 0.30
58 2 0.01
59 80 0.39
60 1 0.00
61 15 0.07
62 1 0.00
63 43 0.21
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC
Found at i:19007026 original size:27 final size:27
Alignment explanation
Indices: 19006939--19007027 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
19006929 CAAAAAAAAT
19006939 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
** * * **
19006966 ATTTTCCTTAGAAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
19006996 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
19007023 ATTTT
1 ATTTT
19007028 CCTTAGAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:19010998 original size:10 final size:10
Alignment explanation
Indices: 19010983--19011027 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
19010973 AGATGATGAA
19010983 AAAAAAATAG
1 AAAAAAATAG
*
19010993 AAAAAAAAAG
1 AAAAAAATAG
* *
19011003 AAAGAAAGAG
1 AAAAAAATAG
19011013 AAAAAAATGAG
1 AAAAAAAT-AG
19011024 AAAA
1 AAAA
19011028 TGAAAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.79
11 6 0.21
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAAAAATAG
Found at i:19012333 original size:40 final size:39
Alignment explanation
Indices: 19012277--19012684 Score: 525
Period size: 40 Copynumber: 10.0 Consensus size: 39
19012267 TGTCTAGGAT
19012277 ATTTACTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
19012318 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGA-GCA
*
19012359 ATTTATTTTTCCCAAAGTCGTTGGGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGTT--GCCTCTGTTTAGAGGAGCA
19012402 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
19012443 ATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
19012483 ATTTACTTTTCAAAGTTCGTTGCGATCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGC-CTCTGTTTAGAGGAGCA
* *
19012524 ATTTACTTTCCAAAGTCATGGTG-CTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTC--GTTGCCTCTGTTTAGAGGAGCA
* *
19012564 ATTTACTTTTCCAAGTTCATTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
19012604 ATTTAC-TTTCCAAGTTCGTTGGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTT-GCCTCTGTTTAGAGGAGCA
*
19012644 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGT--TGCCTCTGTTTAGAGGAGC
19012685 TTTGGTAAAA
Statistics
Matches: 335, Mismatches: 13, Indels: 37
0.87 0.03 0.10
Matches are distributed among these distances:
39 15 0.04
40 153 0.46
41 99 0.30
42 33 0.10
43 19 0.06
44 16 0.05
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (39 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:19012497 original size:81 final size:80
Alignment explanation
Indices: 19012285--19012684 Score: 553
Period size: 81 Copynumber: 4.9 Consensus size: 80
19012275 ATATTTACTT
19012285 TTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTT
1 TTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTT
*
19012348 TAGAGGAGGCAATTTATT
65 TAGAGGA-GCAATTTA-C
19012366 TTTCCCAAAGTCGTTGG-GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTC
1 TTT--CAAAGTCG-TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTC
19012429 TGTTTAGAGGAGCAATTTAC
61 TGTTTAGAGGAGCAATTTAC
*
19012449 TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCGATCTGTT
1 TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC-CTCTGTT
19012514 TAGAGGAGCAATTTAC
65 TAGAGGAGCAATTTAC
* * *
19012530 TTTCCAAAGTCATGGTG-CTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCATTGCCTCTGTT
1 TTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTT
19012594 TAGAGGAGCAATTTAC
65 TAGAGGAGCAATTTAC
* * *
19012610 TTTCCAAGTTCGTTG-GCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAG-TCGTGGTGCCTCT
1 TTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTTCGT--TGCCTCT
19012673 GTTTAGAGGAGC
62 GTTTAGAGGAGC
19012685 TTTGGTAAAA
Statistics
Matches: 291, Mismatches: 12, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
79 5 0.02
80 65 0.22
81 111 0.38
82 38 0.13
83 13 0.04
84 42 0.14
85 17 0.06
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (80 bp):
TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTT
AGAGGAGCAATTTAC
Found at i:19012707 original size:7 final size:7
Alignment explanation
Indices: 19012691--19012730 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
19012681 GAGCTTTGGT
19012691 AAAAAA-
1 AAAAAAC
19012697 AAAAAAC
1 AAAAAAC
19012704 AAAAAAC
1 AAAAAAC
*
19012711 AAAAAAA
1 AAAAAAC
19012718 AAAAAAC
1 AAAAAAC
19012725 AAAAAA
1 AAAAAA
19012731 AACCAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:19012740 original size:1 final size:1
Alignment explanation
Indices: 19012691--19012732 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
19012681 GAGCTTTGGT
* * *
19012691 AAAAAAAAAAAACAAAAAACAAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19012733 CCAAAAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19012740 original size:21 final size:21
Alignment explanation
Indices: 19012691--19012730 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
19012681 GAGCTTTGGT
19012691 AAAAAAAAAAAACAAAAAACA
1 AAAAAAAAAAAACAAAAAACA
19012712 AAAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAACAAAAAA
19012731 AACCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAACAAAAAACA
Found at i:19012956 original size:16 final size:19
Alignment explanation
Indices: 19012935--19012983 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
19012925 TTTTATGTAT
19012935 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
19012952 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
19012970 TGTATATATTTATT
1 TGTAT-TATTTATT
19012984 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:19014086 original size:56 final size:56
Alignment explanation
Indices: 19014012--19014290 Score: 436
Period size: 56 Copynumber: 4.9 Consensus size: 56
19014002 AAAATTCCAA
*
19014012 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCC
* *
19014068 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATAAATTTCAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC-C
*
19014125 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTCC
*
19014181 AAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT--AAATTTCC
* *
19014239 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTAAAAAAAAT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAT
19014291 CATTCTTTCC
Statistics
Matches: 205, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
55 6 0.03
56 124 0.60
57 24 0.12
58 17 0.08
59 34 0.17
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (56 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCC
Found at i:19017525 original size:21 final size:20
Alignment explanation
