Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, 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: 8065533
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 116430 characters in sequence are not A, C, G, or T
File 17 of 18
Found at i:7002271 original size:22 final size:22
Alignment explanation
Indices: 7002246--7002290 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7002236 TTACAAAAGA
7002246 AAACTTGAACTTGTAATGCAAT
1 AAACTTGAACTTGTAATGCAAT
7002268 AAACTTGAACTTGTAATGCAAT
1 AAACTTGAACTTGTAATGCAAT
7002290 A
1 A
7002291 GTGTCACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
AAACTTGAACTTGTAATGCAAT
Found at i:7008875 original size:31 final size:34
Alignment explanation
Indices: 7008827--7008894 Score: 97
Period size: 32 Copynumber: 2.1 Consensus size: 34
7008817 ATAAAAATTA
*
7008827 ATTTAATGTATTTATTATTT-TTTAAATATTTAT
1 ATTTAATGTATTTATTATTTATTAAAATATTTAT
*
7008860 ATTTAAT-T-TTTATTATTTATTAAAATATTTTT
1 ATTTAATGTATTTATTATTTATTAAAATATTTAT
7008892 ATT
1 ATT
7008895 ATTAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 10 0.31
32 15 0.47
33 7 0.22
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (34 bp):
ATTTAATGTATTTATTATTTATTAAAATATTTAT
Found at i:7008892 original size:28 final size:32
Alignment explanation
Indices: 7008818--7008888 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
7008808 TTTTTTATAA
* *
7008818 TAAAAATTA-ATTTAATGTATTTATTATTTTT
1 TAAATATTATATTTAATGTATTTATTATTTAT
7008849 TAAATATTTATATTTAAT-T-TTTATTATTTAT
1 TAAATA-TTATATTTAATGTATTTATTATTTAT
7008880 TAAAATATT
1 T-AAATATT
7008889 TTTATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 19 0.54
32 9 0.26
33 7 0.20
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (32 bp):
TAAATATTATATTTAATGTATTTATTATTTAT
Found at i:7011349 original size:31 final size:31
Alignment explanation
Indices: 7011289--7011350 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7011279 AAAGTTTTAG
* *
7011289 TTCTTAAAGTACAGGTACCATATTAGACATT
1 TTCTTAAAGTACAGGGACCAAATTAGACATT
7011320 TTCTTAAAGTACAGGGACCAAATGT-GACATT
1 TTCTTAAAGTACAGGGACCAAAT-TAGACATT
7011351 ATCCCTTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (31 bp):
TTCTTAAAGTACAGGGACCAAATTAGACATT
Found at i:7018127 original size:22 final size:22
Alignment explanation
Indices: 7018085--7018128 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7018075 AATTGATCAA
* *
7018085 AACTCTCCTTCAGTCCCTGCTT
1 AACTCTCCTTCAATCCATGCTT
7018107 AACTCCTCCTTCAAT-CATGCTT
1 AACT-CTCCTTCAATCCATGCTT
7018129 CTCATCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.18, C:0.39, G:0.07, T:0.36
Consensus pattern (22 bp):
AACTCTCCTTCAATCCATGCTT
Found at i:7021280 original size:25 final size:25
Alignment explanation
Indices: 7021250--7021320 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 25
7021240 AATATATTTA
7021250 ATTTGAAATAAAAAAATAAAAACTT
1 ATTTGAAATAAAAAAATAAAAACTT
*
7021275 ATTTG-ATTCAAAATTAAA-AAAAACTT
1 ATTTGAAAT-AAAA--AAATAAAAACTT
*
7021301 AATTGAATATAATAAAAATA
1 ATTTGAA-ATAA-AAAAATA
7021321 TAAGAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
24 2 0.06
25 9 0.25
26 15 0.42
27 7 0.19
28 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
ATTTGAAATAAAAAAATAAAAACTT
Found at i:7025044 original size:11 final size:11
Alignment explanation
Indices: 7025004--7025043 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7024994 TGTGTAAAGG
7025004 TAAAAAAATTT
1 TAAAAAAATTT
7025015 TAAAAAAATTT
1 TAAAAAAATTT
*
7025026 AAATAAATAATTT
1 TAA-AAA-AATTT
7025039 TAAAA
1 TAAAA
7025044 TTGTGAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 13 0.52
12 5 0.20
13 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:7043380 original size:18 final size:18
Alignment explanation
Indices: 7043335--7043372 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7043325 AATTATACAT
7043335 GAAAAGGAGAGAAACAGA
1 GAAAAGGAGAGAAACAGA
*
7043353 GAAAAGGAGAGAAAGAGA
1 GAAAAGGAGAGAAACAGA
7043371 GA
1 GA
7043373 CAGAGAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.37, T:0.00
Consensus pattern (18 bp):
GAAAAGGAGAGAAACAGA
Found at i:7048632 original size:44 final size:44
Alignment explanation
Indices: 7048569--7048658 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
7048559 GCGGTTGTTC
7048569 CTATTTCATTGATACAAATTTGCAGAAACCAGACTGAGGAAGTT
1 CTATTTCATTGATACAAATTTGCAGAAACCAGACTGAGGAAGTT
7048613 CTATTTCATTGATACAAATTTGCAGAAACCAGACTGAGGAAGTT
1 CTATTTCATTGATACAAATTTGCAGAAACCAGACTGAGGAAGTT
7048657 CT
1 CT
7048659 TACTTGAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (44 bp):
CTATTTCATTGATACAAATTTGCAGAAACCAGACTGAGGAAGTT
Found at i:7054209 original size:29 final size:30
Alignment explanation
Indices: 7054152--7054211 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
7054142 GTTCGCATAT
*
7054152 TTTTTATTTTAAGGCAAATGAGCTTTTATA
1 TTTTTATTTTAAGGCAAATAAGCTTTTATA
*
7054182 TTTTTATTTTAAGTCAAATAAGC-TTTATA
1 TTTTTATTTTAAGGCAAATAAGCTTTTATA
7054211 T
1 T
7054212 GGTTAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.52
Consensus pattern (30 bp):
TTTTTATTTTAAGGCAAATAAGCTTTTATA
Found at i:7054221 original size:29 final size:30
Alignment explanation
Indices: 7054159--7054221 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
7054149 TATTTTTTAT
* ** *
7054159 TTTAAGGCAAATGAGCTTTTATATTTTTAT
1 TTTAAGGCAAATAAGCTTTTATATGGTTAA
*
7054189 TTTAAGTCAAATAAGC-TTTATATGGTTAA
1 TTTAAGGCAAATAAGCTTTTATATGGTTAA
7054218 TTTA
1 TTTA
7054222 GTTAAAATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (30 bp):
TTTAAGGCAAATAAGCTTTTATATGGTTAA
Found at i:7054610 original size:18 final size:17
Alignment explanation
Indices: 7054567--7054601 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7054557 GGCACGCTGA
7054567 CCCGCACGCTATAGGTG
1 CCCGCACGCTATAGGTG
7054584 CCCGCACGCTATAGGTG
1 CCCGCACGCTATAGGTG
7054601 C
1 C
7054602 GCGGCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (17 bp):
CCCGCACGCTATAGGTG
Found at i:7054865 original size:15 final size:15
Alignment explanation
Indices: 7054842--7054897 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
7054832 TTTCCCTCCC
*
7054842 AAATGTTTTGGAGGG
1 AAATATTTTGGAGGG
*
7054857 AAATATTTTAGAGGG
1 AAATATTTTGGAGGG
**
7054872 AAATGCTTTGGAGGG
1 AAATATTTTGGAGGG
7054887 AAATATTTTGG
1 AAATATTTTGG
7054898 GAACCTTAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.32, C:0.02, G:0.32, T:0.34
Consensus pattern (15 bp):
AAATATTTTGGAGGG
Found at i:7100827 original size:279 final size:274
Alignment explanation
Indices: 7100238--7100914 Score: 807
Period size: 275 Copynumber: 2.4 Consensus size: 274
7100228 ATTTATAACG
* * * * *
7100238 TCTCAAATTAAAAATAATTTCATGTGAAAATATTTAAATAAGTTAAATTAAATAAAAAGTAACGT
1 TCTCAAATTAAAAACAATTTCATGTGAAAATGTTTGAATAAGTTAAATTAAGTAGAAAGTAACGT
* * * * *
7100303 ATATGATATATCTATTTTTAAAATAATAACAAGTTACAATTTATAACGTCTCGTATTAAGTTAGA
66 ATTTGGTATATATATTTTTAAAATAATAACAA-TTACAATTTGTAACGTCTCGTATTAAATTAGA
* * * * *
7100368 GATTCTCGTATTAAAGAAACAGTTTCACGTGAATATTATGTTTGAATACGACAAAAGATATATTA
130 GATTCTCGAAATAAAAAAAAAGTTTCACGTGAATATTATGTTTGAATAAGACAAAAGATATATTA
* * * * *
7100433 ATTAAGTAAATAGTAAAATATTTTCAAGTGATCTTTAAAAAAATAATTGACCACAATTCATAACG
195 ATTAAATAAAAAATAAAATATCTTCAAGTGATCTTTAAAAAAATAATTGACCACAATTCATAACA
7100498 TCTCAAATTAGCAGT
260 TCTCAAATTAGCAGT
* * *
7100513 TTTCAAATTAAAAACAATTTCATGTGAAAATGTTTGAATAAGTTAAATTAAGTAGAAAGCAACAT
1 TCTCAAATTAAAAACAATTTCATGTGAAAATGTTTGAATAAGTTAAATTAAGTAGAAAGTAACGT
* *
7100578 ATTTGGTATATATATTTTTAAAATAATAATCTATTACAATTTGTAACGTCTCGTTTTAAATTAGA
66 ATTTGGTATATATATTTTTAAAATAATAA-CAATTACAATTTGTAACGTCTCGTATTAAATTAGA
7100643 GATTCTC-AAATAAAAAAAAAGATTTCACGTG-A-A-TATGTTTGAATAAGACAAAACCCTAAAG
130 GATTCTCGAAATAAAAAAAAAG-TTTCACGTGAATATTATGTTTGAATAAGAC---A----AAAG
* * * **
7100704 ATATATTAATTAAATAAAAAATAAAACT-TCTTCACGTGGT-TTTGAAGAAAATAATTGATGACA
187 ATATATTAATTAAATAAAAAATAAAA-TATCTTCAAGTGATCTTT-AAAAAAATAATTGACCACA
7100767 ATTCATAACATCTCAAATTAGC-GAT
250 ATTCATAACATCTCAAATTAGCAG-T
* * *
7100792 TCTCAAATGAAAAACAATTTCATGTAAAAATGTTTGAATAAGTTAAATTAAGGAGAAAGTAATTA
1 TCTCAAATTAAAAACAATTTCATGTGAAAATGTTTGAATAAGTTAAATTAAGTAGAAAG----TA
* *
7100857 ACGTGTTTAGTATATATA--TTTAAAATAATAACCAATTACAA-TTGTAACGTCTCGTATT
62 ACGTATTTGGTATATATATTTTTAAAATAATAA-CAATTACAATTTGTAACGTCTCGTATT
7100915 TGGTATATAT
Statistics
Matches: 345, Mismatches: 41, Indels: 27
0.84 0.10 0.07
Matches are distributed among these distances:
272 15 0.04
273 1 0.00
274 11 0.03
275 129 0.37
276 2 0.01
278 4 0.01
279 129 0.37
280 17 0.05
281 21 0.06
283 16 0.05
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (274 bp):
TCTCAAATTAAAAACAATTTCATGTGAAAATGTTTGAATAAGTTAAATTAAGTAGAAAGTAACGT
ATTTGGTATATATATTTTTAAAATAATAACAATTACAATTTGTAACGTCTCGTATTAAATTAGAG
ATTCTCGAAATAAAAAAAAAGTTTCACGTGAATATTATGTTTGAATAAGACAAAAGATATATTAA
TTAAATAAAAAATAAAATATCTTCAAGTGATCTTTAAAAAAATAATTGACCACAATTCATAACAT
CTCAAATTAGCAGT
Found at i:7101834 original size:26 final size:26
Alignment explanation
Indices: 7101799--7101854 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
7101789 TTAAGAAAAT
7101799 AATTGATCACAGTTCATAACGTCTCA
1 AATTGATCACAGTTCATAACGTCTCA
7101825 AATTGATCACAGTTCATAACGTCTCA
1 AATTGATCACAGTTCATAACGTCTCA
7101851 AATT
1 AATT
7101855 AGTGATTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AATTGATCACAGTTCATAACGTCTCA
Found at i:7102328 original size:272 final size:271
Alignment explanation
Indices: 7101837--7102553 Score: 880
Period size: 272 Copynumber: 2.7 Consensus size: 271
7101827 TTGATCACAG
* *
7101837 TTCATAACGTCTCAAATTAGTGATTGTCAAATT----ACAA---CACGTGAAAATATTTGAATAA
1 TTCATAACGTCTCAAATTAGTGATTCTCAAATTAAAAACAATTTCATGTGAAAATATTTGAATAA
* * * * * * *
7101895 ATTAGATTAAGTAGAAAGTAACGTATTTAGTATATATATCTCTTTAAAATAATAGTCC-TTTATA
66 GTTAAATTAAGTAGAAAGTAACATATCTAGTATATATA--TCTTTAAAATAATA-ACCAATTACA
* * * * * * *
7101959 ATTTGTAACGTCTTATGTTAAGTTAGAGATTCTCAAATTAAAAAACAATTTCACGTTAATATGTT
128 AATTATAACGTCTCATGCTAAGTGAGAAATTCTCAAATTAAAAAACAATTTCACGTGAATATGTT
** * * * *
7102024 TGAATACGACAAAAGATATGTTAATTAAGTAAAAAGTAAAGCAAT-TTCACGTGGTTTTTAAGAA
193 TGAATACGACAAAAGATACATTAATTAAGTAAAAAGTAAAAC-ATCGTCACGTGATTTTGAAGAA
*
7102088 AATAATTAGTCATAA
257 AATAATTAGCCATAA
*
7102103 TTCATAACGTCTCAAATTAGTGACTCTCAAATTAAAAACAATTTCATGTGAAAATATTTGAATAA
1 TTCATAACGTCTCAAATTAGTGATTCTCAAATTAAAAACAATTTCATGTGAAAATATTTGAATAA
*
7102168 GTTAAATTAAGTAGAAAGTAACATATCTGGTATATATATCTTTAAAATAATAACCAATTACAAAT
66 GTTAAATTAAGTAGAAAGTAACATATCTAGTATATATATCTTTAAAATAATAACCAATTACAAAT
* * * *
7102233 TATAATGTCTCGTGCTAAGTGAGAAAATT-TTAAATTAAAAGAACAGTTTCACGTGAATATGTTT
131 TATAACGTCTCATGCTAAGTGAG-AAATTCTCAAATTAAAA-AACAATTTCACGTGAATATGTTT
* *
7102297 GAATACGACAAAAGATACATTAATTAAGTAAAAGGTAAAACATCGTCACGTGATTTTGAAGAATA
194 GAATACGACAAAAGATACATTAATTAAGTAAAAAGTAAAACATCGTCACGTGATTTTGAAGAAAA
*
7102362 TAATTGGCCATAA
259 TAATTAGCCATAA
* *
7102375 TTCATAACGTCTCAAATTAGTGATTCTCAAATTAAAAACAATTTCATGTGAAGATGTTTGAATAA
1 TTCATAACGTCTCAAATTAGTGATTCTCAAATTAAAAACAATTTCATGTGAAAATATTTGAATAA
* * * *
7102440 GTTAAATTAAATAGAAAGTAACATATCCAGTATATATATTTTTAAAATAATAACCAATCACAAAT
66 GTTAAATTAAGTAGAAAGTAACATATCTAGTATATATATCTTTAAAATAATAACCAATTACAAAT
* * *** * * * *
7102505 TGTAACATCTCACATTGAGTCATACATTCTCAAATT-AAAAACAATTTCA
131 TATAACGTCTCATGCTAAGTGAGAAATTCTCAAATTAAAAAACAATTTCA
7102554 TATGAAAATT
Statistics
Matches: 386, Mismatches: 53, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
