Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 62
Found at i:8731098 original size:22 final size:22
Alignment explanation
Indices: 8731073--8731122 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
8731063 GTACCGATAT
8731073 CCCTATGAATGGGTA-TCAATAC
1 CCCTATGAATGGGTACT-AATAC
*
8731095 CCCTATGAATGGGTACTGATAC
1 CCCTATGAATGGGTACTAATAC
8731117 CCCTAT
1 CCCTAT
8731123 CAATACCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (22 bp):
CCCTATGAATGGGTACTAATAC
Found at i:8736534 original size:20 final size:22
Alignment explanation
Indices: 8736488--8736528 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
8736478 TATTTTTAAT
*
8736488 TTATTAATTAGAAAATATATTA
1 TTATTAATTAGAAAAAATATTA
8736510 TTATT-ATTA-AAAAAATATT
1 TTATTAATTAGAAAAAATATT
8736529 CATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTATTAATTAGAAAAAATATTA
Found at i:8737975 original size:21 final size:21
Alignment explanation
Indices: 8737949--8738018 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
8737939 GATTCTGCGT
8737949 TTGAGAAGGCATGGGAAGCAA
1 TTGAGAAGGCATGGGAAGCAA
8737970 TTGAGAAGGCATGGGAAGCAA
1 TTGAGAAGGCATGGGAAGCAA
* *
8737991 TTGAGAAGACATGGGAAGCGA
1 TTGAGAAGGCATGGGAAGCAA
8738012 TTGAGAA
1 TTGAGAA
8738019 TGAAAATGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.39, C:0.09, G:0.37, T:0.16
Consensus pattern (21 bp):
TTGAGAAGGCATGGGAAGCAA
Found at i:8738167 original size:16 final size:17
Alignment explanation
Indices: 8738146--8738180 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8738136 GGAAACAAGT
8738146 AAAGAAAGTATGG-GTG
1 AAAGAAAGTATGGAGTG
*
8738162 AAAGAAAGTCTGGAGTG
1 AAAGAAAGTATGGAGTG
8738179 AA
1 AA
8738181 GTAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.34, T:0.17
Consensus pattern (17 bp):
AAAGAAAGTATGGAGTG
Found at i:8741198 original size:80 final size:80
Alignment explanation
Indices: 8741065--8741350 Score: 439
Period size: 80 Copynumber: 3.6 Consensus size: 80
8741055 TGTAAGTCAT
* *
8741065 TACGGAGCTAAGGATATCTTGGGTAGGCCCCAAGGCATATCCTTAGGTTGGTTCCCTTTGTTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
8741130 TGCATAAGGTAACCC
66 TGCATAAGGTAACCC
* * *
8741145 TACGGACCTAAGGATATCTTAGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTATTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
8741210 TGCATAAGGTAACCC
66 TGCATAAGGTAACCC
* *
8741225 TACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTAGCTGTG
1 TACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
*
8741290 TGCTTAAGGTAACCC
66 TGCATAAGGTAACCC
* * ** *
8741305 TACGGATCTAAGGATGTCCTTGGGTA-GATCCAAGGTATATCTTTAG
1 TACGGACCTAAGGATAT-CTTGGGTAGGCCCCAAGGTATATCCTTAG
8741351 ACTGGCTCCC
Statistics
Matches: 189, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 181 0.96
81 8 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (80 bp):
TACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGTG
TGCATAAGGTAACCC
Found at i:8743184 original size:21 final size:21
Alignment explanation
Indices: 8743154--8743222 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
8743144 CTACGAGATC
8743154 GAGAA-GCATGGGAAGCAATT
1 GAGAATGCATGGGAAGCAATT
8743174 GAGAATGCATGGGAAGCAATT
1 GAGAATGCATGGGAAGCAATT
** *
8743195 GAGAAAACATGGGAAGCGATT
1 GAGAATGCATGGGAAGCAATT
8743216 GAGAATG
1 GAGAATG
8743223 AAAATGATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 5 0.12
21 38 0.88
ACGTcount: A:0.41, C:0.09, G:0.35, T:0.16
Consensus pattern (21 bp):
GAGAATGCATGGGAAGCAATT
Found at i:8743367 original size:16 final size:17
Alignment explanation
Indices: 8743346--8743380 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8743336 GGAAACAAGT
8743346 AAAGAAAGTATGG-GTG
1 AAAGAAAGTATGGAGTG
*
8743362 AAAGAAAGTCTGGAGTG
1 AAAGAAAGTATGGAGTG
8743379 AA
1 AA
8743381 GTAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.34, T:0.17
Consensus pattern (17 bp):
AAAGAAAGTATGGAGTG
Found at i:8746466 original size:80 final size:80
Alignment explanation
Indices: 8746224--8746475 Score: 344
Period size: 80 Copynumber: 3.1 Consensus size: 80
8746214 ACCTTGATCC
* * * * *
8746224 AGGTTGATTCCCTTTGTTGTGTGCATAAGGTAACCTTAAGGACCTAAGGATATCTTGGGTAGGTT
1 AGGTTGGTTCCCTTTGCTGTGTGCATAAGGTAACCCTACGGACCTAAGGATATCTTGGGTAGGAT
*
8746289 CCAATGTATATCCTT
66 CCAAGGTATATCCTT
* * **
8746304 AGATTGGTTCCCTTTGCTGTGTGCATAAGGTAACCCTACGGACCTAAAGATATCTTGGGTAGGCC
1 AGGTTGGTTCCCTTTGCTGTGTGCATAAGGTAACCCTACGGACCTAAGGATATCTTGGGTAGGAT
8746369 CCAAGGTATATCCTT
66 CCAAGGTATATCCTT
* * * *
8746384 AGGTTGGTTCCCTTAGCTGTGTGCTTAAGGTAACCCTACGGATCTAAGGATGTCCTTGGGTA-GA
1 AGGTTGGTTCCCTTTGCTGTGTGCATAAGGTAACCCTACGGACCTAAGGATAT-CTTGGGTAGGA
8746448 TCCAAGGTATATCCTT
65 TCCAAGGTATATCCTT
* *
8746464 AGGCTGGCTCCC
1 AGGTTGGTTCCC
8746476 CTTTTTGCTA
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 144 0.95
81 8 0.05
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (80 bp):
AGGTTGGTTCCCTTTGCTGTGTGCATAAGGTAACCCTACGGACCTAAGGATATCTTGGGTAGGAT
CCAAGGTATATCCTT
Found at i:8748781 original size:25 final size:25
Alignment explanation
Indices: 8748752--8748834 Score: 150
Period size: 25 Copynumber: 3.3 Consensus size: 25
8748742 TATTTTATGG
8748752 ATCGAG-TCTATGTTTAGATTATGTC
1 ATCGAGCT-TATGTTTAGATTATGTC
8748777 ATCGAGCTTATGTTTAGATTATGTC
1 ATCGAGCTTATGTTTAGATTATGTC
8748802 ATCGAGCTTATGTTTAGATTATGTC
1 ATCGAGCTTATGTTTAGATTATGTC
8748827 ATCGAGCT
1 ATCGAGCT
8748835 AGTGCTTGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
25 56 0.98
26 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (25 bp):
ATCGAGCTTATGTTTAGATTATGTC
Found at i:8748789 original size:14 final size:14
Alignment explanation
Indices: 8748770--8748834 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
8748760 TATGTTTAGA
8748770 TTATGTCATCGAGC
1 TTATGTCATCGAGC
* *
8748784 TTATGT--T-TAGA
1 TTATGTCATCGAGC
8748795 TTATGTCATCGAGC
1 TTATGTCATCGAGC
* *
8748809 TTATGT--T-TAGA
1 TTATGTCATCGAGC
8748820 TTATGTCATCGAGC
1 TTATGTCATCGAGC
8748834 T
1 T
8748835 AGTGCTTGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
11 16 0.43
12 2 0.05
13 2 0.05
14 17 0.46
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (14 bp):
TTATGTCATCGAGC
Found at i:8752577 original size:18 final size:17
Alignment explanation
Indices: 8752554--8752587 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8752544 TTGAGATCAA
8752554 AATAATCAAAAAAAATAG
1 AATAAT-AAAAAAAATAG
*
8752572 AATAATAAATAAAATA
1 AATAATAAAAAAAATA
8752588 ATCATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AATAATAAAAAAAATAG
Found at i:8753180 original size:20 final size:20
Alignment explanation
Indices: 8753155--8753203 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
8753145 GTTATTTAAG
8753155 TTATT-ATAATTATTATTATA
1 TTATTAATAA-TATTATTATA
8753175 TTATTAATAATATTATTAGTA
1 TTATTAATAATATTATTA-TA
*
8753196 GTATTAAT
1 TTATTAAT
8753204 TGCTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TTATTAATAATATTATTATA
Found at i:8753230 original size:30 final size:30
Alignment explanation
Indices: 8753194--8753349 Score: 150
Period size: 30 Copynumber: 5.2 Consensus size: 30
8753184 ATATTATTAG
* *
8753194 TAGTATTAATTGCTATTTAATTAACTTTAT
1 TAGTATTAATTACTATTTAATTAGCTTTAT
* *
8753224 TAGTATTAACTACTATTTAATTAGTTTTAT
1 TAGTATTAATTACTATTTAATTAGCTTTAT
* * * * *
8753254 GAGTATTAATTGCCATCTAATTAGTTTTAT
1 TAGTATTAATTACTATTTAATTAGCTTTAT
* * * * *
8753284 TAGTATTAGTTACCATCTAATTAGCCTAAT
1 TAGTATTAATTACTATTTAATTAGCTTTAT
* * *
8753314 TAGTGTTAATTATTATTTAATTAACTATTAT
1 TAGTATTAATTACTATTTAATTAGCT-TTAT
8753345 TAGTA
1 TAGTA
8753350 GTAGTAATAT
Statistics
Matches: 101, Mismatches: 24, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
30 94 0.93
31 7 0.07
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.49
Consensus pattern (30 bp):
TAGTATTAATTACTATTTAATTAGCTTTAT
Found at i:8753259 original size:60 final size:60
Alignment explanation
Indices: 8753195--8753349 Score: 166
Period size: 60 Copynumber: 2.6 Consensus size: 60
8753185 TATTATTAGT
* * ** *
8753195 AGTATTAATTGCTATTTAATTAACTTTATTAGTATTAACTACTATTTAATTAGTTTTATG
1 AGTATTAATTGCTATTTAATTAACTTTATTAGTATTAACTACCATCTAATTAGCCTAATG
* * ** ** *
8753255 AGTATTAATTGCCATCTAATTAGTTTTATTAGTATTAGTTACCATCTAATTAGCCTAATT
1 AGTATTAATTGCTATTTAATTAACTTTATTAGTATTAACTACCATCTAATTAGCCTAATG
* **
8753315 AGTGTTAATTATTATTTAATTAACTATTATTAGTA
1 AGTATTAATTGCTATTTAATTAACT-TTATTAGTA
8753350 GTAGTAATAT
Statistics
Matches: 75, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
60 66 0.88
61 9 0.12
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (60 bp):
AGTATTAATTGCTATTTAATTAACTTTATTAGTATTAACTACCATCTAATTAGCCTAATG
Found at i:8753430 original size:11 final size:11
Alignment explanation
Indices: 8753416--8753440 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8753406 TTATTTAATT
8753416 ATATTAAATAA
1 ATATTAAATAA
8753427 ATATTAAATAA
1 ATATTAAATAA
8753438 ATA
1 ATA
8753441 CTAAGATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATTAAATAA
Found at i:8753915 original size:43 final size:43
Alignment explanation
Indices: 8753851--8753936 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
8753841 AGTCTAAATT
* * * *
8753851 TCAAACTAATAATCCATAAATACAGT-AAATTAACATATTAAAA