Indices: 19017487--19017526 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19017477 CTGCCCAAAA
*
19017487 TTTTTTTTGTCTGTGTTGTT
1 TTTTTTTTGTCTGCGTTGTT
*
19017507 TTTTTTTTGTTTGGCGTTGT
1 TTTTTTTTGTCT-GCGTTGT
19017527 GGTCTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.00, C:0.05, G:0.23, T:0.72
Consensus pattern (20 bp):
TTTTTTTTGTCTGCGTTGTT
Found at i:19017990 original size:17 final size:16
Alignment explanation
Indices: 19017968--19018018 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
19017958 GAAGAAGAGG
19017968 GAAAAAGAAAGAACAAAA
1 GAAAAA-AAAGAA-AAAA
*
19017986 GAAAAAAAATAGAAAAA
1 GAAAAAAAAGA-AAAAA
19018003 GAAAAAAAAGAAAAAA
1 GAAAAAAAAGAAAAAA
19018019 TATAATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 18 0.60
18 7 0.23
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAGAAAAAA
Found at i:19020045 original size:20 final size:21
Alignment explanation
Indices: 19020020--19020060 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19020010 TAGACACTAC
*
19020020 ATAAGAA-TAGAAGTTTGCTT
1 ATAAGAATTACAAGTTTGCTT
19020040 ATAAGAATTACAAGTTTGCTT
1 ATAAGAATTACAAGTTTGCTT
19020061 TGATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (21 bp):
ATAAGAATTACAAGTTTGCTT
Found at i:19021902 original size:15 final size:13
Alignment explanation
Indices: 19021874--19021916 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
19021864 AACTAACTTT
19021874 ATTTAATATTTAA
1 ATTTAATATTTAA
19021887 ATTTAATATTTTTAA
1 ATTTAATA--TTTAA
*
19021902 A-TTATTATTTAA
1 ATTTAATATTTAA
19021914 ATT
1 ATT
19021917 CAAATCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 6 0.23
13 9 0.35
14 5 0.19
15 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTAATATTTAA
Found at i:19023017 original size:3 final size:3
Alignment explanation
Indices: 19023009--19023041 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19022999 ATATATATAA
19023009 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19023042 TGATTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19023290 original size:17 final size:18
Alignment explanation
Indices: 19023257--19023290 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19023247 AGCAAATGAA
19023257 TTGAAGAAAATAAATTTT
1 TTGAAGAAAATAAATTTT
*
19023275 TTGATGAAAA-AAATTT
1 TTGAAGAAAATAAATTT
19023291 ATAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
TTGAAGAAAATAAATTTT
Found at i:19023438 original size:2 final size:2
Alignment explanation
Indices: 19023431--19023460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19023421 AAAATACTAT
19023431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19023461 CACACATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19025653 original size:19 final size:19
Alignment explanation
Indices: 19025617--19025654 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19025607 TTTGGACAAA
*
19025617 AAATAATTTGATTTTTTTT
1 AAATAATTTGATTATTTTT
*
19025636 AAATAATTT-ATTAATTTT
1 AAATAATTTGATTATTTTT
19025654 A
1 A
19025655 TAAGTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
AAATAATTTGATTATTTTT
Found at i:19025713 original size:48 final size:46
Alignment explanation
Indices: 19025627--19025718 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 46
19025617 AAATAATTTG
19025627 ATTTTTTTTAAATAATTTATTAATTTTATAAGTATTAAATAATTAAA
1 ATTTTTTTTAAATAATTTATTAATTTTATAAGTATTAAA-AATTAAA
* * *
19025674 ATTTTTTATTACATATAATTT-TTATTTTTAT-ATTTTTAAAAATTA
1 ATTTTTT-TTA-A-ATAATTTATTAATTTTATAAGTATTAAAAATTA
19025719 TTTTTTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
47 12 0.31
48 10 0.26
49 10 0.26
50 7 0.18
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (46 bp):
ATTTTTTTTAAATAATTTATTAATTTTATAAGTATTAAAAATTAAA
Found at i:19026953 original size:21 final size:22
Alignment explanation
Indices: 19026907--19026953 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
19026897 ATTTAAAAAT
* *
19026907 TAAATTAACTAAAATTTTAATT
1 TAAATTAAATAAAATTTTAATA
19026929 TAAA-TAAATAAAA-TTTATATA
1 TAAATTAAATAAAATTTTA-ATA
19026950 TAAA
1 TAAA
19026954 ACTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTAAATAAAATTTTAATA
Found at i:19037102 original size:20 final size:20
Alignment explanation
Indices: 19037073--19037111 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19037063 TTCTAGGGAT
*
19037073 ACAGTTAGAA-GATAAACATC
1 ACAGTAAGAATGA-AAACATC
19037093 ACAGTAAGAATGAAAACAT
1 ACAGTAAGAATGAAAACAT
19037112 GAATCACAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (20 bp):
ACAGTAAGAATGAAAACATC
Found at i:19050657 original size:2 final size:2
Alignment explanation
Indices: 19050645--19050688 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
19050635 TTGTTTTTGC
*
19050645 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19050687 TA
1 TA
19050689 AACAAAGTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19058536 original size:106 final size:106
Alignment explanation
Indices: 19058351--19058559 Score: 373
Period size: 106 Copynumber: 2.0 Consensus size: 106
19058341 AAGCATAAGT
19058351 TGCTAATTGCAAAAGAGATATACACTTAAGCTAGAGGTCATATATCAATTTAAACATCAAATAGC
1 TGCTAATTGCAAAAGAGATATACACTTAAGCTAGAGGTCATATATCAATTTAAACATCAAATAGC
* *
19058416 ACAAGAATGGCACTAAAGTAAAAGTTCTCATGTAATGTTTA
66 ACAAGAATGACACTAAAATAAAAGTTCTCATGTAATGTTTA
** *
19058457 TGCTAATTGCAATGGAGATATATACTTAAGCTAGAGGTCATATATCAATTTAAACATCAAATAGC
1 TGCTAATTGCAAAAGAGATATACACTTAAGCTAGAGGTCATATATCAATTTAAACATCAAATAGC
19058522 ACAAGAATGACACTAAAATAAAAGTTCTCATGTAATGT
66 ACAAGAATGACACTAAAATAAAAGTTCTCATGTAATGT
19058560 GTAAAAATCA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 98 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (106 bp):
TGCTAATTGCAAAAGAGATATACACTTAAGCTAGAGGTCATATATCAATTTAAACATCAAATAGC
ACAAGAATGACACTAAAATAAAAGTTCTCATGTAATGTTTA
Found at i:19060106 original size:15 final size:15
Alignment explanation
Indices: 19060069--19060106 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19060059 ATCAAGCACC
*
19060069 AATAATAGTTTCAAA
1 AATAATATTTTCAAA
*
19060084 AATAATATTTTCACA
1 AATAATATTTTCAAA
19060099 AATAATAT
1 AATAATAT
19060107 CCAAATATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (15 bp):
AATAATATTTTCAAA
Found at i:19062205 original size:16 final size:16
Alignment explanation
Indices: 19062186--19062216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19062176 AACATGGAAA
19062186 CTAAAAAACAAAATTC
1 CTAAAAAACAAAATTC
*
19062202 CTAAAAAAGAAAATT
1 CTAAAAAACAAAATT
19062217 TTTTAGTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.13, G:0.03, T:0.19
Consensus pattern (16 bp):
CTAAAAAACAAAATTC
Found at i:19066884 original size:52 final size:52