266 31 0.08
270 15 0.04
271 56 0.15
272 231 0.60
273 53 0.14
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (271 bp):
TTCATAACGTCTCAAATTAGTGATTCTCAAATTAAAAACAATTTCATGTGAAAATATTTGAATAA
GTTAAATTAAGTAGAAAGTAACATATCTAGTATATATATCTTTAAAATAATAACCAATTACAAAT
TATAACGTCTCATGCTAAGTGAGAAATTCTCAAATTAAAAAACAATTTCACGTGAATATGTTTGA
ATACGACAAAAGATACATTAATTAAGTAAAAAGTAAAACATCGTCACGTGATTTTGAAGAAAATA
ATTAGCCATAA
Found at i:7102544 original size:133 final size:134
Alignment explanation
Indices: 7102397--7102646 Score: 358
Period size: 134 Copynumber: 1.9 Consensus size: 134
7102387 CAAATTAGTG
* * *
7102397 ATTCTCAAATTAAAAACAATTTCATGTGAAGATGTTTGAA-TAAGTTAAATTAAATAGAAAGTAA
1 ATTCTCAAATTAAAAACAATTTCATATGAAAATGTTTGAATTAAGTTAAATTAAACAGAAAGTAA
* * *
7102461 CATATCCAGTATATATATTTTTAAAATAATAACCAATCACAAATTGTAACATCTCACATTGAGTC
66 CATATCCAGCATATACATCTTTAAAATAATAACCAATCACAAATTGTAACATCTCACATTGAGTC
7102526 ATAC
131 ATAC
* * *
7102530 ATTCTCAAATTAAAAACAATTTCATATGAAAATTTTTGAATTAAGTTAAATTAAGCAGAGAGTAA
1 ATTCTCAAATTAAAAACAATTTCATATGAAAATGTTTGAATTAAGTTAAATTAAACAGAAAGTAA
*** * * *
7102595 CATATTTGGCGTATACATCTTTAAAATAATAACCAATGACAATTTGTAACAT
66 CATATCCAGCATATACATCTTTAAAATAATAACCAATCACAAATTGTAACAT
7102647 TTCATGCTGA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
133 37 0.37
134 64 0.63
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (134 bp):
ATTCTCAAATTAAAAACAATTTCATATGAAAATGTTTGAATTAAGTTAAATTAAACAGAAAGTAA
CATATCCAGCATATACATCTTTAAAATAATAACCAATCACAAATTGTAACATCTCACATTGAGTC
ATAC
Found at i:7102658 original size:134 final size:134
Alignment explanation
Indices: 7102397--7102679 Score: 352
Period size: 134 Copynumber: 2.1 Consensus size: 134
7102387 CAAATTAGTG
* * *
7102397 ATTCTCAAATTAAAAACAATTTCATGTGAAGATGTTTGAATAAGTTAAATTAAATAGAAAGTAAC
1 ATTCTCAAATTAAAAACAATTTCATATGAAAATGTTTGAATAAGTTAAATTAAACAGAAAGTAAC
* * * *
7102462 ATATCCAGTATATATATTTTTAAAATAATAACCAATCACAAATTGTAACATCTCACATTGAGTC-
66 ATATCCAGCATATACATCTTTAAAATAATAACCAATCACAAATTGTAACATCTCACACTGAGTCA
*
7102526 ATAC
131 AAAC
* * *
7102530 ATTCTCAAATTAAAAACAATTTCATATGAAAATTTTTGAATTAAGTTAAATTAAGCAGAGAGTAA
1 ATTCTCAAATTAAAAACAATTTCATATGAAAATGTTTGAA-TAAGTTAAATTAAACAGAAAGTAA
*** * * * * **
7102595 CATATTTGGCGTATACATCTTTAAAATAATAACCAATGACAATTTGTAACATTTCATGCTGAGTC
65 CATATCCAGCATATACATCTTTAAAATAATAACCAATCACAAATTGTAACATCTCACACTGAGTC
*
7102660 AAAAG
130 AAAAC
*
7102665 ATTCTCAAACTAAAA
1 ATTCTCAAATTAAAA
7102680 TTACCAAGAT
Statistics
Matches: 126, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
133 37 0.29
134 73 0.58
135 16 0.13
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.33
Consensus pattern (134 bp):
ATTCTCAAATTAAAAACAATTTCATATGAAAATGTTTGAATAAGTTAAATTAAACAGAAAGTAAC
ATATCCAGCATATACATCTTTAAAATAATAACCAATCACAAATTGTAACATCTCACACTGAGTCA
AAAC
Found at i:7107395 original size:119 final size:119
Alignment explanation
Indices: 7107174--7107396 Score: 324
Period size: 119 Copynumber: 1.9 Consensus size: 119
7107164 CAGGAAGGTG
* *
7107174 TTTTTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTATAATAATATTTTATA
1 TTTTTTTTTCTGTTGAGAAAACGCGCATGAGTTGACAAAATTAATAGGTATAATAATATTTTATA
* *
7107239 TCTATTTTGACATTTTATCTTTTAAGAAAACGGTTTTATGTTCCTTAAGAAGAT
66 TCTATTTTGACATTTCATCTTTTAAGAAAACGATTTTATGTTCCTTAAGAAGAT
* * * *
7107293 TTTTTTTTTCTGTTGAGAAAATGGGCATGAGTTGACAAAATTAATTGGTGTAATAATATTTTATA
1 TTTTTTTTTCTGTTGAGAAAACGCGCATGAGTTGACAAAATTAATAGGTATAATAATATTTTATA
* *
7107358 TTTATTTAT-ACATTTCATCTTTTAACG-AAATGATTTTAT
66 TCTATTT-TGACATTTCATCTTTTAA-GAAAACGATTTTAT
7107397 ATTGAATAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
119 90 0.98
120 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (119 bp):
TTTTTTTTTCTGTTGAGAAAACGCGCATGAGTTGACAAAATTAATAGGTATAATAATATTTTATA
TCTATTTTGACATTTCATCTTTTAAGAAAACGATTTTATGTTCCTTAAGAAGAT
Found at i:7107710 original size:267 final size:263
Alignment explanation
Indices: 7107296--7108279 Score: 1029
Period size: 266 Copynumber: 3.7 Consensus size: 263
7107286 AGAAGATTTT
* * * * ** *
7107296 TTTTTTC-TGTTGAGAAAATGGGCATGAGTTGACAAAATTAATTGGTGTAATAATATTTTATATT
1 TTTTTTCTTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAAGTCTAATAATATTTTATATT
* * * * * *
7107360 TATTTATACATTTCATCTTTTAACGAAATGATTTTATATTGA-ATAAATATCTTTACATGATGTA
66 TATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGA-AAATATCTTCACATGAT-TT
*
7107424 ACAAA-CATTAACCAATTGAATTATAATAATTAAATTCCTTTTTCAAAATTGGCAATGTTTCCAG
129 ACAAAGCATTAACCAATTGAATTATAATCATTAAATT-CTTTTTCAAAATTGGCAATGTTTCCAG
* * *
7107488 AACAAGTATCTTAATATTTAATGTCACATTTAAATAGTTTAGCTCTTAATGAAATAATTTTCTCA
193 AACAAGTATCCTAACATTTAATGTCACATTTAAATA-TTTAGCTCTTAATGAAACAATTTTCTCA
7107553 AGATGATGG
257 AGA-GAT-G
*
7107562 TTTTTTCTTGTTGAGAAAACGCGTATGAGTTGGCAAAATCAATAAGTCTAATAATATTTTATATT
1 TTTTTTCTTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAAGTCTAATAATATTTTATATT
* * * *
7107627 TATTTAAACATTTGATCTTTTAATGAAACGATTTCATGTTGAGAAAATATCTACACGTGATTTAC
66 TATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGAAAATATCTTCACATGATTTAC
* * * * * * * *
7107692 AAAGCGTTAACTAATTGAATTATGATCATTAAATTCTTTTTCGAAATTGACAATGTTGCTAGAAT
131 AAAGCATTAACCAATTGAATTATAATCATTAAATTCTTTTTCAAAATTGGCAATGTTTCCAGAAC
* *
7107757 AAGTATCCTAACATTTAAAGTCACATTTAAATATTTAGCTCTTAATGAAACAATTTCCTCAAGAA
196 AAGTATCCTAACATTTAATGTCACATTTAAATATTTAGCTCTTAATGAAACAATTTTCTCAAG-A
*
7107822 GAATT
260 G-ATG
* ** * * *
7107827 TTTTTTTTTAGTTGAGAAAACGCAAATGAGTTGGTAAAATTAATAAGTGTAGTAATATTTTATAT
1 TTTTTTCTT-GTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAAGTCTAATAATATTTTATAT
* * * *
7107892 ATATATTTAAACATTCCATCTTTTAAAT-AAACGATTTTATATTGAGTAAATATCTTCACTTGAT
65 -T-TATTTAAACATTTCATCTTTT-AATGAAACGATTTCATATTGAGAAAATATCTTCACATGAT
*** * *
7107956 TTACAAAATGTTAACCAATTAAATTATAATCATTAAATTATTTTTCAAAATTGG-AAT-TTTCCA
127 TTACAAAGCATTAACCAATTGAATTATAATCATTAAATTCTTTTTCAAAATTGGCAATGTTTCCA
* * * * *
7108019 -AGACAAGTATCCTAACATTCAATGTCAAATTTAAATATTTTGACTCTTAGTTAAACAATTTTCT
192 GA-ACAAGTATCCTAACATTTAATGTCACATTTAAATATTTAG-CTCTTAATGAAACAATTTTCT
*
7108083 TAAGA-A-G
255 CAAGAGATG
* * *
7108090 TTTTTTCTTTTTGAGAAAATGCATATCATGTGATGCTTGTGAGTTAGCAAAATTAATTAATGTC-
1 TTTTTTCTTGTTGAGAAAA--C---GC--GT-A------TGAGTTGGCAAAATTAA-TAA-GTCT
* * * *
7108154 -ATAATATTTTATATTTATTTAGACATTTCATCTTTTAATAAAATGATTTCATATTGAGTAAATA
50 AATAATATTTTATATTTATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGAAAATA
* * *
7108218 TCTTCACATGATTTACAAAGTATTAACCAATTGACTTATAATCATTAAAGTT-TTTATCAAAA
115 TCTTCACATGATTTACAAAGCATTAACCAATTGAATTATAATCATTAAA-TTCTTTTTCAAAA
7108280 ATGGACAAAA
Statistics
Matches: 603, Mismatches: 86, Indels: 50
0.82 0.12 0.07
Matches are distributed among these distances:
262 9 0.01
263 8 0.01
264 2 0.00
265 38 0.06
266 160 0.27
267 152 0.25
268 97 0.16
269 3 0.00
270 1 0.00
273 3 0.00
274 94 0.16
275 3 0.00
276 28 0.05
277 3 0.00
278 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (263 bp):
TTTTTTCTTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAAGTCTAATAATATTTTATATT
TATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGAAAATATCTTCACATGATTTAC
AAAGCATTAACCAATTGAATTATAATCATTAAATTCTTTTTCAAAATTGGCAATGTTTCCAGAAC
AAGTATCCTAACATTTAATGTCACATTTAAATATTTAGCTCTTAATGAAACAATTTTCTCAAGAG
ATG
Found at i:7107874 original size:266 final size:263
Alignment explanation
Indices: 7107279--7108279 Score: 1025
Period size: 267 Copynumber: 3.7 Consensus size: 263
7107269 CGGTTTTATG
* * *** * ** *
7107279 TTCCTTAAGAAGATTTTTTTTTTCTGTTGAGAAAATGGGCATGAGTTGACAAAATTAATTGGTGT
1 TTCCTCAAGAAGATTTTTTTTTT-TGTTGAGAAAACGCAAATGAGTTGGCAAAATTAATAAGTCT
* * * *
7107344 AATAATATTTTATATTTATTTATACATTTCATCTTTTAACGAAATGATTTTATATTGA-ATAAAT
65 AATAATATTTTATATTTATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGA-AAAT
* * *
7107408 ATCTTTACATGATGTAACAAA-CATTAACCAATTGAATTATAATAATTAAATTCCTTTTTCAAAA
129 ATCTTCACATGAT-TTACAAAGCATTAACCAATTGAATTATAATCATTAAATT-CTTTTTCAAAA
* *
7107472 TTGGCAATGTTTCC-AGAACAAGTATCTTAATATTTAATGTCACATTTAAATAGTTTAGCTCTTA
192 TT-GCAATG-TTCCAAGAACAAGTATCCTAACATTTAATGTCACATTTAAATA-TTTAGCTCTTA
*
7107536 ATGAAATAAT
254 ATGAAACAAT
* * * * ** *
7107546 TTTCTCAAGATGATGGTTTTTTCTTGTTGAGAAAACGCGTATGAGTTGGCAAAATCAATAAGTCT
1 TTCCTCAAGAAGAT-TTTTTTTTTTGTTGAGAAAACGCAAATGAGTTGGCAAAATTAATAAGTCT
* *
7107611 AATAATATTTTATATTTATTTAAACATTTGATCTTTTAATGAAACGATTTCATGTTGAGAAAATA
65 AATAATATTTTATATTTATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGAAAATA
* * * * * *
7107676 TCTACACGTGATTTACAAAGCGTTAACTAATTGAATTATGATCATTAAATTCTTTTTCGAAATTG
130 TCTTCACATGATTTACAAAGCATTAACCAATTGAATTATAATCATTAAATTCTTTTTCAAAATTG
* * * *
7107741 ACAATGTTGCTAGAATAAGTATCCTAACATTTAAAGTCACATTTAAATATTTAGCTCTTAATGAA
195 -CAATGTTCCAAGAACAAGTATCCTAACATTTAATGTCACATTTAAATATTTAGCTCTTAATGAA
7107806 ACAAT
259 ACAAT
* *
7107811 TTCCTCAAGAAGAATTTTTTTTTTTAGTTGAGAAAACGCAAATGAGTTGGTAAAATTAATAAGTG
1 TTCCTCAAGAAG-ATTTTTTTTTTT-GTTGAGAAAACGCAAATGAGTTGGCAAAATTAATAAGTC
* * * *
7107876 TAGTAATATTTTATATATATATTTAAACATTCCATCTTTTAAAT-AAACGATTTTATATTGAGTA
64 TAATAATATTTTATAT-T-TATTTAAACATTTCATCTTTT-AATGAAACGATTTCATATTGAGAA
* *** * *
7107940 AATATCTTCACTTGATTTACAAAATGTTAACCAATTAAATTATAATCATTAAATTATTTTTCAAA
126 AATATCTTCACATGATTTACAAAGCATTAACCAATTGAATTATAATCATTAAATTCTTTTTCAAA
* * * * * *
7108005 ATTGGAATTTTCCAAG-ACAAGTATCCTAACATTCAATGTCAAATTTAAATATTTTGACTCTTAG
191 ATTGCAATGTTCCAAGAACAAGTATCCTAACATTTAATGTCACATTTAAATATTTAG-CTCTTAA
*
7108069 TTAAACAAT
255 TGAAACAAT
* * * *
7108078 TTTCTTAAGAAG--TTTTTTCTTT-TTGAGAAAATGCATATCATGTGATGCTTGTGAGTTAGCAA
1 TTCCTCAAGAAGATTTTTTTTTTTGTTGAGAAAACGCA-A--A--TGA-G--T-T--G---GCAA
* * *
7108140 AATTAATTAATGTC--ATAATATTTTATATTTATTTAGACATTTCATCTTTTAATAAAATGATTT
52 AATTAA-TAA-GTCTAATAATATTTTATATTTATTTAAACATTTCATCTTTTAATGAAACGATTT
* * *
7108203 CATATTGAGTAAATATCTTCACATGATTTACAAAGTATTAACCAATTGACTTATAATCATTAAAG
115 CATATTGAGAAAATATCTTCACATGATTTACAAAGCATTAACCAATTGAATTATAATCATTAAA-
*
7108268 TT-TTTATCAAAA
179 TTCTTTTTCAAAA
7108280 ATGGACAAAA
Statistics
Matches: 619, Mismatches: 86, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
262 12 0.02
263 1 0.00
264 9 0.01
265 43 0.07
266 143 0.23
267 173 0.28
268 105 0.17
269 3 0.00
270 1 0.00
271 1 0.00
273 4 0.01
274 94 0.15
275 3 0.00
276 22 0.04
277 3 0.00
278 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (263 bp):
TTCCTCAAGAAGATTTTTTTTTTTGTTGAGAAAACGCAAATGAGTTGGCAAAATTAATAAGTCTA
ATAATATTTTATATTTATTTAAACATTTCATCTTTTAATGAAACGATTTCATATTGAGAAAATAT
CTTCACATGATTTACAAAGCATTAACCAATTGAATTATAATCATTAAATTCTTTTTCAAAATTGC
AATGTTCCAAGAACAAGTATCCTAACATTTAATGTCACATTTAAATATTTAGCTCTTAATGAAAC
AAT
Found at i:7112202 original size:264 final size:264
Alignment explanation
Indices: 7111554--7113454 Score: 1903
Period size: 264 Copynumber: 7.1 Consensus size: 264
7111544 ACATAAGGGG
* * * * * * *
7111554 TTAACCAATTGAATTATCATCATCAATTTTTTTTTTTCAAAATTGGCAATGTTACCGGAACAGGT
1 TTAACCAATTGAATTATAATCATTAA--ATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGT
* * *
7111619 ATCTTAATATTTAATGTCACATTTAAACATTTTAATTCTTAGTGAAACAATTTCCTC-AGAAAGA
64 ATCTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAG-AAGA
* *
7111683 TGTTTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAAGTGTAATAATGTTTTATA
128 TGTTTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATA
* * *
7111748 TCTATTTACACGTTTTATCTTTTTAACGAAACGGTTTCATGTTGAGTAAATATCTTCACGTGATT
193 TCTATTTAAAAGTTTCATC-TTTTAACGAAAC-GTTTCATGTTGAGTAAATATCTTCACGTGATT