1 TCAAACTAACAATCCACAAATA-AATAAAACTAACATATTAAAA
*
8753894 TCAAAGTAACAATCCACAAATAAATAAAACTAACATATTAAAA
1 TCAAACTAACAATCCACAAATAAATAAAACTAACATATTAAAA
8753937 GCATTCTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.24
Consensus pattern (43 bp):
TCAAACTAACAATCCACAAATAAATAAAACTAACATATTAAAA
Found at i:8756936 original size:16 final size:16
Alignment explanation
Indices: 8756912--8756951 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8756902 TGTCAATTTA
*
8756912 TTATTTATTATTTATG
1 TTATATATTATTTATG
*
8756928 TTATATATTATTTGTG
1 TTATATATTATTTATG
*
8756944 TTACATAT
1 TTATATAT
8756952 AACTTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (16 bp):
TTATATATTATTTATG
Found at i:8759329 original size:3 final size:3
Alignment explanation
Indices: 8759321--8759378 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
8759311 GTCCCATTTT
* * * * *
8759321 TTA TTA TTA TCA TCA TTA TTA TTG TTA TTA TTA TTTA TTT TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
8759367 TTA TTA TTA TTA
1 TTA TTA TTA TTA
8759379 AAATAAACAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8760895 original size:2 final size:2
Alignment explanation
Indices: 8760888--8760929 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8760878 TTATAAAACC
8760888 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
8760930 TTACTTTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8764686 original size:64 final size:64
Alignment explanation
Indices: 8764608--8764735 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
8764598 CAGTCGGGAG
* * *
8764608 GAAGCATAGATTTGTGCATCTGAAGGTTTATCTAAAGAAGTTGACACAAAAGATGATCAAGAAA
1 GAAGCAGAGATTTGTGCATCTAAAGATTTATCTAAAGAAGTTGACACAAAAGATGATCAAGAAA
* *
8764672 GAAGCAGAGATTTGTGCATCTAAAGATTTATCTAAAGAAGTTGACGCAAAATATGATCAAGAAA
1 GAAGCAGAGATTTGTGCATCTAAAGATTTATCTAAAGAAGTTGACACAAAAGATGATCAAGAAA
8764736 TGGGGGGCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (64 bp):
GAAGCAGAGATTTGTGCATCTAAAGATTTATCTAAAGAAGTTGACACAAAAGATGATCAAGAAA
Found at i:8766582 original size:7 final size:7
Alignment explanation
Indices: 8766561--8766664 Score: 104
Period size: 7 Copynumber: 14.9 Consensus size: 7
8766551 CATCCATTAG
*
8766561 AAGAGAA
1 AAGAAAA
8766568 AA-AAAA
1 AAGAAAA
8766574 AAGAAAA
1 AAGAAAA
*
8766581 AAAAGAAA
1 AAGA-AAA
*
8766589 AAGATAA
1 AAGAAAA
*
8766596 AAGATAA
1 AAGAAAA
8766603 AAGAAAAA
1 AAG-AAAA
*
8766611 AAGAGAA
1 AAGAAAA
*
8766618 AAGAGAA
1 AAGAAAA
*
8766625 AAGAGAA
1 AAGAAAA
8766632 AAGAAAA
1 AAGAAAA
8766639 AAGAAAA
1 AAGAAAA
*
8766646 AA-AGAA
1 AAGAAAA
8766652 AAGAAAA
1 AAGAAAA
8766659 AAGAAA
1 AAGAAA
8766665 TTGAATCAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
6 10 0.12
7 62 0.74
8 12 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:8766608 original size:29 final size:28
Alignment explanation
Indices: 8766561--8766664 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 28
8766551 CATCCATTAG
8766561 AAGAGAAAA-AAAAAAGAAAAAAAAGAAA
1 AAGA-AAAAGAAAAAAGAAAAAAAAGAAA
*
8766589 AAGATAAAAGATAAAAG-AAAAAAAGAGAA
1 AAGA-AAAAGAAAAAAGAAAAAAAAGA-AA
*
8766618 AAGAGAAAAGAGAAAAGAAAAAAGAA-AAA
1 AAGA-AAAAGAAAAAAGAAAAAA-AAGAAA
8766647 AAG-AAAAGAAAAAAGAAA
1 AAGAAAAAGAAAAAAGAAA
8766665 TTGAATCAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
27 14 0.21
28 17 0.25
29 28 0.42
30 6 0.09
31 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (28 bp):
AAGAAAAAGAAAAAAGAAAAAAAAGAAA
Found at i:8766660 original size:14 final size:14
Alignment explanation
Indices: 8766561--8766658 Score: 90
Period size: 15 Copynumber: 6.8 Consensus size: 14
8766551 CATCCATTAG
*
8766561 AAGAGAAAAAA-AA
1 AAGAAAAAAAAGAA
8766574 AAGAAAAAAAAGAAA
1 AAGAAAAAAAAG-AA
* * *
8766589 AAGATAAAAGATAA
1 AAGAAAAAAAAGAA
8766603 AAGAAAAAAAGAGAA
1 AAGAAAAAAA-AGAA
* *
8766618 AAGAGAAAAGAGAA
1 AAGAAAAAAAAGAA
*
8766632 AAGAAAAAAGAAAAA
1 AAGAAAAAA-AAGAA
8766647 AAGAAAAGAAAA
1 AAGAAAA-AAAA
8766659 AAGAAATTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
13 10 0.15
14 22 0.32
15 34 0.50
16 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAGAAAAAAAAGAA
Found at i:8768226 original size:52 final size:52
Alignment explanation
Indices: 8768160--8768513 Score: 503
Period size: 52 Copynumber: 6.8 Consensus size: 52
8768150 GGTCCATATT
* * * *
8768160 ATCCATGT-GGGTATCTTGAAGGCTCATATCAACATGAAAAAGACAGAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
* * *
8768211 ATCCATGTTGGGTATCTTGAAGGCTCACATCAACATGAAAAAGATAGAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
* *
8768263 ATCCATGTGGGGTATCTTGAAGGCTCACATCAGCATGAAAAAATATAGAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATG-AAAAAGATAGAAGTA
* *
8768316 ATCCATGTGGGGCATCTTGAAGGCTCTCATCAGCATGAAAAAGACAGAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
* * * * *
8768368 ATCCATATGGGGCATCTTGAAGGCTCACACCAGTATAAAAAAAGATAAAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCAT-GAAAAAGATAGAAGTA
* *
8768421 ATCCATGTGGGGAATCTTGAAGGCTCACATCAGTATGAAAAAGATAGAAGTA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
* *
8768473 TTCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAA
1 ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAA
8768514 GGTTGGTATA
Statistics
Matches: 275, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
51 8 0.03
52 172 0.63
53 95 0.35
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (52 bp):
ATCCATGTGGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
Found at i:8768340 original size:105 final size:105
Alignment explanation
Indices: 8768160--8768513 Score: 514
Period size: 105 Copynumber: 3.4 Consensus size: 105
8768150 GGTCCATATT
* * * * * *
8768160 ATCCATGT-GGGTATCTTGAAGGCTCATATCAACATG-AAAAAGACAGAAGTAATCCATGTTGGG
1 ATCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAAAAGATAGAAGTAATCCATGTGGGG
* *
8768223 TATCTTGAAGGCTCACATCAACATGAAAAAGATAGAAGTA
66 AATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
* * *
8768263 ATCCATGTGGGGTATCTTGAAGGCTCACATCAGCATGAAAAAATATAGAAGTAATCCATGTGGGG
1 ATCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAAAAGATAGAAGTAATCCATGTGGGG
* * *
8768328 CATCTTGAAGGCTCTCATCAGCATGAAAAAGACAGAAGTA
66 AATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
* * * *
8768368 ATCCATATGGGGCATCTTGAAGGCTCACACCAGTATAAAAAAAGATAAAAGTAATCCATGTGGGG
1 ATCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAAAAGATAGAAGTAATCCATGTGGGG
*
8768433 AATCTTGAAGGCTCACATCAGTATGAAAAAGATAGAAGTA
66 AATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
*
8768473 TTCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAA
1 ATCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAA
8768514 GGTTGGTATA
Statistics
Matches: 225, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
103 8 0.04
104 26 0.12
105 191 0.85
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (105 bp):
ATCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAAAAGATAGAAGTAATCCATGTGGGG
AATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
Found at i:8768462 original size:157 final size:157
Alignment explanation
Indices: 8768160--8768513 Score: 525
Period size: 157 Copynumber: 2.3 Consensus size: 157
8768150 GGTCCATATT
* * * *
8768160 ATCCATGT-GGGTATCTTGAAGGCTCAT-ATCAACATGAAAAAGACAGAAGTAATCCATGTTGGG
1 ATCCATGTGGGGCATCTTGAAGGCTC-TCATCAGCATGAAAAAGACAGAAGTAATCCATATGGGG
* * * * *
8768223 TATCTTGAAGGCTCACATCAACATGAAAAAGATAGAAGTAATCCATGTGGGGTATCTTGAAGGCT
65 CATCTTGAAGGCTCACACCAACATAAAAAAGATAAAAGTAATCCATGTGGGGAATCTTGAAGGCT
*
8768288 CACATCAGCATGAAAAAATATAGAAGTA
130 CACATCAGCATGAAAAAAGATAGAAGTA
8768316 ATCCATGTGGGGCATCTTGAAGGCTCTCATCAGCATGAAAAAGACAGAAGTAATCCATATGGGGC
1 ATCCATGTGGGGCATCTTGAAGGCTCTCATCAGCATGAAAAAGACAGAAGTAATCCATATGGGGC
**
8768381 ATCTTGAAGGCTCACACCAGTATAAAAAAAGATAAAAGTAATCCATGTGGGGAATCTTGAAGGCT
66 ATCTTGAAGGCTCACACCAACAT-AAAAAAGATAAAAGTAATCCATGTGGGGAATCTTGAAGGCT
*
8768446 CACATCAGTATG-AAAAAGATAGAAGTA
130 CACATCAGCATGAAAAAAGATAGAAGTA
* * *
8768473 TTCCATGTGGGGCATCTTGAAGGCTCACACCAGCATGAAAA
1 ATCCATGTGGGGCATCTTGAAGGCTCTCATCAGCATGAAAA
8768514 GGTTGGTATA
Statistics
Matches: 179, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
156 9 0.05
157 121 0.68
158 49 0.27
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (157 bp):
ATCCATGTGGGGCATCTTGAAGGCTCTCATCAGCATGAAAAAGACAGAAGTAATCCATATGGGGC
ATCTTGAAGGCTCACACCAACATAAAAAAGATAAAAGTAATCCATGTGGGGAATCTTGAAGGCTC
ACATCAGCATGAAAAAAGATAGAAGTA
Found at i:8768641 original size:23 final size:22
Alignment explanation
Indices: 8768594--8768635 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8768584 AGAAATGATC
*
8768594 CATGTGGGGTATTTTGAAAGCT
1 CATGTGGGGCATTTTGAAAGCT
8768616 CATGTTGGGGCATTTT-AAAG
1 CATG-TGGGGCATTTTGAAAG
8768636 GTTCATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (22 bp):
CATGTGGGGCATTTTGAAAGCT
Found at i:8770310 original size:177 final size:178
Alignment explanation
Indices: 8770014--8770422 Score: 658
Period size: 177 Copynumber: 2.3 Consensus size: 178
8770004 ATTTCCCAGT
* * * * *
8770014 TTTGTAAGTCCTATGGGTCATACATAAGACCTTCAGTGCATGATGTTTTCAAATGATATTTTAGA
1 TTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGA
* *
8770079 AACCAAGCCTTCGGGGGTTTACTAATTATCTCAAAAGAGATGTTAAAGGAAGCTAAGCCTAACAA