Alignment explanation
Indices: 19066796--19066900 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
19066786 TGGACAAGAA
* *
19066796 GACTTACAAAATAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAAAAAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
*
19066848 GACTTACAAAAAAAGAATTCTAAGAG-GAGAGAGATTCTTAATAGGCAAGTTT
1 GACTTACAAAAAAAGAATTCTAAGAGAAAGAG-GATTCTTAATAGGCAAGTTT
19066900 G
1 G
19066901 TATGGTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 4 0.08
52 45 0.92
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.27
Consensus pattern (52 bp):
GACTTACAAAAAAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:19067432 original size:31 final size:31
Alignment explanation
Indices: 19067394--19067469 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
19067384 GCTCAATAAA
*
19067394 TGGTATCAGAGCTGTGATGTTCCCCAACAAG
1 TGGTATCAGAGCTGTGATGATCCCCAACAAG
* * *
19067425 TGGTATCAAAGCTGTGGTGATCCTCAACAAG
1 TGGTATCAGAGCTGTGATGATCCCCAACAAG
19067456 TGGTATCAGAGCTG
1 TGGTATCAGAGCTG
19067470 AAAGTTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
TGGTATCAGAGCTGTGATGATCCCCAACAAG
Found at i:19067530 original size:25 final size:25
Alignment explanation
Indices: 19067482--19067565 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
19067472 AGTTCGAAAC
* *
19067482 GTGAAAAGAGTTAAAGATTCAAGAT
1 GTGAAAAGAGTTAAAGGTTTAAGAT
*
19067507 GTGAAAAGAGTTAAAGGTTTAAGAC
1 GTGAAAAGAGTTAAAGGTTTAAGAT
* * *
19067532 ATGGAAA-AGCTAAAGGTTTAAGAT
1 GTGAAAAGAGTTAAAGGTTTAAGAT
*
19067556 GTGAGAAGAG
1 GTGAAAAGAG
19067566 CTTGGTTTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 19 0.40
25 29 0.60
ACGTcount: A:0.45, C:0.04, G:0.29, T:0.23
Consensus pattern (25 bp):
GTGAAAAGAGTTAAAGGTTTAAGAT
Found at i:19067558 original size:49 final size:47
Alignment explanation
Indices: 19067493--19067585 Score: 116
Period size: 49 Copynumber: 1.9 Consensus size: 47
19067483 TGAAAAGAGT
*
19067493 TAAAGATTCAAGATGTGAAAAGAG-TTAAAGGTTTAAGACATGGAAAAGC
1 TAAAGATTCAAGATGTGAAAAGAGCTT---GGTTTAAGACATAGAAAAGC
* * *
19067542 TAAAGGTTTAAGATGTGAGAAGAGCTTGGTTTAAGACATAGAAA
1 TAAAGATTCAAGATGTGAAAAGAGCTTGGTTTAAGACATAGAAA
19067586 GAAATAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 16 0.41
49 21 0.54
50 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (47 bp):
TAAAGATTCAAGATGTGAAAAGAGCTTGGTTTAAGACATAGAAAAGC
Found at i:19067587 original size:23 final size:23
Alignment explanation
Indices: 19067511--19067587 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
19067501 CAAGATGTGA
*
19067511 AAAGAGTTAAAGGTTTAAGACATGG
1 AAAGAGCT-AAGGTTTAAGACAT-G
**
19067536 AAA-AGCTAAAGGTTTAAGATGTG
1 AAAGAGCT-AAGGTTTAAGACATG
*
19067559 AGAAGAGCT-TGGTTTAAGACATAG
1 A-AAGAGCTAAGGTTTAAGACAT-G
19067583 AAAGA
1 AAAGA
19067588 AATAAGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
23 16 0.37
24 20 0.47
25 7 0.16
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.23
Consensus pattern (23 bp):
AAAGAGCTAAGGTTTAAGACATG
Found at i:19067821 original size:11 final size:11
Alignment explanation
Indices: 19067805--19067833 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
19067795 AATCCCATAA
19067805 GAGATTTGTTT
1 GAGATTTGTTT
19067816 GAGATTTGTTT
1 GAGATTTGTTT
19067827 GAGATTT
1 GAGATTT
19067834 TTCAGATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:19067947 original size:52 final size:52
Alignment explanation
Indices: 19067861--19067964 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
19067851 GGACAAGAAA
* *
19067861 ACTTGCAAAATAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGCAAGTTTG
* * *
19067913 ACTTGCAAGAGAAGAATTCTAAGAG-GAGAGAGATTCTTAATGGGCAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAGA-AGATTCTTAATAGGCAAGTTTG
19067965 TATGGTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 3 0.07
52 43 0.93
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGCAAGTTTG
Found at i:19068407 original size:12 final size:12
Alignment explanation
Indices: 19068390--19068423 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
19068380 ATCTCTTGTG
19068390 TGTTTGATTTAT
1 TGTTTGATTTAT
19068402 TGTTTGATTTAT
1 TGTTTGATTTAT
19068414 TGTTTGATTT
1 TGTTTGATTT
19068424 CACTTTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.68
Consensus pattern (12 bp):
TGTTTGATTTAT
Found at i:19068504 original size:31 final size:31
Alignment explanation
Indices: 19068462--19068544 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
19068452 GCTTTTAGCC
* * *
19068462 CAACAAATGGTATCAGAGCTGTGGTG-TTCT
1 CAACAAGTGGTATCAGAGCTGTGATGATCCT
*
19068492 CTAACAAGTGGTATCAAAGCTGTGATGATCCT
1 C-AACAAGTGGTATCAGAGCTGTGATGATCCT
19068524 CAACAAGTGGTATCAGAGCTG
1 CAACAAGTGGTATCAGAGCTG
19068545 AAGGTTCGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.02
31 41 0.89
32 4 0.09
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
CAACAAGTGGTATCAGAGCTGTGATGATCCT
Found at i:19068642 original size:25 final size:25
Alignment explanation
Indices: 19068557--19068642 Score: 59
Period size: 25 Copynumber: 3.5 Consensus size: 25
19068547 GGTTCGAAAC
* * * *
19068557 GTGAGAAGAGTTGAAGATTCAAGAT
1 GTGAGAAGAGCTAAAGGTTTAAGAT
* * * *
19068582 GTGAAAAGAGCCGAAA-GTTTGAGAC
1 GTGAGAAGAG-CTAAAGGTTTAAGAT
* *
19068607 ATG-GAAAAGCTAAAGGTTTAAGAT
1 GTGAGAAGAGCTAAAGGTTTAAGAT
19068631 GTGAGAAGAGCT
1 GTGAGAAGAGCT
19068643 TGGTTTAAGA
Statistics
Matches: 42, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 23 0.55
26 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (25 bp):
GTGAGAAGAGCTAAAGGTTTAAGAT
Found at i:19071363 original size:20 final size:21
Alignment explanation
Indices: 19071338--19071380 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
19071328 ATAATTATTT
* *
19071338 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
19071358 TATATTAAAAATTATATTAAA
1 TATATTAAAAATTATATTAAA
19071379 TA
1 TA
19071381 ATACCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:19072221 original size:14 final size:15
Alignment explanation
Indices: 19072172--19072221 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
19072162 TTTATATCAT
19072172 AATTTTAATACTTAA
1 AATTTTAATACTTAA
19072187 AATTTTCAA-A-TTAA
1 AATTTT-AATACTTAA
*
19072201 AAATTTAATACTT-A
1 AATTTTAATACTTAA
19072215 AATTTTA
1 AATTTTA
19072222 TTAATTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 17 0.57
15 9 0.30
16 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTTTAATACTTAA
Found at i:19077450 original size:11 final size:11
Alignment explanation
Indices: 19077434--19077474 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
19077424 ATACGATAAT
19077434 ATAATATAAAA
