Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, 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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 51 of 64
Found at i:10394168 original size:25 final size:25
Alignment explanation
Indices: 10394140--10394189 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10394130 TCATCTTATC
10394140 TTTTAACAAAATTAAAAATAATTAA
1 TTTTAACAAAATTAAAAATAATTAA
10394165 TTTTAACAAAATTAAAAATAATTAA
1 TTTTAACAAAATTAAAAATAATTAA
10394190 GGTTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TTTTAACAAAATTAAAAATAATTAA
Found at i:10402190 original size:26 final size:28
Alignment explanation
Indices: 10402159--10402216 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 28
10402149 TTTAAATTTC
10402159 AAAATTTAA-TCCTTATATTTTTGTA-T
1 AAAATTTAATTCCTTATATTTTTGTATT
** *
10402185 AAAA-TTAATTTTTTATATTTTTTTATT
1 AAAATTTAATTCCTTATATTTTTGTATT
10402212 AAAAT
1 AAAAT
10402217 ATTTCAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.15
26 17 0.65
27 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (28 bp):
AAAATTTAATTCCTTATATTTTTGTATT
Found at i:10403806 original size:14 final size:15
Alignment explanation
Indices: 10403781--10403809 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10403771 TAAAACTTAT
10403781 AATTTATAATTTTTA
1 AATTTATAATTTTTA
10403796 AATTT-TAATTTTTA
1 AATTTATAATTTTTA
10403810 TATCCGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTATAATTTTTA
Found at i:10412248 original size:20 final size:20
Alignment explanation
Indices: 10412220--10412261 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10412210 AATATAACAT
10412220 GTTTAAATTTGACAAAACCG
1 GTTTAAATTTGACAAAACCG
* *
10412240 GTTTTAATTTGATAAAACCG
1 GTTTAAATTTGACAAAACCG
10412260 GT
1 GT
10412262 AAAGAGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (20 bp):
GTTTAAATTTGACAAAACCG
Found at i:10412431 original size:197 final size:195
Alignment explanation
Indices: 10412091--10412719 Score: 751
Period size: 177 Copynumber: 3.3 Consensus size: 195
10412081 AAAGTATACA
** * *
10412091 TGTATCGATACTTTTATAAGTATATGTATAAAAGTATCGGTACTTTAGTAATTTAAAAGAATTGC
1 TGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGC
* * * *
10412156 AATAATAGCGGCTGTAAAGTATCAAAACCTTAGACACATGTATCGACACATGACAATATAACATG
66 AATAATAGCGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATG
*
10412221 TTTAAATTTGACAAAACCGGTTTTAATTTGATAAAACCGGTAAAGAGCTATTGGAATGGTTGAAA
131 TTTAAATTTGACAAAACCGG-TTTAATTTGA-AAAACCGGTAAAGAGCTACTGGAATGGTTGAAA
10412286 TT
194 TT
* * ** * *
10412288 TGTATCGATATTTTTATAAGTATATGCATTAAAGTATCGGTGCTTTAGGAATTTAAAAGAATTGC
1 TGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGC
* * *
10412353 AATAATATCGGCTATAAAGTATCGATACATTAGACACATGTATCGATATATGACAATATAACATG
66 AATAATAGCGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATG
* * * *
10412418 TTTAAAATTG-----A-C------------AAAACCGGTAAAGAGCTACCGGAAGGGTTGACATT
131 TTTAAATTTGACAAAACCGGTTTAATTTGAAAAACCGGTAAAGAGCTACTGGAATGGTTGAAATT
* * *
10412465 TGTATCGATACTTTTATAAGTATATGTACCAAAGTATTGATACTTTTGGAATTTAAAAGAATTAC
1 TGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGC
* * *
10412530 AATAATAGCGTCTATAAAGTATCGATACCTTAGACACATGTATCAATACATGACAATATAACAGG
66 AATAATAGCGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATG
* * * * *
10412595 TTGAAATTTGACAAAACTGGTTTCAATTTGACAAAACCAGTAAAGATCTACTGGAATTGTT-AAA
131 TTTAAATTTGACAAAACCGGTTT-AATTTGA-AAAACCGGTAAAGAGCTACTGGAATGGTTGAAA
10412659 --
194 TT
* * *
10412659 AGTATCGATACATTTATAAGTATATGTACCATAGTATCGATACTTTAGGAATTTAAAAGAA
1 TGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAA
10412720 ATGAAAAAAA
Statistics
Matches: 366, Mismatches: 46, Indels: 43
0.80 0.10 0.09
Matches are distributed among these distances:
177 154 0.42
182 1 0.00
191 1 0.00
192 1 0.00
194 56 0.15
196 2 0.01
197 151 0.41
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (195 bp):
TGTATCGATACTTTTATAAGTATATGTACCAAAGTATCGATACTTTAGGAATTTAAAAGAATTGC
AATAATAGCGGCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACATG
TTTAAATTTGACAAAACCGGTTTAATTTGAAAAACCGGTAAAGAGCTACTGGAATGGTTGAAATT
Found at i:10413227 original size:125 final size:127
Alignment explanation
Indices: 10412999--10413407 Score: 502
Period size: 125 Copynumber: 3.2 Consensus size: 127
10412989 AAACTCTAGT
* * * *
10412999 TAAATTAATAATGTACACGGTAAATGTTTCTACCGGTATAATGAAAACATGCGTAAATGTCCAAG
1 TAAATTAACAATGTACACGGTAAACGTTTCTACCGG----ATGAAAATAGGCGTAAATGTCCAAG
* ** * *
10413064 TATCGATACTCATATACAAAGTATTAATATTTATAATTTCGAAACATATTACTTTAAAGTAATAG
62 TATCGATACTCATATATAAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAG
10413129 G
127 G
*
10413130 TAAATTAACAATGTGCACGGTAAACGTTTCTACCGG-T-AAAATAGGCGTAAATGTCCAAGTATC
1 TAAATTAACAATGTACACGGTAAACGTTTCTACCGGATGAAAATAGGCGTAAATGTCCAAGTATC
* * * * *
10413193 GATCCTCATATATAAAGTATCGAGACTTATAATTTCAAAACCTATTACTTTAAAATAATAGA
66 GATACTCATATATAAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGG
* * *
10413255 TAAATTAACAATGTACATGGTAAACATTTCTACCGGTATAATGAAAATAGGCGTAAATGTACAAG
1 TAAATTAACAATGTACACGGTAAACGTTTCTACCGG----ATGAAAATAGGCGTAAATGTCCAAG
* * * *
10413320 TATCAATAAT-GTCATAT-AAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATA
62 TATCGATACTCAT-ATATAAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
*
10413383 TG
126 GG
10413385 TAAATTAACAATGTACACGGTAA
1 TAAATTAACAATGTACACGGTAA
10413408 TATATTGATA
Statistics
Matches: 241, Mismatches: 30, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
125 109 0.45
126 1 0.00
130 66 0.27
131 65 0.27
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (127 bp):
TAAATTAACAATGTACACGGTAAACGTTTCTACCGGATGAAAATAGGCGTAAATGTCCAAGTATC
GATACTCATATATAAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGG
Found at i:10413799 original size:226 final size:226
Alignment explanation
Indices: 10413405--10414014 Score: 812
Period size: 226 Copynumber: 2.7 Consensus size: 226
10413395 ATGTACACGG
* * * *
10413405 TAATATATTGATAATATTGAAAACAAATGAAGTATTTAACATATTTTGTTATCGTTAGATTTCTA
1 TAATATATTGATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * * * *
10413470 AAGTCCTATAAGCTTTAAATAGGCGCTACCTATTACATTAAATAAGCGTTACTTGTTATGTTATT
66 AAGCCCAATAAGCTTTAAATATGTGCTACATATTACATTAAATAAGCGCTACTTGTTATGTTATT
* * *
10413535 ATGGTTGATAATATTTCCAGTAATTAACGTATTTTGTTATCATCGGATTTCTAAGGCTCAATCAG
131 ATGGTTGATAATGTTTCTAGTAATTAACGTATTTTGTTATCATCAGATTTCTAAGGCTCAATCAG
* **
10413600 CTTAAACTTTGATAACATTTTAGTTGCTAAC-
196 CTTAAACTTAGATAACATTTTAGGCGC-AACT
* *
10413631 TAATATATTGATAATATTGAAAATAAATTAAGTAATTAACCTATTTTGTTATCGTCATATTTC-A
1 TAATATATTGATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * ** *
10413695 AAGGCCCCATCAGCTTTAAATATGTGCTAGTTATTACATTAAATAACCGCTACTTGTTATGTTAT
66 AA-GCCCAATAAGCTTTAAATATGTGCTACATATTACATTAAATAAGCGCTACTTGTTATGTTAT
* * * * *
10413760 TATGGTTGATAATGTTTCTAGTAATTAACTTATTTTGTTATTATCAGATTTCTGAGGCTCTATTA
130 TATGGTTGATAATGTTTCTAGTAATTAACGTATTTTGTTATCATCAGATTTCTAAGGCTCAATCA
* *
10413825 GCTTAAACTTAGGTAACATTTTAGGCGCCACT
195 GCTTAAACTTAGATAACATTTTAGGCGCAACT
* * * *
10413857 TAATATGTTGATAATATTGATAACAAATTAAATAATTAACCTATTTTGTTATCGTCAGAGTTCTA
1 TAATATATTGATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * **
10413922 AAACCCAATTAGCTTTAAAAATGTGCTACATATTATGTTAAATAAGCGCTACCTT-TTATGTTAT
66 AAGCCCAATAAGCTTTAAATATGTGCTACATATTACATTAAATAAGCGCTA-CTTGTTATGTTAT
*
10413986 TATGTTTGATAATGTTTCTAGTAATTAAC
130 TATGGTTGATAATGTTTCTAGTAATTAAC
10414015 CGATTATATT
Statistics
Matches: 336, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
225 5 0.01
226 325 0.97
227 6 0.02
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (226 bp):
TAATATATTGATAATATTGAAAACAAATTAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
AAGCCCAATAAGCTTTAAATATGTGCTACATATTACATTAAATAAGCGCTACTTGTTATGTTATT
ATGGTTGATAATGTTTCTAGTAATTAACGTATTTTGTTATCATCAGATTTCTAAGGCTCAATCAG
CTTAAACTTAGATAACATTTTAGGCGCAACT
Found at i:10423814 original size:2 final size:2
Alignment explanation
Indices: 10423807--10423847 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10423797 CTAACCTTGA
10423807 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10423848 TCTCCATTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10424264 original size:20 final size:20
Alignment explanation
Indices: 10424241--10424280 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10424231 AGTATTTGAC
*
10424241 TCTATAAATAAATATTATGT
1 TCTATAAATAAAGATTATGT
*
10424261 TCTATAAATAGAGATTATGT
1 TCTATAAATAAAGATTATGT
10424281 ATTAGCCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (20 bp):
TCTATAAATAAAGATTATGT
Found at i:10424341 original size:20 final size:17
Alignment explanation
Indices: 10424300--10424342 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
10424290 TAGGGTAGTG
10424300 TGAGATAAAATTATTTT
1 TGAGATAAAATTATTTT
*
10424317 GGAGATAGATAATTATTTTT
1 TGAGATA-A-AATTA-TTTT
10424337 TGAGAT
1 TGAGAT
10424343 CTTTGTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 5 0.24
20 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (17 bp):
TGAGATAAAATTATTTT
Found at i:10425004 original size:15 final size:15
Alignment explanation
Indices: 10424984--10425013 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10424974 TATTTGGTTT
*
10424984 ATGCAATAATTCTTA
1 ATGCAAGAATTCTTA
10424999 ATGCAAGAATTCTTA
1 ATGCAAGAATTCTTA
10425014 TTGAATAAGA
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:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (15 bp):
ATGCAAGAATTCTTA
Found at i:10425064 original size:20 final size:20
Alignment explanation
Indices: 10425036--10425083 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
10425026 TATTGGTGAT
*
10425036 TAAATATTTGACTCTATAAA
1 TAAAGATTTGACTCTATAAA
10425056 TAAAGATTTGACTCTATAAA
1 TAAAGATTTGACTCTATAAA
*
10425076 TATAGATT
1 TAAAGATT
10425084 ATATATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (20 bp):
TAAAGATTTGACTCTATAAA
Found at i:10437175 original size:32 final size:32
Alignment explanation
Indices: 10437139--10437200 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
10437129 ACCCGACCTG
*
10437139 TTTCAACCTGACATGTTTTTAACCTGACCTAT
1 TTTCAACCTAACATGTTTTTAACCTGACCTAT
* **
10437171 TTTCAATCTAATTTGTTTTTAACCTGACCT
1 TTTCAACCTAACATGTTTTTAACCTGACCT
10437201 GTAAATGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.24, C:0.23, G:0.08, T:0.45
Consensus pattern (32 bp):
TTTCAACCTAACATGTTTTTAACCTGACCTAT
Found at i:10441100 original size:61 final size:61
Alignment explanation
Indices: 10441035--10441176 Score: 196
Period size: 61 Copynumber: 2.3 Consensus size: 61
10441025 TCTTAGTTTT
* *
10441035 AAATTTATTCAATTTATTCCAAAATTAATGATT-TAATATATTAATTTAAACTTCATATTTC
1 AAATTTATTCAATTTAATCCAAAATTAAT-ATTATAATATATTAATTTAAACTTCATATTTA
* * * *
10441096 AAATTTTTTCAATTTAATCCAAATTTAATATTATAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTATTCAATTTAATCCAAAATTAATATTATAATATATTAATTTAAACTTCATATTTA
* *
10441157 AAATTTGTTCAATTTGATCC
1 AAATTTATTCAATTTAATCC
10441177 TTATATATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
60 3 0.04
61 69 0.96
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.49
Consensus pattern (61 bp):
AAATTTATTCAATTTAATCCAAAATTAATATTATAATATATTAATTTAAACTTCATATTTA
Found at i:10441265 original size:33 final size:33
Alignment explanation
Indices: 10441228--10441337 Score: 128
Period size: 33 Copynumber: 3.5 Consensus size: 33
10441218 ATTATTAAAT
10441228 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
10441261 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
10441286 TACTATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
10441319 TAATATATAGTTCTATATA
1 TAATATATAGTT-TATATA
10441338 GTTTATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
25 21 0.34
26 1 0.02
32 1 0.02
33 33 0.53
34 6 0.10
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:10441292 original size:25 final size:25