66 AACCAAGCCTTCAGGGGTTTACTAATTATCTCAAAAGAGATATTAAAGGAAGCTAAGCCTAACAA
*
8770144 AGGGGTTCCTAGACAACTAAGAAACTAAGCCTTC-GGGGGTTTCTTGA
131 AGGGGTTCCTAGACAACTAAGAAACTAACCCTTCGGGGGGTTTCTTGA
* * *
8770191 TTTGTAAGTCTTACGGGCCATCCATAAGACATTTAGTGCAAGATGTTTTCAAATGAGATTTTAGA
1 TTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGA
* *
8770256 AACCAAGCCTTCAGGGGTTTACTAATTATCTCAAAAGAGCTATTAAAGGAAGCTAAGCCTAAGAA
66 AACCAAGCCTTCAGGGGTTTACTAATTATCTCAAAAGAGATATTAAAGGAAGCTAAGCCTAACAA
*
8770321 AGGGGTTCCTTGACAACTAAGAAACTAACCCTTCGGGGGGTTTCTTGA
131 AGGGGTTCCTAGACAACTAAGAAACTAACCCTTCGGGGGGTTTCTTGA
* * *
8770369 TTTGTAAATCCTACGGGCCATCCATAAGACCTTCAGTGTAGGATGTTTTCAAAT
1 TTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAAT
8770423 AAATTTATCT
Statistics
Matches: 211, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
177 150 0.71
178 61 0.29
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (178 bp):
TTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGA
AACCAAGCCTTCAGGGGTTTACTAATTATCTCAAAAGAGATATTAAAGGAAGCTAAGCCTAACAA
AGGGGTTCCTAGACAACTAAGAAACTAACCCTTCGGGGGGTTTCTTGA
Found at i:8770475 original size:36 final size:34
Alignment explanation
Indices: 8770423--8770604 Score: 116
Period size: 36 Copynumber: 5.0 Consensus size: 34
8770413 GTTTTCAAAT
8770423 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAATTT-TCTCACTTGAGATTGTTTTTCTTAAAAC
* ** ** *
8770458 AAACTGTTTCTCGCTTGAGAAAGTTTCACTCGAAATAGC
1 AAA-T-TTTCTCACTTGAGATTGTTTTTCT-TAAA-A-C
*
8770497 -AATTTATATCACTTGAGATTGTTTTTCTTAAAAC
1 AAATTT-TCTCACTTGAGATTGTTTTTCTTAAAAC
* ** ** *
8770531 AAATTATTTCTCGCTTGAGAAAGTTTCACTCGAAATAGC
1 AAA-T-TTTCTCACTTGAGATTGTTTTTCT-TAAA-A-C
8770570 -AATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAATTT-TCTCACTTGAGATTGTTTTTCTTAAAAC
8770604 A
1 A
8770605 CTTGAGAAAG
Statistics
Matches: 107, Mismatches: 26, Indels: 28
0.66 0.16 0.17
Matches are distributed among these distances:
34 2 0.02
35 7 0.07
36 45 0.42
37 45 0.42
38 6 0.06
39 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (34 bp):
AAATTTTCTCACTTGAGATTGTTTTTCTTAAAAC
Found at i:8770543 original size:73 final size:73
Alignment explanation
Indices: 8770424--8770604 Score: 335
Period size: 73 Copynumber: 2.5 Consensus size: 73
8770414 TTTTCAAATA
*
8770424 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTTGAGAAAGTTTCACTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTTGAGAAAGTTTCACTC
8770489 GAAATAGC
66 GAAATAGC
* *
8770497 AATTTATATCACTTGAGATTGTTTTTCTTAAAACAAATTATTTCTCGCTTGAGAAAGTTTCACTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTTGAGAAAGTTTCACTC
8770562 GAAATAGC
66 GAAATAGC
8770570 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
8770605 CTTGAGAAAG
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 104 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (73 bp):
AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTTGAGAAAGTTTCACTC
GAAATAGC
Found at i:8770639 original size:61 final size:62
Alignment explanation
Indices: 8770544--8770739 Score: 268
Period size: 61 Copynumber: 3.0 Consensus size: 62
8770534 TTATTTCTCG
8770544 CTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA-
1 CTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAT
* *
8770605 CTTGAGAAAGTTTCACTCGAAATAGAAATTTATCTCACTTGATATTGTTTTTCTTAAAACAAACT
1 CTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC--A--
8770670 GTTTCT
62 -----T
8770676 CGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAT
1 --CTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAT
8770740 TTCCAAGAGA
Statistics
Matches: 119, Mismatches: 4, Indels: 21
0.83 0.03 0.15
Matches are distributed among these distances:
61 58 0.49
63 1 0.01
64 1 0.01
71 1 0.01
73 58 0.49
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (62 bp):
CTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAT
Found at i:8770644 original size:37 final size:37
Alignment explanation
Indices: 8770603--8770721 Score: 118
Period size: 37 Copynumber: 3.2 Consensus size: 37
8770593 TTTCTTAAAA
8770603 CACTTGAGAAAGTTTCACTCGAAATAGAAATTTATCT
1 CACTTGAGAAAGTTTCACTCGAAATAGAAATTTATCT
* ** ** * *
8770640 CACTTGATATTGTTTTTCT-TAAA-ACAAACTGTT-TCT
1 CACTTGAGAAAGTTTCACTCGAAATAGAAA-T-TTATCT
* *
8770676 CGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCT
1 CACTTGAGAAAGTTTCACTCGAAATAGAAATTTATCT
8770713 CACTTGAGA
1 CACTTGAGA
8770722 TTGTTTTTCT
Statistics
Matches: 60, Mismatches: 17, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
35 4 0.07
36 22 0.37
37 31 0.52
38 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (37 bp):
CACTTGAGAAAGTTTCACTCGAAATAGAAATTTATCT
Found at i:8770711 original size:134 final size:134
Alignment explanation
Indices: 8770471--8770738 Score: 491
Period size: 134 Copynumber: 2.0 Consensus size: 134
8770461 CTGTTTCTCG
* *
8770471 CTTGAGAAAGTTTCACTCGAAATAGCAATTTATATCACTTGAGATTGTTTTTCTTAAAACAAATT
1 CTTGAGAAAGTTTCACTCGAAATAGAAATTTATATCACTTGAGATTGTTTTTCTTAAAACAAACT
8770536 ATTTCTCGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAA
66 ATTTCTCGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAA
8770601 AACA
131 AACA
* *
8770605 CTTGAGAAAGTTTCACTCGAAATAGAAATTTATCTCACTTGATATTGTTTTTCTTAAAACAAACT
1 CTTGAGAAAGTTTCACTCGAAATAGAAATTTATATCACTTGAGATTGTTTTTCTTAAAACAAACT
*
8770670 GTTTCTCGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAA
66 ATTTCTCGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAA
8770735 AACA
131 AACA
8770739 TTTCCAAGAG
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 129 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (134 bp):
CTTGAGAAAGTTTCACTCGAAATAGAAATTTATATCACTTGAGATTGTTTTTCTTAAAACAAACT
ATTTCTCGCTTGAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAA
AACA
Found at i:8770893 original size:3 final size:3
Alignment explanation
Indices: 8770885--8770948 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
8770875 ATCCCATTTT
* * *
8770885 TTA TTA TTA TCA TCA TTA TATA TTTA TTA TTA ATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
*
8770931 TTA CTT- TTA ATA TTA TTA
1 TTA -TTA TTA TTA TTA TTA
8770949 CAAATAAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 4 0.08
3 39 0.78
4 6 0.12
5 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8770925 original size:23 final size:23
Alignment explanation
Indices: 8770883--8770948 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
8770873 TTATCCCATT
*
8770883 TTTTATTATT-ATCATCATTA-TA
1 TTTTATTATTAAT-ATTATTATTA
8770905 TATTTATTATTAATATTATTATTA
1 T-TTTATTATTAATATTATTATTA
8770929 TTTTACTT-TTAATATTATTA
1 TTTTA-TTATTAATATTATTA
8770949 CAAATAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
22 1 0.03
23 31 0.79
24 7 0.18
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATTATTAATATTATTATTA
Found at i:8771991 original size:21 final size:21
Alignment explanation
Indices: 8771947--8771991 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8771937 TACCCGAAAA
* *
8771947 AGTCAACAGTCGGTCAATGGC
1 AGTCAACAGCCGGTCAACGGC
8771968 AGTCAAC-GCCGGTCAACGGTC
1 AGTCAACAGCCGGTCAACGG-C
8771989 AGT
1 AGT
8771992 GCAGGTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.18
Consensus pattern (21 bp):
AGTCAACAGCCGGTCAACGGC
Found at i:8774315 original size:24 final size:24
Alignment explanation
Indices: 8774288--8774334 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8774278 GAAATAAGAA
* *
8774288 ATCATAACAGAATTCAGATCAGAT
1 ATCAAAACAGAATCCAGATCAGAT
*
8774312 ATCAAAACAGAATCCAGCTCAGA
1 ATCAAAACAGAATCCAGATCAGA
8774335 AATTAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.13, T:0.19
Consensus pattern (24 bp):
ATCAAAACAGAATCCAGATCAGAT
Found at i:8775851 original size:20 final size:21
Alignment explanation
Indices: 8775803--8775867 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 21
8775793 TCAACGATCG
* *
8775803 GTCAACAGTCGGTCAACGGTC-
1 GTCAAC-GACGGTCAATGGTCA
*
8775824 GATCAACGACGGTTAATGG-CA
1 G-TCAACGACGGTCAATGGTCA
*
8775845 GTCAACGCCGGTCAATGGTCA
1 GTCAACGACGGTCAATGGTCA
8775866 GT
1 GT
8775868 GCAGTTCAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
20 16 0.44
21 15 0.42
22 5 0.14
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (21 bp):
GTCAACGACGGTCAATGGTCA
Found at i:8783433 original size:693 final size:693
Alignment explanation
Indices: 8782104--8783481 Score: 2465
Period size: 693 Copynumber: 2.0 Consensus size: 693
8782094 TTTTTATAGG
8782104 GGAGTCAGCTCATCACAACTACCGTTCCACACTCTAGGTAAAAGGGAGCATACCTGCCACCCCCA
1 GGAGTCAGCTCATCACAACTACCGTTCCACACTCTAGGTAAAAGGGAGCATACCTGCCACCCCCA
8782169 AGCTAGTCGGGCAGAGTCATCCTGTGACTACTTTCATTCACTCATATGCCTTGGCTACTCTTAAT
66 AGCTAGTCGGGCAGAGTCATCCTGTGACTACTTTCATTCACTCATATGCCTTGGCTACTCTTAAT
*
8782234 TTCTTTTGGAGTTTTTATTATTCATGCCTTTGCATAGAGGAGTGTCCCTTTGTATTTTTTGAGGT
131 TTCTTTTGGAGTTTTTATTATTCATGCCTTTGCACAGAGGAGTGTCCCTTTGTATTTTTTGAGGT
8782299 TTCAAGTTTTTAAACACTAGAGAGTTTTTACTTTACCCTTAGAATATTTTTAAAGCCTCGTCAAT
196 TTCAAGTTTTTAAACACTAGAGAGTTTTTACTTTACCCTTAGAATATTTTTAAAGCCTCGTCAAT
*
8782364 TAGAAAGTTCTTTCCCTAAAATTTTACAGATTACCTAGAGCAATGACAGCCTACAATTATGTTTA
261 TAGAAAGTTCTTTCCCTAAAATTTTACAGATTACCTAGAGCAAAGACAGCCTACAATTATGTTTA