1 ATAATATAAAA
*
19077445 ATAATATTAAA
1 ATAATATAAAA
19077456 A-AATATAAAA
1 ATAATATAAAA
19077466 ATAATATAA
1 ATAATATAA
19077475 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:19077593 original size:18 final size:18
Alignment explanation
Indices: 19077572--19077635 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
19077562 TTTAATTTTT
19077572 ATATAAAATATAATATAA
1 ATATAAAATATAATATAA
* **
19077590 ATATAAAAATTATTATATTC
1 ATAT-AAAA-TATAATATAA
* *
19077610 GTATAAAATATAATATGA
1 ATATAAAATATAATATAA
19077628 ATATAAAA
1 ATATAAAA
19077636 ATTATCATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 18 0.50
19 8 0.22
20 10 0.28
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATAAAATATAATATAA
Found at i:19077593 original size:31 final size:32
Alignment explanation
Indices: 19077511--19077593 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 32
19077501 TATAAACTTA
* *
19077511 ATAAAATAAAATA-AAAAATTTTATATTTTTAT
1 ATAAAATATAATATAAATA-TTTATATTTTTAT
*
19077543 AT-TAATATAA-ATTATAATATTTA-ATTTTTAT
1 ATAAAATATAATA-TA-AATATTTATATTTTTAT
19077574 ATAAAATATAATATAAATAT
1 ATAAAATATAATATAAATAT
19077594 AAAAATTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
30 1 0.02
31 21 0.50
32 16 0.38
33 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAAAATATAATATAAATATTTATATTTTTAT
Found at i:19077594 original size:20 final size:18
Alignment explanation
Indices: 19077571--19077637 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 18
19077561 ATTTAATTTT
19077571 TATATAAAATATAATATAAA
1 TATA-AAAATATAATAT-AA
* *
19077591 TATAAAAAT-TATTATAT
1 TATAAAAATATAATATAA
*
19077608 TCGTATAAAATATAATATGAA
1 T-ATA-AAAATATAATAT-AA
19077629 TATAAAAAT
1 TATAAAAAT
19077638 TATCATTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.05
18 7 0.19
19 15 0.41
20 11 0.30
21 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (18 bp):
TATAAAAATATAATATAA
Found at i:19077942 original size:29 final size:30
Alignment explanation
Indices: 19077905--19077968 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
19077895 AAAATTAAAA
19077905 TTAAAATTTTATTATAATT-AATAAAATTT
1 TTAAAATTTTATTATAATTCAATAAAATTT
* * *
19077934 TTAATATTTTATTATAATTCAATTAAGTTT
1 TTAAAATTTTATTATAATTCAATAAAATTT
19077964 TTAAA
1 TTAAA
19077969 TGAATGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
TTAAAATTTTATTATAATTCAATAAAATTT
Found at i:19078015 original size:21 final size:24
Alignment explanation
Indices: 19077991--19078038 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 24
19077981 ACTCACATGA
19077991 TAAAATT-TAATTAATT-AA-TTT
1 TAAAATTATAATTAATTAAACTTT
*
19078012 T-AAATTATAGTTAATTAAACTTT
1 TAAAATTATAATTAATTAAACTTT
19078035 TAAA
1 TAAA
19078039 GGGAGCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 2 0.09
23 4 0.18
24 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TAAAATTATAATTAATTAAACTTT
Found at i:19078985 original size:45 final size:44
Alignment explanation
Indices: 19078928--19079013 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
19078918 TCTAGTAATA
*
19078928 TTTATTAAAATTTTAAAACTTTGGCTCATTGATAGTCACATTTG
1 TTTATTAAAATTTTAAAACTTTGGCTCATTGATAATCACATTTG
* *
19078972 TTTATATATAATTTTAAAACTTTGGTTCATTGATAATCACAT
1 TTTAT-TAAAATTTTAAAACTTTGGCTCATTGATAATCACAT
19079014 GAACATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 5 0.13
45 33 0.87
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (44 bp):
TTTATTAAAATTTTAAAACTTTGGCTCATTGATAATCACATTTG
Found at i:19079023 original size:45 final size:45
Alignment explanation
Indices: 19078936--19079026 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
19078926 TATTTATTAA
* *****
19078936 AATTTTAAAACTTTGGCTCATTGATAGTCACATTTGTTTATATAT
1 AATTTTAAAACTTTGGCTCATTGATAATCACATGAACATATATAT
*
19078981 AATTTTAAAACTTTGGTTCATTGATAATCACATGAACATATATAT
1 AATTTTAAAACTTTGGCTCATTGATAATCACATGAACATATATAT
19079026 A
1 A
19079027 TACATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (45 bp):
AATTTTAAAACTTTGGCTCATTGATAATCACATGAACATATATAT
Found at i:19079025 original size:2 final size:2
Alignment explanation
Indices: 19079018--19079049 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
19079008 TCACATGAAC
*
19079018 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19079050 GAAAAATTGA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19079946 original size:59 final size:58
Alignment explanation
Indices: 19079872--19080390 Score: 640
Period size: 60 Copynumber: 8.7 Consensus size: 58
19079862 TTTTTTTTAG
19079872 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTTCTAA
** ** *
19079931 GGAAAATTGATACTTTCAACTTTTCTTCAAAAACCCCTTTTTTGAAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAATTTATTTTCTAA
* *
19079990 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAA-TTT-ATTTTCTAA
*
19080052 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTTCTAA
*
19080112 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTTCTAA
* * * *
19080172 GGAAAATTGATACTTTCAATTTTTCCCTAAAAATATATTTTGGAAATTTATTCT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAA
* *
19080229 GGAAAATTGATACTTTCAAC-TTTCCCCTAAAAATAATTTTTTTGAAATTT-TTTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAAAT-ATTTTTTGGAAATTTATTTTCTAA
19080287 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTTC---TAA
*
19080349 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTT
19080391 TTAGAATTTT
Statistics
Matches: 408, Mismatches: 31, Indels: 38
0.86 0.06 0.08
Matches are distributed among these distances:
56 6 0.01
57 59 0.14
58 47 0.12
59 80 0.20
60 102 0.25
61 19 0.05
62 86 0.21
63 9 0.02
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAA
Found at i:19080495 original size:12 final size:12
Alignment explanation
Indices: 19080469--19080522 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
19080459 AACCTAATCT
*
19080469 AATAAATAA-AA
1 AATAAAAAATAA
19080480 AATAAAAAATAA
1 AATAAAAAATAA
19080492 AATAAACAAATAA
1 AATAAA-AAATAA
*
19080505 ACA-AAGAAATAA
1 A-ATAAAAAATAA
19080517 AA-AAAA
1 AATAAAA
19080523 TTCAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 12 0.32
12 15 0.41
13 9 0.24
14 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:19080514 original size:20 final size:19
Alignment explanation
Indices: 19080472--19080520 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
19080462 CTAATCTAAT
19080472 AAATAAAAAATAAAAAATA
1 AAATAAAAAATAAAAAATA
*
19080491 AAATAAACAAATAAACAAA-G
1 AAATAAA-AAATAAA-AAATA
19080511 AAATAAAAAA
1 AAATAAAAAA
19080521 AATTCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 14 0.52
21 3 0.11
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (19 bp):