Alignment explanation
Indices: 10441258--10441306 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10441248 CTAATGAACT
* *
10441258 ATATAATATATAGTTTGTATATACC
1 ATATAATATATAGGTTATATATACC
*
10441283 ATATACTATATAGGTTATATATAC
1 ATATAATATATAGGTTATATATAC
10441307 TAATGAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
ATATAATATATAGGTTATATATACC
Found at i:10441335 original size:43 final size:43
Alignment explanation
Indices: 10441288--10441377 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
10441278 ATACCATATA
10441288 CTATATAGGTTATATATACTAATGAACTATATAATATATAGTT
1 CTATATAGGTTATATATACTAATGAACTATATAATATATAGTT
* *
10441331 CTATATAGTTTATATATACTAATGAACTATTTAATATATAGTT
1 CTATATAGGTTATATATACTAATGAACTATATAATATATAGTT
10441374 -TATA
1 CTATA
10441378 CATAATGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 41 0.91
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (43 bp):
CTATATAGGTTATATATACTAATGAACTATATAATATATAGTT
Found at i:10441345 original size:101 final size:87
Alignment explanation
Indices: 10441231--10441450 Score: 251
Period size: 101 Copynumber: 2.4 Consensus size: 87
10441221 ATTAAATTAA
10441231 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATACCATATACTATATAG
1 TATATAGTTTATATATACTAATGAACTATATAATATATAG--T-T-TATA-CATA-A-TATATAG
10441296 GTTATATATACTAATGAACTATATAATATATAGTTC
59 GTTATATATAC-AAT--A-TA-AT-ATATATAG-TC
* * *
10441332 TATATAGTTTATATATACTAATGAACTATTTAATATATAGTTTATACATAATGTATAGTTTATAT
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATACATAATATATAGGTTATAT
* * *
10441397 ATACCATATAGTCTATATAGTC
66 ATACAATATAATATATATAGTC
*
10441419 TATATAGTTTATATATACTAATAAACTATATA
1 TATATAGTTTATATATACTAATGAACTATATA
10441451 GTTTAGGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
87 32 0.29
88 7 0.06
89 1 0.01
90 2 0.02
91 1 0.01
93 2 0.02
94 16 0.14
95 1 0.01
96 4 0.04
97 4 0.04
98 1 0.01
99 1 0.01
101 39 0.35
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (87 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATACATAATATATAGGTTATAT
ATACAATATAATATATATAGTC
Found at i:10441406 original size:18 final size:18
Alignment explanation
Indices: 10441331--10441438 Score: 91
Period size: 18 Copynumber: 6.2 Consensus size: 18
10441321 ATATATAGTT
10441331 CTATATAGTTTATATATA
1 CTATATAGTTTATATATA
* *
10441349 CTA-AT-G--AACTATTTA
1 CTATATAGTTTA-TATATA
* *
10441364 ATATATAGTTTATACATA
1 CTATATAGTTTATATATA
* *
10441382 ATGTATAGTTTATATATA
1 CTATATAGTTTATATATA
* *
10441400 CCATATAGTCTATATAGT-
1 CTATATAGTTTATATA-TA
10441418 CTATATAGTTTATATATA
1 CTATATAGTTTATATATA
10441436 CTA
1 CTA
10441439 ATAAACTATA
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
14 1 0.01
15 7 0.10
16 3 0.04
17 4 0.06
18 52 0.75
19 2 0.03
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (18 bp):
CTATATAGTTTATATATA
Found at i:10441414 original size:9 final size:9
Alignment explanation
Indices: 10441402--10441433 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10441392 TATATATACC
10441402 ATATAGTCT
1 ATATAGTCT
10441411 ATATAGTCT
1 ATATAGTCT
*
10441420 ATATAGTTT
1 ATATAGTCT
10441429 ATATA
1 ATATA
10441434 TACTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (9 bp):
ATATAGTCT
Found at i:10441499 original size:2 final size:2
Alignment explanation
Indices: 10441492--10441558 Score: 55
Period size: 2 Copynumber: 32.0 Consensus size: 2
10441482 ATATGTAAAT
* *
10441492 TA TA TA TA TA CA TA TA GTT TA TA TA TA TA -A TA TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
10441535 AA TA TA AA CTA TA GTA TA TA TA TA
1 TA TA TA TA -TA TA -TA TA TA TA TA
10441559 ATGGTCATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
1 1 0.02
2 45 0.87
3 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:10441528 original size:20 final size:19
Alignment explanation
Indices: 10441492--10441558 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
10441482 ATATGTAAAT
* *
10441492 TATATATATACATATAGTT
1 TATATATATAAATATAGTA
10441511 TATATATATAATATATAGTA
1 TATATATATAA-ATATAGTA
*
10441531 TATAAATATAAACTATAGTA
1 TATATATATAAA-TATAGTA
10441551 TATATATA
1 TATATATA
10441559 ATGGTCATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
19 11 0.26
20 31 0.74
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (19 bp):
TATATATATAAATATAGTA
Found at i:10441532 original size:18 final size:18
Alignment explanation
Indices: 10441492--10441560 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 18
10441482 ATATGTAAAT
*
10441492 TATATATATACATATAGT-T
1 TATATATATA-ATATA-TAG
10441511 TATATATATAATATATAG
1 TATATATATAATATATAG
10441529 TATATAAATATAA-ACTATAG
1 TATAT--ATATAATA-TATAG
10441549 TATATATATAAT
1 TATATATATAAT
10441561 GGTCATATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.02
18 16 0.36
19 11 0.25
20 16 0.36
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (18 bp):
TATATATATAATATATAG
Found at i:10441574 original size:31 final size:28
Alignment explanation
Indices: 10441539--10441662 Score: 102
Period size: 31 Copynumber: 4.4 Consensus size: 28
10441529 TATATAAATA
10441539 TAAACTATAGTATATATATAATGGTCATATG
1 TAAACTATAGTATATATAT-A--GTCATATG
10441570 TAAACTATA-TAGTATATA-A---ATA--
1 TAAACTATAGTA-TATATATAGTCATATG
*
10441592 TCAACTATAGTATATATAT-GTCATATG
1 TAAACTATAGTATATATATAGTCATATG
10441619 TAAACTATTTAGTTTATATATATAGTTCATATG
1 TAAACTA--TAG--TATATATATAG-TCATATG
10441652 TAAACTATAGT
1 TAAACTATAGT
10441663 TCATATGTAA
Statistics
Matches: 77, Mismatches: 2, Indels: 30
0.71 0.02 0.28
Matches are distributed among these distances:
22 14 0.18
23 2 0.03
24 3 0.04
25 3 0.04
27 6 0.08
29 5 0.06
30 2 0.03
31 27 0.35
32 1 0.01
33 14 0.18
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (28 bp):
TAAACTATAGTATATATATAGTCATATG
Found at i:10441584 original size:53 final size:49
Alignment explanation
Indices: 10441522--10441642 Score: 170
Period size: 49 Copynumber: 2.4 Consensus size: 49
10441512 ATATATATAA
10441522 TATATAGTATATAAATATAAACTATAGTATATATATAATGGTCATATGTAAAC
1 TATATAGTATATAAATATAAACTATAG--TATATAT-AT-GTCATATGTAAAC
*
10441575 TATATAGTATATAAATATCAACTATAGTATATATATGTCATATGTAAAC
1 TATATAGTATATAAATATAAACTATAGTATATATATGTCATATGTAAAC
* * *
10441624 TATTTAGTTTATATATATA
1 TATATAGTATATAAATATA
10441643 GTTCATATGT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
49 28 0.44
50 2 0.03
51 7 0.11
53 26 0.41
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (49 bp):
TATATAGTATATAAATATAAACTATAGTATATATATGTCATATGTAAAC
Found at i:10441662 original size:18 final size:18
Alignment explanation
Indices: 10441639--10441715 Score: 82
Period size: 18 Copynumber: 3.9 Consensus size: 18
10441629 AGTTTATATA
10441639 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
10441657 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
*
10441681 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
10441699 TATAGTTCATATATAAA
1 TATAGTTCATATGTAAA
10441716 TATCAACCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
18 31 0.62
20 2 0.04
22 2 0.04
24 15 0.30
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:10441685 original size:42 final size:42
Alignment explanation
Indices: 10441639--10441718 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
10441629 AGTTTATATA
*
10441639 TATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
*
10441681 TATAGTTTATATGTAAACTATAGTTCATATATAAATAT
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATAT
10441719 CAACCTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (42 bp):
TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
Found at i:10441814 original size:20 final size:20
Alignment explanation
Indices: 10441798--10441998 Score: 96
Period size: 20 Copynumber: 9.8 Consensus size: 20
10441788 TTATAAATTG
10441798 TATAGTTTATATATAAACTA
1 TATAGTTTATATATAAACTA
* * **
10441818 TGTAGTTTCTATAT-AGTTCA
1 TATAGTTTATATATAAACT-A
*
10441838 -ATAGTTCATATATAAACTA
1 TATAGTTTATATATAAACTA
10441857 TATAGTATTATAGTTTATACATGGTA-TA
1 TATAGT-TTATA---TATA-A----ACTA
* *
10441885 TATAGTTTATACTTTATAC-A
1 TATAGTTTATA-TATAAACTA
* *
10441905 TA-A-TATATATATAAATTA
1 TATAGTTTATATATAAACTA
10441923 TATAGTTTATATATATAA-TACA
1 TATAGTTTATATATA-AACT--A
*
10441945 TATACTTTATATATAAACTA
1 TATAGTTTATATATAAACTA
*
10441965 TATAGTTTATATTATATA-TA
1 TATAGTTTATA-TATAAACTA
*
10441985 TATA-TATATATATA
1 TATAGTTTATATATA
10441999 TATATATATA
Statistics
Matches: 138, Mismatches: 22, Indels: 44
0.68 0.11 0.22
Matches are distributed among these distances:
17 4 0.03
18 12 0.09
19 20 0.14
20 51 0.37
21 13 0.09
22 16 0.12
24 4 0.03
25 4 0.03
27 5 0.04
28 8 0.06
29 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (20 bp):
TATAGTTTATATATAAACTA
Found at i:10441901 original size:27 final size:28
Alignment explanation
Indices: 10441855--10441915 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
10441845 ATATATAAAC
* **
10441855 TATATAGTATTATAGTTTATACATGGTA
1 TATATAGTATTATACTTTATACATAATA
10441883 TATATAGT-TTATACTTTATACATAATA
1 TATATAGTATTATACTTTATACATAATA
10441910 TATATA
1 TATATA
10441916 TAAATTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (28 bp):
TATATAGTATTATACTTTATACATAATA
Found at i:10441914 original size:2 final size:2
Alignment explanation
Indices: 10441907--10442013 Score: 103
Period size: 2 Copynumber: 53.0 Consensus size: 2
10441897 TTTATACATA
* * *
10441907 AT AT AT AT AT AA AT -T AT AT AGT TT AT AT AT AT A- AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * *
10441948 ACT TT AT AT AT AA ACT AT AT AGT TT AT AT -T AT AT AT AT AT AT
1 A-T AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT
10441990 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
10442014 TAGTTGTTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
1 3 0.03
2 79 0.92
3 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10442394 original size:209 final size:211
Alignment explanation
Indices: 10442099--10442844 Score: 1128
Period size: 209 Copynumber: 3.5 Consensus size: 211
10442089 ATGAGTATAA
* * *
10442099 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGAT--CAATTTTGTGTTGTTT
1 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATTGTGTTGTTT
10442162 AATATATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGC
66 AATATATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGC
*
10442227 ACCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTTTAAATGG
131 ATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTTTAAATGG
10442292 GTATAATTTAGTACTT
196 GTATAATTTAGTACTT
*
10442308 TTTTGTATTAATTTTAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-T-TTGTGTTGTTT
1 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATTGTGTTGTTT
* *
10442371 AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTTTATTTGC
66 AATATATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGC
*
10442436 ATCTGAAACTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATG
131 ATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGG-CCATAACTTTTTAAATG
10442501 GGTATAATTTAGTACTT
195 GGTATAATTTAGTACTT
* * *
10442518 TTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCCTCATAAAAGTGTGTT
1 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT---ATTGTGTT
* * *
10442583 GTTTAATTTATTTAAA-TTTTATTTTTAATTTCAGATTTATTCAATTTAGTCCTCCAAATTTTAT
62 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTAT
* ** * *
10442647 TTGCATATGAAATTGATTCATACTTATTACTTAATTCTATTTTTTAATTGGCCTATAACTTTTTA
127 TTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCC-ATAACTTTTTA
10442712 AATGGGTATAATTTAGTA-TT
191 AATGGGTATAATTTAGTACTT
* * *
10442732 TTTT-TATTAATTTCAACTTCACAATTTAAATTTATTTCGATTTGATCCCTCATCATTGCGTGTT
1 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT-ATT--GTGTT
* * *
10442796 GTTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTA
62 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTA
10442845 ATTATTAAAT
Statistics
Matches: 494, Mismatches: 30, Indels: 21