*
7111813 TACAAAACA
256 TACAAAGCA
* *
7111822 TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGGAATAAGTAT
1 TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGTAT
* * * * * ***
7111887 CTTAATATTTAATATCACATTTAAATATTTTAATTCTTAGTGAAGCAATTTCTTTTGGAAGATGT
66 CTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGATGT
* ** *
7111952 TTTTTGT-TGTTGAGAAAACGCATATCTGTTGGCAAAATTAATAGGTGTAATAATATTTCATATC
131 TTTTT-TCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATC
*
7112016 TATTTAAAAGTTTTATCTTTTAACGAAACAGTTTCATGTTGAGTAAATATCTTCACGTG-TTTAC
195 TATTTAAAAGTTTCATCTTTTAACGAAAC-GTTTCATGTTGAGTAAATATCTTCACGTGATTTAC
7112080 AAAGCA
259 AAAGCA
* * * *
7112086 TTAGCCAATTGAATTATAATTATTAAATTCTTTTTCAAAATTGACAATGTTACCGAAACAAGTAT
1 TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGTAT
* *
7112151 CTTAATATTTAATGTCACATTTAAATATTTTAATTTTTAATAAAACAATTTCCTCAATAAGATGT
66 CTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGATGT
* * ** *
7112216 TTTTTTCTATTAAGAAAACATGTATGAGTTGGCAAAATTAATAAGTGTAATAATATTTTATATCT
131 TTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATCT
** * * * * * *
7112281 ATGCAGACGTTTCATCTTTTAATGAAACGGTTCATGTTGAGTAAATATTTTCACGTGGTTTACAA
196 ATTTAAAAGTTTCATCTTTTAACGAAACGTTTCATGTTGAGTAAATATCTTCACGTGATTTACAA
*
7112346 AGTA
261 AGCA
* * * *
7112350 TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGTAATGTTATCGGAACAGGTAT
1 TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGTAT
* * * * * *
7112415 CTTAATATTTAATGTAACATTTAAATATTTTAATTCTTAGTAAAATAATTTCCTCAAAAATATAT
66 CTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGATGT
* * * *
7112480 ATTTTTTCTGTTGAGCAAGCACGTATGAGTTGGCAAAATTAATAGGTATAATAATATTTTATATC
131 -TTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATC
* * * * *
7112545 TATTTATATGTTTCATCTTTTAACAAAACGATTTCATATTAAGTAAATATCTTCACGTGATTTAC
195 TATTTAAAAGTTTCATCTTTTAACGAAACG-TTTCATGTTGAGTAAATATCTTCACGTGATTTAC
7112610 AAAGCA
259 AAAGCA
* * * * *
7112616 TTAACCAATTGAATTATAAGT-ATTAATTTTTTTTTTGAAATTGGCAATGTTATCGAAACATGTA
1 TTAACCAATTGAATTATAA-TCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGTA
* * * * * *
7112680 TCTTAATATTCAATGACGCATTTAAATATTTTAATTCTTAATGAAACAATTTTCTCAGGAAGATG
65 TCTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGATG
* * * * * * * * *
7112745 TTTTTTTTTATTGGGAAAATGCGTATGAATGGGCAAAATTAATAGATGCAATAGTATTTTATATC
130 TTTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATC
* * * * *
7112810 TATTTAGACA-TTTAATCTTTTAACGAAATAGTTTCATGTTGAGTAAATATCTTCACATGATGTA
195 TATTTA-AAAGTTTCATCTTTTAACGAAA-CGTTTCATGTTGAGTAAATATCTTCACGTGATTTA
* ***
7112874 TAAAATG
258 CAAAGCA
* * * * * * * *
7112881 TTAGCCAATTGCATTCTAATGATTAAATTCTTTTTC-AAATTTGCAGTGTTACTGAAACAAGCAT
1 TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGTAT
* * ** *
7112945 CGTAACATTTAATGTCACATTTAAATATTTTAGCTCTTAATAAAATAATTTCCTCAAGAA-AT-T
66 CTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGATGT
* * * * **
7113008 TTTTTTTTAGTTGAGAAAATGCGTATTAGTAGTTAAAATTAATAGGTGTAATAATATTTTATATC
131 TTTTTTCT-GTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATC
* * * * * * *
7113073 TATTTAAGCA-TTTCATCCTTTAACGAAATGATTTAATGTTAATTAAATATCTTCACATTG-TTT
195 TATTTAA-AAGTTTCATCTTTTAACGAAACG-TTTCATGTTGAGTAAATATCTTCAC-GTGATTT
7113136 ACAAAG-A
257 ACAAAGCA
* * * * *
7113143 GTTAA-CATATTGAATTATAATCATTAAATTTTTTTTCGAAATTGG-AAGTGTTGCTGGAGCAAG
1 -TTAACCA-ATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAA-TGTTACCGAAACAAG
* * * * * * * * * *
7113206 TAGCCTAACATTAAATGTCAAATTTAAATATTATGACTCTTAATGAAACATTTTCCTC-A-AA-A
63 TATCTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGA
* * * * ** *
7113268 TGGTTTTCTATTTTTTTGAGAAAACACATATCATCTAATGCTTTTGAGTTGATAAAATTAATAAG
128 T-GTTTT-T-TTCTGTTGAG-----A-A-A--A-C----GCGTATGAGTTGGCAAAATTAATAGG
* ** ** * *
7113333 TGTAATAATATTTTATATCTATTTAGACA-TTTCATCTTTTAATAAAATATTTTCATATTGAATA
176 TGTAATAATATTTTATATCTATTTA-AAAGTTTCATCTTTTAACGAAA-CGTTTCATGTTGAGTA
* * * *
7113397 AATATCTTTACGTAATTTACAAATCG
239 AATATCTTCACGTGATTTACAAAGCA
*
7113423 TTAACTAATTGAATTAT-ATCATTAAATTCTTT
1 TTAACCAATTGAATTATAATCATTAAATTCTTT
7113455 ATCAAAATAG
Statistics
Matches: 1367, Mismatches: 225, Indels: 72
0.82 0.14 0.04
Matches are distributed among these distances:
262 17 0.01
263 158 0.12
264 468 0.34
265 261 0.19
266 311 0.23
267 3 0.00
268 24 0.02
270 1 0.00
271 1 0.00
272 1 0.00
274 1 0.00
278 15 0.01
279 104 0.08
280 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (264 bp):
TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAATTGGCAATGTTACCGAAACAAGTAT
CTTAATATTTAATGTCACATTTAAATATTTTAATTCTTAATAAAACAATTTCCTCAAGAAGATGT
TTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATCT
ATTTAAAAGTTTCATCTTTTAACGAAACGTTTCATGTTGAGTAAATATCTTCACGTGATTTACAA
AGCA
Found at i:7112611 original size:530 final size:521
Alignment explanation
Indices: 7111583--7113454 Score: 2036
Period size: 530 Copynumber: 3.5 Consensus size: 521
7111573 TCATCAATTT
* * *
7111583 TTTTTTTTCAAAATTGGCAATGTTACCGGAACAGGTATCTTAATATTTAATGTCACATTTAAACA
1 TTTTTTTTCAAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAATA
* *
7111648 TTTTAATTCTTAGTGAAACAATTTCCTCAGAAAGATGTTTTTTTCTGTTGAGAAAACGCGTATGA
66 TTTTAATTCTTAATGAAACAATTTCCTCA-AAAGATGTTTTTTTCTATTGAGAAAACGCGTATGA
* * *
7111713 GTTGGCAAAATTAATAAGTGTAATAATGTTTTATATCTATTTACACGTTTTATCTTTTTAACGAA
130 GTTGGCAAAATTAATAAGTGTAATAATATTTTATATCTATTTAGACGTTTAATC-TTTTAACGAA
*
7111778 ACGGTTTCATGTTGAGTAAATATCTTCACGTGATTTACAAAACATTAACCAATTGAATTATAATC
194 ACGG-TTCATGTTGAGTAAATATCTTCACGTGATTTACAAAATATTAACCAATTGAATTATAATC
* *
7111843 ATTAAATTCTTTTTCGAAATTGGCAATGTTACCGGAATAAGTATCTTAATATTTAATATCACATT
258 ATTAAATTCTTTTTCGAAATTGGCAATGTTA-CGGAACAAGTATCTTAATATTTAATGTCACATT
* ** * ** * * *
7111908 TAAATATTTTAATTCTTAGTGAAGCAATTTCTTTTGGAAGATGTTTTTTGTTGTTGAGAAAACGC
322 TAAATATTTTAATTCTTAGTAAAATAATTTC--CTCAAAAATATTTTTTTTTGTTGAGAAAACGC
* * * *
7111973 ATATCTGTTGGCAAAATTAATAGGTGTAATAATATTTCATATCTATTTAAAAGTTTTATCTTTTA
385 GTATCAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATCTATTT--AAGTTTCATCTTTTA
*
7112038 ACGAAAC-AGTTTCATGTTGAGTAAATATCTTCACGTGTTTACAAAGCATTAGCCAATTGAATTA
448 ACGAAACGA-TTTCATGTTAAGTAAATATCTTCACGTGTTTACAAAGCATTA-CCAATTGAATTA
7112102 TAATTATTAAA
511 TAATTATTAAA
* *
7112113 TTCTTTTTCAAAATTGACAATGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAATA
1 TTTTTTTTCAAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAATA
* * * **
7112178 TTTTAATTTTTAATAAAACAATTTCCTCAATAAGATGTTTTTTTCTATTAAGAAAACATGTATGA
66 TTTTAATTCTTAATGAAACAATTTCCTCAA-AAGATGTTTTTTTCTATTGAGAAAACGCGTATGA
** * *
7112243 GTTGGCAAAATTAATAAGTGTAATAATATTTTATATCTATGCAGACGTTTCATCTTTTAATGAAA
130 GTTGGCAAAATTAATAAGTGTAATAATATTTTATATCTATTTAGACGTTTAATCTTTTAACGAAA
* * *
7112308 CGGTTCATGTTGAGTAAATATTTTCACGTGGTTTACAAAGTATTAACCAATTGAATTATAATCAT
195 CGGTTCATGTTGAGTAAATATCTTCACGTGATTTACAAAATATTAACCAATTGAATTATAATCAT
* * *
7112373 TAAATTCTTTTTCGAAATTGGTAATGTTATCGGAACAGGTATCTTAATATTTAATGTAACATTTA
260 TAAATTCTTTTTCGAAATTGGCAATGTTA-CGGAACAAGTATCTTAATATTTAATGTCACATTTA
* * *
7112438 AATATTTTAATTCTTAGTAAAATAATTTCCTCAAAAATATATATTTTTTCTGTTGAGCAAGCACG
324 AATATTTTAATTCTTAGTAAAATAATTTCCTCAAAAATAT-T-TTTTTT-TGTTGAGAAAACGCG
* *
7112503 TATGAGTTGGCAAAATTAATAGGTATAATAATATTTTATATCTATTTATATGTTTCATCTTTTAA
386 TATCAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATCTATTTA-A-GTTTCATCTTTTAA
* *
7112568 CAAAACGATTTCATATTAAGTAAATATCTTCACGTGATTTACAAAGCATTAACCAATTGAATTAT
449 CGAAACGATTTCATGTTAAGTAAATATCTTCACGTG-TTTACAAAGCATT-ACCAATTGAATTAT
* *
7112633 AAGTATTAAT
512 AATTATTAAA
** * * * * *
7112643 TTTTTTTTTGAAATTGGCAATGTTATCGAAACATGTATCTTAATATTCAATGACGCATTTAAATA
1 TTTTTTTTCAAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAATA
* * * * *
7112708 TTTTAATTCTTAATGAAACAATTTTCTCAGGAAGATGTTTTTTTTTATTGGGAAAATGCGTATGA
66 TTTTAATTCTTAATGAAACAATTTCCTCA-AAAGATGTTTTTTTCTATTGAGAAAACGCGTATGA
* * * * *
7112773 ATGGGCAAAATTAAT-AGATGCAATAGTATTTTATATCTATTTAGACATTTAATCTTTTAACGAA
130 GTTGGCAAAATTAATAAG-TGTAATAATATTTTATATCTATTTAGACGTTTAATCTTTTAACGAA
* * * * * * * * * *
7112837 ATAGTTTCATGTTGAGTAAATATCTTCACATGATGTATAAAATGTTAGCCAATTGCATTCTAATG
194 A-CGGTTCATGTTGAGTAAATATCTTCACGTGATTTACAAAATATTAACCAATTGAATTATAATC
* * * * * *
7112902 ATTAAATTCTTTTTC-AAATTTGCAGTGTTACTGAAACAAGCATCGTAACATTTAATGTCACATT
258 ATTAAATTCTTTTTCGAAATTGGCAATGTTAC-GGAACAAGTATCTTAATATTTAATGTCACATT
** * *
7112966 TAAATATTTTAGCTCTTAATAAAATAATTTCCTCAAGAAAT-TTTTTTTTTAGTTGAGAAAATGC
322 TAAATATTTTAATTCTTAGTAAAATAATTTCCTCAA-AAATATTTTTTTTT-GTTGAGAAAACGC
* * ** *
7113030 GTATTAGTAGTTAAAATTAATAGGTGTAATAATATTTTATATCTATTTAAGCATTTCATCCTTTA
385 GTATCAGTTGGCAAAATTAATAGGTGTAATAATATTTTATATCTATTTAAG--TTTCATCTTTTA
* * * * *
7113095 ACGAAATGATTTAATGTTAATTAAATATCTTCACATTGTTTACAAAG-AGTTAACATATTGAATT
448 ACGAAACGATTTCATGTTAAGTAAATATCTTCAC-GTGTTTACAAAGCA-TTACCA-ATTGAATT
*
7113159 ATAATCATTAAA
510 ATAATTATTAAA
* * * * * * * * * *
7113171 TTTTTTTTCGAAATTGG-AAGTGTTGCTGGAGCAAGTAGCCTAACATTAAATGTCAAATTTAAAT
1 TTTTTTTTCAAAATTGGCAA-TGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAAT
* * * * * *
7113235 ATTATGACTCTTAATGAAACATTTTCCTC-AAA-ATGGTTTTCTATTTTTTTGAGAAAACACATA
65 ATTTTAATTCTTAATGAAACAATTTCCTCAAAAGAT-GTTTT-T-TTCTATTGAG-----A-A-A
* * ** *
7113298 TCATCTAATGCTTTTGAGTTGATAAAATTAATAAGTGTAATAATATTTTATATCTATTTAGACAT
120 --A-C----GCGTATGAGTTGGCAAAATTAATAAGTGTAATAATATTTTATATCTATTTAGACGT
* ** *** * * * * *
7113363 TTCATCTTTTAATAAAATATTTTCATATTGAATAAATATCTTTACGTAATTTAC-AAATCGTTAA
178 TTAATCTTTTAACGAAA-CGGTTCATGTTGAGTAAATATCTTCACGTGATTTACAAAAT-ATTAA
*
7113427 CTAATTGAATTAT-ATCATTAAATTCTTT
241 CCAATTGAATTATAATCATTAAATTCTTT
7113455 ATCAAAATAG
Statistics
Matches: 1131, Mismatches: 171, Indels: 69
0.82 0.12 0.05
Matches are distributed among these distances:
525 2 0.00
526 14 0.01
527 11 0.01
528 355 0.31
529 118 0.10
530 435 0.38
531 70 0.06
533 1 0.00
534 1 0.00
535 1 0.00
537 1 0.00
541 18 0.02
542 102 0.09
543 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (521 bp):
TTTTTTTTCAAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAATA
TTTTAATTCTTAATGAAACAATTTCCTCAAAAGATGTTTTTTTCTATTGAGAAAACGCGTATGAG
TTGGCAAAATTAATAAGTGTAATAATATTTTATATCTATTTAGACGTTTAATCTTTTAACGAAAC
GGTTCATGTTGAGTAAATATCTTCACGTGATTTACAAAATATTAACCAATTGAATTATAATCATT
AAATTCTTTTTCGAAATTGGCAATGTTACGGAACAAGTATCTTAATATTTAATGTCACATTTAAA
TATTTTAATTCTTAGTAAAATAATTTCCTCAAAAATATTTTTTTTTGTTGAGAAAACGCGTATCA
GTTGGCAAAATTAATAGGTGTAATAATATTTTATATCTATTTAAGTTTCATCTTTTAACGAAACG
ATTTCATGTTAAGTAAATATCTTCACGTGTTTACAAAGCATTACCAATTGAATTATAATTATTAA
A
Found at i:7113122 original size:794 final size:794
Alignment explanation
Indices: 7111530--7113454 Score: 2198
Period size: 794 Copynumber: 2.4 Consensus size: 794
7111520 AAGAATATAC
* * * * * *
7111530 ATCTTCACAT-GATTACATAAGGGGTTAACCAATTGAATTATCATCATCAATTTTTTTTTTTCAA
1 ATCTTCACATGGTTTACA-AA-GAGTTAACCAATTGAATTATAATCATTAA--ATTTTTTTTCGA
*
7111594 AATTGGCAATGTTACCGGAACAGGTATCTTAATATTTAATGTCACATTTAAACATTTTAATTCTT
62 AATTGGCAATGTTACCGGAACAGGTATCTTAATATTTAATGTAACATTTAAACATTTTAATTCTT
* * * *
7111659 AGTGAAACAATTTCCTCAGAAAGATGTTTTTTTCTGTTGAGAAAACGCGTATGAGTTGGCAAAAT
127 AGTAAAACAATTTCCTCAAAAAGATATTTTTTTCTGTTGAGAAAACACGTATGAGTTGGCAAAAT
* * * * * *
7111724 TAATAAGTGTAATAATGTTTTATATCTATTTACACGTTTTATCTTTTTAACGAAACGGTTTCATG
192 TAATAAGTATAATAATATTTTATATCTATTTACACGTTTCATCTTTTTAACAAAACGATTTCATA
*