*
8782429 TAAGTTTCAAAGGATCAAGCCTAGGGTTGGTTCTCTTCTCCAGACAGTCTTTACAATAATTTTGG
326 TAAGTTTCAAAGGATCAAGCCTAGGGTCGGTTCTCTTCTCCAGACAGTCTTTACAATAATTTTGG
* *
8782494 CCTAGGCAATATGATTTTGCATTCATCATTGGGCATCCCTAATTCATTCATAACAATAATCTTAA
391 CCTAGGCAATATAATTTTGCATTCATCATTAGGCATCCCTAATTCATTCATAACAATAATCTTAA
*
8782559 CATGCTTATGTTATGAAAACCAAAATTTTCAACCAAATATCATCCATTACTATTTAACAAAGTAT
456 CATGCTTATGTCATGAAAACCAAAATTTTCAACCAAATATCATCCATTACTATTTAACAAAGTAT
8782624 GGCAAAATGGACAACACCTCCCCCAAACTTGAGGAATACATTGTCCTCAATGCATGAAAACTACA
521 GGCAAAATGGACAACACCTCCCCCAAACTTGAGGAATACATTGTCCTCAATGCATGAAAACTACA
* *
8782689 TTAAATGCTACTATATGCAAATGCGAAAATAAAAATAAAAATGACGACTAAACAAAAGCTTACTG
586 TTAAATGCTACTATATGCAAATGCGAAAATAAAAATAAAAACGAAGACTAAACAAAAGCTTACTG
*
8782754 TGGTGGTGTGGCTTGACTTCACACCCTCGTGCGGCGTCACTTT
651 TAGTGGTGTGGCTTGACTTCACACCCTCGTGCGGCGTCACTTT
* * *
8782797 GGAGTCAGCTCATCACAACTACCGTTCCACACTCTAGGTAAAATGGAGCATACCTTCCA-CCCTA
1 GGAGTCAGCTCATCACAACTACCGTTCCACACTCTAGGTAAAAGGGAGCATACCTGCCACCCCCA
8782861 AGCTAGTCGGGCAGAGTCATCCTGTGACTACTTTCATTCACTCATATGCCTTGGCTACTCTTAAT
66 AGCTAGTCGGGCAGAGTCATCCTGTGACTACTTTCATTCACTCATATGCCTTGGCTACTCTTAAT
*
8782926 TTCTTTTGGAGTTTTTATTATTCATGCCTTTGCACAGAGGAGTGTCCCTTTGTATTTTTTCGAGT
131 TTCTTTTGGAGTTTTTATTATTCATGCCTTTGCACAGAGGAGTGTCCCTTTGTATTTTTT-GAGG
*
8782991 TTTCAAGTTTTTAAACACTAGAGAGTTTTTACTTTACCCTTAGAATATTTTTAAAGTCTC-TGCA
195 TTTCAAGTTTTTAAACACTAGAGAGTTTTTACTTTACCCTTAGAATATTTTTAAAGCCTCGT-CA
* * * *
8783055 ATTAGAAAGTTCTTTTCCTAAACTTTTATAGATTACCTAGAGCAAAGACAGCCTACAATTGTGTT
259 ATTAGAAAGTTCTTTCCCTAAAATTTTACAGATTACCTAGAGCAAAGACAGCCTACAATTATGTT
* *
8783120 TATAAGTTTCAAAGGATCAAGCCTAGGGTCGGTTCTCTTTTTCAGACAGTCTTTACAATAATTTT
324 TATAAGTTTCAAAGGATCAAGCCTAGGGTCGGTTCTCTTCTCCAGACAGTCTTTACAATAATTTT
*
8783185 GGCCTAGGCAATATAATTTTGCATTCATCATTAGGCATCCCTAATTCATTCCTAACAATAATCTT
389 GGCCTAGGCAATATAATTTTGCATTCATCATTAGGCATCCCTAATTCATTCATAACAATAATCTT
* * * *
8783250 AACCTGCTTATGTCATGACAACCAAAATTTTCAACCAATTATTATCCATTACTATTTAACAAAGT
454 AACATGCTTATGTCATGAAAACCAAAATTTTCAACCAAATATCATCCATTACTATTTAACAAAGT
*
8783315 ATGG-AAGAATGGACAACACCTCCCCCAAACTTGAGGAATGCATTGTCCTCAATGCATGAAAACT
519 ATGGCAA-AATGGACAACACCTCCCCCAAACTTGAGGAATACATTGTCCTCAATGCATGAAAACT
8783379 ACATTAAATGCTACTATATGCAAATGCGAAAATAAAAATAAAAACGAAGACTAAACAAAAGCTTA
583 ACATTAAATGCTACTATATGCAAATGCGAAAATAAAAATAAAAACGAAGACTAAACAAAAGCTTA
*
8783444 CTGTAGTGGTGTGGCTTGACTTCACGCCCTCGTGCGGC
648 CTGTAGTGGTGTGGCTTGACTTCACACCCTCGTGCGGC
8783482 ATCGTTTGAT
Statistics
Matches: 655, Mismatches: 27, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
692 131 0.20
693 524 0.80
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (693 bp):
GGAGTCAGCTCATCACAACTACCGTTCCACACTCTAGGTAAAAGGGAGCATACCTGCCACCCCCA
AGCTAGTCGGGCAGAGTCATCCTGTGACTACTTTCATTCACTCATATGCCTTGGCTACTCTTAAT
TTCTTTTGGAGTTTTTATTATTCATGCCTTTGCACAGAGGAGTGTCCCTTTGTATTTTTTGAGGT
TTCAAGTTTTTAAACACTAGAGAGTTTTTACTTTACCCTTAGAATATTTTTAAAGCCTCGTCAAT
TAGAAAGTTCTTTCCCTAAAATTTTACAGATTACCTAGAGCAAAGACAGCCTACAATTATGTTTA
TAAGTTTCAAAGGATCAAGCCTAGGGTCGGTTCTCTTCTCCAGACAGTCTTTACAATAATTTTGG
CCTAGGCAATATAATTTTGCATTCATCATTAGGCATCCCTAATTCATTCATAACAATAATCTTAA
CATGCTTATGTCATGAAAACCAAAATTTTCAACCAAATATCATCCATTACTATTTAACAAAGTAT
GGCAAAATGGACAACACCTCCCCCAAACTTGAGGAATACATTGTCCTCAATGCATGAAAACTACA
TTAAATGCTACTATATGCAAATGCGAAAATAAAAATAAAAACGAAGACTAAACAAAAGCTTACTG
TAGTGGTGTGGCTTGACTTCACACCCTCGTGCGGCGTCACTTT
Found at i:8790862 original size:21 final size:20
Alignment explanation
Indices: 8790838--8790877 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8790828 TACTTTGTTT
*
8790838 AAAAGAGCAATAACTTAAGTG
1 AAAAGA-CAATAAATTAAGTG
*
8790859 AAAAGACTATAAATTAAGT
1 AAAAGACAATAAATTAAGT
8790878 CTGTTTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (20 bp):
AAAAGACAATAAATTAAGTG
Found at i:8802689 original size:44 final size:44
Alignment explanation
Indices: 8802639--8802727 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
8802629 TCGTCTAGAA
*
8802639 TGGATGAACATCTACCTTGGC-CGAATGGGCTTGTGATGATTCAT
1 TGGATGAACATCTACCTT-GCTCAAATGGGCTTGTGATGATTCAT
* *
8802683 TGGATGAACATCTCCCTTGCTCAAATGGTCTTGTGATGATTCAT
1 TGGATGAACATCTACCTTGCTCAAATGGGCTTGTGATGATTCAT
8802727 T
1 T
8802728 TTGGCGCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (44 bp):
TGGATGAACATCTACCTTGCTCAAATGGGCTTGTGATGATTCAT
Found at i:8807164 original size:111 final size:111
Alignment explanation
Indices: 8806960--8807166 Score: 299
Period size: 111 Copynumber: 1.9 Consensus size: 111
8806950 TGCCACTAAT
* * * **
8806960 GAAACTTATCGATCGATTTTGATTAATGCATAACAGTGCATTTTCGGCATAAAAGGTGCCATTCA
1 GAAACTTATCGATCAATTTTGATTAATGCATAACAGTGCATTATCGACATAAAAGGTGCCACCCA
* * *
8807025 TGGTATTCATAAAATGTGAATTATCATTTCGACATACTTCGTGTAC
66 TGGTATTCATAAAAGGTGAATGACCATTTCGACATACTTCGTGTAC
* * *
8807071 GAAAGTTATCTATCAATTTTG-TTATATGCATAACAGTGCATTATCGACATAAAAGGTTCCACCC
1 GAAACTTATCGATCAATTTTGATTA-ATGCATAACAGTGCATTATCGACATAAAAGGTGCCACCC
8807135 ATGGTATTCATAAAAGGTGAATGACCATTTCG
65 ATGGTATTCATAAAAGGTGAATGACCATTTCG
8807167 GCACTTCAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 3 0.04
111 81 0.96
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (111 bp):
GAAACTTATCGATCAATTTTGATTAATGCATAACAGTGCATTATCGACATAAAAGGTGCCACCCA
TGGTATTCATAAAAGGTGAATGACCATTTCGACATACTTCGTGTAC
Found at i:8825623 original size:2 final size:2
Alignment explanation
Indices: 8825616--8825666 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
8825606 CAATTGACTC
8825616 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8825658 TG TG TG TG T
1 TG TG TG TG T
8825667 AAAAAGATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:8825994 original size:17 final size:17
Alignment explanation
Indices: 8825960--8826012 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
8825950 TATTTTTATT
*
8825960 TAATAATTTATAATTTATTA
1 TAAT-ATTTAT-A-TTATAA
*
8825980 TAATATTTGTATTATAA
1 TAATATTTATATTATAA
8825997 TAATATTTATATTATA
1 TAATATTTATATTATA
8826013 TTCAATCCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 20 0.67
18 1 0.03
19 5 0.17
20 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAATATTTATATTATAA
Found at i:8826595 original size:54 final size:53
Alignment explanation
Indices: 8826507--8826810 Score: 412
Period size: 54 Copynumber: 5.6 Consensus size: 53
8826497 AATCTATATG
* * * *
8826507 TTGT-AATTACCGTATTGGCACTATGTGTGTAACCCACGCAATTCATAATGAGT
1 TTGTGAATTACCATA-TCGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
*
8826560 TTGTGAATTATCATATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCATATC-GCACTATGTGTGCAACCCACGTAATTCATAATGAGT
*
8826614 TTGTGAATTACCATATCGACACTATGTGTGCAACCCACGTAATCCATAATGAGT
1 TTGTGAATTACCATATCG-CACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * * *
8826668 TTGTGAATTACCGTATTGGCACTATGTGTGCAACTCACGTAATTCATAATGATT
1 TTGTGAATTACCATA-TCGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* ** * *
8826722 TTGTGAATTTCTGTATCGGCACTATGTGTGCAACCCTCGTAATTCATAGTGAGT
1 TTGTGAATTACCATATC-GCACTATGTGTGCAACCCACGTAATTCATAATGAGT
8826776 TTGTGAATTACCATATCGACACTATGTGTGCAACC
1 TTGTGAATTACCATATCG-CACTATGTGTGCAACC
8826811 TGAGTTTGTG
Statistics
Matches: 223, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
53 8 0.04
54 213 0.96
55 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (53 bp):
TTGTGAATTACCATATCGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
Found at i:8826778 original size:162 final size:161
Alignment explanation
Indices: 8826507--8826810 Score: 511
Period size: 162 Copynumber: 1.9 Consensus size: 161
8826497 AATCTATATG
*
8826507 TTGTAATTACCGTATTGGCACTATGTGTGTAACCCACGCAATTCATAATGAGTTTGTGAATTATC
1 TTGTAATTACCGTATTGGCACTATGTGTGCAACCCACGCAATTCATAATGAGTTTGTGAATTATC
8826572 ATATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGACACT
66 ATATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGACACT
8826637 ATGTGTGCAACCCACGTAATCCATAATGAGT
131 ATGTGTGCAACCCACGTAATCCATAATGAGT
* * *
8826668 TTGTGAATTACCGTATTGGCACTATGTGTGCAACTCACGTAATTCATAATGATTTTGTGAATT-T
1 TTGT-AATTACCGTATTGGCACTATGTGTGCAACCCACGCAATTCATAATGAGTTTGTGAATTAT
* * * *
8826732 CTGTATCGGCACTATGTGTGCAACCCTCGTAATTCATAGTGAGTTTGTGAATTACCATATCGACA
65 C-ATATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGACA
8826797 CTATGTGTGCAACC
129 CTATGTGTGCAACC
8826811 TGAGTTTGTG
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
161 6 0.05
162 127 0.95
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (161 bp):
TTGTAATTACCGTATTGGCACTATGTGTGCAACCCACGCAATTCATAATGAGTTTGTGAATTATC
ATATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGACACT
ATGTGTGCAACCCACGTAATCCATAATGAGT
Found at i:8826839 original size:40 final size:40
Alignment explanation
Indices: 8826771--8826848 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
8826761 TAATTCATAG
8826771 TGAGTTTGTGAATTACCATATCGACACTATGTGTGCAACC
1 TGAGTTTGTGAATTACCATATCGACACTATGTGTGCAACC
***
8826811 TGAGTTTGTGAATTATTGTATCTG-CACTATGTGTGCAA
1 TGAGTTTGTGAATTACCATATC-GACACTATGTGTGCAA
8826849 AACCACGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (40 bp):
TGAGTTTGTGAATTACCATATCGACACTATGTGTGCAACC
Found at i:8827385 original size:21 final size:20
Alignment explanation