0.91 0.06 0.04
Matches are distributed among these distances:
209 164 0.33
210 83 0.17
211 3 0.01
212 1 0.00
213 68 0.14
214 36 0.07
215 118 0.24
216 21 0.04
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (211 bp):
TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTATATTGTGTTGTTT
AATATATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGC
ATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCATAACTTTTTAAATGG
GTATAATTTAGTACTT
Found at i:10444629 original size:667 final size:667
Alignment explanation
Indices: 10442733--10444743 Score: 3828
Period size: 666 Copynumber: 3.0 Consensus size: 667
10442723 TTTAGTATTT
* * *
10442733 TTTTATTA-ATTTCAACTTCACAATTTAAATTTATTTCGATTTGATCCCTCATCATTGCGTGTTG
1 TTTTAGTATATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTG
10442797 TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
66 TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
10442862 TGTTCATAAAATTGAATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTA
131 T-TTCATAAAATTGAATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTA
*
10442927 CAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCAAAAATAAAAATGAACTCGAT
195 CAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCAAAAATAAAAATTAACTCGAT
10442992 TTGAACTCAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTGCCAATGATGTGACCCGAT
260 TTGAACTCAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTGCCAATGATGTGACCCGAT
*
10443057 CTGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTACTTCGGACC
325 CTGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTGCTTCGGACC
* *
10443122 TGAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTGGATCTAGTGTCAAAT
390 TGAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTAGATCCAGTGTCAAAT
* * *
10443187 CAACCTAAAAATAACCCGAACTGATTTGACCTGACCTGAACCCGATCTGGATCTGGTGTCAAATT
455 CAACCTAAAAATAACCCAAATTGATTTGACCTGACATGAACCCGATCTGGATCTGGTGTCAAATT
* * **
10443252 TACCTGACTTGACCTATATCCGATTTTACCCGACCTGCCAGGATCCGACTGAAACCTGAACGATT
520 TACCTGACTTGACCTGTATCCGATTTTACCCGACCTGCCAGGATCCAACTGAAACCTGAATAATT
10443317 ACCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCAC
585 ACCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCAC
10443382 CTTCAACACTTTTTCTTA
650 CTTCAACACTTTTTCTTA
10443400 TTTTAGTATATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTG
1 TTTTAGTATATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTG
10443465 TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
66 TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
*
10443530 TTTCATAAAATTGGATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTAC
131 TTTCATAAAATTGAATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTAC
10443595 AAATTGCAATTCAACGTTCGCGAAAGACGAAAATAA-TAATCCAAAAATAAAAATTAACTCGATT
196 AAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCAAAAATAAAAATTAACTCGATT
* *
10443659 TGAACTGAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTACCAATGATGTGACCCGATC
261 TGAACTCAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTGCCAATGATGTGACCCGATC
10443724 TGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTGCTTCGGACCT
326 TGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTGCTTCGGACCT
10443789 GAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTAGATCCAGTGTCAAATC
391 GAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTAGATCCAGTGTCAAATC
10443854 AACCTAAAAATAACCCAAATTGATTTGACCTGACATGAACCCGATCTGGATCTGGTGTCAAATTT
456 AACCTAAAAATAACCCAAATTGATTTGACCTGACATGAACCCGATCTGGATCTGGTGTCAAATTT
10443919 ACCTGACTTGACCTGTATCCGATTTTACCCGACCTGCCAGGATCCAACTGAAACCTGAATAATTA
521 ACCTGACTTGACCTGTATCCGATTTTACCCGACCTGCCAGGATCCAACTGAAACCTGAATAATTA
10443984 CCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCACC
586 CCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCACC
10444049 TTCAACACTTTTTCTTA
651 TTCAACACTTTTTCTTA
*
10444066 TTTTAGTATATTTCGACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTG
1 TTTTAGTATATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTG
10444131 TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
66 TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
10444196 TTTCATAAAATTGAATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTAC
131 TTTCATAAAATTGAATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTAC
10444261 AAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCAAAAATAAAAATTAACTCGATT
196 AAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCAAAAATAAAAATTAACTCGATT
10444326 TGAACTCAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTGCCAATGATGTGACCCGATC
261 TGAACTCAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTGCCAATGATGTGACCCGATC
10444391 TGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTGCTTCGGACCT
326 TGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTGCTTCGGACCT
10444456 GAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTAGATCCAGTGTCAAATC
391 GAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTAGATCCAGTGTCAAATC
10444521 AACCTAAAAATAACCCAAATTGATTTGACCTGACATGAACCCGATCTGGATCTGGTGTCAAATTT
456 AACCTAAAAATAACCCAAATTGATTTGACCTGACATGAACCCGATCTGGATCTGGTGTCAAATTT
10444586 ACCTGACTTGACCTGTATCCGATTTTACCCGACCTGCCAGGATCCAACTGAAACCTGAATAATTA
521 ACCTGACTTGACCTGTATCCGATTTTACCCGACCTGCCAGGATCCAACTGAAACCTGAATAATTA
10444651 CCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCACC
586 CCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCACC
*
10444716 TTCAACATTTTTTCTTA
651 TTCAACACTTTTTCTTA
10444733 TTTTAGTATAT
1 TTTTAGTATAT
10444744 AGTCTTCATT
Statistics
Matches: 1320, Mismatches: 22, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
666 651 0.49
667 549 0.42
668 120 0.09
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (667 bp):
TTTTAGTATATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTG
TTTAATTTATTTAAATTTTTATTTGTAATATCATATTTGTTCAATTTAATTATTAAATTTGTATT
TTTCATAAAATTGAATCATGATTATTTATATTATTAGCAATTTACTCTAAATCATATACAATTAC
AAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCAAAAATAAAAATTAACTCGATT
TGAACTCAATCCGTATCTGATAGAGATCCGACCTGAATTTTATCTGCCAATGATGTGACCCGATC
TGAACGAGATCCGCCTGAAGTCTATCCGAACCTGAATTAACCTGCTTTTTAACTGCTTCGGACCT
GAACTGGCAACGATCCGAACTGAAAATGACCTGACCTGAACCCGATCTAGATCCAGTGTCAAATC
AACCTAAAAATAACCCAAATTGATTTGACCTGACATGAACCCGATCTGGATCTGGTGTCAAATTT
ACCTGACTTGACCTGTATCCGATTTTACCCGACCTGCCAGGATCCAACTGAAACCTGAATAATTA
CCCGATTTTACAGCCCTACATGCATGCATAGGGAGCCGGGAATTCCCATGCCCTGCTTTTGCACC
TTCAACACTTTTTCTTA
Found at i:10444813 original size:4 final size:4
Alignment explanation
Indices: 10444777--10444888 Score: 117
Period size: 4 Copynumber: 28.8 Consensus size: 4
10444767 ATCTCTCTCT
* * *
10444777 CTCC CTCT CTCC CTCC C-CC CTCTC TCTCT CTCC CTCC TTCC C-CC CTCC
1 CTCC CTCC CTCC CTCC CTCC CTC-C -CTCC CTCC CTCC CTCC CTCC CTCC
* * *
10444825 C-CC CTCT CTCT CTCC CTCC CTCT CTCC CTCC CTCC CTCC CTCC CTCC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC
10444872 CT-- CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTC
10444889 TTTCTCACTC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
2 2 0.02
3 9 0.10
4 76 0.84
5 1 0.01
6 3 0.03
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (4 bp):
CTCC
Found at i:10444887 original size:30 final size:30
Alignment explanation
Indices: 10444773--10444888 Score: 125
Period size: 30 Copynumber: 4.0 Consensus size: 30
10444763 CAAAATCTCT
* *
10444773 CTCTCTCCCT--CTCTCCCTCCCCCCTCTCT
1 CTCTCTCCCTCCCTCTCCCTCCCTCC-CTCC
* * *
10444802 CTCTCTCCCTCCTTCCCCCCTCCC-CCCTCT
1 CTCTCTCCCTCCCT-CTCCCTCCCTCCCTCC
10444832 CTCTCTCCCTCCCTCT--CTCCCTCCCTCC
1 CTCTCTCCCTCCCTCTCCCTCCCTCCCTCC
*
10444860 CTCCCTCCCTCCCTCTCCCTCCCTCCCTC
1 CTCTCTCCCTCCCTCTCCCTCCCTCCCTC
10444889 TTTCTCACTC
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
27 5 0.07
28 20 0.27
29 11 0.15
30 28 0.37
31 3 0.04
32 8 0.11
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (30 bp):
CTCTCTCCCTCCCTCTCCCTCCCTCCCTCC
Found at i:10444940 original size:2 final size:2
Alignment explanation
Indices: 10444933--10445002 Score: 68
Period size: 2 Copynumber: 35.0 Consensus size: 2
10444923 CTCACTCAAA
* * * **
10444933 CT CT CT CT CT CT CT CT CT CT TT CT CA CT CA AA CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* **
10444975 CT CT CT CT CT CT CA AA CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10445003 ATTTAGTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.10, C:0.46, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:10444951 original size:26 final size:26
Alignment explanation
Indices: 10444939--10445002 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
10444929 CAAACTCTCT
*
10444939 CTCTCTCTCTCTCTTTCTCACTCAAA
1 CTCTCTCTCTCTCTCTCTCACTCAAA
*
10444965 CTCTCTCTCTCTCTCTCTCTCTCAAA
1 CTCTCTCTCTCTCTCTCTCACTCAAA
10444991 CTCTCTCTCTCT
1 CTCTCTCTCTCT
10445003 ATTTAGTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.11, C:0.45, G:0.00, T:0.44
Consensus pattern (26 bp):
CTCTCTCTCTCTCTCTCTCACTCAAA
Found at i:10444957 original size:32 final size:32
Alignment explanation
Indices: 10444872--10444984 Score: 156
Period size: 32 Copynumber: 3.6 Consensus size: 32
10444862 CCCTCCCTCC
* * *
10444872 CTCTCCCTCCCTCCCTCTTTCTCACTCAAACT
1 CTCTCTCTCTCTCTCTCTTTCTCACTCAAACT
* ** *
10444904 CCCTAACTCT-TTTCTCTTTCTCACTCAAACT
1 CTCTCTCTCTCTCTCTCTTTCTCACTCAAACT
10444935 CTCTCTCTCTCTCTCTCTTTCTCACTCAAACT
1 CTCTCTCTCTCTCTCTCTTTCTCACTCAAACT
10444967 CTCTCTCTCTCTCTCTCT
1 CTCTCTCTCTCTCTCTCT
10444985 CTCAAACTCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
31 26 0.37
32 44 0.63
ACGTcount: A:0.12, C:0.46, G:0.00, T:0.42
Consensus pattern (32 bp):
CTCTCTCTCTCTCTCTCTTTCTCACTCAAACT
Found at i:10446004 original size:31 final size:29
Alignment explanation
Indices: 10445966--10446024 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
10445956 AGTAAACAAG
10445966 TTTAGTACCTAAACTATCACTTTTATTTCAT
1 TTTAGTACCT-AACTATCA-TTTTATTTCAT
* *
10445997 TTTAGTACCTAACTTTCATTTTCTTTCA
1 TTTAGTACCTAACTATCATTTTATTTCA
10446025 AAATCATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 9 0.35
30 7 0.27
31 10 0.38
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.51
Consensus pattern (29 bp):
TTTAGTACCTAACTATCATTTTATTTCAT
Found at i:10446349 original size:31 final size:30
Alignment explanation
Indices: 10446311--10446369 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
10446301 AGTAAACAAG
10446311 TTTAGTACCTAAACTATCACTTTTATTTCTT
1 TTTAGTACCTAAACTATCA-TTTTATTTCTT
* *
10446342 TTTAGTACCTAAACTTTCATTTTCTTTC
1 TTTAGTACCTAAACTATCATTTTATTTC
10446370 AAAATCATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTAGTACCTAAACTATCATTTTATTTCTT
Found at i:10446459 original size:32 final size:32
Alignment explanation
Indices: 10446384--10446474 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
10446374 TCATACCTAA
* * *
10446384 CGTTTACTTTTTGTTTCATTTTAGTA-TCCAT
1 CGTTAACTTTTTGTTTCATTTTAATACCCCAT
* *
10446415 CGTTAACATTTTGTTTTATTTTAATACCCCACT
1 CGTTAACTTTTTGTTTCATTTTAATACCCCA-T
10446448 C-TTAACTTTTTGTTTCATTTTAATACC
1 CGTTAACTTTTTGTTTCATTTTAATACC
10446475 TTAATTTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 22 0.43
32 27 0.53
33 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.54
Consensus pattern (32 bp):
CGTTAACTTTTTGTTTCATTTTAATACCCCAT
Found at i:10454499 original size:30 final size:30
Alignment explanation
Indices: 10454464--10454529 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
10454454 AGAACCGGTA
* *
10454464 GAACCGGCTGAGAACCGATAAAACCGGGGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
*
10454494 GAACCGGCTGAAAACCGACAAAACCGGTGT
1 GAACCGGCTGAAAACCGACAAAACCGGGGT
10454524 GAACCG
1 GAACCG
10454530 TCAGTTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.26, G:0.30, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGGGGT
Found at i:10456472 original size:131 final size:130
Alignment explanation