7111789 TTGAGTAAATATCTTCACGTGATTTACAAAACATTAACCAATTGAATTATAATCATTAAATTCTT
257 TTAAGTAAATATCTTCACGTGATTTACAAAACATTAACCAATTGAATTATAATCATTAAATTCTT
* * *
7111854 TTTCGAAATTGGCAATGTTACCGGAATAAGTATCTTAATATTTAATATCACATTTAAATATTTTA
322 TTTCGAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTCAATATCACATTTAAATATTTTA
* * ** * ** *
7111919 ATTCTTAGTGAAGCAATTTCTTTTGGAAGATGTTTTTTGTTGTTGAGAAAACGCATATCTGTTGG
387 ATTCTTAATGAAACAATTTCTTCAGGAAGATGTTTTTTGTTATTGAGAAAACGCATATCAATGGG
* * *
7111984 CAAAATTAATAGGTGTAATAATATTTCATATCTATTTAAAAGTTTTATCTTTTAACGAAACAGTT
452 CAAAATTAATAGATGCAATAATATTTCATATCTATTTAAAAGTTTAATCTTTTAACGAAACAGTT
* * * *
7112049 TCATGTTGAGTAAATATCTTCACGTGTTTACAAAGCATTAGCCAATTGAATTATAATTATTAAAT
517 TCATGTTGAGTAAATATCTTCACATGTGTACAAAACATTAGCCAATTGAATTATAATGATTAAAT
* * *
7112114 TCTTTTTCAAAATTGACAATGTTACCGAAACAAGTATCTTAATATTTAATGTCACATTTAAATAT
582 TCTTTTTCAAAATTGACAATGTTACCGAAACAAGCATCGTAACATTTAATGTCACATTTAAATAT
* * * *
7112179 TTTAATTTTTAATAAAACAATTTCCTCAATAAGATGTTTTTTTCTATTAAGAAAACATGTATGAG
647 TTTAACTCTTAATAAAACAATTTCCTCAAGAAGATGTTTTTTTCTATTAAGAAAACACGTATGAG
* * * * *
7112244 TTGGCAAAATTAATAAGTGTAATAATATTTTATATCTATGCAGACGTTTCATCTTTTAATGAAAC
712 TAGGCAAAATTAATAAGTGTAATAATATTTTATATCTATGAAGACATTTCATCCTTTAACGAAAC
* *
7112309 GGTTCATGTTGAGTAAAT
777 GGTTAATGTTAAGTAAAT
* * *
7112327 ATTTTCACGTGGTTTACAAAGTA-TTAACCAATTGAATTATAATCATTAAATTCTTTTTCGAAAT
1 ATCTTCACATGGTTTACAAAG-AGTTAACCAATTGAATTATAATCATTAAATTTTTTTTCGAAAT
* * *
7112391 TGGTAATGTTATCGGAACAGGTATCTTAATATTTAATGTAACATTTAAATATTTTAATTCTTAGT
65 TGGCAATGTTACCGGAACAGGTATCTTAATATTTAATGTAACATTTAAACATTTTAATTCTTAGT
* * * *
7112456 AAAATAATTTCCTCAAAAATATATATTTTTTCTGTTGAGCAAGCACGTATGAGTTGGCAAAATTA
130 AAAACAATTTCCTCAAAAAGATAT-TTTTTTCTGTTGAGAAAACACGTATGAGTTGGCAAAATTA
* * *
7112521 ATAGGTATAATAATATTTTATATCTATTTATATGTTTCATC-TTTTAACAAAACGATTTCATATT
194 ATAAGTATAATAATATTTTATATCTATTTACACGTTTCATCTTTTTAACAAAACGATTTCATATT
* * *
7112585 AAGTAAATATCTTCACGTGATTTACAAAGCATTAACCAATTGAATTATAAGT-ATTAATTTTTTT
259 AAGTAAATATCTTCACGTGATTTACAAAACATTAACCAATTGAATTATAA-TCATTAAATTCTTT
* * * *
7112649 TTTGAAATTGGCAATGTTATCGAAACATGTATCTTAATATTCAATGA-CGCATTTAAATATTTTA
323 TTCGAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTCAAT-ATCACATTTAAATATTTTA
* * * * *
7112713 ATTCTTAATGAAACAATTT-TCTCAGGAAGATGTTTTTTTTTATTGGGAAAATGCGTATGAATGG
387 ATTCTTAATGAAACAATTTCT-TCAGGAAGATGTTTTTTGTTATTGAGAAAACGCATATCAATGG
* * * *
7112777 GCAAAATTAATAGATGCAATAGTATTTTATATCTATTTAGACA-TTTAATCTTTTAACGAAATAG
451 GCAAAATTAATAGATGCAATAATATTTCATATCTATTTA-AAAGTTTAATCTTTTAACGAAACAG
* ** * *
7112841 TTTCATGTTGAGTAAATATCTTCACATGATGTATAAAATGTTAGCCAATTGCATTCTAATGATTA
515 TTTCATGTTGAGTAAATATCTTCACATG-TGTACAAAACATTAGCCAATTGAATTATAATGATTA
* * *
7112906 AATTCTTTTTCAAATTTG-CAGTGTTACTGAAACAAGCATCGTAACATTTAATGTCACATTTAAA
579 AATTCTTTTTCAAAATTGACAATGTTACCGAAACAAGCATCGTAACATTTAATGTCACATTTAAA
* * * * **
7112970 TATTTTAGCTCTTAATAAAATAATTTCCTCAAGAA-AT-TTTTTTTTTAGTTGAGAAAATGCGTA
644 TATTTTAACTCTTAATAAAACAATTTCCTCAAGAAGATGTTTTTTTCTA-TTAAGAAAACACGTA
* ** * *
7113033 TTAGTAGTTAAAATTAATAGGTGTAATAATATTTTATATCTATTTAAG-CATTTCATCCTTTAAC
708 TGAGTAGGCAAAATTAATAAGTGTAATAATATTTTATATCTA-TGAAGACATTTCATCCTTTAAC
* * *
7113097 GAAATGATTTAATGTTAATTAAAT
772 GAAACG-GTTAATGTTAAGTAAAT
*
7113121 ATCTTCACATTGTTTACAAAGAGTTAA-CATATTGAATTATAATCATTAAATTTTTTTTCGAAAT
1 ATCTTCACATGGTTTACAAAGAGTTAACCA-ATTGAATTATAATCATTAAATTTTTTTTCGAAAT
* * * * * * * * * * * *
7113185 TGG-AAGTGTTGCTGGAGCAAGTAGCCTAACATTAAATGTCAA-ATTTAAATATTATGACTCTTA
65 TGGCAA-TGTTACCGGAACAGGTATCTTAATATTTAATGT-AACATTTAAACATTTTAATTCTTA
* * * * * *
7113248 ATGAAACATTTTCCTCAAAATGGT-TTTCTATTT-TTTTGAGAAAACACATATCATCTAATGCTT
128 GTAAAACAATTTCCTCAAAAAGATATTT-T-TTTCTGTTGAG---A-A-A-A-CA-C----G--T
* ** * * *
7113311 TTGAGTTGATAAAATTAATAAGTGTAATAATATTTTATATCTATTTAGACATTTCATC-TTTTAA
177 ATGAGTTGGCAAAATTAATAAGTATAATAATATTTTATATCTATTTACACGTTTCATCTTTTTAA
* * * * * * *
7113375 TAAAA-TATTTTCATATTGAA-TAAATATCTTTACGTAATTTACAAATCGTTAACTAATTGAATT
242 CAAAACGA-TTTCATATT-AAGTAAATATCTTCACGTGATTTACAAAACATTAACCAATTGAATT
7113438 AT-ATCATTAAATTCTTT
305 ATAATCATTAAATTCTTT
7113455 ATCAAAATAG
Statistics
Matches: 950, Mismatches: 144, Indels: 59
0.82 0.12 0.05
Matches are distributed among these distances:
792 11 0.01
793 82 0.09
794 562 0.59
795 123 0.13
796 25 0.03
797 11 0.01
798 7 0.01
800 2 0.00
801 1 0.00
805 2 0.00
806 12 0.01
807 110 0.12
808 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (794 bp):
ATCTTCACATGGTTTACAAAGAGTTAACCAATTGAATTATAATCATTAAATTTTTTTTCGAAATT
GGCAATGTTACCGGAACAGGTATCTTAATATTTAATGTAACATTTAAACATTTTAATTCTTAGTA
AAACAATTTCCTCAAAAAGATATTTTTTTCTGTTGAGAAAACACGTATGAGTTGGCAAAATTAAT
AAGTATAATAATATTTTATATCTATTTACACGTTTCATCTTTTTAACAAAACGATTTCATATTAA
GTAAATATCTTCACGTGATTTACAAAACATTAACCAATTGAATTATAATCATTAAATTCTTTTTC
GAAATTGGCAATGTTACCGAAACAAGTATCTTAATATTCAATATCACATTTAAATATTTTAATTC
TTAATGAAACAATTTCTTCAGGAAGATGTTTTTTGTTATTGAGAAAACGCATATCAATGGGCAAA
ATTAATAGATGCAATAATATTTCATATCTATTTAAAAGTTTAATCTTTTAACGAAACAGTTTCAT
GTTGAGTAAATATCTTCACATGTGTACAAAACATTAGCCAATTGAATTATAATGATTAAATTCTT
TTTCAAAATTGACAATGTTACCGAAACAAGCATCGTAACATTTAATGTCACATTTAAATATTTTA
ACTCTTAATAAAACAATTTCCTCAAGAAGATGTTTTTTTCTATTAAGAAAACACGTATGAGTAGG
CAAAATTAATAAGTGTAATAATATTTTATATCTATGAAGACATTTCATCCTTTAACGAAACGGTT
AATGTTAAGTAAAT
Found at i:7116318 original size:264 final size:262
Alignment explanation
Indices: 7115800--7116318 Score: 602
Period size: 267 Copynumber: 2.0 Consensus size: 262
7115790 AGGGTTAACC
** * *
7115800 AATTAAATTATAATTATTAATTTTTTTAAAAAAATTGACAGTGTTACCGAAAAAGTATTCTAACA
1 AATTAAATTATAATTATTAATTTTTTTAAAAAAATTGACAACGTTACCAAAAAAGTATCCTAACA
* ** **
7115865 TTTAATATCACATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTAAAGGTATTTTTTTT
66 TTTAATATCAAATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTAAAGACACATTTTTT
** ** ** * * *
7115930 CTGTTGAGAAAACGTGTATGAGTTGGCAAAATTAATAGATGCAATAATATTTTATTTTTATTTAG
131 CTGACGAGAAAACGCATATGAGTTAACAAAATCAATAGATG--ATAATATTTTATATTTATTTAA
*
7115995 ACATTTCACTTATTAACAAAACGGTTTCATTTGAATAAATATCTTCACGTGATTTACAAAACATT
194 ACATTTCACTTATTAACAAAACGGTTTCATTTGAATAAATATCTTCACATGATTTACAAAACATT
7116060 AATT
259 AATT
*
7116064 AATTTAATTATAATTATTAATTTTTTTAAAAAAAAATTGACAACGTTACCAAAATAAGTATCCTA
1 AATTAAATTATAATTATTAATTTTTTT--AAAAAAATTGACAACGTTACCAAAA-AAGTATCCTA
* * * *
7116129 ACATTTAATGTCAAATTTAAATATTTTAGCTTTTGGTGAAACAATTT-CT-TTAGGAAGACACAT
63 ACATTTAATATCAAATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTA--AAGACACAT
* *
7116192 TTTTTCTTGACGAGAAAATGCATATGAGTTAATAAAATCAATAGATG-T-A-ATTTTATATTTAT
126 TTTTTC-TGACGAGAAAACGCATATGAGTTAACAAAATCAATAGATGATAATATTTTATATTTAT
* * * * * *
7116254 TTAAACCGTTT-ACCTT-TTAACGAAACTGTTTCATGTTTAGTAAATATTTTCACATGATTTACA
190 TTAAA-CATTTCA-CTTATTAACAAAACGGTTTCAT-TTGAATAAATATCTTCACATGATTTACA
7116317 AA
252 AA
7116319 GTGTTAACCA
Statistics
Matches: 214, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
263 33 0.15
264 60 0.28
265 3 0.01
266 24 0.11
267 63 0.29
268 31 0.14
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (262 bp):
AATTAAATTATAATTATTAATTTTTTTAAAAAAATTGACAACGTTACCAAAAAAGTATCCTAACA
TTTAATATCAAATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTAAAGACACATTTTTT
CTGACGAGAAAACGCATATGAGTTAACAAAATCAATAGATGATAATATTTTATATTTATTTAAAC
ATTTCACTTATTAACAAAACGGTTTCATTTGAATAAATATCTTCACATGATTTACAAAACATTAA
TT
Found at i:7116339 original size:264 final size:261
Alignment explanation
Indices: 7115793--7116347 Score: 593
Period size: 264 Copynumber: 2.1 Consensus size: 261
7115783 TCAAACAAGG
** *
7115793 GTTAACCAATTAAATTATAATTATTAATTTTTTTAAAAAAATTGACAGTGTTACCGAAAAAGTAT
1 GTTAACCAA-TAAATTATAATTATTAATTTTTTTAAAAAAATTGACAACGTTACCAAAAAAGTAT
* * ** *
7115858 TCTAACATTTAATATCACATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTAAAGGTAT
65 CCTAACATTTAATATCAAATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTAAAGACAC
* ** ** ** * *
7115923 TTTTTTTCTGTTGAGAAAACGTGTATGAGTTGGCAAAATTAATAGATGCAATAATATTTTATTTT
130 ATTTTTTCTGACGAGAAAACGCATATGAGTTAACAAAATCAATAGATG--ATAATATTTTATATT
* *
7115988 TATTTAGACATTTCACTTATTAACAAAACGGTTTCATTTGAATAAATATCTTCACGTGATTTACA
193 TATTTAAACATTTCACTTATTAACAAAACGGTTTCATTTGAATAAATATCTTCACATGATTTACA
7116053 AAAC
258 AAAC
* ** *
7116057 ATTAATTAATTTAATTATAATTATTAATTTTTTTAAAAAAAAATTGACAACGTTACCAAAATAAG
1 GTTAACCAA-TAAATTATAATTATTAATTTTTTT--AAAAAAATTGACAACGTTACCAAAA-AAG
* * * *
7116122 TATCCTAACATTTAATGTCAAATTTAAATATTTTAGCTTTTGGTGAAACAATTT-CT-TTAGGAA
62 TATCCTAACATTTAATATCAAATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTA--AA
* *
7116185 GACACATTTTTTCTTGACGAGAAAATGCATATGAGTTAATAAAATCAATAGATG-T-A-ATTTTA
125 GACACATTTTTTC-TGACGAGAAAACGCATATGAGTTAACAAAATCAATAGATGATAATATTTTA
* * * * * *
7116247 TATTTATTTAAACCGTTT-ACCTT-TTAACGAAACTGTTTCATGTTTAGTAAATATTTTCACATG
189 TATTTATTTAAA-CATTTCA-CTTATTAACAAAACGGTTTCAT-TTGAATAAATATCTTCACATG
**
7116310 ATTTACAAAGT
251 ATTTACAAAAC
*
7116321 GTTAACCAATAGAATTATAATCATTAA
1 GTTAACCAATA-AATTATAATTATTAA
7116348 ATTCTTTTCT
Statistics
Matches: 239, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
263 34 0.14
264 84 0.35
265 3 0.01
266 24 0.10
267 63 0.26
268 31 0.13
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (261 bp):
GTTAACCAATAAATTATAATTATTAATTTTTTTAAAAAAATTGACAACGTTACCAAAAAAGTATC
CTAACATTTAATATCAAATTTAAATATTTTAACTTTTAGTGAAACAATTTCCTCGTAAAGACACA
TTTTTTCTGACGAGAAAACGCATATGAGTTAACAAAATCAATAGATGATAATATTTTATATTTAT
TTAAACATTTCACTTATTAACAAAACGGTTTCATTTGAATAAATATCTTCACATGATTTACAAAA
C
Found at i:7126887 original size:32 final size:32
Alignment explanation
Indices: 7126847--7126907 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
7126837 ATTAAGAACT
7126847 AACTATTACTTATTA-CGTACATGAAACATAAG
1 AACTATTACTTATTATC-TACATGAAACATAAG
* *
7126879 AACTATTACTTCTTATCTATATGAAACAT
1 AACTATTACTTATTATCTACATGAAACAT
7126908 GAAATGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (32 bp):
AACTATTACTTATTATCTACATGAAACATAAG
Found at i:7129111 original size:24 final size:23
Alignment explanation
Indices: 7129065--7129113 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7129055 TCAAAATTTA
*
7129065 AATTTAAATTATTAACAGTGATT
1 AATTTAAATTATTAACAGAGATT
* *
7129088 AATTTAAATTTTTATATAGAGATT
1 AATTTAAATTATTA-ACAGAGATT
7129112 AA
1 AA
7129114 AAGTTATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (23 bp):
AATTTAAATTATTAACAGAGATT
Found at i:7134428 original size:100 final size:100
Alignment explanation
Indices: 7134313--7134514 Score: 343
Period size: 100 Copynumber: 2.0 Consensus size: 100
7134303 ACAGTGTTTT
* * *
7134313 GTTATCTATGGTTGAACCGTTATATCGA-TTAGGGTATATTTATAATTAAAATTTTTGATGACTT
1 GTTACCTATGGTTGAACAGTTATATC-ACTTAGGGTATATTCATAATTAAAATTTTTGATGACTT
*
7134377 AACAAAAAGAAAATGTAAAATTTGATCCCAACAATA
65 AACAAAAAGAAAATGTAAAAATTGATCCCAACAATA
7134413 GTTACCTATGGTTGAACAGTTATATCACTTAGGGTATATTCATAATTAAAATTTTTGATGACTTA
1 GTTACCTATGGTTGAACAGTTATATCACTTAGGGTATATTCATAATTAAAATTTTTGATGACTTA
*
7134478 ACAAAAAGAAAATGTAAAAATTGGTCCCAACAATA
66 ACAAAAAGAAAATGTAAAAATTGATCCCAACAATA
7134513 GT
1 GT
7134515 AGCTGAACTA
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.01
100 95 0.99
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (100 bp):
GTTACCTATGGTTGAACAGTTATATCACTTAGGGTATATTCATAATTAAAATTTTTGATGACTTA
ACAAAAAGAAAATGTAAAAATTGATCCCAACAATA
Found at i:7135061 original size:4 final size:4
Alignment explanation