Indices: 8827344--8827391 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
8827334 GTTTCATATT
* **
8827344 TTTATTTAGTATTTTTTTAA
1 TTTATTTAATATTTTAATAA
8827364 TTTAGTTTAATATTTTAATAA
1 TTTA-TTTAATATTTTAATAA
8827385 TTATATT
1 TT-TATT
8827392 GAAGGATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTATTTAATATTTTAATAA
Found at i:8837200 original size:14 final size:14
Alignment explanation
Indices: 8837181--8837221 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
8837171 TAATGGGGAG
8837181 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
8837195 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
*
8837209 TAATCTCTGCAAA
1 TAATCCCTGCAAA
8837222 TAGACAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:8846542 original size:16 final size:17
Alignment explanation
Indices: 8846517--8846549 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8846507 GGGTCTGCTG
*
8846517 GTGGACTGATG-TGTTT
1 GTGGAATGATGATGTTT
8846533 GTGGAATGATGATGTTT
1 GTGGAATGATGATGTTT
8846550 TTGAGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.42
Consensus pattern (17 bp):
GTGGAATGATGATGTTT
Found at i:8853294 original size:16 final size:16
Alignment explanation
Indices: 8853273--8853304 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8853263 GATTTAGTTA
8853273 CTAAACATGTTTTGGT
1 CTAAACATGTTTTGGT
*
8853289 CTAAACGTGTTTTGGT
1 CTAAACATGTTTTGGT
8853305 ATCTAGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (16 bp):
CTAAACATGTTTTGGT
Found at i:8856220 original size:50 final size:50
Alignment explanation
Indices: 8856162--8856271 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
8856152 GTAGCAGTAA
* * *
8856162 AGCGCGCCCCCTGA-ACCGCGTTATAT-GCTGATTTGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGACA-CGCGATAT-TCGCTGATCTGGCGCCACGTGGGTAT
* *
8856212 AGCGCGCCCCCTGCCACGCGATATTCGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGACACGCGATATTCGCTGATCTGGCGCCACGTGGGTAT
8856262 AGCGCGCCCC
1 AGCGCGCCCC
8856272 TTGATCCACA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
49 1 0.02
50 51 0.96
51 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.31, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGACACGCGATATTCGCTGATCTGGCGCCACGTGGGTAT
Found at i:8856425 original size:10 final size:10
Alignment explanation
Indices: 8856410--8856449 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
8856400 TTTATCACAC
8856410 CAAATTCTCT
1 CAAATTCTCT
8856420 CAAATTCTCT
1 CAAATTCTCT
8856430 -AAATTTCTCT
1 CAAA-TTCTCT
*
8856440 CAAATACTCT
1 CAAATTCTCT
8856450 ATCTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:8856778 original size:111 final size:111
Alignment explanation
Indices: 8856584--8856797 Score: 392
Period size: 111 Copynumber: 1.9 Consensus size: 111
8856574 ATATATCTCT
* *
8856584 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
8856649 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATATTG
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATATTG
* *
8856695 ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTATTAATTAGT
1 ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
8856760 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
8856798 TTTTTGTAAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (111 bp):
ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATATTG
Found at i:8857077 original size:12 final size:12
Alignment explanation
Indices: 8857060--8857096 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8857050 ATTTATAAGA
8857060 GAGGAGAGATGC
1 GAGGAGAGATGC
*
8857072 GA-G-GAGATGT
1 GAGGAGAGATGC
8857082 GAGGAGAGATGC
1 GAGGAGAGATGC
8857094 GAG
1 GAG
8857097 AACCGGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.32, C:0.05, G:0.51, T:0.11
Consensus pattern (12 bp):
GAGGAGAGATGC
Found at i:8858845 original size:64 final size:62
Alignment explanation
Indices: 8858754--8858881 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 62
8858744 CTATTTTTTA
* ** *
8858754 ATTTGCAAATTTCATTTTTAGGTAATTTGAATATTATATAAAATGTGTTTTTAAATTCTGTT
1 ATTTGCAAATTTAATTTTTAAATAATTTGAATATTATATAAAATATGTTTTTAAATTCTGTT
8858816 ATTTGCAAATTTAAATTTTTTAAATAATTTGAATATTATATAAAATATGTTTTTAAATTCTGTT
1 ATTTGCAAATTT-AA-TTTTTAAATAATTTGAATATTATATAAAATATGTTTTTAAATTCTGTT
8858880 AT
1 AT
8858882 AATATTCTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 12 0.20
63 1 0.02
64 47 0.78
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.52
Consensus pattern (62 bp):
ATTTGCAAATTTAATTTTTAAATAATTTGAATATTATATAAAATATGTTTTTAAATTCTGTT
Found at i:8860070 original size:2 final size:2
Alignment explanation
Indices: 8860058--8860110 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
8860048 TATTAGGAAC
*
8860058 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8860100 TA TA TA TA TA T
1 TA TA TA TA TA T
8860111 TTAAACATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8860810 original size:12 final size:12
Alignment explanation
Indices: 8860793--8860822 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
8860783 TGAGCAAGCT
8860793 TTGCATCTATCA
1 TTGCATCTATCA
8860805 TTGCATCTATCA
1 TTGCATCTATCA
8860817 TTGCAT
1 TTGCAT
8860823 ACATACACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (12 bp):
TTGCATCTATCA
Found at i:8862312 original size:60 final size:60
Alignment explanation
Indices: 8862219--8862346 Score: 170
Period size: 60 Copynumber: 2.1 Consensus size: 60
8862209 TACATCATAT
* * ** *
8862219 TCCCTAAACTATAACTCTTATTTTAAATTGATCCTTAAACTTTTGAA-CATTTTAATTTCA
1 TCCCTAAACTATAACCCTTATTCTAAATTGATCCCAAAACTTTTGAATC-TTCTAATTTCA
*
8862279 TCCCTAAACTATGACCCTCT-TTCTAAATTGATCCCAAAACTTTTGAATCTTCTAATTTCA
1 TCCCTAAACTATAACCCT-TATTCTAAATTGATCCCAAAACTTTTGAATCTTCTAATTTCA
8862339 TCCCTAAA
1 TCCCTAAA
8862347 TTAATCTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
60 58 0.97
61 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (60 bp):
TCCCTAAACTATAACCCTTATTCTAAATTGATCCCAAAACTTTTGAATCTTCTAATTTCA
Found at i:8862341 original size:29 final size:30
Alignment explanation
Indices: 8862255--8862342 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 30
8862245 ATTGATCCTT
* *
8862255 AAACTTTTGAA-CATTTTAATTTCATCCCT
1 AAACTTTTGAATCATTCTAATTTCATCCCA
* * * * *
8862284 AAAC-TATGACCCTCTTTCTAAATTGATCCCA
1 AAACTTTTGA--ATCATTCTAATTTCATCCCA
8862315 AAACTTTTGAATC-TTCTAATTTCATCCC
1 AAACTTTTGAATCATTCTAATTTCATCCC
8862343 TAAATTAATC
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
28 4 0.09
29 17 0.39
30 2 0.05
31 17 0.39
32 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTTGAATCATTCTAATTTCATCCCA
Found at i:8863347 original size:22 final size:23
Alignment explanation
Indices: 8863322--8863379 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
8863312 TCAAATTAAT
8863322 GAAAACGTGCCA-AAAAACAGAA
1 GAAAACGTGCCATAAAAACAGAA
* * ** *
8863344 GAAAACGTACCATGAAGGCAGAT
1 GAAAACGTGCCATAAAAACAGAA
8863367 GAAAACGTGCCAT
1 GAAAACGTGCCAT
8863380 GCCATCAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.10
Consensus pattern (23 bp):
GAAAACGTGCCATAAAAACAGAA
Found at i:8863646 original size:15 final size:15
Alignment explanation
Indices: 8863626--8863655 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8863616 GATAATCGAC
8863626 AATCAATATTAAAAT
1 AATCAATATTAAAAT
8863641 AATCAATATTAAAAT
1 AATCAATATTAAAAT
8863656 TGATGTCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCAATATTAAAAT
Found at i:8864018 original size:22 final size:22
Alignment explanation
Indices: 8863993--8864312 Score: 435
Period size: 22 Copynumber: 14.5 Consensus size: 22
8863983 ATAATATTTT
*
8863993 TTTTAAAATACATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
8864015 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
8864037 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
8864059 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* ***
8864081 TTTTAAAATAGATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
***
8864103 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
8864125 TTTTTAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
8864147 TTTTTAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
8864169 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
* *
8864191 TTTAAAAATAAATCAATCGATA
1 TTTTAAAATAAATCAATCCATA
8864213 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
8864235 TTTTAAAATTAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
8864257 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
8864279 TTTTAAAATAAACCAATCCATA
1 TTTTAAAATAAATCAATCCATA
8864301 TTTTAAAATAAA
1 TTTTAAAATAAA
8864313 ATTTAAAATA
Statistics
Matches: 264, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
21 4 0.02
22 256 0.97
23 4 0.02
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:8864074 original size:66 final size:66
Alignment explanation
Indices: 8863993--8864316 Score: 479
Period size: 66 Copynumber: 4.9 Consensus size: 66
8863983 ATAATATTTT
*
8863993 TTTTAAAATACATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTCCAT
8864058 A
66 A
* *** *
8864059 TTTTAAAATAAATCAATCCATATTTTAAAATAGATTTTTCCATATTTTAAAATAAATTTTTCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTCCAT
8864124 A
66 A
* * ** *