Indices: 10456225--10456592 Score: 486
Period size: 131 Copynumber: 2.8 Consensus size: 130
10456215 ATAATTCTAA
* * * * *
10456225 GAGAGAAAACAATGATATCTAATTATTTTCGATCGAGAATAAATGACCTCTTATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTT-AATCAAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * *
10456290 GTCATTTATTACTCCAATTGATATGAAGAGATATCACTATTTCGTCCTAAAATTCAATATTGATT
65 TTCATTTATTACTCCAATTGAAATGAAGAGATATCACTATTCCGTCCTAAAAATCAATATTGATT
*
10456355 T
130 C
* *
10456356 GAGTGAAAACGATAATATCTAATGATTTATAATCAAGAATAAATGACCTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTT-TAATCAAGAATAAATGACCTCTCATGCCTTAAAGCA
* *
10456421 TTCATTTATTACTCCAATTGAAATGAAGAGATATCATTATTCCGTCTTAAAAATCAATATTGATT
65 TTCATTTATTACTCCAATTGAAATGAAGAGATATCACTATTCCGTCCTAAAAATCAATATTGATT
10456486 C
130 C
* * * * *
10456487 GAGAGAAAACGATAATATCTAATTATTTCCAATCCAGAATAAATGACCTCTCATACATTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTT-TAATCAAGAATAAATGACCTCTCATGCCTTAAAGC-
* * * *
10456552 ATT-ATTTATTACTCCAACTGAAACGAAGAGACATTACTATT
64 ATTCATTTATTACTCCAATTGAAATGAAGAGATATCACTATT
10456593 TTCAATATCG
Statistics
Matches: 208, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 204 0.98
132 4 0.02
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTTAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAT
TCATTTATTACTCCAATTGAAATGAAGAGATATCACTATTCCGTCCTAAAAATCAATATTGATTC
Found at i:10457243 original size:28 final size:26
Alignment explanation
Indices: 10457203--10457272 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 26
10457193 ACAAAGAATA
*
10457203 AAAATAAACAAAAA-ATGGGACCAAATT
1 AAAATAAATAAAAACAT-GG-CCAAATT
10457230 AAAATAAAATAAAATATCATGGCCAAATT
1 AAAAT-AAATAAAA-A-CATGGCCAAATT
*
10457259 AAATTAAATAAAAA
1 AAAATAAATAAAAA
10457273 TAGATTTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 6 0.16
28 15 0.41
29 12 0.32
30 2 0.05
31 2 0.05
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (26 bp):
AAAATAAATAAAAACATGGCCAAATT
Found at i:10458495 original size:40 final size:41
Alignment explanation
Indices: 10458427--10458509 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
10458417 CAATAATAAA
*
10458427 CAAACATAGAATGTATTTTATGTACCGATGCACAGGTAGCG
1 CAAAAATAGAATGTATTTTATGTACCGATGCACAGGTAGCG
10458468 CAAAAATAGAATGTA-TTTATGTACCGATGCACAGGTAGCG
1 CAAAAATAGAATGTATTTTATGTACCGATGCACAGGTAGCG
10458508 CA
1 CA
10458510 TCGATGCACC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 27 0.66
41 14 0.34
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAAAATAGAATGTATTTTATGTACCGATGCACAGGTAGCG
Found at i:10459480 original size:103 final size:103
Alignment explanation
Indices: 10459301--10459621 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
10459291 GTCGAGGGTC
10459301 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
10459366 TTGATCCTTGGCATATGGATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
10459404 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
10459469 TTGATTCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
10459507 TATGTGGTCTTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
10459572 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
10459610 TATGTGGTCCTT
1 TATGTGGTCCTT
10459622 ATGGACATTA
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:10459671 original size:23 final size:23
Alignment explanation
Indices: 10459638--10459703 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
10459628 ATTATTATAT
*
10459638 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
10459661 GGCACTCCGGTGCAATTATACGT
1 GGCACTACGGTGCAATTATACGC
*
10459684 GGCACTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
10459704 TGAGCTGTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:10463907 original size:174 final size:176
Alignment explanation
Indices: 10463617--10463966 Score: 686
Period size: 174 Copynumber: 2.0 Consensus size: 176
10463607 TTTAGAATTT
10463617 GGTGACTAAAGTAGAAGACTGGATTAGTTCAATGATTTATTTGGAAGTATTTCCTAAAAGTTATT
1 GGTGACTAAAGTAGAAGACTGGATTAGTTCAATGATTTATTTGGAAGTATTTCCTAAAAGTTATT
10463682 AGTAATTATTAAAGGAACTAAAGGGTAAAATTGTCATTTGATCATTTAAGGAATTAAAAATG-GA
66 AGTAATTATTAAAGGAACTAAAGGGTAAAATTGTCATTTGATCATTTAAGGAATTAAAAATGTGA
10463746 TAGTGGGGATATATA-TTTTACACGTGGGAGTGTAGGAAACCAAAA
131 TAGTGGGGATATATATTTTTACACGTGGGAGTGTAGGAAACCAAAA
10463791 GGTGACTAAAGTAGAAGACTGGATTAGTTCAATGATTTATTTGGAAGTATTTCCTAAAAGTTATT
1 GGTGACTAAAGTAGAAGACTGGATTAGTTCAATGATTTATTTGGAAGTATTTCCTAAAAGTTATT
10463856 AGTAATTATTAAAGGAACTAAAGGGTAAAATTGTCATTTGATCATTTAAGGAATTAAAAATGTGA
66 AGTAATTATTAAAGGAACTAAAGGGTAAAATTGTCATTTGATCATTTAAGGAATTAAAAATGTGA
10463921 TAGTGGGGATATATATTTTTACACGTGGGAGTGTAGGAAACCAAAA
131 TAGTGGGGATATATATTTTTACACGTGGGAGTGTAGGAAACCAAAA
10463967 ACAATGTCTC
Statistics
Matches: 174, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 127 0.73
175 17 0.10
176 30 0.17
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (176 bp):
GGTGACTAAAGTAGAAGACTGGATTAGTTCAATGATTTATTTGGAAGTATTTCCTAAAAGTTATT
AGTAATTATTAAAGGAACTAAAGGGTAAAATTGTCATTTGATCATTTAAGGAATTAAAAATGTGA
TAGTGGGGATATATATTTTTACACGTGGGAGTGTAGGAAACCAAAA
Found at i:10465656 original size:103 final size:103
Alignment explanation
Indices: 10465472--10465689 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
10465462 GTCGAGGGTC
*
10465472 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
10465537 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
10465575 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
10465640 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
10465678 TATGTGGTCCTT
1 TATGTGGTCCTT
10465690 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:10466810 original size:2 final size:2
Alignment explanation
Indices: 10466803--10466828 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10466793 AAACTTTTCT
10466803 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
10466829 ACTTTTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10467704 original size:22 final size:23
Alignment explanation
Indices: 10467662--10467704 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10467652 GTCGATCCTG
* *
10467662 TTGGGCTCTGGGTTTTGGGTGAC
1 TTGGGCTCTGAGTCTTGGGTGAC
10467685 TTGGGCTC-GAGTCTTGGGTG
1 TTGGGCTCTGAGTCTTGGGTG
10467705 TAATATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.05, C:0.14, G:0.44, T:0.37
Consensus pattern (23 bp):
TTGGGCTCTGAGTCTTGGGTGAC
Found at i:10467801 original size:3 final size:3
Alignment explanation
Indices: 10467793--10467821 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10467783 CTGCATAAAT
10467793 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10467822 GGACGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10474224 original size:3 final size:3
Alignment explanation
Indices: 10474216--10474287 Score: 67
Period size: 3 Copynumber: 24.0 Consensus size: 3
10474206 CTGGTCTTAC
* * ** *
10474216 TTA TTA TTA TTA TTA TTA -TA TAA TTA TATA GTA -TA CCA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
10474260 TTA TATA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA
10474288 AATAATATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.07
3 50 0.85
4 5 0.08
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:10475559 original size:20 final size:20
Alignment explanation
Indices: 10475521--10475559 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10475511 TTATATGAGT
*
10475521 AATTATTATTAGTATTTTAG
1 AATTATTATTAGTAATTTAG
10475541 AATTATTATATA-TAATTTA
1 AATTATTAT-TAGTAATTTA
10475560 TAATATAATC
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:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
AATTATTATTAGTAATTTAG
Found at i:10477799 original size:6 final size:6
Alignment explanation
Indices: 10477782--10477816 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
10477772 TTCATACTTG
10477782 CATTTA CA-TTA CATTTA CATTTA CATTTA CATTTA
1 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA
10477817 TGTTCTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (6 bp):
CATTTA
Found at i:10481939 original size:22 final size:22
Alignment explanation
Indices: 10481911--10481956 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10481901 ATTCTGCAAG
10481911 GATGATAAATTCTCTTTTCAAA
1 GATGATAAATTCTCTTTTCAAA
*
10481933 GATGATAGATTCTCTTTTCAAA
1 GATGATAAATTCTCTTTTCAAA
10481955 GA
1 GA
10481957 CGAAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (22 bp):
GATGATAAATTCTCTTTTCAAA
Found at i:10482630 original size:20 final size:20
Alignment explanation
Indices: 10482602--10482655 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
10482592 TCTAGAAAAT
* * *
10482602 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCCGGGTCATCTG
10482622 TAAAACCTCCGGGTCATCTG
1 TAAAACCTCCGGGTCATCTG
*
10482642 TAAAACCTCAGGGT
1 TAAAACCTCCGGGT
10482656 AGGATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCTG
Found at i:10482717 original size:119 final size:119
Alignment explanation
Indices: 10482502--10482873 Score: 645
Period size: 119 Copynumber: 3.1 Consensus size: 119
10482492 TCAAAGAAAA
* * * *
10482502 GTAAATCCTTCGGGTCATCTGTAAAACCTCAAGGTAGGATTTTTTCGCATGAAAATGAGAAAGCG
1 GTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCG
10482567 ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTGATTT
66 ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTGATTT
*
10482621 GTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGAAAGCG
1 GTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCG
*
10482686 ATTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCCTCCGGGTGATTT
66 ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTGATTT
*
10482740 GTAAAACCTTCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCG
1 GTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCG
* * *
10482805 ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCTGGGTCATCT
66 ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTGATTT
*
10482859 GTAAAACCTCAGGGT
1 GTAAAACCTCCGGGT
10482874 AGGATATTTT
Statistics
Matches: 239, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 239 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (119 bp):
GTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCG
ATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTGATTT
Found at i:10482871 original size:218 final size:218
Alignment explanation
Indices: 10482622--10483091 Score: 814
Period size: 218 Copynumber: 2.2 Consensus size: 218
10482612 GGGTGATTTG
* * *
10482622 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGAAAGCGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGA
* * *
10482687 TTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTTCG
66 TTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCATCCGAGTGATTTGTAAAACCTCCG
*
10482752 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTTTCAAAGTT
131 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAACGATTTTCAAAGTT
10482817 TCTCATTTAATGTTCTAGAAAAT
196 TCTCATTTAATGTTCTAGAAAAT
*
10482840 TAAATCCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGA
*
10482905 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCATCCGAGTGATTTGTAAAACCTCCG
66 TTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCATCCGAGTGATTTGTAAAACCTCCG
*
10482970 GGTCATCTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAACGATTTTCAAAGTT
131 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAACGATTTTCAAAGTT
*
10483035 TCTCATTTAATGTTTTAGAAAAT
196 TCTCATTTAATGTTCTAGAAAAT
* * *
10483058 TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGT
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGT
10483092 CATCTGTAAA
Statistics
Matches: 237, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
218 237 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (218 bp):
TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGA
TTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCATCCGAGTGATTTGTAAAACCTCCG
GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAACGATTTTCAAAGTT
TCTCATTTAATGTTCTAGAAAAT
Found at i:10482922 original size:99 final size:99
Alignment explanation
Indices: 10482750--10482972 Score: 383
Period size: 99 Copynumber: 2.3 Consensus size: 99
10482740 GTAAAACCTT
*
10482750 CGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGATTTTCAAAG
1 CGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGATTTTCAAAG
*
10482815 TTTCTCATTTAATGTTCTAGAAAATTAAATCCTC
66 TTTCTCATTTAATGTTCTAGAAAATTAAATCATC
*
10482849 TGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGATTTTCAAAG
1 CGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGATTTTCAAAG
10482914 TTTCTCATTTAATGTTCTAGAAAATTAAATCATC
66 TTTCTCATTTAATGTTCTAGAAAATTAAATCATC
* * * *
10482948 CGAGTGATTTGTAAAACCTCCGGGT
1 CGGGTCATCTGTAAAACCTCAGGGT
10482973 CATCTGTAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 116 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (99 bp):
CGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGATTTTCAAAG
TTTCTCATTTAATGTTCTAGAAAATTAAATCATC
Found at i:10482969 original size:20 final size:20
Alignment explanation
Indices: 10482946--10482987 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10482936 AATTAAATCA
* *
10482946 TCCGAGTGATTTGTAAAACC
1 TCCGAGTCATCTGTAAAACC
*
10482966 TCCGGGTCATCTGTAAAACC
1 TCCGAGTCATCTGTAAAACC
10482986 TC
1 TC
10482988 AGGGTATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (20 bp):
TCCGAGTCATCTGTAAAACC
Found at i:10483061 original size:119 final size:119
Alignment explanation
Indices: 10482840--10483121 Score: 483
Period size: 119 Copynumber: 2.4 Consensus size: 119
10482830 TCTAGAAAAT
* * *
10482840 TAAATCCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAGCGA
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAACGA
10482905 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCATCCGAGTGATTTG
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCATCCGAGTGATTTG
* *
10482959 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAACGA
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAACGA
* * *
10483024 TTTTCAAAGTTTCTCATTTAATGTTTTAGAAAATTAAATCCTCCGGGTGATTTG
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCATCCGAGTGATTTG
*
10483078 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATCTTTT
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTT
10483122 TTTTTATTTT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 153 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (119 bp):
TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGAAAACGA
TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCATCCGAGTGATTTG
Found at i:10483086 original size:20 final size:20
Alignment explanation
Indices: 10483058--10483111 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
10483048 TTTAGAAAAT
* * *
10483058 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCCGGGTCATCTG
10483078 TAAAACCTCCGGGTCATCTG
1 TAAAACCTCCGGGTCATCTG
*
10483098 TAAAACCTCAGGGT
1 TAAAACCTCCGGGT
10483112 AGGATCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCTG
Found at i:10483093 original size:337 final size:337
Alignment explanation
Indices: 10482478--10483121 Score: 1148
Period size: 337 Copynumber: 1.9 Consensus size: 337
10482468 AATGAGAAAA
*
10482478 TTTCTCATTAATGTTCAAAGAAAAGTAAATCCTTCGGGTCATCTGTAAAACCTCAAGGTAGGATT
1 TTTCTCATTAATGTTCAAAGAAAAGTAAATCCTTCGGGTCATCTGTAAAACCTCAAGGTAGGATA
10482543 TTTTCGCATGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATC
66 TTTTCGCATGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATC
* * *
10482608 CTCCGGGTGATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGA
131 ATCCGAGTGATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGA
*
10482673 AAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCCTCCGGGTGAT
196 AAATGAGAAAACGATTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCCTCCGGGTGAT
* *
10482738 TTGTAAAACCTTCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAG
261 TTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATCTTTTCGCATGAAAATGAGAAAG
10482803 CGATTTTCAAAG
326 CGATTTTCAAAG
* * *
10482815 TTTCTCATTTAATGTTC-TAGAAAATTAAATCC-TCTGGGTCATCTGTAAAACCTCAGGGTAGGA
1 TTTCTCA-TTAATGTTCAAAGAAAAGTAAATCCTTC-GGGTCATCTGTAAAACCTCAAGGTAGGA
10482878 TATTTTCGCATGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAA
64 TATTTTCGCATGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAA
*
10482943 TCATCCGAGTGATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTCGCAT
129 TCATCCGAGTGATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCAT
*
10483008 GAAAATGAGAAAACGATTTTCAAAGTTTCTCATTTAATGTTTTAGAAAATTAAATCCTCCGGGTG
194 GAAAATGAGAAAACGATTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCCTCCGGGTG
10483073 ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATCTTTT
259 ATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATCTTTT
10483122 TTTTTATTTT
Statistics
Matches: 293, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
336 2 0.01
337 282 0.96
338 9 0.03
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (337 bp):
TTTCTCATTAATGTTCAAAGAAAAGTAAATCCTTCGGGTCATCTGTAAAACCTCAAGGTAGGATA
TTTTCGCATGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATC
ATCCGAGTGATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGA
AAATGAGAAAACGATTTTCAAAGTTTCTCATTTAATGTTATAGAAAATTAAATCCTCCGGGTGAT
TTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATCTTTTCGCATGAAAATGAGAAAG
CGATTTTCAAAG
Found at i:10483267 original size:3 final size:3
Alignment explanation
Indices: 10483259--10483359 Score: 75
Period size: 3 Copynumber: 34.0 Consensus size: 3
10483249 CCGGTCTTAC
* *
10483259 TTA TTA TTA TTA TTA -TA TTA TTA TTA CTA TTA TTA TAA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
** * * *
10483304 TTA -TA CCA CTA TTA -TA TATA TGA -TA TTA TTA TATA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA
*
10483348 TTA ATA TTA TTA
1 TTA TTA TTA TTA
10483360 AATAATATTA
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
2 7 0.09
3 62 0.79
4 9 0.12
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:10483345 original size:10 final size:10
Alignment explanation
Indices: 10483259--10483371 Score: 62
Period size: 9 Copynumber: 11.5 Consensus size: 10
10483249 CCGGTCTTAC
10483259 TTAT-TATTA
1 TTATATATTA
10483268 TTATTATATTA
1 TTA-TATATTA
*
10483279 TTAT-TACTA
1 TTATATATTA
*
10483288 TTAT-TATAA
1 TTATATATTA
10483297 TTATATATTA
1 TTATATATTA
*
10483307 -TACCACTATTA
1 TTA-TA-TATTA
10483318 -TATATATGATA
1 TTATATAT--TA
10483329 TTAT-TATATA
1 TTATATAT-TA
*
10483339 TT-TTTATTA
1 TTATATATTA
10483348 TTA-ATATTA
1 TTATATATTA
* *
10483357 TTAAATAATA
1 TTATATATTA
10483367 TTATA
1 TTATA
10483372 AAGCCCAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
9 36 0.43
10 25 0.30
11 20 0.24
12 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.56
Consensus pattern (10 bp):
TTATATATTA
Found at i:10486531 original size:42 final size:41
Alignment explanation
Indices: 10486485--10486598 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 41
10486475 AATAAAAATG
*
10486485 CCACTAAGGTACATCAATATTGTAGTGTTTA-TTACGAAAACA
1 CCACTAAAGTACAT-AATATTGTAGTGTTTATTTAC-AAAACA
* * * * *
10486527 CCACTAAATTACATGATTATTG-CGACGTTTATTTACAAAACG
1 CCACTAAAGTACAT-AATATTGTAG-TGTTTATTTACAAAACA
*
10486569 CCACTAAAGTACATAACTATTGTGGTGTTT
1 CCACTAAAGTACATAA-TATTGTAGTGTTT
10486599 GAACAAAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.04
42 50 0.88
43 5 0.09
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (41 bp):
CCACTAAAGTACATAATATTGTAGTGTTTATTTACAAAACA
Found at i:10486721 original size:41 final size:41
Alignment explanation
Indices: 10486609--10486725 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 41
10486599 GAACAAAAAT
* * *
10486609 GCCACTAAAGTAAAAGTCTATAGCGGCGTTTGTTTACAAAC
1 GCCACTAAAGTAAGAGTCTTTAGCGGCGTTTGTATACAAAC
** *
10486650 GCCA-TGAAAGTCTGAGTCTTTCGCGGCGTTTGTATACAAAC
1 GCCACT-AAAGTAAGAGTCTTTAGCGGCGTTTGTATACAAAC
* * *
10486691 GCCACTAAAGTAAGAGTATTTTGCGACGTTT-TATA
1 GCCACTAAAGTAAGAGTCTTTAGCGGCGTTTGTATA
10486726 AAAAAACACC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 5 0.08
41 57 0.90
42 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (41 bp):
GCCACTAAAGTAAGAGTCTTTAGCGGCGTTTGTATACAAAC
Found at i:10487167 original size:82 final size:81
Alignment explanation
Indices: 10487077--10487303 Score: 242
Period size: 82 Copynumber: 2.8 Consensus size: 81
10487067 TGTAACGACA
* ** * * *
10487077 CCACTATATATGAACCTTATTTTGATGTTTATATGAAAACATCGCTAAATTACTATATGTTGCGG
1 CCACTATATATGAACCCTATTACGACGTTTATATGAAAACACCACTAAATTACTATATGTTGCGG
*
10487142 CGTTAGTTGAAAAAATG
66 CGTTAGTTG-AAAAACG
* * * *
10487159 CCACTATATATGAACCCTATTACGACGTTTGTATGAAAACGCCACTAAATTAGTATATGTTGTGG
1 CCACTATATATGAACCCTATTACGACGTTTATATGAAAACACCACTAAATTACTATATGTTGCGG
* *
10487224 TGTTTGTTGAAAAACG
66 CGTTAGTTGAAAAACG
* * * * * * *
10487240 CCTCTATATATGAACCCTATTACGGCGTTTGTATAAAAATACCGCTAATTTTACTAT-T-TTGCG
1 CCACTATATATGAACCCTATTACGACGTTTATATGAAAACACCACTAA-ATTACTATATGTTGCG
10487303 G
65 G
10487304 TATTTTAAAT
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 5 0.04
81 49 0.40
82 68 0.56
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (81 bp):
CCACTATATATGAACCCTATTACGACGTTTATATGAAAACACCACTAAATTACTATATGTTGCGG
CGTTAGTTGAAAAACG
Found at i:10487273 original size:81 final size:82
Alignment explanation
Indices: 10487010--10487278 Score: 265
Period size: 82 Copynumber: 3.3 Consensus size: 82
10487000 ACATACCAAT
* * * * * * *
10487010 CTATTGCGGCGTTTGT-TGCAAAACGCCACTAAAGTACTAATCTGTTGCGACT-TTTGTTGTAAC
1 CTATTACGACGTTTGTATG-AAAACGCCACTAAATTACT-ATATGTTGCG-GTGTTTGTTGAAAA
* *
10487073 GACACCACTATATATGAACC
63 AACGCCACTATATATGAACC
* ** * * ** * * * *
10487093 TTATTTTGATGTTTATATGAAAACATCGCTAAATTACTATATGTTGCGGCGTTAGTTGAAAAAAT
1 CTATTACGACGTTTGTATGAAAACGCCACTAAATTACTATATGTTGCGGTGTTTGTTGAAAAAAC
10487158 GCCACTATATATGAACC
66 GCCACTATATATGAACC
* *
10487175 CTATTACGACGTTTGTATGAAAACGCCACTAAATTAGTATATGTTGTGGTGTTTGTTG-AAAAAC
1 CTATTACGACGTTTGTATGAAAACGCCACTAAATTACTATATGTTGCGGTGTTTGTTGAAAAAAC
*
10487239 GCCTCTATATATGAACC
66 GCCACTATATATGAACC
* *
10487256 CTATTACGGCGTTTGTATAAAAA
1 CTATTACGACGTTTGTATGAAAA
10487279 TACCGCTAAT
Statistics
Matches: 149, Mismatches: 35, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
81 42 0.28
82 80 0.54
83 25 0.17
84 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (82 bp):
CTATTACGACGTTTGTATGAAAACGCCACTAAATTACTATATGTTGCGGTGTTTGTTGAAAAAAC
GCCACTATATATGAACC
Found at i:10487278 original size:41 final size:41
Alignment explanation
Indices: 10487152--10487278 Score: 107
Period size: 41 Copynumber: 3.1 Consensus size: 41
10487142 CGTTAGTTGA
* *
10487152 AAAAATGCCACTATATATGAACCCTATTACGACGTTTGTAT
1 AAAAACGCCACTATATATGAACCCTATTACGGCGTTTGTAT
* * * ** * ** *
10487193 GAAAACGCCACTAAAT-TAGTA-TATGTTGTGGTGTTTGT-T
1 AAAAACGCCACTATATAT-GAACCCTATTACGGCGTTTGTAT
*
10487232 GAAAAACGCCTCTATATATGAACCCTATTACGGCGTTTGTAT
1 -AAAAACGCCACTATATATGAACCCTATTACGGCGTTTGTAT
10487274 AAAAA
1 AAAAA
10487279 TACCGCTAAT
Statistics
Matches: 60, Mismatches: 21, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
39 1 0.02
40 26 0.43
41 32 0.53
42 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (41 bp):
AAAAACGCCACTATATATGAACCCTATTACGGCGTTTGTAT
Found at i:10494431 original size:51 final size:50
Alignment explanation
Indices: 10494371--10494472 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 50
10494361 CAGTAAAACT
**
10494371 GCCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGAGGTATAACGC
1 GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTG-GGTATAACGC
* * *
10494422 GCCCCCTGCATCGCGCTATACGGTGAGCTGGCGCCACGTGGGTATAGCGC
1 GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGTATAACGC
10494472 G