AAATAAAAAATAAAAAATA
Found at i:19080531 original size:10 final size:10
Alignment explanation
Indices: 19080516--19080542 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19080506 CAAAGAAATA
19080516 AAAAAAATTC
1 AAAAAAATTC
19080526 AAAAAAATTC
1 AAAAAAATTC
19080536 AAAAAAA
1 AAAAAAA
19080543 AAAAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:19080974 original size:20 final size:20
Alignment explanation
Indices: 19080933--19080977 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19080923 CCGGAAGTCG
*
19080933 GCCGGTTTCTGGGAATATTC
1 GCCGGTTTCTGGGAATACTC
* *
19080953 GCCGGTTTCTGGGATTCCTC
1 GCCGGTTTCTGGGAATACTC
19080973 GCCGG
1 GCCGG
19080978 AAACTGGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.27, G:0.33, T:0.31
Consensus pattern (20 bp):
GCCGGTTTCTGGGAATACTC
Found at i:19089768 original size:163 final size:160
Alignment explanation
Indices: 19089220--19089992 Score: 1249
Period size: 156 Copynumber: 4.9 Consensus size: 160
19089210 TTAAAATTTT
* * * *
19089220 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19089285 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
*
19089350 GATT-ATTT---AAAGAAAAATCAAGATCA
131 GATTAATTTAAAAAAAAAAAATCAAGATCA
* *
19089376 ACCAATTAATTAAGTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19089441 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
*
19089506 GATTAA-TT---AAAGAAAAATCAAGATCA
131 GATTAATTTAAAAAAAAAAAATCAAGATCA
*
19089532 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19089597 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAAGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
*
19089662 GATTAATTTAAAAAAAAAAAAAAATCAAAATCA
131 GATTAATTT---AAAAAAAAAAAATCAAGATCA
* *
19089695 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19089760 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAAGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
*
19089825 GATTAA-TTAAAAAAAAAAAATCAAAATCA
131 GATTAATTTAAAAAAAAAAAATCAAGATCA
* *
19089854 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
19089919 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
*
19089984 GGATAAATT
130 GGATTAATT
19089993 AAAGAGAAAA
Statistics
Matches: 589, Mismatches: 18, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
156 281 0.48
157 3 0.01
159 125 0.21
160 28 0.05
161 1 0.00
162 2 0.00
163 149 0.25
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (160 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
GATTAATTTAAAAAAAAAAAATCAAGATCA
Found at i:19089819 original size:319 final size:320
Alignment explanation
Indices: 19089220--19090022 Score: 1280
Period size: 319 Copynumber: 2.5 Consensus size: 320
19089210 TTAAAATTTT
* * * *
19089220 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19089285 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
* *
19089350 GATT-ATTT------AAAGAAAAATCAAGATCAACCAATTAATTAAGTATCGAAAATTATTCTCA
131 GATTAATTTAAAAAAAAAAAAAAATCAAGATCAACCAAGTAATTAAGTATCGAAAATTATTCTCA
19089408 ATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAA
196 ATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAA
* * *
19089473 ACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATT-AAAGAAAAATCAAGATCA
261 ACTACTGTTTCACTTGCAGAAGCTCCGTCGTCGGATTAATTAAAAAAAAAATCAAAATCA
*
19089532 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19089597 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAAGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
* * * *
19089662 GATTAATTTAAAAAAAAAAAAAAATCAAAATCAGCCAAGTAATTAATTATCGGAAATTATTCTCA
131 GATTAATTTAAAAAAAAAAAAAAATCAAGATCAACCAAGTAATTAAGTATCGAAAATTATTCTCA
*
19089727 ATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAA
196 ATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAA
19089792 ACTACTGTTTCACTTGCAGAAGCTCCGTCGTCGGATTAATTAAAAAAAAAAAATCAAAATCA
261 ACTACTGTTTCACTTGCAGAAGCTCCGTCGTCGGATTAATT--AAAAAAAAAATCAAAATCA
* *
19089854 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
19089919 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
* *
19089984 GGATAAATTAAAGAGAAAAGAAAAAAAAATCAAGATCAA
130 GGATTAATT-TA-A-AAAA-AAAAAAAAATCAAGATCAA
19090023 AATCAAAGTC
Statistics
Matches: 449, Mismatches: 27, Indels: 15
0.91 0.05 0.03
Matches are distributed among these distances:
312 127 0.28
313 4 0.01
319 148 0.33
322 117 0.26
323 30 0.07
324 1 0.00
325 1 0.00
326 4 0.01
327 17 0.04
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (320 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
GATTAATTTAAAAAAAAAAAAAAATCAAGATCAACCAAGTAATTAAGTATCGAAAATTATTCTCA
ATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAGTATGCAAGAAAA
ACTACTGTTTCACTTGCAGAAGCTCCGTCGTCGGATTAATTAAAAAAAAAATCAAAATCA
Found at i:19090050 original size:16 final size:15
Alignment explanation
Indices: 19090004--19090099 Score: 55
Period size: 15 Copynumber: 6.5 Consensus size: 15
19089994 AAGAGAAAAG
19090004 AAAAAAAAATCAAGAT
1 AAAAAAAAATCAA-AT
* *
19090020 CAAAATCAAAGTCAAAT
1 -AAAA-AAAAATCAAAT
19090037 AAAAAAAAATTCAAA-
1 AAAAAAAAA-TCAAAT
19090052 AAAAAAAAA--AAA-
1 AAAAAAAAATCAAAT
19090064 AAAAAATCAAA--AAA-
1 AAAAAA--AAATCAAAT
19090078 AAAAAAAAATTCAAA-
1 AAAAAAAAA-TCAAAT
19090093 AAAAAAA
1 AAAAAAA
19090100 CCTGGAGCGG
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
12 12 0.18
14 12 0.18
15 22 0.32
16 9 0.13
17 6 0.09
18 7 0.10
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.10
Consensus pattern (15 bp):
AAAAAAAAATCAAAT
Found at i:19090058 original size:18 final size:18
Alignment explanation
Indices: 19090054--19090099 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
19090044 AATTCAAAAA
19090054 AAAAAAAAAAAAAAAATC
1 AAAAAAAAAAAAAAAATC
*
19090072 AAAAAAAAAAAAAAATTC
1 AAAAAAAAAAAAAAAATC
19090090 AAAAAAAAAA
1 AAAAAAAAAA
19090100 CCTGGAGCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.89, C:0.04, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAATC
Found at i:19090099 original size:1 final size:1
Alignment explanation
Indices: 19090049--19090086 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
19090039 AAAAAAATTC
**
19090049 AAAAAAAAAAAAAAAAAAAAATCAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19090087 TTCAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.95, C:0.03, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:19090099 original size:23 final size:23
Alignment explanation
Indices: 19090037--19090086 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
19090027 AAAGTCAAAT
*
19090037 AAAAAAAAATTCAAAAAAAAAAA
1 AAAAAAAAAATCAAAAAAAAAAA
19090060 AAAAAAAAAATCAAAAAAAAAAA
1 AAAAAAAAAATCAAAAAAAAAAA