Indices: 7135052--7135082 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
7135042 AGATTAAAAG
7135052 GAAA GAAA GAAA GAAA GAAA GAAA GAGAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GA
7135083 TGAAGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:7138784 original size:2 final size:2
Alignment explanation
Indices: 7138777--7138802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7138767 TTGCATGATC
7138777 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
7138803 GATCATTCTG
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):
AT
Found at i:7138986 original size:3 final size:3
Alignment explanation
Indices: 7138980--7139007 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7138970 CCAAAAAAAA
7138980 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
7139008 CGCATTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7140194 original size:2 final size:2
Alignment explanation
Indices: 7140182--7140213 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
7140172 ATTCACTATC
7140182 AT AT GAT 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 AT AT AT A
7140214 ACAACTGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7144099 original size:16 final size:16
Alignment explanation
Indices: 7144080--7144110 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7144070 TTTGAATCGA
*
7144080 TATGTATACATATATG
1 TATGTATAAATATATG
7144096 TATGTATAAATATAT
1 TATGTATAAATATAT
7144111 ATTCACACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (16 bp):
TATGTATAAATATATG
Found at i:7144161 original size:17 final size:18
Alignment explanation
Indices: 7144135--7144168 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7144125 TATGATTATG
7144135 ATATAATTTAT-TATAAT
1 ATATAATTTATATATAAT
*
7144152 ATATATTTTATATATAA
1 ATATAATTTATATATAA
7144169 AAGAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAATTTATATATAAT
Found at i:7145393 original size:2 final size:2
Alignment explanation
Indices: 7145386--7145431 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7145376 TCTGCCCTAC
7145386 AT AT 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 AT AT
7145428 AT AT
1 AT AT
7145432 TCACTAGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7155331 original size:17 final size:18
Alignment explanation
Indices: 7155300--7155346 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
7155290 ATATGCATAT
7155300 ACATTAAAATACTAATTA
1 ACATTAAAATACTAATTA
*
7155318 ACATT-AAATTCTAATTA
1 ACATTAAAATACTAATTA
*
7155335 ACATCAAAATAC
1 ACATTAAAATAC
7155347 ATAAATAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (18 bp):
ACATTAAAATACTAATTA
Found at i:7167888 original size:50 final size:51
Alignment explanation
Indices: 7167750--7167954 Score: 211
Period size: 50 Copynumber: 4.0 Consensus size: 51
7167740 TAATCTTCGC
* * * *
7167750 TTCAAGAGTCTTCATGACTTGATCTTGATCACGAACACTTTATATCTTTAC
1 TTCAAGAGTCTTCACGACTTGATCTTGATCACGAACACTTGATATCTTAAT
** * * *
7167801 TTCAAGAGTCTTCACGACTTGAAGTTTAGCACAAACACTTGATATCTTAAT
1 TTCAAGAGTCTTCACGACTTGATCTTGATCACGAACACTTGATATCTTAAT
*
7167852 TTCAAGA-TCTTCACGACTTGATCTTGATCATGAACACTTGAT-TCCTT-AT
1 TTCAAGAGTCTTCACGACTTGATCTTGATCACGAACACTTGATAT-CTTAAT
* * * *
7167901 TTTAAG-GATCTTCACGACTTAATTTTGATCACGAACTTCGCTTGATATCTTAAT
1 TTCAAGAG-TCTTCACGACTTGATCTTGATCACGAA---CACTTGATATCTTAAT
7167955 CACGAAATTC
Statistics
Matches: 126, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
49 8 0.06
50 56 0.44
51 49 0.39
53 10 0.08
54 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (51 bp):
TTCAAGAGTCTTCACGACTTGATCTTGATCACGAACACTTGATATCTTAAT
Found at i:7168439 original size:81 final size:81
Alignment explanation
Indices: 7168349--7168509 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 81
7168339 ATAATTACTA
* * *
7168349 GAGATAAATTAAATGACCAAT-ACTTAAATTTTGATTGGTTAAAAATATGAATATTATCTCTAAA
1 GAGACAAATTAAATGACCAATAAC-TAAATTTTGATTAGTCAAAAATATGAATATTATCTCTAAA
7168413 TTATCTTGATTTATTTG
65 TTATCTTGATTTATTTG
** *
7168430 GAGACAAATTGGATGACCAATAACTAAATTTTGATTAGTCAAAAATATGAATGTTATCTCTAAAT
1 GAGACAAATTAAATGACCAATAACTAAATTTTGATTAGTCAAAAATATGAATATTATCTCTAAAT
*
7168495 TGTCTTGATTTATTT
66 TATCTTGATTTATTT
7168510 AAAGAAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 70 0.97
82 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (81 bp):
GAGACAAATTAAATGACCAATAACTAAATTTTGATTAGTCAAAAATATGAATATTATCTCTAAAT
TATCTTGATTTATTTG
Found at i:7168533 original size:81 final size:81
Alignment explanation
Indices: 7168354--7168542 Score: 227
Period size: 81 Copynumber: 2.3 Consensus size: 81
7168344 TACTAGAGAT
* * * *
7168354 AAATTAAATGACCAAT-ACTTAAATTTTGATTGGTTAAAAATATGAATATTATCTCTAAATTATC
1 AAATTAGATGAACAATAAC-TAAATTTTGATTAGTCAAAAATATGAATATTATCTCTAAATTATC
** *
7168418 TTGATTTATTTGGAGAC
65 TTGATTTATTTAAAGAA
* * * *
7168435 AAATTGGATGACCAATAACTAAATTTTGATTAGTCAAAAATATGAATGTTATCTCTAAATTGTCT
1 AAATTAGATGAACAATAACTAAATTTTGATTAGTCAAAAATATGAATATTATCTCTAAATTATCT
7168500 TGATTTATTTAAAGAA
66 TGATTTATTTAAAGAA
* * * *
7168516 AAATTATATGAATAATAATTAATTTTT
1 AAATTAGATGAACAATAACTAAATTTT
7168543 AATTGATCCA
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 90 0.98
82 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (81 bp):
AAATTAGATGAACAATAACTAAATTTTGATTAGTCAAAAATATGAATATTATCTCTAAATTATCT
TGATTTATTTAAAGAA
Found at i:7175841 original size:31 final size:31
Alignment explanation
Indices: 7175773--7175910 Score: 163
Period size: 31 Copynumber: 4.4 Consensus size: 31
7175763 GCGCTGTAGT
7175773 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGC
1 GCTGTAGCTGCTGGAGGGGAAG-TTTGGCAGC
* * **
7175805 ACTGTAGCTGCTGGAAGGGAAGTTTGGTGGC
1 GCTGTAGCTGCTGGAGGGGAAGTTTGGCAGC
7175836 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGC
1 GCTGTAGCTGCTGGAGGGGAAG-TTTGGCAGC
* * *
7175868 GCTGCAACTGCTGGGATGGG-AGTTTGGCAGC
1 GCTGTAGCTGCT-GGAGGGGAAGTTTGGCAGC
*
7175899 GCTGCAGC-GCTG
1 GCTGTAGCTGCTG
7175911 CAGCTTCTGT
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 43 0.47
32 39 0.42
33 6 0.07
ACGTcount: A:0.16, C:0.17, G:0.43, T:0.24
Consensus pattern (31 bp):
GCTGTAGCTGCTGGAGGGGAAGTTTGGCAGC
Found at i:7175847 original size:63 final size:63
Alignment explanation
Indices: 7175773--7175894 Score: 192
Period size: 63 Copynumber: 1.9 Consensus size: 63
7175763 GCGCTGTAGT
* *
7175773 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGTAGCTGCT-GGAAGGGAAGTTTGGTGGC
1 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGCAACTGCTGGGAAGGG-AGTTTGGTGGC
* *
7175836 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCGCTGCAACTGCTGGGATGGGAGTTTGG
1 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGCAACTGCTGGGAAGGGAGTTTGG
7175895 CAGCGCTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 48 0.89
64 6 0.11
ACGTcount: A:0.16, C:0.15, G:0.43, T:0.25
Consensus pattern (63 bp):
GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGCAACTGCTGGGAAGGGAGTTTGGTGGC
Found at i:7175901 original size:63 final size:63
Alignment explanation
Indices: 7175773--7175910 Score: 190
Period size: 63 Copynumber: 2.2 Consensus size: 63
7175763 GCGCTGTAGT
* * **
7175773 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGTAGCTGCTGGAAGGGAAGTTTGGTGGC
1 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGCAACTGCTGGAAGGGAAGTTTGGCAGC
* *
7175836 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCGCTGCAACTGCTGGGATGGG-AGTTTGGCAGC
1 GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGCAACTGCT-GGAAGGGAAGTTTGGCAGC
*
7175899 GCTGCAGC-GCTG
1 GCTGTAGCTGCTG
7175911 CAGCTTCTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
62 4 0.06
63 57 0.85
64 6 0.09
ACGTcount: A:0.16, C:0.17, G:0.43, T:0.24
Consensus pattern (63 bp):
GCTGTAGCTGCTGGAGGGGAAGTTTTGGCAGCACTGCAACTGCTGGAAGGGAAGTTTGGCAGC
Found at i:7178089 original size:20 final size:19
Alignment explanation
Indices: 7178054--7178094 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
7178044 TTTATATTTT
7178054 TTTTGTACTTCAAAAAAAA
1 TTTTGTACTTCAAAAAAAA
7178073 TTTT-TACTCTCACAAAAAAA
1 TTTTGTACT-TCA-AAAAAAA
7178093 TT
1 TT
7178095 AACACCATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (19 bp):
TTTTGTACTTCAAAAAAAA
Found at i:7184179 original size:24 final size:23
Alignment explanation
Indices: 7184152--7184199 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7184142 TCAATTTTAT
*
7184152 ATTAAAATTTTAAAAATTAAATTA
1 ATTAAAATTTTAAAAAAT-AATTA
**
7184176 ATTAATTTTTTAAAAAATAATTA
1 ATTAAAATTTTAAAAAATAATTA
7184199 A
1 A
7184200 ATCGATCGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAAATTTTAAAAAATAATTA
Found at i:7215223 original size:13 final size:14
Alignment explanation
Indices: 7215205--7215237 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7215195 AAAACAACTT
*
7215205 ATTTATTAAAA-AA
1 ATTTATAAAAATAA
7215218 ATTTATAAAAATAA
1 ATTTATAAAAATAA
7215232 ATTTAT
1 ATTTAT
7215238 CAAGTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTATAAAAATAA
Found at i:7215525 original size:59 final size:57
Alignment explanation
Indices: 7215387--7215533 Score: 177
Period size: 58 Copynumber: 2.5 Consensus size: 57
7215377 TATTTAAACA
* * * * *
7215387 AACTTATCAAATATTCAGTTTTTTAGCTAATCGGATTAGATGAGTCCATTGTTAGATG
1 AACTTATCAAATATTCA-TTTTTTAGTTAATCAGATTAGATAAGTCCATCGTTAAATG
* *
7215445 AACTTATCAAACATTCGATTTTTTAGTTAATCAGATTAGATAAGTCTATGCGTTAAATG
1 AACTTATCAAATATTC-ATTTTTTAGTTAATCAGATTAGATAAGTCCAT-CGTTAAATG
* *
7215504 AGCTTATCAAATTTTCTATTTTTTAGTTAA
1 AACTTATCAAATATTC-ATTTTTTAGTTAA
7215534 ATTGGCGAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
58 42 0.55
59 34 0.45
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (57 bp):
AACTTATCAAATATTCATTTTTTAGTTAATCAGATTAGATAAGTCCATCGTTAAATG
Found at i:7230592 original size:4 final size:4
Alignment explanation
Indices: 7230583--7230615 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
7230573 GATGTTTGTG
*
7230583 TTCT TTCT TTCT TTCT TTCT TTCT TTTT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
7230616 CTCCCAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:7251631 original size:24 final size:24
Alignment explanation
Indices: 7251580--7251631 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7251570 ATTTTTTGTT
* * * *
7251580 TTGAGCAAGAAAGTTTAGGTAGTT
1 TTGAGCAAGAAAGTATAGCTAATC
7251604 TTGAGCAAGAAAGTATAGCTAATC
1 TTGAGCAAGAAAGTATAGCTAATC
7251628 TTGA
1 TTGA
7251632 TGGAGGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (24 bp):
TTGAGCAAGAAAGTATAGCTAATC
Found at i:7257462 original size:2 final size:2
Alignment explanation
Indices: 7257457--7257484 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7257447 CTGTGTGCGA
7257457 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7257485 TAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:7258477 original size:2 final size:2
Alignment explanation
Indices: 7258470--7258517 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7258460 AATACAGACC
7258470 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT 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
7258512 CT CT CT
1 CT CT CT
7258518 GAGACTTGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7259919 original size:2 final size:2
Alignment explanation
Indices: 7259912--7259946 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7259902 TTGTGCTGTG
7259912 AT AT AT AT AT 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 AT AT AT AT AT A