8864125 TTTTTAAATAAATCAATCCATATTTTTAAATAAATCAATCCATATTTTAAAAT-AAATCAATACA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAAT-TTTCCA
8864189 TA
65 TA
* * * * *
8864191 TTTAAAAATAAATCAATCGATATTTTAAAATAAATCAATCCATATTTTAAAATTAATTTTTTCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTCCAT
8864256 A
66 A
*
8864257 TTTTAAAATAAATCAATCCATATTTTAAAATAAACCAATCCATATTTTAAAATAAAATTT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTT
8864317 AAAATAGATT
Statistics
Matches: 227, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
65 3 0.01
66 221 0.97
67 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (66 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTCCAT
A
Found at i:8866836 original size:3 final size:3
Alignment explanation
Indices: 8866828--8866856 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8866818 ATCGCTTTCT
8866828 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8866857 TTTTAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8866976 original size:17 final size:18
Alignment explanation
Indices: 8866956--8866998 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8866946 GTTTTTTATA
*
8866956 TTTTTCTTTT-TAACATT
1 TTTTTCTTTTCCAACATT
* *
8866973 TTTTTATTTTCCAACCTT
1 TTTTTCTTTTCCAACATT
8866991 TTTTTCTT
1 TTTTTCTT
8866999 CTTTTTCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTTCCAACATT
Found at i:8867141 original size:13 final size:13
Alignment explanation
Indices: 8867125--8867154 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8867115 CGAATTGGGT
8867125 TTTTAAATTTTAA
1 TTTTAAATTTTAA
8867138 TTTTAAATTTTAA
1 TTTTAAATTTTAA
8867151 TTTT
1 TTTT
8867155 TTTCGCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:8869650 original size:95 final size:95
Alignment explanation
Indices: 8869540--8869738 Score: 283
Period size: 95 Copynumber: 2.1 Consensus size: 95
8869530 AAATTATAAT
** **
8869540 ATTAT-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCTCGACATTAT
1 ATTATAATATACAATAAAGCTCAAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGACATTAT
*
8869604 GGATAAGATTTAGCTAGCATGATAAAGGTG
66 GGATAAGATTCAGCTAGCATGATAAAGGTG
* * * *
8869634 ATTATAATATACAATAAAGCTCAAGTTGTCCCTTTAGAGCAATTGGTTAAACACCTCGGCTTTAT
1 ATTATAATATACAATAAAGCTCAAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGACATTAT
* * *
8869699 GGATAATATTCATCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCATGATAAAGGTG
8869729 ATTATAATAT
1 ATTATAATAT
8869739 CTATACAACG
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 5 0.05
95 87 0.95
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTCAAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGACATTAT
GGATAAGATTCAGCTAGCATGATAAAGGTG
Found at i:8869799 original size:98 final size:98
Alignment explanation
Indices: 8869540--8869800 Score: 281
Period size: 95 Copynumber: 2.7 Consensus size: 98
8869530 AAATTATAAT
* * *
8869540 ATTAT-ATATACAATAAAG--C-TTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCTCGACAT
1 ATTATAATATACAATAAAGATCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGACTT
*
8869601 TATGGATAAGATTTAGCTAGCATGATAAAGGTG
66 TATGGATAAGATTCAGCTAGCATGATAAAGGTG
* * * *
8869634 ATTATAATATACAATAAAGCTCA---AGTTGTCCCTTTAGAGCAATTGGTTAAACACCTCGGCTT
1 ATTATAATATACAATAAAGATCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGACTT
* * *
8869696 TATGGATAATATTCATCTAGCCTGATAAAGGTG
66 TATGGATAAGATTCAGCTAGCATGATAAAGGTG
* * * * *
8869729 ATTATAATAT-CTATACAACGAT-ATTGAGCTGTCCCTCTAGAGTAATTGGTCAAACGTCAT-GA
1 ATTATAATATACAATA-AA-GATCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACG-CCTCGA
8869791 CTTTATGGAT
63 CTTTATGGAT
8869801 CCATCTAGCT
Statistics
Matches: 138, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
94 9 0.07
95 88 0.64
96 2 0.01
97 1 0.01
98 36 0.26
99 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (98 bp):
ATTATAATATACAATAAAGATCATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGACTT
TATGGATAAGATTCAGCTAGCATGATAAAGGTG
Found at i:8870935 original size:84 final size:84
Alignment explanation
Indices: 8870666--8870950 Score: 390
Period size: 84 Copynumber: 3.4 Consensus size: 84
8870656 TTGACATGTT
* *
8870666 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCG
1 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
8870731 AGAAGGGTTATCTTCCAAC
66 AGAAGGGTTATCTGCCAAC
* * * * * * *
8870750 AAAAGACCTTCGAGTTCGATTACATTTAGCTTAAAGGCATATCAAATTTACAGGATAACTCAAGG
1 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGG
* *
8870815 CTAGAAGGGTTATCTGTCAAC
64 CAAGAAGGGTTATCTGCCAAC
* *
8870836 AAAAGACCTTAGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATTGCTCAAGGCA
1 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* ***
8870901 AGAAAGACGATCTGCCAAC
66 AGAAGGGTTATCTGCCAAC
8870920 AAAAGACCTTCGAGTTCGATTACACTCAGCT
1 AAAAGACCTTCGAGTTCGATTACACTCAGCT
8870951 ACAACAAGAA
Statistics
Matches: 172, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
84 100 0.58
86 72 0.42
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (84 bp):
AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
AGAAGGGTTATCTGCCAAC
Found at i:8876508 original size:203 final size:202
Alignment explanation
Indices: 8876152--8876519 Score: 463
Period size: 203 Copynumber: 1.8 Consensus size: 202
8876142 TAGAGGAACC
* ** * *
8876152 ATTTACATCATAGCTCAAGGCGAGAAGGTTTATCTGTCAACAAAAACTTTCGAGTTCGATTCCAT
1 ATTTACACCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAACTTTCGAGTTCAATTCCAT
* * * * * * *
8876217 TTAGCTCAAGGGTGTATCAACCGCATGGTAGTAGCGAGGAACTACTTACCGGTTGAACTTTAAAC
66 TCAGCTCAAGGGTATATAAACCGCATAGTAGCAGCAAGGAACTACTTACCGGTAGAACTTTAAAC
* * *
8876282 CTGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGCGACTTAGCAACAAGGAACTATCTCC
131 CTGAGGTCTTTAAGCCAAGAAGAAAACCAAGGTTGGCTGCGACTTAGCAACAAGGAACTATCTCC
8876347 CAGCCTA
196 CAGCCTA
*
8876354 ATTTACACCATAGCTCAAGGTGAGAAGGGCTATCTATCAACAAAAACCTTTCGAGTTCAATTCCA
1 ATTTACACCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAA-CTTTCGAGTTCAATTCCA
* ** * *
8876419 TTCAGTTCGAA-GGTATATAAACTTCATAGTAGCAGCAAGGAACTAC-TATTCGGTAGAATTTTC
65 TTCAGCTC-AAGGGTATATAAACCGCATAGTAGCAGCAAGGAACTACTTA-CCGGTAGAACTTT-
* * *
8876482 ACACC-GATGTCTTTAAGCCGAGAAGAAAACCAAGGTTG
127 AAACCTGAGGTCTTTAAGCCAAGAAGAAAACCAAGGTTG
8876520 ACTACGATTT
Statistics
Matches: 138, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
202 43 0.31
203 89 0.64
204 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (202 bp):
ATTTACACCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAACTTTCGAGTTCAATTCCAT
TCAGCTCAAGGGTATATAAACCGCATAGTAGCAGCAAGGAACTACTTACCGGTAGAACTTTAAAC
CTGAGGTCTTTAAGCCAAGAAGAAAACCAAGGTTGGCTGCGACTTAGCAACAAGGAACTATCTCC
CAGCCTA
Found at i:8879823 original size:21 final size:21
Alignment explanation
Indices: 8879799--8879878 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 21
8879789 AGAACCCCAT
*
8879799 GGGGGTATCGATTCCCCTACA
1 GGGGGTATCGATTCCCATACA
* *
8879820 GGGGGAATC-AGTTCCCATTCAA
1 GGGGGTATCGA-TTCCCATAC-A
* * * *
8879842 AGGGGTAATCGGTTCCCTTA-T
1 GGGGGT-ATCGATTCCCATACA
8879863 GGGGGTATCGATTCCC
1 GGGGGTATCGATTCCC
8879879 TCTGCCAAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
20 10 0.23
21 20 0.45
22 5 0.11
23 9 0.20
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (21 bp):
GGGGGTATCGATTCCCATACA
Found at i:8885937 original size:13 final size:13
Alignment explanation
Indices: 8885919--8885943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8885909 TCGAATATAC
8885919 TTAGAAAATCTTT
1 TTAGAAAATCTTT
8885932 TTAGAAAATCTT
1 TTAGAAAATCTT
8885944 AAAATTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:8887701 original size:7 final size:7
Alignment explanation
Indices: 8887689--8887731 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
8887679 TATAATTTAA
8887689 TTATATT
1 TTATATT
8887696 TTATATT
1 TTATATT
* *
8887703 TCATAATC
1 TTAT-ATT
8887711 TTATATT
1 TTATATT
8887718 TTATATT
1 TTATATT
*
8887725 TCATATT
1 TTATATT
8887732 AGTTTAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (7 bp):
TTATATT
Found at i:8890637 original size:23 final size:22
Alignment explanation
Indices: 8890611--8890663 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
8890601 GTTTTTTTAA
8890611 GATTTTTTCAAAATACTTTTAGG
1 GATTTTTT-AAAATACTTTTAGG
* *
8890634 GATTTTCTGAAATACTTTTAGG
1 GATTTTTTAAAATACTTTTAGG
*
8890656 GTTTTTTT
1 GATTTTTT
8890664 TTATGAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (22 bp):
GATTTTTTAAAATACTTTTAGG
Found at i:8894296 original size:18 final size:18
Alignment explanation
Indices: 8894273--8894313 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8894263 AGGATTACAC
8894273 CATCATCA-AAGGCTGCAA
1 CATCATCACAA-GCTGCAA
*
8894291 CATCATCACAAGCTGTAA
1 CATCATCACAAGCTGCAA
8894309 CATCA
1 CATCA
8894314 CAACCACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (18 bp):
CATCATCACAAGCTGCAA
Found at i:8904387 original size:3 final size:3
Alignment explanation
Indices: 8904379--8904412 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
8904369 GTCCCAATTA
*
8904379 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8904413 AATAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:8904478 original size:22 final size:23