19090083 AAAA
1 AAAA
19090087 TTCAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.90, C:0.04, G:0.00, T:0.06
Consensus pattern (23 bp):
AAAAAAAAAATCAAAAAAAAAAA
Found at i:19090462 original size:19 final size:20
Alignment explanation
Indices: 19090427--19090472 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
19090417 GAACACCGGT
* *
19090427 GCCGGATTCTGGGAAATTTG
1 GCCGGAATCTGGGAAATTTC
19090447 GCCGGAATCT-GGAAATTTC
1 GCCGGAATCTGGGAAATTTC
19090466 GCCGGAA
1 GCCGGAA
19090473 GTTGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (20 bp):
GCCGGAATCTGGGAAATTTC
Found at i:19090519 original size:20 final size:19
Alignment explanation
Indices: 19090496--19090536 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19090486 TCGCCGGTTT
*
19090496 CTGGGATTCTTCGCCGGAAA
1 CTGGG-TTCGTCGCCGGAAA
*
19090516 CTGGGTTGGTCGCCGGAAA
1 CTGGGTTCGTCGCCGGAAA
19090535 CT
1 CT
19090537 TCAAAGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (19 bp):
CTGGGTTCGTCGCCGGAAA
Found at i:19090565 original size:31 final size:31
Alignment explanation
Indices: 19090525--19090594 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
19090515 ACTGGGTTGG
*
19090525 TCGCCGGAAACTTCAAAGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATT-T
*
19090557 T-GCCGGAAAATTCAAATTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
19090587 TCGCCGGA
1 TCGCCGGA
19090595 TTCTGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 2 0.06
31 32 0.91
32 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
Found at i:19091034 original size:3 final size:3
Alignment explanation
Indices: 19091026--19091059 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
19091016 GATAATTAAA
19091026 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19091060 GATAAACCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19091365 original size:1 final size:1
Alignment explanation
Indices: 19091361--19091488 Score: 121
Period size: 1 Copynumber: 128.0 Consensus size: 1
19091351 ATTTTTTTGA
* ** * * ** * * *
19091361 TTTTTTTTTATTTTTGATTTTTTTTGTTTTTATTTTTTTGGTTTTTTGTTTTTTTTGTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
19091426 TTTTTTGTTTTTTTGTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19091489 GCCGAAGCTC
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 100 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:19091488 original size:8 final size:8
Alignment explanation
Indices: 19091352--19091485 Score: 154
Period size: 8 Copynumber: 16.9 Consensus size: 8
19091342 CAACTCAACA
19091352 TTTTTTTG
1 TTTTTTTG
19091360 ATTTTTTT-
1 -TTTTTTTG
19091368 TTATTTTTG
1 TT-TTTTTG
19091377 ATTTTTTT-
1 -TTTTTTTG
* *
19091385 TGTTTTTA
1 TTTTTTTG
19091393 TTTTTTTG
1 TTTTTTTG
*
19091401 GTTTTTTG
1 TTTTTTTG
19091409 TTTTTTT-
1 TTTTTTTG
19091416 TGTTTTTTG
1 T-TTTTTTG
19091425 TTTTTTTG
1 TTTTTTTG
19091433 TTTTTTTG
1 TTTTTTTG
19091441 -TTTTTTG
1 TTTTTTTG
19091448 TTTTTTTTG
1 -TTTTTTTG
19091457 TTTTTTTG
1 TTTTTTTG
19091465 TTTTTTT-
1 TTTTTTTG
19091472 TTTTTTT-
1 TTTTTTTG
19091479 TTTTTTT
1 TTTTTTT
19091486 TTTGCCGAAG
Statistics
Matches: 112, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
7 30 0.27
8 60 0.54
9 20 0.18
10 2 0.02
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:19091615 original size:41 final size:41
Alignment explanation
Indices: 19091495--19091943 Score: 642
Period size: 41 Copynumber: 11.0 Consensus size: 41
19091485 TTTTGCCGAA
* * * *
19091495 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
19091536 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCAC-GACTTTGAAAAGTAAATT
19091576 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
19091617 GCTCCTCTCAACAGAGGTACCACCACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
19091658 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAATTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
19091700 GCTCCTCTCAACAGAGGCACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
19091741 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
19091782 GCTCCTCTCAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
19091822 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
19091863 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* *
19091905 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAGTAAAT
1 GCTCCTCTCAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
19091944 ACTCCTAGAC
Statistics
Matches: 376, Mismatches: 22, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
39 9 0.02
40 78 0.21
41 219 0.58
42 70 0.19
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:19091934 original size:246 final size:245
Alignment explanation
Indices: 19091495--19091937 Score: 728
Period size: 246 Copynumber: 1.8 Consensus size: 245
19091485 TTTTGCCGAA
* *
19091495 GCTCCTCTAAACAGAGACTCAACGACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGA
1 GCTCCTCTAAACAGAGACACAACGACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
* *
19091560 CTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
66 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
* * *
19091625 CAACAGAGGTACCACCACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGACTTTGGA
131 CAACAGAGGTACCACCACTTTGGAAAATAAATTGCTCCTCTAAACAGAGG-ACAACGACTTTGGA
19091690 AAATTAAATTGCTCCTCTCAACAGAGGCACCACAACTTTGAAAAGTAAATT
195 AAATTAAATTGCTCCTCTCAACAGAGGCACCACAACTTTGAAAAGTAAATT
* * * *
19091741 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGACACAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
19091805 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
*
19091870 TCAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGG-CAACGAACTTTG
130 TCAACAGAGGTACCACCACTTTGG-AAAATAAATTGCTCCTCTAAACAGAGGACAACG-ACTTTG
19091934 GAAA
193 GAAA
19091938 GTAAATACTC
Statistics
Matches: 182, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
245 8 0.04
246 149 0.82
247 25 0.14
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (245 bp):
GCTCCTCTAAACAGAGACACAACGACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
CAACAGAGGTACCACCACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGACAACGACTTTGGAA
AATTAAATTGCTCCTCTCAACAGAGGCACCACAACTTTGAAAAGTAAATT
Found at i:19093168 original size:8 final size:7
Alignment explanation
Indices: 19093134--19093206 Score: 60
Period size: 7 Copynumber: 10.0 Consensus size: 7
19093124 TTGAATATCT
19093134 TTTTTTC
1 TTTTTTC
19093141 ATTTTTTC
1 -TTTTTTC
19093149 ATTTTTTC
1 -TTTTTTC
*
19093157 TTCTTTC
1 TTTTTTC
19093164 TTTCTTT-
1 TTT-TTTC
*
19093171 TTTTTTT
1 TTTTTTC
*
19093178 TTTTTTT
1 TTTTTTC
19093185 TTTTTTGC
1 TTTTTT-C
19093193 TCTTTTT-