1 G
10494473 GATCACGTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 10 0.22
51 36 0.78
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (50 bp):
GCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGTATAACGC
Found at i:10499796 original size:110 final size:111
Alignment explanation
Indices: 10499602--10499814 Score: 338
Period size: 110 Copynumber: 1.9 Consensus size: 111
10499592 ATTACAAAAA
* * * * *
10499602 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAATTTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
10499667 AATTAAAACGTTTAAATGTTACCGTATCAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
*
10499713 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
* *
10499777 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGT
10499815 AGAGTTATAT
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 60 0.65
111 33 0.35
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
Found at i:10500201 original size:51 final size:50
Alignment explanation
Indices: 10500096--10500219 Score: 176
Period size: 51 Copynumber: 2.5 Consensus size: 50
10500086 AGATATACAG
* * **
10500096 GTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGGCGCCAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* * *
10500146 GTATAGCGCGGTGTAGGGGGTGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGGCGCCAAATCACC
10500197 GTATAGCGCGGTGCAGGGGGCGC
1 GTATAGCGCGGTGCAGGGGGCGC
10500220 ACTTTACTGC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 25 0.39
51 39 0.61
ACGTcount: A:0.17, C:0.31, G:0.36, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:10500700 original size:17 final size:17
Alignment explanation
Indices: 10500674--10500708 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10500664 TTATGAAAAA
*
10500674 TATTATTTTAAAGAGAT
1 TATTAATTTAAAGAGAT
*
10500691 TATTAATTTATAGAGAT
1 TATTAATTTAAAGAGAT
10500708 T
1 T
10500709 TCATTGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TATTAATTTAAAGAGAT
Found at i:10501102 original size:52 final size:50
Alignment explanation
Indices: 10501003--10501125 Score: 122
Period size: 52 Copynumber: 2.4 Consensus size: 50
10500993 GGTATGCAAC
* *
10501003 CCGTCTTCACTATTCACAAAAAAATTGCTACAGTGAAAAGTGTGATTACAAA
1 CCGTCTTCACTATTCA-AAAAAAA-TGCTACAATGAAAAGTGGGATTACAAA
* * * *
10501055 CCGTCTTCATTATTCAAAAAAAGA-GCTACAATGAAGACGTTGGGATTAGAAC
1 CCGTCTTCACTATTCAAAAAAA-ATGCTACAATGAA-AAG-TGGGATTACAAA
* *
10501107 CCATATTCACTATTCAAAA
1 CCGTCTTCACTATTCAAAA
10501126 CAATAAAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
50 10 0.17
51 8 0.14
52 41 0.69
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (50 bp):
CCGTCTTCACTATTCAAAAAAAATGCTACAATGAAAAGTGGGATTACAAA
Found at i:10502009 original size:7 final size:7
Alignment explanation
Indices: 10501968--10502066 Score: 145
Period size: 7 Copynumber: 14.9 Consensus size: 7
10501958 AAAATTGTAA
10501968 AAGAA-G
1 AAGAAGG
10501974 AAGAA-G
1 AAGAAGG
10501980 AAGAA-G
1 AAGAAGG
10501986 AAG-AGG
1 AAGAAGG
*
10501992 AAAAAGG
1 AAGAAGG
*
10501999 -AGAAGA
1 AAGAAGG
10502005 AAGAAGG
1 AAGAAGG
10502012 AAGAAGG
1 AAGAAGG
10502019 AAGAAGG
1 AAGAAGG
10502026 AAGAAGG
1 AAGAAGG
10502033 AAGAAGG
1 AAGAAGG
10502040 AAGAAGG
1 AAGAAGG
10502047 AAGAAGG
1 AAGAAGG
10502054 AAGAAGG
1 AAGAAGG
10502061 AAGAAG
1 AAGAAG
10502067 TAAAACTTTC
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
5 1 0.01
6 22 0.26
7 63 0.73
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (7 bp):
AAGAAGG
Found at i:10502327 original size:2 final size:2
Alignment explanation
Indices: 10502320--10502357 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10502310 AATTAAATAA
10502320 AT AT AT AT AT AT AT AT AT 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 AT AT AT
10502358 GATGTAGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10509180 original size:30 final size:30
Alignment explanation
Indices: 10509141--10509253 Score: 81
Period size: 30 Copynumber: 3.7 Consensus size: 30
10509131 ACATAAACAC
*
10509141 TTAAAATAATATTATTTAATATATTTAATA
1 TTAATATAATATTATTTAATATATTTAATA
*
10509171 TTAATATAATA-TA-TTAGTATCATTTTAATA
1 TTAATATAATATTATTTAATAT-A-TTTAATA
** * * *
10509201 AAAATATTA-ATTATTTATTCATTTTTAATAA
1 TTAATATAATATTATTTAAT-ATATTTAAT-A
*
10509232 TATAATATTATATT-TTTAATAT
1 T-TAATATAATATTATTTAATAT
10509254 TAAAATAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
28 6 0.09
29 4 0.06
30 31 0.48
31 7 0.11
32 14 0.22
33 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (30 bp):
TTAATATAATATTATTTAATATATTTAATA
Found at i:10509232 original size:52 final size:51
Alignment explanation
Indices: 10509157--10509288 Score: 128
Period size: 52 Copynumber: 2.6 Consensus size: 51
10509147 TAATATTATT
* *
10509157 TAATATATTTAA-TATTAAT-ATAATATATTAGTATCA-TTTTAATA-AAAA
1 TAATATAATTAATTATTTATAATAATATATTAGTAT-ATTTTTAATATAAAA
* * * * * *
10509205 TATTAATTATTTATTCATTTTTAATAATATAATATTATATTTTTAATATTAAAA
1 TAAT-ATAATTAATT-ATTTATAATAATATATTAGTATATTTTTAATA-TAAAA
10509259 TAATATAATTAATTATTTATAATAATATAT
1 TAATATAATTAATTATTTATAATAATATAT
10509289 GATATTATAT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
48 3 0.05
49 5 0.08
50 1 0.02
51 5 0.08
52 35 0.55
53 8 0.12
54 7 0.11
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (51 bp):
TAATATAATTAATTATTTATAATAATATATTAGTATATTTTTAATATAAAA
Found at i:10509260 original size:22 final size:22
Alignment explanation
Indices: 10509221--10509265 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10509211 TTATTTATTC
* *
10509221 ATTTTTAATAATATAATATTAT
1 ATTTTTAATAATAAAATAATAT
*
10509243 ATTTTTAATATTAAAATAATAT
1 ATTTTTAATAATAAAATAATAT
10509265 A
1 A
10509266 ATTAATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTTAATAATAAAATAATAT
Found at i:10509295 original size:22 final size:23
Alignment explanation
Indices: 10509250--10509301 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
10509240 TATATTTTTA
* *
10509250 ATATTAAAATAATATAATTAATT
1 ATATTATAATAATATAATGAATT
10509273 AT-TTATAATAATAT-ATGATATT
1 ATATTATAATAATATAATGA-ATT
10509295 ATATTAT
1 ATATTAT
10509302 TATTTCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.12
22 16 0.64
23 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATTATAATAATATAATGAATT
Found at i:10509296 original size:82 final size:81
Alignment explanation
Indices: 10509145--10509319 Score: 189
Period size: 82 Copynumber: 2.1 Consensus size: 81
10509135 AAACACTTAA
* * *
10509145 AATAATATTAT-TTAATATATTTAATATTAATATAATATATTAGTATCATTTTAATAAAAATATT
1 AATAATATAATATTAATATATTTAATATTAAAATAATATATTAG-ATCATTTTAATAAAAATATG
*
10509209 AATTAT-TTATTCATTTTT
65 AATTATATTATT-A-TTTC
* * *
10509227 AATAATATAATATT-ATATTTTTAATATTAAAATAATATAATTA-ATTATTTATAAT-AATATAT
1 AATAATATAATATTAATATATTTAATATTAAAATAATAT-ATTAGATCATTT-TAATAAAAATAT
10509289 GATATTATATTATTATTTC
64 GA-ATTATATTATTATTTC
*
10509308 AATAATACAATA
1 AATAATATAATA
10509320 AATTATTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
81 27 0.34
82 42 0.52
83 11 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (81 bp):
AATAATATAATATTAATATATTTAATATTAAAATAATATATTAGATCATTTTAATAAAAATATGA
ATTATATTATTATTTC
Found at i:10509536 original size:21 final size:20
Alignment explanation
Indices: 10509480--10509536 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 20
10509470 ATTTTCAAAA
10509480 TATAATATTTTTATTTTAA-
1 TATAATATTTTTATTTTAAT
* *
10509499 TA-AATA--TTTAATATAATT
1 TATAATATTTTTATTTTAA-T
10509517 TATAATATTTTTATTTTAAT
1 TATAATATTTTTATTTTAAT
10509537 AGAATATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
16 8 0.28
18 6 0.21
19 6 0.21
20 1 0.03
21 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATAATATTTTTATTTTAAT
Found at i:10509542 original size:19 final size:18
Alignment explanation
Indices: 10509478--10509543 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 18
10509468 TAATTTTCAA
10509478 AATATAATATTTTTATTTT
1 AATA-AATATTTTTATTTT
*
10509497 AATAAATATTTAATATAATTT
1 AATAAATATTT--T-TATTTT
10509518 -AT-AATATTTTTATTTT
1 AATAAATATTTTTATTTT
10509534 AATAGAATAT
1 AATA-AATAT
10509544 AGTAGTCTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 5 0.13
17 3 0.08
18 7 0.18
19 16 0.41
20 3 0.08
21 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
AATAAATATTTTTATTTT
Found at i:10509947 original size:19 final size:19
Alignment explanation
Indices: 10509923--10509965 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
10509913 ATTATAATAT
*
10509923 AACATGCTAAGTCTAGGAA
1 AACATGCTAAGTCTAGAAA
*
10509942 AACATGCTAAGTTTAGAAA
1 AACATGCTAAGTCTAGAAA
10509961 AACAT
1 AACAT
10509966 TTTATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (19 bp):
AACATGCTAAGTCTAGAAA
Found at i:10511320 original size:4 final size:4
Alignment explanation
Indices: 10511311--10511340 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
10511301 CACAAGAATG
10511311 TTAT TTAT TTAT TTAT TTATT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT T
10511341 ATTATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:10511336 original size:9 final size:9
Alignment explanation
Indices: 10511314--10511356 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
10511304 AAGAATGTTA
10511314 TTTATTTA-
1 TTTATTTAT
10511322 TTTATTTAT
1 TTTATTTAT
10511331 TTTATTTAT
1 TTTATTTAT
10511340 TATTA-TTAT
1 T-TTATTTAT
10511349 TATTATTT
1 T-TTATTT
10511357 GCAAGGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
9 19 0.59
10 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTAT
Found at i:10511336 original size:13 final size:13
Alignment explanation
Indices: 10511311--10511349 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10511301 CACAAGAATG
10511311 TTATTTA-TTTAT
1 TTATTTATTTTAT
10511323 TTATTTATTTTAT
1 TTATTTATTTTAT
10511336 TTA-TTATTATTAT
1 TTATTTATT-TTAT
10511349 T
1 T
10511350 ATTATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:10512341 original size:2 final size:2
Alignment explanation
Indices: 10512334--10512388 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
10512324 GGATTTAGAT
10512334 TA TA TA TA 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
10512376 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
10512389 TTAAATTTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10513520 original size:15 final size:16
Alignment explanation
Indices: 10513494--10513528 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10513484 ATAAAAATTG
10513494 AAATATTATTTTTAAA
1 AAATATTATTTTTAAA
*
10513510 AAATA-TATTTTTTAA
1 AAATATTATTTTTAAA
10513525 AAAT
1 AAAT
10513529 TATCCCCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATTATTTTTAAA
Found at i:10515453 original size:22 final size:22
Alignment explanation
Indices: 10515423--10515473 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10515413 ATTCAACTGT
*
10515423 TATAACTCCTGAAATTATATCA
1 TATAACTCCTGAAATTAAATCA
* * *
10515445 TGTAACTCCTTATATTAAATCA
1 TATAACTCCTGAAATTAAATCA
10515467 TATAACT
1 TATAACT
10515474 ATTGTAACTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (22 bp):
TATAACTCCTGAAATTAAATCA
Found at i:10516197 original size:2 final size:2
Alignment explanation
Indices: 10516161--10516185 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10516151 GATGTGTAAG
10516161 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10516186 CAAAAGTATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10521903 original size:35 final size:35
Alignment explanation
Indices: 10521857--10521924 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
10521847 ATCCTTTGAA
*
10521857 ACTACAGTTATTATATAATCACGTGCTATATAATT
1 ACTACAGTTATTATATAATCACGAGCTATATAATT
*
10521892 ACTACAGTTATTATATAATTACGAGCTATATAA
1 ACTACAGTTATTATATAATCACGAGCTATATAA
10521925 CATAACGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (35 bp):
ACTACAGTTATTATATAATCACGAGCTATATAATT
Found at i:10524512 original size:25 final size:25