Alignment explanation
Indices: 8904419--8904472 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
8904409 ATTAAATAAA
*
8904419 AATTACAATTCAACCTAGGGCCC
1 AATTACAAATCAACCTAGGGCCC
*
8904442 AATTACAAATCAACCT-GGGGCC
1 AATTACAAATCAACCTAGGGCCC
*
8904464 ATTTACAAA
1 AATTACAAA
8904473 CAAACCCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (23 bp):
AATTACAAATCAACCTAGGGCCC
Found at i:8911663 original size:24 final size:24
Alignment explanation
Indices: 8911636--8911690 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
8911626 ATGGGTAGTG
8911636 CATCGATGCACATGTTAAGGGATA
1 CATCGATGCACATGTTAAGGGATA
* *
8911660 CATCGATGTACATGTTAAGGGATG
1 CATCGATGCACATGTTAAGGGATA
8911684 CATCGAT
1 CATCGAT
8911691 ACACTGTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (24 bp):
CATCGATGCACATGTTAAGGGATA
Found at i:8912166 original size:13 final size:14
Alignment explanation
Indices: 8912137--8912166 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8912127 AACCATGCAA
8912137 GTGATATGAACTAT
1 GTGATATGAACTAT
8912151 GTGATATGAA-TAT
1 GTGATATGAACTAT
8912164 GTG
1 GTG
8912167 GAAGATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:8912356 original size:18 final size:18
Alignment explanation
Indices: 8912333--8912368 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8912323 AGGGATTTAC
8912333 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
8912351 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
8912369 TTCATAGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:8912378 original size:23 final size:24
Alignment explanation
Indices: 8912348--8912399 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
8912338 TCATTCGGGA
8912348 CATAGTGGTCCTTCGGGAC-ATTT
1 CATAGTGGTCCTTCGGGACAATTT
8912371 CATAGTGGTCCTTCGGGACAAATTT
1 CATAGTGGTCCTTCGGGAC-AATTT
8912396 CATA
1 CATA
8912400 TCCCCTAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 19 0.70
25 8 0.30
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (24 bp):
CATAGTGGTCCTTCGGGACAATTT
Found at i:8913694 original size:20 final size:21
Alignment explanation
Indices: 8913664--8913703 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
8913654 AGCCGTTGGG
8913664 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
8913685 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
8913704 CTATGTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:8921326 original size:45 final size:45
Alignment explanation
Indices: 8921241--8921326 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
8921231 ATAATAAATA
* *
8921241 AAAGGAGGGTTCAAGATGAAAATCCAAAAAGGACATCTTGAAACT
1 AAAGGAGGGTTCAAGATGAAAACCCAAAAAGGACAGCTTGAAACT
* ** *
8921286 AAAGGA-GGTCTCAAGTTGAAAACCCGTAAAGGACGGCTTGA
1 AAAGGAGGGT-TCAAGATGAAAACCCAAAAAGGACAGCTTGA
8921327 GTGTCATTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 3 0.09
45 31 0.91
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (45 bp):
AAAGGAGGGTTCAAGATGAAAACCCAAAAAGGACAGCTTGAAACT
Found at i:8922591 original size:89 final size:89
Alignment explanation
Indices: 8922317--8923358 Score: 1434
Period size: 89 Copynumber: 11.7 Consensus size: 89
8922307 AGGGATGTTA
*
8922317 AAATTAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATGT-TTCTTATTTCAGATTT
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGAT-TCTTCTTATTTCAGATTT
* * *
8922381 GGTCTTCCTG-AAGAAGTAGTGAATC
65 GGTCTTCCCGAAAG-AGTAGCGAAGC
* *
8922406 AAATCAATCTTGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGA-TCTTCTTATTTCATATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
* *
8922470 GTATTCCC-AAATGAGTAGCAAAG-
66 GTCTTCCCGAAA-GAGTAGCGAAGC
* * * *
8922493 AGAATCAATCTCAAGTTTGATCTCCCCGGAAGAGTAGTGGAGTAGATTCTTCTTATTTCATATTT
1 A-AATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTT
*
8922558 GGTCTTCCCGAAAAAGTA-CTGAAGC
65 GGTCTTCCCGAAAGAGTAGC-GAAGC
* * * * * *
8922583 AAATCAATCTTGATTCTGATCTCCCTGGAAGAGTAGAGGAGCATATTCTTCTTATTTCATATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
* *
8922648 ATCTTCCCGAAAGAGTAGCAAAGC
66 GTCTTCCCGAAAGAGTAGCGAAGC
*
8922672 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTA-TGGGAGCAGATTCTTCTTATTTCATATTT
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGT-GGAGCAGATTCTTCTTATTTCAGATTT
*
8922736 GGTCTTCCCAAAAGAGTAGCGAAGC
65 GGTCTTCCCGAAAGAGTAGCGAAGC
* * *
8922761 AAATCAATCTCGAGTATGATATCCCCGGAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
*
8922826 GTCTTCTCGAAAGAGTAGCGAAGC
66 GTCTTCCCGAAAGAGTAGCGAAGC
* *
8922850 AAATCAATCTCAAGTCTGATATCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
*
8922915 GTCTTCCCGAAAGAGTAGCGAAGA
66 GTCTTCCCGAAAGAGTAGCGAAGC
* * * *
8922939 AAATCAATCTCGAGTCTGATCTCCTCGAAAGATTAGTGGAGCAAATTCTTCTTATTTCAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
* *
8923004 GTCTTCCCGACAGAGTAGCAAAGC
66 GTCTTCCCGAAAGAGTAGCGAAGC
* * *
8923028 AAATCAATCTCGAGTCTGATATCCCTGGAAGAGTAGTGGAGCAGATTCTTCTTATTTTAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
8923093 GTCTTCCCGAAAGAGTAGCGAAGC
66 GTCTTCCCGAAAGAGTAGCGAAGC
* * * *
8923117 AAATCAATCTCGAGTTTGATCTCCTCAGAAGAGTAGTGTAGCAGATTCTTCTTATTTCAGATTTG
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
*
8923182 GTCTTCTCGAAAGAGTAGCGAAGC
66 GTCTTCCCGAAAGAGTAGCGAAGC
* ** * * *
8923206 AAATCAATCTCGAGTCTGATATCCTTGGAAGAGTAGAT-GAGCATATTCTTTTTATTTCATATTT
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAG-TGGAGCAGATTCTTCTTATTTCAGATTT
*
8923270 GGTCTTCCTGAAAGAGTAGCGAAGC
65 GGTCTTCCCGAAAGAGTAGCGAAGC
* * * ** * * *
8923295 AAATCAATCTCGAGTCTGATCTCCCAGGAAAAGTAATACAGCATATTCTTTTTATTTTAGATTT
1 AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTT
8923359 TGTTTTCCAA
Statistics
Matches: 851, Mismatches: 89, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
87 2 0.00
88 73 0.09
89 769 0.90
90 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (89 bp):
AAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTG
GTCTTCCCGAAAGAGTAGCGAAGC
Found at i:8922806 original size:42 final size:41
Alignment explanation
Indices: 8922747--8922885 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 41
8922737 GTCTTCCCAA
8922747 AAGAGTAGCGAAGCAAATCAATCTCGAGTATGATATCCCCGG
1 AAGAGTAGCGAAGCAAATCAATCTC-AGTATGATATCCCCGG
* * * * * * * * * *
8922789 AAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCTCGA
1 AAGAGTAGCGAAGCAAA----TC-AATCTCAG-TATGATATCCCCGG
*
8922836 AAGAGTAGCGAAGCAAATCAATCTCAAGTCTGATATCCCCGG
1 AAGAGTAGCGAAGCAAATCAATCTC-AGTATGATATCCCCGG
8922878 AAGAGTAG
1 AAGAGTAG
8922886 TGGAGCAGAT
Statistics
Matches: 70, Mismatches: 20, Indels: 14
0.67 0.19 0.13
Matches are distributed among these distances:
42 35 0.50
43 4 0.06
46 4 0.06
47 27 0.39
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (41 bp):
AAGAGTAGCGAAGCAAATCAATCTCAGTATGATATCCCCGG
Found at i:8923517 original size:56 final size:55
Alignment explanation
Indices: 8923360--8923535 Score: 208
Period size: 55 Copynumber: 3.2 Consensus size: 55
8923350 TTTAGATTTT
* * * *
8923360 GTTTTCCAAATATTTCTCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCC
1 GTTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACAC
* * *
8923415 GTTTTCCAAAGATTTCTCGAGTCTTATCTCTCTAAAAGAATAGTGGAGCAGACAT
1 GTTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACAC
* * * * * * *
8923470 GTTTTTCGAAGATTTCTCGAGTATGATCTCCCCTGAAAGAATTGTGGAGTAGACTC
1 GTTTTCCAAAGATTTCTCGAGTCTTATCT-CCCTGAAAGAATAGTGGAGCAGACAC
*
8923526 GTCTTCCAAA
1 GTTTTCCAAA
8923536 ATTGATCTGA
Statistics
Matches: 100, Mismatches: 20, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
55 73 0.73
56 27 0.27
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (55 bp):
GTTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGACAC
Found at i:8923635 original size:81 final size:82
Alignment explanation
Indices: 8923489--8923850 Score: 433
Period size: 82 Copynumber: 4.4 Consensus size: 82
8923479 AGATTTCTCG
** * * * * *
8923489 AGTATGATCTCCCCTGAAAGAATTGTGGAGTAGACTCGTCTTCCAAAATTGATCTGACCACCTGA
1 AGTATGATCTCCCCTGAAAGAAGAGTGGAGCAGACCCATCTTCCAAAATTGATCTGACTACCCGA
8923554 AAAA-AGGGAACATATCA
66 AAAAGA-GGAACATATCA
* * ** * * *
8923571 AGTCTGATCT-CCCTGAAAGAATAGTGGAGCAGACTTATTTTCCAAAATTAATCTGACTACCTGA
1 AGTATGATCTCCCCTGAAAGAAGAGTGGAGCAGACCCATCTTCCAAAATTGATCTGACTACCCGA
*
8923635 AAAAGAGGAACAGATCA
66 AAAAGAGGAACATATCA
* * * * * *
8923652 AGTCTGATCTCCCCTGAAAGAAGAGAGGAGTAGACCCGTCTTCCAAAATTGATCTGATTACCCCA
1 AGTATGATCTCCCCTGAAAGAAGAGTGGAGCAGACCCATCTTCCAAAATTGATCTGACTA-CCCG
*
8923717 AAAAAGAGGAACATGTCA
65 AAAAAGAGGAACATATCA
** *
8923735 AGTATGATCTCCCCTGAAA-AGAGAAAGGAGCAGACCCATCTTCCAAAATCGATCTGACTACCCG
1 AGTATGATCTCCCCTGAAAGA-AGAGTGGAGCAGACCCATCTTCCAAAATTGATCTGACTACCCG
8923799 AAAAAGAGGAACATATCA
65 AAAAAGAGGAACATATCA
* *
8923817 AGTATGATCTCCCCTGAAGGAAGAGTGGATCAGA
1 AGTATGATCTCCCCTGAAAGAAGAGTGGAGCAGA
8923851 TTTCTCATTT
Statistics
Matches: 241, Mismatches: 34, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
81 71 0.29
82 99 0.41
83 71 0.29
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (82 bp):
AGTATGATCTCCCCTGAAAGAAGAGTGGAGCAGACCCATCTTCCAAAATTGATCTGACTACCCGA
AAAAGAGGAACATATCA
Found at i:8923819 original size:165 final size:163