1 T-TTTTTC
19093200 TTTTTTC
1 TTTTTTC
19093207 ATCATCTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
6 8 0.14
7 25 0.44
8 19 0.33
9 5 0.09
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:19093216 original size:15 final size:14
Alignment explanation
Indices: 19093197--19093230 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
19093187 TTTTGCTCTT
19093197 TTTTTTTTTCATCA
1 TTTTTTTTTCATCA
*
19093211 TCTTTTTTTTCCTCA
1 T-TTTTTTTTCATCA
19093226 TTTTT
1 TTTTT
19093231 CATCTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTTTTCATCA
Found at i:19093613 original size:1 final size:1
Alignment explanation
Indices: 19093607--19093647 Score: 82
Period size: 1 Copynumber: 41.0 Consensus size: 1
19093597 TTTTGTGGTG
19093607 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19093648 CAAAAATTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19097170 original size:157 final size:157
Alignment explanation
Indices: 19096884--19097662 Score: 1292
Period size: 157 Copynumber: 4.9 Consensus size: 157
19096874 TTAAAATTTT
* * * *
19096884 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19096949 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
*
19097014 GATTATTTAAAGAAAAAATCAAGATCA
131 GATTAATTAAAGAAAAAATCAAGATCA
* *
19097041 ACCAATTAATTAAGTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
19097106 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
19097171 GATTAATTAAAG-AAAAATCAAGATCA
131 GATTAATTAAAGAAAAAATCAAGATCA
*
19097197 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
19097262 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
*
19097327 GATTAATTAAAGAAAAAAAAAATCAAAATCA
131 GATTAATTAAAG----AAAAAATCAAGATCA
* *
19097358 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
19097423 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
*
19097488 GGATTAATTAAAAAAAAAATCAA-ATCA
130 GGATTAATTAAAGAAAAAATCAAGATCA
* *
19097515 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* *
19097580 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
*
19097645 GGATAAATTAAGAGAAAA
130 GGATTAATTAA-AGAAAA
19097663 GAAAAAAAAT
Statistics
Matches: 597, Mismatches: 18, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
156 154 0.26
157 279 0.47
158 15 0.03
161 114 0.19
162 35 0.06
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (157 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
GATTAATTAAAGAAAAAATCAAGATCA
Found at i:19097717 original size:18 final size:18
Alignment explanation
Indices: 19097712--19097757 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
19097702 AATTCAAAAA
19097712 AAAAAAAAAAAAAAAATC
1 AAAAAAAAAAAAAAAATC
*
19097730 AAAAAAAAAAAAAAATTC
1 AAAAAAAAAAAAAAAATC
19097748 AAAAAAAAAA
1 AAAAAAAAAA
19097758 CCTGGAGCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.89, C:0.04, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAATC
Found at i:19097757 original size:1 final size:1
Alignment explanation
Indices: 19097707--19097744 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
19097697 AAAAAAATTC
**
19097707 AAAAAAAAAAAAAAAAAAAAATCAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19097745 TTCAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.95, C:0.03, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:19097757 original size:23 final size:23
Alignment explanation
Indices: 19097696--19097744 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
19097686 AAAGTCAAAT
*
19097696 AAAAAAAATTCAAAAAAAAAAAA
1 AAAAAAAAATCAAAAAAAAAAAA
19097719 AAAAAAAAATCAAAAAAAAAAAA
1 AAAAAAAAATCAAAAAAAAAAAA
19097742 AAA
1 AAA
19097745 TTCAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.90, C:0.04, G:0.00, T:0.06
Consensus pattern (23 bp):
AAAAAAAAATCAAAAAAAAAAAA
Found at i:19098120 original size:19 final size:20
Alignment explanation
Indices: 19098085--19098130 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
19098075 GAACACCGGT
* *
19098085 GCCGGATTCTGGGAAATTTG
1 GCCGGAATCTGGGAAATTTC
19098105 GCCGGAATCT-GGAAATTTC
1 GCCGGAATCTGGGAAATTTC
19098124 GCCGGAA
1 GCCGGAA
19098131 GTTGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (20 bp):
GCCGGAATCTGGGAAATTTC
Found at i:19098224 original size:31 final size:31
Alignment explanation
Indices: 19098184--19098253 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
19098174 ACTGGGTTGG
*
19098184 TCGCCGGAAACTTCAAAGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATT-T
*
19098216 T-GCCGGAAAATTCAAATTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
19098246 TCGCCGGA
1 TCGCCGGA
19098254 TTCTGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 2 0.06
31 32 0.91
32 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
Found at i:19098777 original size:17 final size:18
Alignment explanation
Indices: 19098752--19098787 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19098742 ATAATATAAT
19098752 ATATAAATATACAA-CTA
1 ATATAAATATACAATCTA
*
19098769 ATATGAATATACAATCTA
1 ATATAAATATACAATCTA
19098787 A
1 A
19098788 ACTTGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.31
Consensus pattern (18 bp):
ATATAAATATACAATCTA
Found at i:19103979 original size:20 final size:20
Alignment explanation
Indices: 19103956--19103995 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19103946 AATCTAAAAT
*
19103956 AAAATTTATATTATTAAATAA
1 AAAATTAAT-TTATTAAATAA
19103977 AAAATTAATTTATTAAATA
1 AAAATTAATTTATTAAATA
19103996 TATATAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTAATTTATTAAATAA
Found at i:19104301 original size:14 final size:14
Alignment explanation
Indices: 19104282--19104319 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
19104272 CATTATGTTG
19104282 TATATTTACATGTA
1 TATATTTACATGTA
*
19104296 TATATTT--ATTTA
1 TATATTTACATGTA
19104308 TATATTTACATG
1 TATATTTACATG
19104320 CAAACACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (14 bp):
TATATTTACATGTA
Found at i:19104953 original size:30 final size:30
Alignment explanation
Indices: 19104880--19104964 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
19104870 ATTTAAGTAT
* * *
19104880 AAATTAAAAGTCAAGAGCTTATTTGGATAC
1 AAATTAAAAATTAAGAGCTTATTTGAATAC
* * * *
19104910 AAATTAAACATTAATAGTTTATTTGAATGC
1 AAATTAAAAATTAAGAGCTTATTTGAATAC
* *
19104940 AAATTAAAAATTAAAATCTTATTTG
1 AAATTAAAAATTAAGAGCTTATTTG
19104965 CCTACAATAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (30 bp):
AAATTAAAAATTAAGAGCTTATTTGAATAC
Found at i:19107505 original size:62 final size:61
Alignment explanation
Indices: 19107321--19107513 Score: 165
Period size: 64 Copynumber: 3.1 Consensus size: 61
19107311 TAATCTTCTC