7259947 CACTAATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7260182 original size:6 final size:7
Alignment explanation
Indices: 7260164--7260189 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7260154 GAAGGTGGTC
7260164 ATTTTTT
1 ATTTTTT
7260171 ATTTTTT
1 ATTTTTT
7260178 ATTTTTT
1 ATTTTTT
7260185 ATTTT
1 ATTTT
7260190 AACTGAGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:7266461 original size:8 final size:8
Alignment explanation
Indices: 7266438--7266469 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
7266428 ATCAAAATAT
7266438 TATTTAT-
1 TATTTATA
7266445 TATTT-TA
1 TATTTATA
7266452 TATTTATA
1 TATTTATA
7266460 TATTTATA
1 TATTTATA
7266468 TA
1 TA
7266470 AAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.04
7 10 0.43
8 12 0.52
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTTATA
Found at i:7276654 original size:18 final size:19
Alignment explanation
Indices: 7276601--7276670 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
7276591 TTCACATGAC
*
7276601 ATATAATATAATCATATAAA
1 ATATAATGTAAT-ATATAAA
*
7276621 ATATAATGTGATTATATAAA
1 ATATAATGT-AATATATAAA
*
7276641 AT-TGATGTAATATATAAA
1 ATATAATGTAATATATAAA
* *
7276659 TTATAACGTAAT
1 ATATAATGTAAT
7276671 TACGATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
18 10 0.24
19 12 0.29
20 17 0.41
21 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (19 bp):
ATATAATGTAATATATAAA
Found at i:7277496 original size:2 final size:2
Alignment explanation
Indices: 7277484--7277515 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7277474 TCTTTTTCTG
*
7277484 AT AT GT 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
7277516 TAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7278370 original size:20 final size:19
Alignment explanation
Indices: 7278345--7278417 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
7278335 AATATTTTAT
*
7278345 AATATTATAATTAAAATAAA
1 AATATTA-AAATAAAATAAA
7278365 AATATTAAAATAAAAT---
1 AATATTAAAATAAAATAAA
* *
7278381 -ATA-TAATATAAGAATCAA
1 AATATTAAAATAA-AATAAA
7278399 AA-ATTAAAATAAAATAAA
1 AATATTAAAATAAAATAAA
7278417 A
1 A
7278418 TATAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
14 7 0.16
15 6 0.14
18 7 0.16
19 16 0.37
20 7 0.16
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (19 bp):
AATATTAAAATAAAATAAA
Found at i:7278371 original size:14 final size:15
Alignment explanation
Indices: 7278354--7278384 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7278344 TAATATTATA
7278354 ATTAAAATAAAA-AT
1 ATTAAAATAAAATAT
7278368 ATTAAAATAAAATAT
1 ATTAAAATAAAATAT
7278383 AT
1 AT
7278385 AATATAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATAAAATAT
Found at i:7278405 original size:33 final size:33
Alignment explanation
Indices: 7278345--7278424 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
7278335 AATATTTTAT
7278345 AATATTATAAT-TAAAATAAAAATATTAAAATAA
1 AATA-TATAATATAAAATAAAAATATTAAAATAA
*
7278378 AATATATAATATAAGAATCAAAA-ATTAAAATAA
1 AATATATAATATAA-AATAAAAATATTAAAATAA
7278411 AATA-A-AATATAAAA
1 AATATATAATATAAAA
7278425 AATTAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
30 2 0.05
31 7 0.16
32 7 0.16
33 21 0.48
34 7 0.16
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (33 bp):
AATATATAATATAAAATAAAAATATTAAAATAA
Found at i:7278482 original size:24 final size:24
Alignment explanation
Indices: 7278383--7278479 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 24
7278373 AATAAAATAT
*
7278383 ATAATATAAGA-ATCAAAAATTAAA
1 ATAATATAA-ATATAAAAAATTAAA
*
7278407 ATAAAATAAAATATAAAAAATTAAA
1 ATAATAT-AAATATAAAAAATTAAA
* *
7278432 TTTATATAATATAGGTAAAAGTAATTAAA
1 ATAATATAA-ATA--TAAAA--AATTAAA
7278461 ATAATATATAATATAAAAA
1 ATAATATA-AATATAAAAA
7278480 TTATATTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
24 9 0.16
25 22 0.38
27 10 0.17
29 16 0.28
30 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAATATAAATATAAAAAATTAAA
Found at i:7278501 original size:38 final size:36
Alignment explanation
Indices: 7278449--7278562 Score: 99
Period size: 38 Copynumber: 3.1 Consensus size: 36
7278439 AATATAGGTA
* *
7278449 AAAGTAATTAAAATAATATATAATATAAAAATTATATT
1 AAAGAAATAAAAATAATATAT-ATAT-AAAATTATATT
* *
7278487 AAAGAAATAAAAATAA-A-ATATATAAGATTATAAT
1 AAAGAAATAAAAATAATATATATATAAAATTATATT
* * *
7278521 -AATAAATAAAAAAAATATATGACATTAAAATTATATT
1 AAAGAAATAAAAATAATATAT-ATA-TAAAATTATATT
*
7278558 TAAGA
1 AAAGA
7278563 GATGATATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
33 13 0.21
34 10 0.16
35 6 0.10
36 4 0.07
37 11 0.18
38 17 0.28
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (36 bp):
AAAGAAATAAAAATAATATATATATAAAATTATATT
Found at i:7289014 original size:4 final size:4
Alignment explanation
Indices: 7289005--7289045 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
7288995 TCTTCATTTT
*
7289005 TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
7289046 CAGCTCCCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:7289418 original size:8 final size:8
Alignment explanation
Indices: 7289405--7289444 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
7289395 ATATGTTTCC
7289405 AAAAAATAA
1 AAAAAAT-A
7289414 AAAAAATA
1 AAAAAATA
7289422 AAAAAATA
1 AAAAAATA
*
7289430 AAAAATTA
1 AAAAAATA
7289438 GAAAAAA
1 -AAAAAA
7289445 GGTCATCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:7289419 original size:9 final size:9
Alignment explanation
Indices: 7289405--7289434 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7289395 ATATGTTTCC
7289405 AAAAAATAA
1 AAAAAATAA
7289414 AAAAAAT-A
1 AAAAAATAA
7289422 AAAAAATAA
1 AAAAAATAA
7289431 AAAA
1 AAAA
7289435 TTAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:7309035 original size:21 final size:21
Alignment explanation
Indices: 7309002--7309043 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7308992 TTTTTTAAAA
7309002 TTTAAAATATTTTTTTAATTTT
1 TTTAAAATATTTTTTT-ATTTT
*
7309024 TTTAAAA-GTTTTTTTATTTT
1 TTTAAAATATTTTTTTATTTT
7309044 AGTATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTAAAATATTTTTTTATTTT
Found at i:7334821 original size:14 final size:14
Alignment explanation
Indices: 7334802--7334830 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7334792 TCAATATCGT
7334802 TGACTATGAGTTTA
1 TGACTATGAGTTTA
7334816 TGACTATGAGTTTA
1 TGACTATGAGTTTA
7334830 T
1 T
7334831 AATTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (14 bp):
TGACTATGAGTTTA
Found at i:7336203 original size:13 final size:14
Alignment explanation
Indices: 7336169--7336206 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7336159 CAAAATTTTA
*
7336169 TTTTTTTAAGATCT
1 TTTTTTTAAGATAT
7336183 TTTATTTTAA-ATAT
1 TTT-TTTTAAGATAT
7336197 TTTTTTTAAG
1 TTTTTTTAAG
7336207 TAACCCACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.29
14 9 0.43
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (14 bp):
TTTTTTTAAGATAT
Found at i:7336837 original size:15 final size:15
Alignment explanation
Indices: 7336814--7336856 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
7336804 CTTTACAATA
* * *
7336814 TAATGTGATTGTAGG
1 TAATATGATTGCAAG
7336829 TAATATGATTGCAAG
1 TAATATGATTGCAAG
7336844 TAATATGATTGCA
1 TAATATGATTGCA
7336857 GGAAAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (15 bp):
TAATATGATTGCAAG
Found at i:7337123 original size:16 final size:17
Alignment explanation
Indices: 7337102--7337133 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7337092 TTATAATCTT
7337102 ATATATTT-TATTTTTA
1 ATATATTTATATTTTTA
7337118 ATATATTTATATTTTT
1 ATATATTTATATTTTT
7337134 TGTTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATATTTATATTTTTA
Found at i:7337134 original size:24 final size:24
Alignment explanation
Indices: 7337069--7337151 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
7337059 TTTTAATGTC
*
7337069 ATATATTT-TA-TTTTCATTTATTA
1 ATATATTTATATTTTTTATTT-TTA
* *
7337092 TTATAATCTTATATATTTTATTTTTA
1 ATAT-AT-TTATATTTTTTATTTTTA
* *
7337118 ATATATTTATATTTTTTGTTATTA
1 ATATATTTATATTTTTTATTTTTA
7337142 AT-T-TTTATAT
1 ATATATTTATAT
7337152 AATATCATGT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 7 0.14
23 4 0.08
24 19 0.39
25 4 0.08
26 8 0.16
27 7 0.14
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (24 bp):
ATATATTTATATTTTTTATTTTTA
Found at i:7337148 original size:22 final size:24
Alignment explanation
Indices: 7337085--7337152 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
7337075 TTTATTTTCA
7337085 TTTATTATT-ATA-ATCTTATATAT
1 TTTATTATTAATATAT-TTATATAT
* *
7337108 TTTATTTTTAATATATTTATATTT
1 TTTATTATTAATATATTTATATAT
*
7337132 TTTGTTATTAAT-T-TTTATATA
1 TTTATTATTAATATATTTATATA
7337153 ATATCATGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 7 0.18
23 9 0.24
24 20 0.53
25 2 0.05
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTATTATTAATATATTTATATAT
Found at i:7337149 original size:114 final size:113
Alignment explanation
Indices: 7337001--7337231 Score: 426
Period size: 114 Copynumber: 2.0 Consensus size: 113
7336991 AAAATACAAG
7337001 TTTAATATATTTATTTTTTTGTTATTAATTTTTATATAATACCATCTCTTAAATATATTTTTAAT
1 TTTAATATATTTATTTTTTTGTTATTAATTTTTATATAATACCATCTCTTAAATATATTTTTAAT
*
7337066 GTCATATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATT
66 GTCATATATTTTATTTTCATTTATGATTATAATCTTATATATTTTATT
* *
7337114 TTTAATATATTTATATTTTTTGTTATTAATTTTTATATAATATCATGTCTTAAATATATTTTTAA
1 TTTAATATATTTAT-TTTTTTGTTATTAATTTTTATATAATACCATCTCTTAAATATATTTTTAA
7337179 TGTCATATATTTTATTTTCATTTATGATTATAATCTTATATATTTTATT
65 TGTCATATATTTTATTTTCATTTATGATTATAATCTTATATATTTTATT
7337228 TTTA
1 TTTA
7337232 TTTCTTTAAT
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
113 14 0.12
114 100 0.88
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (113 bp):
TTTAATATATTTATTTTTTTGTTATTAATTTTTATATAATACCATCTCTTAAATATATTTTTAAT
GTCATATATTTTATTTTCATTTATGATTATAATCTTATATATTTTATT
Found at i:7337310 original size:24 final size:25
Alignment explanation
Indices: 7337283--7337357 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
7337273 TTGTTTTACC
7337283 TATATTATA-TAAATTTTAATTTTT
1 TATATTATATTAAATTTTAATTTTT
* **
7337307 TATATTTTATTTTATTTTAATTTTT
1 TATATTATATTAAATTTTAATTTTT
* *
7337332 GATTCTTATATTATATATTTTAATTT
1 TA-TATTATATTA-A-ATTTTAATTT
7337358 AATATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 8 0.21
25 14 0.36
26 7 0.18
28 10 0.26
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (25 bp):
TATATTATATTAAATTTTAATTTTT
Found at i:7337378 original size:33 final size:33
Alignment explanation
Indices: 7337306--7337379 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
7337296 TTTTAATTTT
*
7337306 TTATATT-T-TATTTTATTTTAATTTTTGATTC
1 TTATATTATATATTTTATTTAAATTTTTGATTC
*
7337337 TTATATTATATATTTTAATTTAATATTTTTTATT-
1 TTATATTATATATTTT-ATTTAA-ATTTTTGATTC
7337371 TTA-ATTATA
1 TTATATTATA
7337380 ACAGCATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 7 0.19
32 1 0.03
33 12 0.32
34 8 0.22
35 9 0.24
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (33 bp):
TTATATTATATATTTTATTTAAATTTTTGATTC
Found at i:7353964 original size:138 final size:136
Alignment explanation
Indices: 7353809--7354056 Score: 379
Period size: 136 Copynumber: 1.8 Consensus size: 136
7353799 TGATTTTTCA
*
7353809 TACTTTTTCCTTATAAGAAAAATATCATGAAAATATAAAATTAATTTTAAAAAACAGCCAGCAAA
1 TACTTTTTCCTTATAAGAAAAATATCATGAAAATAT-AAATTAATTTT-AAAAACACCCAGCAAA
*