Alignment explanation
Indices: 10524484--10524531 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10524474 AACGTGTGTG
10524484 CATATGCTTTGAAAGTAGTCATTAA
1 CATATGCTTTGAAAGTAGTCATTAA
10524509 CATATGCTTTGAAAGTAGTCATT
1 CATATGCTTTGAAAGTAGTCATT
10524532 TAATGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (25 bp):
CATATGCTTTGAAAGTAGTCATTAA
Found at i:10525555 original size:77 final size:77
Alignment explanation
Indices: 10525428--10525582 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 77
10525418 GGTGGCAATC
* *
10525428 GAGTCCACTTCCAAATTTGATGTGATATAGATTGCGGACGGGGAGGAGGATTCTAACTTGGTCAA
1 GAGTCCACTTCCAAATTTGATGTGATAAAGATTGCGGACAGGGAGGAGGATTCTAACTTGGTCAA
*
10525493 TGTGGAGGTAGG
66 TGTGGAGATAGG
* *
10525505 GAGTCCACTTCCAGATTTGATGTGCTAAAGATTGCGGACAGGGAGGAGGATTCTAACTTGGTCAA
1 GAGTCCACTTCCAAATTTGATGTGATAAAGATTGCGGACAGGGAGGAGGATTCTAACTTGGTCAA
10525570 TGTGGAGATAGG
66 TGTGGAGATAGG
10525582 G
1 G
10525583 GTTGTTCATA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (77 bp):
GAGTCCACTTCCAAATTTGATGTGATAAAGATTGCGGACAGGGAGGAGGATTCTAACTTGGTCAA
TGTGGAGATAGG
Found at i:10533589 original size:109 final size:110
Alignment explanation
Indices: 10533252--10533701 Score: 653
Period size: 110 Copynumber: 4.1 Consensus size: 110
10533242 CTTGAACAAA
* *
10533252 TGGACTCGAGACAACACAAGCTCAACTTCATAGCGAAGGGGCGACTGACTGTCAACAAATAAATT
1 TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAATT
* *
10533317 TTCAGTTTTATTCAGAGTCAATTTCAACTTCACAGTGAAGGATAT
66 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
* *
10533362 TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAAGGGCGACTGACTGTTAACAAACAAATT
1 TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAATT
*
10533427 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAAGGATAT
66 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
** * * * *
10533472 TGGACTCGAGACAACACAAGCTCAACTTCACAATGAA-GAGCGCCTGACTGTTAACAAACAACTT
1 TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAATT
*
10533536 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATAT
66 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
* * *
10533581 TAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAACTT
1 TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAATT
* *
10533646 TCCAG-TT--TT-AGAGTCAATTTTAACTTCAC-GACGAAGGATAT
66 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAG-CGAAGGATAT
*
10533687 T-GACTTCGAAACAAC
1 TGGAC-TCGAGACAAC
10533702 CCAAATATTT
Statistics
Matches: 314, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
105 4 0.01
106 38 0.12
107 2 0.01
109 103 0.33
110 167 0.53
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (110 bp):
TGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAATT
TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
Found at i:10533640 original size:219 final size:216
Alignment explanation
Indices: 10533252--10533701 Score: 645
Period size: 219 Copynumber: 2.1 Consensus size: 216
10533242 CTTGAACAAA
* * * *
10533252 TGGACTCGAGACAACACAAGCTCAACTTCATAGCGAAGGGGCGACTGACTGTCAACAAATAAATT
1 TGGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGAGCGACTGACTGTCAACAAACAAATT
* * * *
10533317 TTCAGTTTTATTCAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAG
66 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAG
* * *
10533382 CTCAACTTCACAGCGAAAGGGCGACTGACTGTTAACAAACAAATTTTCAGTTTCATTCAGAGTCA
131 CTCAACTTCACAGCGAAAGGGCGACTAACTGTCAACAAACAAATTTCCAG-TT--TT-AGAGTCA
*
10533447 ATTTCAACTTCAC-AGTGAAGGATAT
192 ATTTCAACTTCACGA-CGAAGGATAT
* * * *
10533472 TGGACTCGAGACAACACAAGCTCAACTTCACAATGAA-GAGCGCCTGACTGTTAACAAACAACTT
1 TGGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGAGCGACTGACTGTCAACAAACAAATT
10533536 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAG
66 TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAG
* *
10533601 CTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAACTTTCCAGTTTTAGAGTCAATTT
131 CTCAACTTCACAGCGAAAGGGCGACTAACTGTCAACAAACAAATTTCCAGTTTTAGAGTCAATTT
*
10533666 TAACTTCACGACGAAGGATAT
196 CAACTTCACGACGAAGGATAT
*
10533687 T-GACTTCGAAACAAC
1 TGGAC-TCGAGACAAC
10533702 CCAAATATTT
Statistics
Matches: 208, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
214 3 0.01
215 38 0.18
216 3 0.01
218 2 0.01
219 128 0.62
220 34 0.16
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (216 bp):
TGGACTCGAGACAACACAAGCTCAACTTCACAACGAAGGAGCGACTGACTGTCAACAAACAAATT
TTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCGAGACAACACAAG
CTCAACTTCACAGCGAAAGGGCGACTAACTGTCAACAAACAAATTTCCAGTTTTAGAGTCAATTT
CAACTTCACGACGAAGGATAT
Found at i:10533748 original size:52 final size:52
Alignment explanation
Indices: 10533662--10533790 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
10533652 TTTAGAGTCA
* * *
10533662 ATTTTAACTTCACGACGAAGGATATTGACTTCGAAACAACCCAAATATTTGG
1 ATTTCAACTTCACGACGAAGGATATTGACCTCGAAACAACACAAATATTTGG
* * *
10533714 ATTTCAACTTCACAACGAAGGATATTGGCCTCGAAACAGCACAAATATTTGG
1 ATTTCAACTTCACGACGAAGGATATTGACCTCGAAACAACACAAATATTTGG
*
10533766 ATTTCAACTTCACGACGAATGATAT
1 ATTTCAACTTCACGACGAAGGATAT
10533791 CCAATTTGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (52 bp):
ATTTCAACTTCACGACGAAGGATATTGACCTCGAAACAACACAAATATTTGG
Found at i:10534038 original size:84 final size:84
Alignment explanation
Indices: 10533861--10534058 Score: 281
Period size: 84 Copynumber: 2.4 Consensus size: 84
10533851 AATCGTGCCC
* * *
10533861 ACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAG
* *
10533926 GCTAGAAGGGTTATCTGTC
66 GCGAGAAGGGTTATCTGTA
* * * * *
10533945 ACCAAAGACCTTCAAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAATATAGCTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAG
*
10534009 TCGAGAAGGGTTATCTGTA
66 GCGAGAAGGGTTATCTGTA
10534028 ACCAAAAGACCTTCGAGTTCGACTACGCTCA
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCA
10534059 ACTCTATCGT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 45 0.45
84 56 0.55
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (84 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACATCATTTACAACATAACTCAAG
GCGAGAAGGGTTATCTGTA
Found at i:10534218 original size:208 final size:212
Alignment explanation
Indices: 10533852--10534272 Score: 814
Period size: 208 Copynumber: 2.0 Consensus size: 212
10533842 CACGAAGGGA
10533852 ATCGTGCCCACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAACA
1 ATCGTGCCCACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAACA
10533917 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAA
66 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAA
10533982 GGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
131 GGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
10534047 CGACTACGCTCAACTCT
196 CGACTACGCTCAACTCT
10534064 ATCGTGCCCACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTAC-ACA
1 ATCGTGCCCACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAACA
10534128 TAACTCAAGGCTAGAAGGG-TATCT-TCACC-AAGACCTTCAAGTTCGACTACGCTCAGCTCCAA
66 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAA
10534190 GGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
131 GGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
10534255 CGACTACGCTCAACTCT
196 CGACTACGCTCAACTCT
10534272 A
1 A
10534273 ATGCATATCA
Statistics
Matches: 209, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
208 116 0.56
209 5 0.02
210 5 0.02
211 22 0.11
212 61 0.29
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (212 bp):
ATCGTGCCCACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAACA
TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAA
GGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
CGACTACGCTCAACTCT
Found at i:10534265 original size:84 final size:83
Alignment explanation
Indices: 10534073--10534671 Score: 599
Period size: 84 Copynumber: 7.3 Consensus size: 83
10534063 TATCGTGCCC
* * * * *
10534073 ACCAAAGTCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACA-CATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTTAAG
* * *
10534137 GCTAGAAGGG-TATCT-TC
65 TCGAGAAGGGTTATCTGTA
* * ** *
10534154 ACC-AAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAATATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGT
10534218 CGAGAAGGGTTATCTGTA
66 CGAGAAGGGTTATCTGTA
* * * * *
10534236 ACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCTAATGCATATCATTTGCAGTATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAG
*
10534301 TCGAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-TA
* * * * * *
10534321 ACCAAAGATCTTCGAGTTTGACTACGTTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGT
*
10534386 CGAGAAGGGCTATCTG--
66 CGAGAAGGGTTATCTGTA
* * * * * * *
10534402 -CCAAATACCCTT-GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAA
1 ACCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTTAA
* * *
10534465 GGCTAGAAGGGTTATCTGTC
64 GTCGAGAAGGGTTATCTGTA
* * * *
10534485 ACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACCAACATTTGCAGCATAACTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA-CATCATTTGCAGCATAACTTAAG
* *
10534550 TCAAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-TA
* * * * *
10534570 ATCAAAGACCTTCGAGTTCGATTACACTCTGCTCAAAGGCACCATCATTTGCAGCATAGCTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA-CATCATTTGCAGCATAACTTAAG
* *
10534635 TCGAGAAGGGCTATATGT-
65 TCGAGAAGGGTTATCTGTA
*
10534653 --TAAAGACCTTCGAGTTCGA
1 ACCAAAGACCTTCGAGTTCGA
10534672 TTACATTCAA
Statistics
Matches: 438, Mismatches: 66, Indels: 28
0.82 0.12 0.05
Matches are distributed among these distances:
79 17 0.04
80 63 0.14
81 69 0.16
82 4 0.01
83 10 0.02
84 197 0.45
85 78 0.18
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (83 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGTA
Found at i:10534566 original size:249 final size:248
Alignment explanation
Indices: 10534063--10534676 Score: 709
Period size: 249 Copynumber: 2.5 Consensus size: 248
10534053 CGCTCAACTC
* * * *
10534063 TATCGTGCCCACCAAAG-TCCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACA-
1 TATC-TGCCAACCAAAGAT-CTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAG
* * * * * * * * *
10534126 CATAACTCAAGGCTAGAAGGG-TATCTTCACCAAGACCTTCAAGTTCGACTACGCTCAGCTCCAA
63 CATAGCTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCTTCGAGTTCGATTACACTCAGCTCCAA
* * * * *
10534190 GGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
127 GGCACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTT
* * * * * *
10534255 CGACTACGCTCAACTCTAATGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGT
192 CGACTACACTCAACTCTAAAGCACAACATTTGCAGCATAACTTAAGTCAAGAAGGGT
* * * *
10534312 TATCTGCCAACCAAAGATCTTCGAGTTTGACTACGTTCAGCTCCAAGGTACATCATTTGCAGCAT
1 TATCTGCCAACCAAAGATCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCAT
* * *
10534377 AGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTT-GAGTTCGATTACACTCAGCTTCGAGGG
66 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCTTCGAGTTCGATTACACTCAGC-TCCAAGG
* * *
10534441 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCG
129 CACATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCG
* *
10534505 ATTACACTCAGCTC-AAAGACACCAACATTTGCAGCATAACTTAAGTCAAGAAGGGT
194 ACTACACTCAACTCTAAAG-CA-CAACATTTGCAGCATAACTTAAGTCAAGAAGGGT
* * * * *
10534561 TATCTGCCAATCAAAGACCTTCGAGTTCGATTACACTCTGCTCAAAGGCACCATCATTTGCAGCA
1 TATCTGCCAACCAAAGATCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA-CATCATTTGCAGCA
* **
10534626 TAGCTTAAGTCGAGAAGGGCTATATGTTAAAGACCTTCGAGTTCGATTACA
65 TAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACA
10534677 TTCAACTCAG
Statistics
Matches: 308, Mismatches: 48, Indels: 17
0.83 0.13 0.05
Matches are distributed among these distances:
247 19 0.06
248 99 0.32
249 134 0.44
250 56 0.18
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (248 bp):
TATCTGCCAACCAAAGATCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCAT
AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCA
CATCATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGAC
TACACTCAACTCTAAAGCACAACATTTGCAGCATAACTTAAGTCAAGAAGGGT
Found at i:10534768 original size:250 final size:249
Alignment explanation
Indices: 10534220--10534737 Score: 625
Period size: 249 Copynumber: 2.1 Consensus size: 249
10534210 GCTTAAGTCG
* * * * * * *
10534220 AGAAGGGTTATCTGT-AACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCTAATG-CA-TATC
1 AGAAGGGCTATCTGTCAA-C-AAAGACCTTCGAGTTCGATTACACTCAGCTC-AAAGACACCAAC
* * * * *
10534282 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGATCTTCGAGTTTGACTACG
63 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* * * * *
10534347 TTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCC
128 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCC
* * * * **
10534412 TTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
193 TTGAGTTCGATTACACTCAACTTCGAGGGCAAATCACTTACACCATAACTCAAGGAA
* *
10534469 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACCAACATT
1 AGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACCAACATT
* *
10534534 TGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGATTACACTC
66 TGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACACTC
* **
10534599 TGCTCAAAGGCACCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGTTAAAGA-CCTT
131 AGCTCAAAGGCA-CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCTT
* *
10534663 CGAGTTCGATTACATTCAAC-TC-AGAGGCAAATCAAGCTTACACCATAGCTCAAGGAA
195 -GAGTTCGATTACACTCAACTTCGAG-GGCAAATC-A-CTTACACCATAACTCAAGGAA
*
10534720 AGAATGGCTATCTGTCAA
1 AGAAGGGCTATCTGTCAA
10534738 TAAAATTGTC
Statistics
Matches: 228, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
247 3 0.01
248 32 0.14
249 100 0.44
250 62 0.27
251 31 0.14
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (249 bp):
AGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACCAACATT
TGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACACTC
AGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCTTG
AGTTCGATTACACTCAACTTCGAGGGCAAATCACTTACACCATAACTCAAGGAA
Found at i:10535674 original size:16 final size:16
Alignment explanation
Indices: 10535650--10535689 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10535640 CAAAAACAAT
10535650 GGTGAAGATGTGCCGC
1 GGTGAAGATGTGCCGC
*
10535666 GGTGGAGATGTGCCGC
1 GGTGAAGATGTGCCGC
*
10535682 AGTGAAGA
1 GGTGAAGA
10535690 AAGCAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.45, T:0.17
Consensus pattern (16 bp):
GGTGAAGATGTGCCGC
Found at i:10536052 original size:17 final size:17
Alignment explanation
Indices: 10536032--10536064 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10536022 CTTTATTCAT
10536032 TTTATTTTATTTTTTTG
1 TTTATTTTATTTTTTTG
*
10536049 TTTATTTTCTTTTTTT
1 TTTATTTTATTTTTTT
10536065 ACTAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTATTTTATTTTTTTG
Found at i:10545492 original size:82 final size:83
Alignment explanation
Indices: 10545353--10545520 Score: 320
Period size: 82 Copynumber: 2.0 Consensus size: 83
10545343 AGTTATAAAC
*
10545353 TTTATTTTTTTTATGCACCTAAAATTCTGTAGATAATAGTTGTTATCAAATGTATCAAATTATGC
1 TTTATTTTTTTTATGCACCTAAAATTCTGTAGATAATAGTTGTTATCAAATGCATCAAATTATGC
10545418 TCTTAAGAGTGACTAGGA
66 TCTTAAGAGTGACTAGGA
10545436 TTTA-TTTTTTTATGCACCTAAAATTCTGTAGATAATAGTTGTTATCAAATGCATCAAATTATGC
1 TTTATTTTTTTTATGCACCTAAAATTCTGTAGATAATAGTTGTTATCAAATGCATCAAATTATGC
10545500 TCTTAAGAGTGACTAGGA
66 TCTTAAGAGTGACTAGGA
10545518 TTT
1 TTT
10545521 GATATTTGGA
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 80 0.95
83 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (83 bp):
TTTATTTTTTTTATGCACCTAAAATTCTGTAGATAATAGTTGTTATCAAATGCATCAAATTATGC
TCTTAAGAGTGACTAGGA
Found at i:10546338 original size:64 final size:64
Alignment explanation
Indices: 10546259--10546384 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 64
10546249 TGGCCAGAGT
* *
10546259 CACACACACACACACATTTGTGTCAAGTCAAAAGGCAAGTCTGGTGTTGAGTGAAATAAACCCA
1 CACACACACACACACATTTGTATCAAGTCAAAAGGCAAGTCGGGTGTTGAGTGAAATAAACCCA
10546323 CACACACACACACACATTTGTATCAAGTCAAAAGGCAAGTCGGGTGTTGAGTGAAATAAACC
1 CACACACACACACACATTTGTATCAAGTCAAAAGGCAAGTCGGGTGTTGAGTGAAATAAACC
10546385 TAAACCCGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (64 bp):
CACACACACACACACATTTGTATCAAGTCAAAAGGCAAGTCGGGTGTTGAGTGAAATAAACCCA
Found at i:10553193 original size:27 final size:27
Alignment explanation
Indices: 10553152--10553203 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10553142 CACATTCCCT
* *
10553152 GCACCTTCCGCGGTCTTCCATGCTTGC
1 GCACCTTCCGCGGTCTACCACGCTTGC
* *
10553179 GCACCTTCGGTGGTCTACCACGCTT
1 GCACCTTCCGCGGTCTACCACGCTT
10553204 ACCTTTTGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.10, C:0.38, G:0.23, T:0.29
Consensus pattern (27 bp):
GCACCTTCCGCGGTCTACCACGCTTGC
Found at i:10553436 original size:27 final size:27
Alignment explanation
Indices: 10553406--10553457 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
10553396 ATTCTCCTGT
* *
10553406 ACCTTCCGTGGTCTTCCAGGCTTACCC
1 ACCTTCCGTGGTCTACCACGCTTACCC
10553433 ACCTTCCGTGGTCTACCACGCTTAC
1 ACCTTCCGTGGTCTACCACGCTTAC
10553458 ACTTTGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.40, G:0.17, T:0.29
Consensus pattern (27 bp):
ACCTTCCGTGGTCTACCACGCTTACCC
Found at i:10553625 original size:261 final size:250
Alignment explanation
Indices: 10553129--10553654 Score: 687
Period size: 261 Copynumber: 2.1 Consensus size: 250
10553119 TTTAATTTCT
* * * *
10553129 TTCTTCTCAAACCCACATTCCCTGCACCTTCCGCGGTCTTCCATGCTTGCGCACCTTCGGTGGTC
1 TTCTTCTCAAACCCACATTCCCTGCACCTTCCGCGGTCTTCCAGGCTTACCCACCTTCCGTGGTC
* * *
10553194 TACCACGCTTACCTTTTGACTCCTTACTCACATCCCCGTCAAAGCTCCCTGGTTCTTTAGTAAAT
66 TACCACGCTTACCTTTTGACTCCTTACTCACATCCACGTCAAAGCTCCCAGCTTCTTTAGTAAAT
* ** **
10553259 CCTTTCTTTACATAACTATCATTACCTGGTACCTTGGGTGGTCTCCCAGGCTTGCGCTTGATCTT
131 CCTTCCTTTACATAACTATCATTACCCAGTACCTTGGGTGGTCTCCCAGGCTTGCGCTTGAGATT
* *
10553324 CTTCCTGACTTCACCATCTGGGCAATCATTCTCTCCTACTTGCCGCTCAAGTGTC
196 CATCCTGACTTCACCATCTGGGAAATCATTCTCTCCTACTTGCCGCTCAAGTGTC
* * *
10553379 TTCTTCTCAAACTCACTATTCTCCTGTACCTTCCGTGGTCTTCCAGGCTTACCCACCTTCCGTGG
1 TTCTTCTCAAACCCAC-ATTC-CCTGCACCTTCCGCGGTCTTCCAGGCTTACCCACCTTCCGTGG
10553444 TCTACCACGCTTACAC-TTTGACTCCTTACTCACATCCACGTCAAAGCGATCACTCCCCCCAGCT
64 TCTACCACGCTTAC-CTTTTGACTCCTTACTCACATCCACGTCAAA--G----CT---CCCAGCT
* * * * *
10553508 TCTTTAGTAAATCCTTCCTTTATATACCTGTCATTGCCCAGTACCTTGGGTGGTCTCCCAGGTTT
119 TCTTTAGTAAATCCTTCCTTTACATAACTATCATTACCCAGTACCTTGGGTGGTCTCCCAGGCTT
*** *
10553573 GTTTTTGAGATTCATCCTGACTTCACCATCCT-GGAAATCATTCTGTCCTACTTGCCGCTCAAGT
184 GCGCTTGAGATTCATCCTGACTTCACCAT-CTGGGAAATCATTCTCTCCTACTTGCCGCTCAAGT
10553637 GTC
248 GTC
10553640 TTCTTCTCAAACCCA
1 TTCTTCTCAAACCCA
10553655 TTCTTCCCCT
Statistics
Matches: 236, Mismatches: 27, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
250 15 0.06
251 4 0.02
252 79 0.33
253 1 0.00
254 1 0.00
258 2 0.01
261 132 0.56
262 2 0.01
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (250 bp):
TTCTTCTCAAACCCACATTCCCTGCACCTTCCGCGGTCTTCCAGGCTTACCCACCTTCCGTGGTC
TACCACGCTTACCTTTTGACTCCTTACTCACATCCACGTCAAAGCTCCCAGCTTCTTTAGTAAAT
CCTTCCTTTACATAACTATCATTACCCAGTACCTTGGGTGGTCTCCCAGGCTTGCGCTTGAGATT
CATCCTGACTTCACCATCTGGGAAATCATTCTCTCCTACTTGCCGCTCAAGTGTC
Found at i:10556292 original size:4 final size:4
Alignment explanation
Indices: 10556283--10556309 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10556273 AAGTGGATCC
10556283 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
10556310 GGGATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10564293 original size:2 final size:2
Alignment explanation
Indices: 10564286--10564321 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10564276 AAGATATACT
10564286 TA 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
10564322 GCTCATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10573464 original size:16 final size:16
Alignment explanation
Indices: 10573443--10573475 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10573433 AAATACAATA
10573443 ATGGTCTACAAATAAC
1 ATGGTCTACAAATAAC
10573459 ATGGTCTACAAATAAC
1 ATGGTCTACAAATAAC
10573475 A
1 A
10573476 GAGAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (16 bp):
ATGGTCTACAAATAAC
Found at i:10576030 original size:18 final size:19
Alignment explanation
Indices: 10576003--10576038 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10575993 ACAGGGAATA
10576003 TAAAAGAAAAGGGGAGCAT
1 TAAAAGAAAAGGGGAGCAT
10576022 TAAAA-AAAAGGGGAGCA
1 TAAAAGAAAAGGGGAGCA
10576039 GGAACCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.31, T:0.08
Consensus pattern (19 bp):
TAAAAGAAAAGGGGAGCAT
Found at i:10576172 original size:22 final size:22
Alignment explanation
Indices: 10576130--10576177 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10576120 AATTTACCCC
* * *
10576130 CTTTTATTTTTTTACTTTATTT
1 CTTTTATTGTTTTAATATATTT
10576152 CTTTTATTGTTTTAATATATTT
1 CTTTTATTGTTTTAATATATTT
10576174 -TTTT
1 CTTTT
10576178 CTTTACTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (22 bp):
CTTTTATTGTTTTAATATATTT
Found at i:10578120 original size:47 final size:47
Alignment explanation
Indices: 10578049--10578148 Score: 148
Period size: 47 Copynumber: 2.1 Consensus size: 47
10578039 GCAATAGCGT
* * *
10578049 CCGCGACGGCCGCAATCACGGTAAATCCG-AAATAACCGAAAACGTGA
1 CCGCGACCGCCGCAATCACAGTAAAT-CGAAAATAACCGAAAACGCGA
10578096 CCGCGACCGCCGCAATCACAGTAAATCGAAAATAACCGAAAACGCGA
1 CCGCGACCGCCGCAATCACAGTAAATCGAAAATAACCGAAAACGCGA
*
10578143 CTGCGA
1 CCGCGA
10578149 TTTGAAACCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 2 0.04
47 46 0.96
ACGTcount: A:0.37, C:0.31, G:0.22, T:0.10
Consensus pattern (47 bp):
CCGCGACCGCCGCAATCACAGTAAATCGAAAATAACCGAAAACGCGA
Found at i:10579101 original size:21 final size:21
Alignment explanation
Indices: 10579077--10579133 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
10579067 ATTATCCAAT
*
10579077 AAACATGACATCCATAACAAC
1 AAACATGAAATCCATAACAAC
* *
10579098 AAACTTTAAATCCATAACAAC
1 AAACATGAAATCCATAACAAC
* * *
10579119 CAACTTTAAATCCAT
1 AAACATGAAATCCAT
10579134 TATAATAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
AAACATGAAATCCATAACAAC
Found at i:10585313 original size:21 final size:21
Alignment explanation
Indices: 10585289--10585328 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10585279 GGGGCGATAT
*
10585289 TGGTGACAGATGGCGCGACAA
1 TGGTGACAGACGGCGCGACAA
*
10585310 TGGTGACCGACGGCGCGAC
1 TGGTGACAGACGGCGCGAC
10585329 TGGTGGCGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.40, T:0.12
Consensus pattern (21 bp):
TGGTGACAGACGGCGCGACAA
Found at i:10585676 original size:41 final size:41
Alignment explanation
Indices: 10585638--10585715 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
10585628 GCATTTTTGT
*
10585638 ACAAACGCCACGAAAGTATGAGTCTTTAGCGGCGTTTTTAC
1 ACAAACGCCACGAAAGTAAGAGTCTTTAGCGGCGTTTTTAC
* * *
10585679 ACAAATGCCACTAAAGTAAGAGTCTTTTGCGGCGTTT
1 ACAAACGCCACGAAAGTAAGAGTCTTTAGCGGCGTTT
10585716 GTAAACCCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
ACAAACGCCACGAAAGTAAGAGTCTTTAGCGGCGTTTTTAC
Found at i:10586109 original size:42 final size:43
Alignment explanation
Indices: 10586020--10586109 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 43
10586010 GGTACATGTT
* * * * *
10586020 TATTGCCACATTTATTACAAAAAATGCCCCTGAATTACATGAT
1 TATTGCCACATTTATTACAAAAAATGCCACTAAAGTACAAGAC
* * *
10586063 TATTGCGACATTTATTA-TACAAATGCCACTAAAGTACAAGAC
1 TATTGCCACATTTATTACAAAAAATGCCACTAAAGTACAAGAC
10586105 TATTG
1 TATTG
10586110 TGACGTTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 23 0.59
43 16 0.41
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (43 bp):
TATTGCCACATTTATTACAAAAAATGCCACTAAAGTACAAGAC
Done.