* * * * ** ***
19107321 TAAAAAATTGGGGTGATTATTGAAGACATTTTTGGCCAAAAATGTTTTAAATAATCTTTTCA
1 TAAAAAATAGAGGTGATTATTGAAGGCATTTTT-GCCAAAAACGCATTAAATAATCCCCTCA
* ** * * * *
19107383 TAAAAAATAGATAGGAGATTATTGAAGGTGTTTTTGGCATACAACGCCTTTAATAATCCCCTCA
1 TAAAAAATAG--AGGTGATTATTGAAGGCATTTTTGCCA-AAAACGCATTAAATAATCCCCTCA
* * *
19107447 TAAAAAATAGAGGTGATTATTGAAGGCATTTTTGCCAAAAACACATTCAATAATTCCC-C-
1 TAAAAAATAGAGGTGATTATTGAAGGCATTTTTGCCAAAAACGCATTAAATAATCCCCTCA
19107506 TAAAAAAT
1 TAAAAAAT
19107514 TGAAGAAAAT
Statistics
Matches: 104, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
59 8 0.08
60 1 0.01
61 16 0.15
62 32 0.31
63 3 0.03
64 44 0.42
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (61 bp):
TAAAAAATAGAGGTGATTATTGAAGGCATTTTTGCCAAAAACGCATTAAATAATCCCCTCA
Found at i:19109262 original size:21 final size:21
Alignment explanation
Indices: 19109238--19109286 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
19109228 AATCTCCTAT
19109238 TACTTAAG-TTAGTGATATTGA
1 TACTTAAGTTTA-TGATATTGA
* *
19109259 TACTCAAGTTTATGATCTTGA
1 TACTTAAGTTTATGATATTGA
*
19109280 TATTTAA
1 TACTTAA
19109287 AGTGATGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (21 bp):
TACTTAAGTTTATGATATTGA
Found at i:19113012 original size:160 final size:159
Alignment explanation
Indices: 19112683--19113771 Score: 932
Period size: 160 Copynumber: 6.8 Consensus size: 159
19112673 TTTGTTTACA
* * ** * * * * * *
19112683 ACTTTTTATGCCATTAAAAGGTAAAAAATGTAAATTTACAATTATTGTTCTGTTTTAATAGTTTT
1 ACTTTTTATGCCGTTAAAAGG-CAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTG
* * * * *
19112748 GATAGTTTCAATACATGATATTAAACTTATCCAAATTATTGAACTTAGTTTTCACAGTTGATATG
65 GATAGCTTCAATACATGATATTAAACTTGT-CAAATGATTGAACTTGGTTTCCA-AGTTGATATG
* * * *
19112813 TATGAAAAAATTATTGTTTA-ATTTATTTAGG
128 TGTGAAAAAGTTATCGTTTATATTTATTTAAG
* * * * * *
19112844 ATTTTTTGTGCTGTTAATAGGTAAAATTACAAATTTGCTATTATTGTTCTATTTTAACAATTTGG
1 ACTTTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGG
* * * *
19112909 ATAGCTCCAATATATGATATTAAACTTGTCAAATGATTGAACTTGGTTTCCATAGTTCACATGTG
66 ATAGCTTCAATACATGATATTAAACTTGTCAAATGATTGAACTTGGTTTCCA-AGTTGATATGTG
* * *
19112974 TGAAAAAGCTATCGTTTATGTTTGTTTAAG
130 TGAAAAAGTTATCGTTTATATTTATTTAAG
* * * ** * * * **
19113004 ACTTTTTGTGCTGGTAAAAGAAAAAAATGCAAATTTGTTGTTATTGTTCTATTTTAACAATTTAC
1 ACTTTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGG
* ** * *
19113069 ATAGCTTCAATACATAATATTAAACTTGTTTGAATAATTGAACTTGGTTTCTATAGTTGATATGT
66 ATAGCTTCAATACATGATATTAAACTTG-TCAAATGATTGAACTTGGTTTCCA-AGTTGATATGT
* * * * * *
19113134 GTGAAAAAGCTAACGTTTACATCTGTTTAGG
129 GTGAAAAAGTTATCGTTTATATTTATTTAAG
* * * *
19113165 ACTTTTTATGTCGTTAAAAGGC-AAAATGCAAATTTGATATTATTGTTCTATTTTAACAGTTTGG
1 ACTTTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGG
* * * * * *
19113229 ATAGGTTCAATATATGATATTAAACTTGTCCCAATGATTAAACTTGATTTCTAAGTTGATATGTG
66 ATAGCTTCAATACATGATATTAAACTTGT-CAAATGATTGAACTTGGTTTCCAAGTTGATATGTG
* *
19113294 TGAAAAAATTATCGTTTATATTTATTTTAG
130 TGAAAAAGTTATCGTTTATATTTATTTAAG
* * * * * * *
19113324 ACTATGTT-TGCCATTAAAAGGCAAAAATACACATTTGCTATTATTATTCGATTTTAATAGTTT-
1 ACT-TTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTG
* * *
19113387 GAAAGGCTTCAATACATGATATTAAACTTTTTCAAATGATTAAACTTGGTTTCTGCAA-TTGATA
65 GATA-GCTTCAATACATGATATTAAAC-TTGTCAAATGATTGAACTTGGTTTC--CAAGTTGATA
* * * *
19113451 TATGTGAAAAAGTTA-CTGTTTATCTCTATTTAGG
126 TGTGTGAAAAAGTTATC-GTTTATATTTATTTAAG
* *
19113485 ACTTTTTATACCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTC--TGTTAACAATTTGG
1 ACTTTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGG
* * * ** * *
19113548 ATAGCTTCAATATATGATATTAAACTTTTTCGAATGATTGAACTTAATTTTC-A--CG----GT-
66 ATAGCTTCAATACATGATATTAAAC-TTGTCAAATGATTGAACTTGGTTTCCAAGTTGATATGTG
* * * ** * *
19113605 TAAAAAAGTTGTTGTTTACCTCTATTTAGG
130 TGAAAAAGTTATCGTTTATATTTATTTAAG
* * * * * * * *
19113635 ACTTTTTTTTGCTGTTAAAAGGCAAAAATTCAAAGTTGCTATAATTGTTTTGTTTTAACAGTTTG
1 AC-TTTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTG
* * * * * *
19113700 AATAACTTCAATACATGATATTAAACTTGTTCAAATGATTGAATTTAGTTTTCATGATTGATATG
65 GATAGCTTCAATACATGATATTAAACTTG-TCAAATGATTGAACTTGGTTTCCAAG-TTGATATG
19113765 TGTGAAA
128 TGTGAAA
19113772 GGCCAAAATG
Statistics
Matches: 756, Mismatches: 146, Indels: 51
0.79 0.15 0.05
Matches are distributed among these distances:
150 27 0.04
151 41 0.05
152 2 0.00
153 54 0.07
155 1 0.00
156 1 0.00
157 2 0.00
159 148 0.20
160 309 0.41
161 165 0.22
162 6 0.01
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (159 bp):
ACTTTTTATGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGG
ATAGCTTCAATACATGATATTAAACTTGTCAAATGATTGAACTTGGTTTCCAAGTTGATATGTGT
GAAAAAGTTATCGTTTATATTTATTTAAG
Found at i:19113737 original size:153 final size:150
Alignment explanation
Indices: 19113457--19113753 Score: 405
Period size: 153 Copynumber: 2.0 Consensus size: 150
19113447 GATATATGTG
* *
19113457 AAAAAGTTACTGTTTATCTCTATTTAGGACTTTTTATACCGTTAAAAGGCAAAAATACAAATTTG
1 AAAAAGTTACTGTTTACCTCTATTTAGGACTTTTTATACCGTTAAAAGGCAAAAATACAAAGTTG
* * * * * *
19113522 CTATTATTGTTCTGTTAACAATTTGGATAGCTTCAATATATGATATTAAACTTTTTCGAATGATT
66 CTATAATTGTTCTGTTAACAATTTGAATAACTTCAATACATGATATTAAACTTGTTCAAATGATT
19113587 GAACTTAATTTTCACGGTTA
131 GAACTTAATTTTCACGGTTA
** * * * *
19113607 AAAAAGTTGTTGTTTACCTCTATTTAGGACTTTTTTTTGCTGTTAAAAGGCAAAAATTCAAAGTT
1 AAAAAGTTACTGTTTACCTCTATTTAGGAC-TTTTTATACCGTTAAAAGGCAAAAATACAAAGTT
* *
19113672 GCTATAATTGTTTTGTTTTAACAGTTTGAATAACTTCAATACATGATATTAAACTTGTTCAAATG
65 GCTATAATTGTTCTG--TTAACAATTTGAATAACTTCAATACATGATATTAAACTTGTTCAAATG
* *
19113737 ATTGAATTTAGTTTTCA
128 ATTGAACTTAATTTTCA
19113754 TGATTGATAT
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
150 27 0.21
151 42 0.33
153 57 0.45
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (150 bp):
AAAAAGTTACTGTTTACCTCTATTTAGGACTTTTTATACCGTTAAAAGGCAAAAATACAAAGTTG
CTATAATTGTTCTGTTAACAATTTGAATAACTTCAATACATGATATTAAACTTGTTCAAATGATT
GAACTTAATTTTCACGGTTA
Found at i:19115261 original size:34 final size:33
Alignment explanation
Indices: 19115176--19115272 Score: 90
Period size: 34 Copynumber: 2.8 Consensus size: 33
19115166 ACATCTTATG
19115176 ATACAAATTCTACTAAATTAATGATGATTTTTTT
1 ATACAAATTC-ACTAAATTAATGATGATTTTTTT
* ** *
19115210 ATATAAACACCATTAAATTAAT-A-GTATTTTTCTT
1 ATACAAA-TTCACTAAATTAATGATG-ATTTTT-TT
*
19115244 ATACAAATGTCACTAAATTAACGATGATT
1 ATACAAAT-TCACTAAATTAATGATGATT
19115273 GTGCTTACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
32 1 0.02
33 7 0.15
34 34 0.71
35 5 0.10
36 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (33 bp):
ATACAAATTCACTAAATTAATGATGATTTTTTT
Done.