7353874 AAATACTATAGCTAACAGGAAAATAACATACATACCAAATTACCCAACCAGGTTTCGCAAATGTT
64 AAATACTATAGCTAACAGGAAAATAACATACATACCAAATTAACCAACCAGGTTTCGCAAATGTT
7353939 ATGTTTGG
129 ATGTTTGG
* * **
7353947 TACTTTTTCCTTCTAAGAAAAATATTATGAAAATATAAATTAATTTTAAAAACACCCAGCAAAGG
1 TACTTTTTCCTTATAAGAAAAATATCATGAAAATATAAATTAATTTTAAAAACACCCAGCAAAAA
* * ***
7354012 ATACTATAGCTAAGAGGAAACTGTTATACATACCAAATTAACCAA
66 ATACTATAGCTAACAGGAAAATAACATACATACCAAATTAACCAA
7354057 GTTTTGCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
136 54 0.55
137 11 0.11
138 34 0.34
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (136 bp):
TACTTTTTCCTTATAAGAAAAATATCATGAAAATATAAATTAATTTTAAAAACACCCAGCAAAAA
ATACTATAGCTAACAGGAAAATAACATACATACCAAATTAACCAACCAGGTTTCGCAAATGTTAT
GTTTGG
Found at i:7355465 original size:55 final size:55
Alignment explanation
Indices: 7355399--7355508 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
7355389 GTTAAGGTCA
*
7355399 TGTGACATCTTTTCATCAACATAAGGGCTAATTTGGATACAAATCACAGGATAGG
1 TGTGACATCTTTTCATCAACATAAGGGCTAATTTAGATACAAATCACAGGATAGG
* *
7355454 TGTGACATCTTTTCATCAACATAAGGGCTTATTTAGATACAAATCTCAGGATAGG
1 TGTGACATCTTTTCATCAACATAAGGGCTAATTTAGATACAAATCACAGGATAGG
7355509 AGCTTATCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (55 bp):
TGTGACATCTTTTCATCAACATAAGGGCTAATTTAGATACAAATCACAGGATAGG
Found at i:7358276 original size:79 final size:80
Alignment explanation
Indices: 7358127--7358277 Score: 241
Period size: 79 Copynumber: 1.9 Consensus size: 80
7358117 ATTTCTTGCT
* *
7358127 AAGGGCAAAGAAGGAAAATAAACCATTAAAATAAGCTAAAAGTGAAAACCAAGGTAAGGGTATAG
1 AAGGGCAAAGAAGGAAAATAAACCAATAAAAGAAGCTAAAAGTGAAAACCAAGGTAAGGGTATAG
7358192 CTTTAATTTTTACCC
66 CTTTAATTTTTACCC
* * * *
7358207 AAGGGCATAGAAGGAAAATAAATCAATAAAAGAGGCT-AAAGTGAAAACCAAGGTGAGGGTATAG
1 AAGGGCAAAGAAGGAAAATAAACCAATAAAAGAAGCTAAAAGTGAAAACCAAGGTAAGGGTATAG
7358271 CTTTAAT
66 CTTTAAT
7358278 CTAAATCTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 33 0.51
80 32 0.49
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.20
Consensus pattern (80 bp):
AAGGGCAAAGAAGGAAAATAAACCAATAAAAGAAGCTAAAAGTGAAAACCAAGGTAAGGGTATAG
CTTTAATTTTTACCC
Found at i:7368527 original size:15 final size:14
Alignment explanation
Indices: 7368491--7368531 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
7368481 ATAAAAGTAA
7368491 TTCCAAAAATTAAC
1 TTCCAAAAATTAAC
*
7368505 AT-CAAAAATTATAC
1 TTCCAAAAATTA-AC
7368519 TTCCAAAAATTAA
1 TTCCAAAAATTAA
7368532 TTATACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.39
14 5 0.22
15 9 0.39
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (14 bp):
TTCCAAAAATTAAC
Found at i:7376005 original size:36 final size:34
Alignment explanation
Indices: 7375939--7376009 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 34
7375929 TCTATTTTTA
7375939 TATTAAAAAAATTTTAAAATTTAATATAAAATAG
1 TATTAAAAAAATTTTAAAATTTAATATAAAATAG
*
7375973 TATTAAAAAATATTTTCAAATTTTAATATAAAATAG
1 TATTAAAAAA-ATTTT-AAAATTTAATATAAAATAG
7376009 T
1 T
7376010 CAATATCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 10 0.29
35 5 0.15
36 19 0.56
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (34 bp):
TATTAAAAAAATTTTAAAATTTAATATAAAATAG
Found at i:7378427 original size:26 final size:27
Alignment explanation
Indices: 7378398--7378463 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
7378388 TACTAATTTT
*
7378398 TTAATTTAAA-ATAA-AAATATAAAAA
1 TTAATTTAAATATAATAAAAATAAAAA
7378423 GTTAA-TTAAATATAATAAAAATAAAAA
1 -TTAATTTAAATATAATAAAAATAAAAA
*
7378450 TTTATTTAAATATA
1 TTAATTTAAATATA
7378464 TTATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 5 0.14
26 11 0.31
27 19 0.54
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAATTTAAATATAATAAAAATAAAAA
Found at i:7396667 original size:15 final size:15
Alignment explanation
Indices: 7396647--7396684 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
7396637 TTTTATCATT
7396647 CAATTATTTTGGATA
1 CAATTATTTTGGATA
7396662 CAATTATTTTGGATA
1 CAATTATTTTGGATA
7396677 CAATTATT
1 CAATTATT
7396685 CCAAACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (15 bp):
CAATTATTTTGGATA
Found at i:7397821 original size:19 final size:19
Alignment explanation
Indices: 7397797--7397837 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
7397787 TTTTTTTCTA
7397797 TTTGATGGGTTAAATTAAC
1 TTTGATGGGTTAAATTAAC
7397816 TTTGATGGGTTAAATTAAC
1 TTTGATGGGTTAAATTAAC
7397835 TTT
1 TTT
7397838 CAATTGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (19 bp):
TTTGATGGGTTAAATTAAC
Found at i:7408491 original size:2 final size:2
Alignment explanation
Indices: 7408484--7408508 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7408474 CAATGATGGA
7408484 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7408509 CTATATATAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7408515 original size:2 final size:2
Alignment explanation
Indices: 7408510--7408540 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7408500 TGTGTGTGTC
*
7408510 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7408541 GTATGCATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7411506 original size:12 final size:12
Alignment explanation
Indices: 7411486--7411515 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7411476 TTATAATTTA
7411486 AAATAAAAAATT
1 AAATAAAAAATT
*
7411498 AAATTAAAAATT
1 AAATAAAAAATT
7411510 AAATAA
1 AAATAA
7411516 TTTTAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:7415202 original size:20 final size:20
Alignment explanation
Indices: 7415174--7415230 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
7415164 ACACACACAC
* *
7415174 ACATGTATGTATTTATATAT
1 ACATATATGTATATATATAT
*
7415194 ACATATATGTGTATATATAT
1 ACATATATGTATATATATAT
**
7415214 ATGTATATGTATATATA
1 ACATATATGTATATATA
7415231 GATGAGTACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.47
Consensus pattern (20 bp):
ACATATATGTATATATATAT
Found at i:7415210 original size:18 final size:18
Alignment explanation
Indices: 7415187--7415230 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7415177 TGTATGTATT
*
7415187 TATATATACATATATGTG
1 TATATATACATATATATG
* *
7415205 TATATATATATGTATATG
1 TATATATACATATATATG
7415223 TATATATA
1 TATATATA
7415231 GATGAGTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (18 bp):
TATATATACATATATATG
Found at i:7415213 original size:14 final size:14
Alignment explanation
Indices: 7415189--7415229 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7415179 TATGTATTTA
*
7415189 TATATACATATATG
1 TATATATATATATG
*
7415203 TGTATATATATATG
1 TATATATATATATG
*
7415217 TATATGTATATAT
1 TATATATATATAT
7415230 AGATGAGTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (14 bp):
TATATATATATATG
Found at i:7417528 original size:36 final size:35
Alignment explanation
Indices: 7417420--7417533 Score: 103
Period size: 35 Copynumber: 3.3 Consensus size: 35
7417410 ATATGCCAAA
7417420 CAATCACACAACTTGTCAGGAAAAATCTCTTCTTTG
1 CAATCA-ACAACTTGTCAGGAAAAATCTCTTCTTTG
* *** * *
7417456 CAATCAACAA-TAGGTCA--AAAATAAGAC-AC-TTA
1 CAATCAACAACT-TGTCAGGAAAA-ATCTCTTCTTTG
7417488 CAATCACACAACTTGTCAGGAAAAATCTCTTCTTTG
1 CAATCA-ACAACTTGTCAGGAAAAATCTCTTCTTTG
7417524 CAATCAACAA
1 CAATCAACAA
7417534 TAGGACAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 17
0.67 0.14 0.20
Matches are distributed among these distances:
32 8 0.14
33 13 0.22
34 6 0.10
35 17 0.29
36 14 0.24
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (35 bp):
CAATCAACAACTTGTCAGGAAAAATCTCTTCTTTG
Found at i:7417528 original size:68 final size:68
Alignment explanation
Indices: 7417419--7417556 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
7417409 AATATGCCAA
* *
7417419 ACAATCACACAACTTGTCAGGAAAAATCTCTTCTTTGCAATCAACAATAGGTCAAAAATAAGACA
1 ACAATCACACAACTTGTCAGGAAAAATCTCTTCTTTGCAATCAACAATAGGACAAAAAAAAGACA
7417484 CTT
66 CTT
7417487 ACAATCACACAACTTGTCAGGAAAAATCTCTTCTTTGCAATCAACAATAGGACAAAAAAAAGACA
1 ACAATCACACAACTTGTCAGGAAAAATCTCTTCTTTGCAATCAACAATAGGACAAAAAAAAGACA
7417552 CTT
66 CTT
7417555 AC
1 AC
7417557 TTCTTCAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.23
Consensus pattern (68 bp):
ACAATCACACAACTTGTCAGGAAAAATCTCTTCTTTGCAATCAACAATAGGACAAAAAAAAGACA
CTT
Found at i:7418514 original size:97 final size:96
Alignment explanation
Indices: 7418348--7418539 Score: 339
Period size: 97 Copynumber: 2.0 Consensus size: 96
7418338 ACTGTGAGTT
* *
7418348 TACACCATAATTCTGTTTCTAAATATGGAAATTGGAAGGTGAATCGCCAGGATTTATGTTCCATA
1 TACACCATAATCCTGTTTCTAAATATGGAAATTGGAAGGTGAATCGACAGGATTTATGTTCCATA
7418413 CCATTTACAGGCTCTATTGATCATATATCATA
66 CCATTTACA-GCTCTATTGATCATATATCATA
*
7418445 TACACCATAATCCTGTTTCTAAATATGGAAATTGGAAGGTGATTCGACAGGATTTATGTTCCATA
1 TACACCATAATCCTGTTTCTAAATATGGAAATTGGAAGGTGAATCGACAGGATTTATGTTCCATA
*
7418510 CCATTTACAGCTCTATTGATCATATTTCAT
66 CCATTTACAGCTCTATTGATCATATATCAT
7418540 CCAATGAATC
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
96 20 0.22
97 71 0.78
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (96 bp):
TACACCATAATCCTGTTTCTAAATATGGAAATTGGAAGGTGAATCGACAGGATTTATGTTCCATA
CCATTTACAGCTCTATTGATCATATATCATA
Found at i:7428576 original size:23 final size:23
Alignment explanation
Indices: 7428550--7428596 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
7428540 TTATTCATTC
* *
7428550 TTAAGAGTATGTATATATATATA
1 TTAAAAGTATATATATATATATA
7428573 TTAAAAGTATATATATATATATA
1 TTAAAAGTATATATATATATATA
7428596 T
1 T
7428597 ATTAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
TTAAAAGTATATATATATATATA
Found at i:7431752 original size:33 final size:33
Alignment explanation
Indices: 7431726--7431790 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
7431716 ATATATTAAT
*
7431726 TTATTATTAATTATAAAATATCAATATATCACA
1 TTATAATTAATTATAAAATATCAATATATCACA
* *
7431759 TTATAATTAATTATAATATATTAATATATCAC
1 TTATAATTAATTATAAAATATCAATATATCAC
7431791 GTCAATATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.45
Consensus pattern (33 bp):
TTATAATTAATTATAAAATATCAATATATCACA
Found at i:7431882 original size:30 final size:30
Alignment explanation
Indices: 7431848--7431942 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
7431838 AATAATTAAT
7431848 TATAAAAATTTATTTAATTTAAAATAAAAA
1 TATAAAAATTTATTTAATTTAAAATAAAAA
*
7431878 TATAAAAATTTATTTAGTTTAAAATAAAAA
1 TATAAAAATTTATTTAATTTAAAATAAAAA
* * *
7431908 TATAAAAAATTGATTGAA--TATAATAAAAA
1 TAT-AAAAATTTATTTAATTTAAAATAAAAA
7431937 TATAAA
1 TATAAA
7431943 GTTTTGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
28 3 0.05
29 13 0.22
30 32 0.54
31 11 0.19
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
TATAAAAATTTATTTAATTTAAAATAAAAA
Found at i:7440833 original size:19 final size:19
Alignment explanation
Indices: 7440809--7440868 Score: 120
Period size: 19 Copynumber: 3.2 Consensus size: 19
7440799 ATAAGTAACT
7440809 TGTAGATTAATGTGAATCA
1 TGTAGATTAATGTGAATCA
7440828 TGTAGATTAATGTGAATCA
1 TGTAGATTAATGTGAATCA
7440847 TGTAGATTAATGTGAATCA
1 TGTAGATTAATGTGAATCA
7440866 TGT
1 TGT
7440869 GAATCGTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (19 bp):
TGTAGATTAATGTGAATCA
Found at i:7440849 original size:9 final size:9
Alignment explanation
Indices: 7440818--7440873 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
7440808 TTGTAGATTA
7440818 ATGTGAATC
1 ATGTGAATC
* *
7440827 ATGTAGATTA
1 ATGT-GAATC
7440837 ATGTGAATC
1 ATGTGAATC
* *
7440846 ATGTAGATTA
1 ATGT-GAATC
7440856 ATGTGAATC
1 ATGTGAATC
7440865 ATGTGAATC
1 ATGTGAATC
7440874 GTGACAGATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 23 0.62
10 14 0.38
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGTGAATC
Found at i:7440859 original size:10 final size:10
Alignment explanation
Indices: 7440809--7440859 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
7440799 ATAAGTAACT
7440809 TGTAGATTAA
1 TGTAGATTAA
* *
7440819 TGT-GAATCA
1 TGTAGATTAA
7440828 TGTAGATTAA
1 TGTAGATTAA
* *
7440838 TGT-GAATCA
1 TGTAGATTAA
7440847 TGTAGATTAA
1 TGTAGATTAA
7440857 TGT
1 TGT
7440860 GAATCATGTG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (10 bp):
TGTAGATTAA
Found at i:7446468 original size:44 final size:44
Alignment explanation
Indices: 7446418--7446509 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
7446408 CCAATGTTTC
7446418 ATCAATGATAGTAAACAATTAATGCTTGTTGGATTAATAAGCTA
1 ATCAATGATAGTAAACAATTAATGCTTGTTGGATTAATAAGCTA
7446462 ATCAATGATAGTAAACAATTAATGCTTGTTGGATTAATAAGCTA
1 ATCAATGATAGTAAACAATTAATGCTTGTTGGATTAATAAGCTA
7446506 ATCA
1 ATCA
7446510 TTGCTTCGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (44 bp):
ATCAATGATAGTAAACAATTAATGCTTGTTGGATTAATAAGCTA
Found at i:7446986 original size:2 final size:2
Alignment explanation
Indices: 7446979--7447003 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7446969 AAAAACAGAA
7446979 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 A
7447004 CCTTTCATGT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7449997 original size:19 final size:21
Alignment explanation
Indices: 7449975--7450014 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
7449965 ATAATATTTT
7449975 AATATTA-TTTTATT-CAAAA
1 AATATTATTTTTATTCCAAAA
7449994 AATATTATTTTTATTCCAAAA
1 AATATTATTTTTATTCCAAAA
7450015 TTTTTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATTATTTTTATTCCAAAA
Found at i:7455668 original size:13 final size:12
Alignment explanation
Indices: 7455650--7455690 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
7455640 ATTACTGGTG
7455650 GGAAAAAGGAAAA
1 GGAAAAA-GAAAA
7455663 GGAAAAAGAAAA
1 GGAAAAAGAAAA
*
7455675 AG-AAAAGAAAA
1 GGAAAAAGAAAA
7455686 -GAAAA
1 GGAAAA
7455691 GCTGAGGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 1 0.04
11 12 0.46
12 6 0.23
13 7 0.27
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GGAAAAAGAAAA
Found at i:7461507 original size:12 final size:12
Alignment explanation
Indices: 7461490--7461514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7461480 TGTGGTACCT
7461490 CTTCAATATCTA
1 CTTCAATATCTA
7461502 CTTCAATATCTA
1 CTTCAATATCTA
7461514 C
1 C
7461515 AACAAACAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (12 bp):
CTTCAATATCTA
Found at i:7481966 original size:2 final size:2
Alignment explanation
Indices: 7481959--7481984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7481949 ATCATGACAC
7481959 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
7481985 GACTAACGGT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7491788 original size:28 final size:27
Alignment explanation
Indices: 7491724--7491788 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
7491714 TAGAGTAGAA
*
7491724 AAATAGAATATTCATGTATTAAAAAAT
1 AAATAAAATATTCATGTATTAAAAAAT
** * * *
7491751 TTATAAAATATTTATGTTTTTAAAAAT
1 AAATAAAATATTCATGTATTAAAAAAT
7491778 AAATAATAATA
1 AAATAA-AATA
7491789 ATAATAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (27 bp):
AAATAAAATATTCATGTATTAAAAAAT
Found at i:7493304 original size:25 final size:25
Alignment explanation
Indices: 7493275--7493336 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
7493265 CGTTTTATTT
7493275 AATTTAATTTTTTTAATTAATTTAG
1 AATTTAATTTTTTTAATTAATTTAG
* * *
7493300 AATTTATTTTTTTTATTTTATTTAG
1 AATTTAATTTTTTTAATTAATTTAG
7493325 -A-TTAATTTTTTT
1 AATTTAATTTTTTT
7493337 TATTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 10 0.30
24 1 0.03
25 22 0.67
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (25 bp):
AATTTAATTTTTTTAATTAATTTAG
Found at i:7493346 original size:25 final size:24
Alignment explanation
Indices: 7493267--7493342 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
7493257 CTCGAAAACG
7493267 TTTTATTTA-ATTTAA-TTTTTTTA
1 TTTTATTTAGA-TTAATTTTTTTTA
* * *
7493290 ATTAATTTAGAATTTATTTTTTTTA
1 TTTTATTTAG-ATTAATTTTTTTTA
7493315 TTTTATTTAGATTAATTTTTTTTA
1 TTTTATTTAGATTAATTTTTTTTA
7493339 TTTT
1 TTTT
7493343 TATTAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 7 0.16
24 20 0.45
25 17 0.39
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTTATTTAGATTAATTTTTTTTA
Found at i:7504448 original size:2 final size:2
Alignment explanation
Indices: 7504441--7504471 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7504431 TTATAAAACC
7504441 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7504472 AAGTGAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7509910 original size:17 final size:17
Alignment explanation
Indices: 7509888--7509922 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7509878 TTGCATCTCT
*
7509888 GAATCTGATTAATGGTA
1 GAATCTGATTAACGGTA
7509905 GAATCTGATTAACGGTA
1 GAATCTGATTAACGGTA
7509922 G
1 G
7509923 CCTTACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (17 bp):
GAATCTGATTAACGGTA
Found at i:7512044 original size:19 final size:19
Alignment explanation
Indices: 7512022--7512064 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7512012 ATTTTTATGT
7512022 AATTTATTAA-TCAAAATTA
1 AATTTATTAATTCAAAA-TA
*
7512041 AATTAATTAATTCAAAATA
1 AATTTATTAATTCAAAATA
7512060 AATTT
1 AATTT
7512065 TACATTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTATTAATTCAAAATA
Found at i:7536754 original size:2 final size:2
Alignment explanation
Indices: 7536747--7536795 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
7536737 CTTGCTAGAT
* *
7536747 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7536789 TA TA TA T
1 TA TA TA T
7536796 GAGACCTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7567412 original size:47 final size:47
Alignment explanation
Indices: 7567354--7567459 Score: 185
Period size: 47 Copynumber: 2.3 Consensus size: 47
7567344 GCAGGAGCTG
* * *
7567354 GGGCTATGCCCACCGGGCAAACCCTAAGTGGGGTGGGTGAACCGTCA
1 GGGCTAAGCCCACCCGGCAAACCCTAAGTGGGGTGCGTGAACCGTCA
7567401 GGGCTAAGCCCACCCGGCAAACCCTAAGTGGGGTGCGTGAACCGTCA
1 GGGCTAAGCCCACCCGGCAAACCCTAAGTGGGGTGCGTGAACCGTCA
7567448 GGGCTAAGCCCA
1 GGGCTAAGCCCA
7567460 AGATGCCAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.13
Consensus pattern (47 bp):
GGGCTAAGCCCACCCGGCAAACCCTAAGTGGGGTGCGTGAACCGTCA
Found at i:7577504 original size:5 final size:5
Alignment explanation
Indices: 7577469--7577522 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
7577459 CTCACTCAAC
*
7577469 AAAAG AACAAG AAACAG -AAGG AAAA- AAAAG AAAAG AAAAG AAAAG AAAGAG
1 AAAAG AA-AAG AAA-AG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG
7577520 AAA
1 AAA
7577523 CCGGGTTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
4 5 0.12
5 25 0.60
6 12 0.29
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7594353 original size:30 final size:30
Alignment explanation
Indices: 7594319--7594377 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
7594309 CAAGCTGTTA
* *
7594319 TACTTTTAATTTGAACCAAATACATCCTTG
1 TACTTTCAATTTGAACCAAATAAATCCTTG
* **
7594349 TACTTTCATTTTGAGTCAAATAAATCCTT
1 TACTTTCAATTTGAACCAAATAAATCCTT
7594378 CTAACTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
TACTTTCAATTTGAACCAAATAAATCCTTG
Found at i:7597219 original size:20 final size:21
Alignment explanation
Indices: 7597182--7597230 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
7597172 CGGTTTTAAT
*
7597182 TAATTAAAATTTTACAAA-AA
1 TAATTAAAATTATACAAATAA
*
7597202 TAATTAAAATTA-ATCAAATTA
1 TAATTAAAATTATA-CAAATAA
7597223 TAATTAAA
1 TAATTAAA
7597231 GTTTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.60
21 9 0.36
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATTAAAATTATACAAATAA
Found at i:7599418 original size:30 final size:30
Alignment explanation
Indices: 7599384--7599441 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7599374 CTTATTTAAC
* *
7599384 TTAAAATAAAAATATAAAAACTTAATTGGT
1 TTAAAACAAAAATACAAAAACTTAATTGGT
* *
7599414 TTAAAGCAAAAATACAAAAATTTAATTG
1 TTAAAACAAAAATACAAAAACTTAATTG
7599442 AACATAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (30 bp):
TTAAAACAAAAATACAAAAACTTAATTGGT
Found at i:7600932 original size:17 final size:15
Alignment explanation
Indices: 7600900--7600933 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
7600890 CGACACCATC
7600900 AATTTTTAATTAATT
1 AATTTTTAATTAATT
7600915 AATTTTTATATATAATT
1 AATTTTTA-AT-TAATT
7600932 AA
1 AA
7600934 AAATATCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTAATTAATT
Found at i:7601413 original size:12 final size:11
Alignment explanation
Indices: 7601396--7601432 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
7601386 TTATATAAAT
7601396 TTAAATTGTTAA
1 TTAAATT-TTAA
7601408 TTAAATTTTATA
1 TTAAATTTTA-A
7601420 TTAAATTTTAA
1 TTAAATTTTAA
7601431 TT
1 TT
7601433 TTATATCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
TTAAATTTTAA
Found at i:7631225 original size:124 final size:119
Alignment explanation
Indices: 7630966--7631209 Score: 386
Period size: 116 Copynumber: 2.0 Consensus size: 119
7630956 TGAATAAGAT
*
7630966 AAAGTTAAAAATCTTTAAACACTTAACCTTAAGTATTAAAAAAAATTTAATAATTAATAAATTCC
1 AAAGTTAAAAATCTTTAAACACTTAACCTTAAATATT---AAAAA--TAATAATTAATAAATTCC
*
7631031 CTCACAACTTTTTTATTGATTTCCTTTTTTTCATCTCTCCCTAATTGTAATTAAATATT
61 CTCACAACTTTTTTATTGATTTCCTTTTTTTCATCTCTCCCTAATTGTAATTAAATATA
*
7631090 AAAGTTAAAAATCTTTAAACACTTAACCTTAAATATT-AACA-AA-AATTAATAAATTCCCTCAC
1 AAAGTTAAAAATCTTTAAACACTTAACCTTAAATATTAAAAATAATAATTAATAAATTCCCTCAC
7631152 AACTTTTTTATTGATTTCCTTTTTTTCATCTCTCCCTAATTGTAATTAAATAGTA
66 AACTTTTTTATTGATTTCCTTTTTTTCATCTCTCCCTAATTGTAATTAAATA-TA
7631207 AAA
1 AAA
7631210 AAAGTAATCC
Statistics
Matches: 116, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
116 71 0.61
117 6 0.05
120 3 0.03
124 36 0.31
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.41
Consensus pattern (119 bp):
AAAGTTAAAAATCTTTAAACACTTAACCTTAAATATTAAAAATAATAATTAATAAATTCCCTCAC
AACTTTTTTATTGATTTCCTTTTTTTCATCTCTCCCTAATTGTAATTAAATATA
Found at i:7646425 original size:18 final size:18
Alignment explanation
Indices: 7646402--7646436 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7646392 CCCTGGTCGG
7646402 ATCGGAGAGGGGAGTGGA
1 ATCGGAGAGGGGAGTGGA
*
7646420 ATCGGAGAGGTGAGTGG
1 ATCGGAGAGGGGAGTGG
7646437 GGTGAGTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.54, T:0.14
Consensus pattern (18 bp):
ATCGGAGAGGGGAGTGGA
Found at i:7648204 original size:45 final size:45
Alignment explanation
Indices: 7648107--7648202 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
7648097 TATAATCCAA
7648107 TGCTTTTCACTGCTTAAACAACAAAAAGAAATCTCCATCAATGTC
1 TGCTTTTCACTGCTTAAACAACAAAAAGAAATCTCCATCAATGTC
* * * *
7648152 TGCTTTTCACTGCTTACACAACTAAAAGAGAA-C-CCATCAGTTTC
1 TGCTTTTCACTGCTTAAACAACAAAAAGA-AATCTCCATCAATGTC
7648196 TGCTTTT
1 TGCTTTT
7648203 TCTTTAACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 16 0.35
45 28 0.61
46 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.32
Consensus pattern (45 bp):
TGCTTTTCACTGCTTAAACAACAAAAAGAAATCTCCATCAATGTC
Done.