Alignment explanation
Indices: 8923489--8923841 Score: 476
Period size: 165 Copynumber: 2.2 Consensus size: 163
8923479 AGATTTCTCG
** * * **
8923489 AGTATGATCTCCCCTGAAAGAATTGTGGAGTAGACTCGTCTTCCAAAATTGATCTGACCACCTGA
1 AGTATGATCTCCCCTGAAAGAAGAGAGGAGTAGACCCGTCTTCCAAAATTGATCTGACCACCCCA
* * ** *
8923554 AAAAAGGGAACATATCAAGTCTGATCTCCCTGAAAGAATAGTGGAGCAGACTTATTTTCCAAAAT
66 AAAAAGGGAACATATCAAGTATGATCTCCCTGAAAGAATAGAGGAGCAGACCCATCTTCCAAAAT
* *
8923619 TAATCTGACTACCTGAAAAAGAGGAACAGATCA
131 CAATCTGACTACCCGAAAAAGAGGAACAGATCA
* **
8923652 AGTCTGATCTCCCCTGAAAGAAGAGAGGAGTAGACCCGTCTTCCAAAATTGATCTGATTACCCCA
1 AGTATGATCTCCCCTGAAAGAAGAGAGGAGTAGACCCGTCTTCCAAAATTGATCTGACCACCCCA
*
8923717 AAAAAGAGGAACATGTCAAGTATGATCTCCCCTGAAAAGAGA-A-AGGAGCAGACCCATCTTCCA
66 AAAAAG-GGAACATATCAAGTATGATCT-CCCTG-AAAGA-ATAGAGGAGCAGACCCATCTTCCA
* *
8923780 AAATCGATCTGACTACCCGAAAAAGAGGAACATATCA
127 AAATCAATCTGACTACCCGAAAAAGAGGAACAGATCA
*
8923817 AGTATGATCTCCCCTGAAGGAAGAG
1 AGTATGATCTCCCCTGAAAGAAGAG
8923842 TGGATCAGAT
Statistics
Matches: 165, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
163 62 0.38
164 19 0.12
165 77 0.47
166 6 0.04
167 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (163 bp):
AGTATGATCTCCCCTGAAAGAAGAGAGGAGTAGACCCGTCTTCCAAAATTGATCTGACCACCCCA
AAAAAGGGAACATATCAAGTATGATCTCCCTGAAAGAATAGAGGAGCAGACCCATCTTCCAAAAT
CAATCTGACTACCCGAAAAAGAGGAACAGATCA
Found at i:8924029 original size:23 final size:23
Alignment explanation
Indices: 8924002--8924047 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8923992 TTAAATAACA
* *
8924002 ATTACAATTCAACTCGTGGCCAT
1 ATTACAATTCAACCCGGGGCCAT
8924025 ATTACAATTCAACCCGGGGCCAT
1 ATTACAATTCAACCCGGGGCCAT
8924048 TTAAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (23 bp):
ATTACAATTCAACCCGGGGCCAT
Found at i:8927924 original size:24 final size:24
Alignment explanation
Indices: 8927890--8927944 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
8927880 TTTTCTTTTC
* *
8927890 TTAACTT--AAATTTATTTTTATT
1 TTAACTTAAAAATATATTTTAATT
8927912 TTAACTTAAAAATATATTTTAATT
1 TTAACTTAAAAATATATTTTAATT
*
8927936 TTATCTTAA
1 TTAACTTAA
8927945 CTTAAAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.25
24 21 0.75
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAACTTAAAAATATATTTTAATT
Found at i:8927957 original size:30 final size:29
Alignment explanation
Indices: 8927900--8928188 Score: 198
Period size: 29 Copynumber: 9.9 Consensus size: 29
8927890 TTAACTTAAA
*
8927900 TTTATTTTTATTTTAACTTAAAAATATAT
1 TTTATTTTTATCTTAACTTAAAAATATAT
*
8927929 TTTAATTTTATCTTAACTTAAAAGATATA-
1 TTTATTTTTATCTTAACTTAAAA-ATATAT
*
8927958 TTTATTTTTATCTTAACCTTTAAAATATAT
1 TTTATTTTTATCTTAA-CTTAAAAATATAT
* * * * *
8927988 CTTATTTTTATTTTAACTTATTACATATAG
1 TTTATTTTTATCTTAACTTA-AAAATATAT
* * *
8928018 TATATTCTTA-ATT-A-TT--AAATATAT
1 TTTATTTTTATCTTAACTTAAAAATATAT
* * * * * * *
8928042 TCTATTTCTACCTTAAATTATTAAACATAA
1 TTTATTTTTATCTTAACTTA-AAAATATAT
*
8928072 TTTATTATTA-CTATAACTTAAAATATATATAT
1 TTTATTTTTATCT-TAACTT-AAA-A-ATATAT
* * *
8928104 TTTATTCTTATCTTAACTTTAAAATGTAT
1 TTTATTTTTATCTTAACTTAAAAATATAT
* * *
8928133 ATTTA-TTTTATTTTAATTTAAAAATAAAT
1 -TTTATTTTTATCTTAACTTAAAAATATAT
* *
8928162 TTTATTTTTATCTTAATTTTAAAATAT
1 TTTATTTTTATCTTAACTTAAAAATAT
8928189 TGTAAGAATA
Statistics
Matches: 202, Mismatches: 41, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
24 13 0.06
25 2 0.01
26 1 0.00
27 4 0.02
28 5 0.02
29 90 0.45
30 62 0.31
31 4 0.02
32 19 0.09
33 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTATTTTTATCTTAACTTAAAAATATAT
Found at i:8928016 original size:59 final size:58
Alignment explanation
Indices: 8927899--8928177 Score: 189
Period size: 59 Copynumber: 4.8 Consensus size: 58
8927889 CTTAACTTAA
* * *
8927899 ATTTATTTTTATTTTAACTTAAAAATATATTTTAATTTTATCTTAACTTAAAAGATAT
1 ATTTATTTTTATCTTAACTTAAAAATATATCTTAATTTTATCTTAACTTAAAACATAT
* * * **
8927957 ATTTATTTTTATCTTAACCTTTAAAATATATCTTATTTTTATTTTAACTTATTACATAT
1 ATTTATTTTTATCTTAA-CTTAAAAATATATCTTAATTTTATCTTAACTTAAAACATAT
* * * * * *
8928016 AGTATATTCTTA-ATT-A-TTAAATATAT-TC-T-ATTTCTACCTTAAATTATTAAACATA-
1 A-TTTATTTTTATCTTAACTTAAAAATATATCTTAATTT-TATCTTAACTTA--AAACATAT
* * * **
8928071 ATTTATTATTA-CTATAACTTAAAATATATATATTTTATTCTTATCTTAACTTTAAAATGTAT
1 ATTTATTTTTATCT-TAACTTAAAA-ATATAT-CTTAATT-TTATCTTAAC-TTAAAACATAT
* * * * *
8928133 ATTTA-TTTTATTTTAATTTAAAAATAAATTTTATTTTTATCTTAA
1 ATTTATTTTTATCTTAACTTAAAAATATATCTTAATTTTATCTTAA
8928178 TTTTAAAATA
Statistics
Matches: 170, Mismatches: 34, Indels: 34
0.71 0.14 0.14
Matches are distributed among these distances:
53 3 0.02
54 19 0.11
55 4 0.02
56 14 0.08
57 5 0.03
58 30 0.18
59 43 0.25
60 13 0.08
61 19 0.11
62 16 0.09
63 4 0.02
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.54
Consensus pattern (58 bp):
ATTTATTTTTATCTTAACTTAAAAATATATCTTAATTTTATCTTAACTTAAAACATAT
Found at i:8928109 original size:32 final size:34
Alignment explanation
Indices: 8928072--8928144 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 34
8928062 TTAAACATAA
8928072 TTTATTATTA-CTATAAC-TTAAAA-TATATATAT
1 TTTATTATTATCT-TAACTTTAAAAGTATATATAT
* *
8928104 TTTATTCTTATCTTAACTTTAAAATGTATATTTAT
1 TTTATTATTATCTTAACTTTAAAA-GTATATATAT
8928139 TTTATT
1 TTTATT
8928145 TTAATTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 13 0.37
33 8 0.23
35 14 0.40
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTATTATTATCTTAACTTTAAAAGTATATATAT
Found at i:8928250 original size:30 final size:29
Alignment explanation
Indices: 8928191--8928327 Score: 168
Period size: 29 Copynumber: 4.6 Consensus size: 29
8928181 TAAAATATTG
* *
8928191 TAAGAATAAAATATAAATATTTAAGTTAAGG
1 TAAGAATAAAATAT--ATTTTTAAGTTAAGA
* * *
8928222 TAAGAATAAATTGTATCTTTTAAATTAAGA
1 TAAGAATAAAATATAT-TTTTAAGTTAAGA
*
8928252 TAAGACTAAAATATATTTTTTAAGTTAA-A
1 TAAGAATAAAATATA-TTTTTAAGTTAAGA
8928281 TAAGAATAAAATATATTTTTAAGTTAAGA
1 TAAGAATAAAATATATTTTTAAGTTAAGA
*
8928310 TCAGAATAAAATATATTT
1 TAAGAATAAAATATATTT
8928328 AATAATTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.13
29 35 0.38
30 32 0.35
31 13 0.14
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.38
Consensus pattern (29 bp):
TAAGAATAAAATATATTTTTAAGTTAAGA
Found at i:8928284 original size:29 final size:30
Alignment explanation
Indices: 8928191--8928327 Score: 170
Period size: 30 Copynumber: 4.6 Consensus size: 30
8928181 TAAAATATTG
* * *
8928191 TAAGAATAAAATATAAATATTTAAGTTAAGG
1 TAAGAATAAAATAT-ATTTTTTAAGTTAAGA
* * * *
8928222 TAAGAATAAATTGTATCTTTTAAATTAAGA
1 TAAGAATAAAATATATTTTTTAAGTTAAGA
*
8928252 TAAGACTAAAATATATTTTTTAAGTTAA-A
1 TAAGAATAAAATATATTTTTTAAGTTAAGA
8928281 TAAGAATAAAATATA-TTTTTAAGTTAAGA
1 TAAGAATAAAATATATTTTTTAAGTTAAGA
*
8928310 TCAGAATAAAATATATTT
1 TAAGAATAAAATATATTT
8928328 AATAATTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
28 12 0.13
29 30 0.33
30 36 0.40
31 12 0.13
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.38
Consensus pattern (30 bp):
TAAGAATAAAATATATTTTTTAAGTTAAGA
Found at i:8928401 original size:18 final size:19
Alignment explanation
Indices: 8928380--8928420 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8928370 TTTTTTAGCA
* *
8928380 TTAAGT-TGTTAATTTAAT
1 TTAAGTATGTGAATTTAAG
8928398 TTAA-TATGTGAATTTAAG
1 TTAAGTATGTGAATTTAAG
8928416 TTAAG
1 TTAAG
8928421 ATATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TTAAGTATGTGAATTTAAG
Found at i:8928493 original size:17 final size:17
Alignment explanation
Indices: 8928473--8928506 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8928463 ATATATATAT
8928473 ATACTATATGTAGTCTG
1 ATACTATATGTAGTCTG
8928490 ATACTATATGTAGTCTG
1 ATACTATATGTAGTCTG
8928507 TTACAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
ATACTATATGTAGTCTG
Found at i:8930562 original size:2 final size:2
Alignment explanation
Indices: 8930555--8930631 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
8930545 ATATGAACTA
8930555 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
8930597 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
8930632 GTGCAAGTAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8945086 original size:25 final size:25
Alignment explanation
Indices: 8945052--8945108 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
8945042 GGAGGTATTA
*
8945052 TGAGCCTTTGGGACGAAAACTGTTT
1 TGAGCCTTTGGGAAGAAAACTGTTT
8945077 TGAGCCTTTGGGAAGAAAACTGTTT
1 TGAGCCTTTGGGAAGAAAACTGTTT
8945102 TGAGCCT
1 TGAGCCT
8945109 CAGGTGCAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (25 bp):
TGAGCCTTTGGGAAGAAAACTGTTT
Found at i:8945399 original size:15 final size:15
Alignment explanation
Indices: 8945379--8945412 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8945369 TCAGGCCAAA
8945379 TTGGTGGACTTACTG
1 TTGGTGGACTTACTG
*
8945394 TTGGTGGATTTACTG
1 TTGGTGGACTTACTG
8945409 TTGG
1 TTGG
8945413 CGGATGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.35, T:0.44
Consensus pattern (15 bp):
TTGGTGGACTTACTG
Found at i:8945417 original size:15 final size:15
Alignment explanation
Indices: 8945388--8945417 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8945378 ATTGGTGGAC
*
8945388 TTACTGTTGGTGGAT
1 TTACTGTTGGCGGAT
8945403 TTACTGTTGGCGGAT
1 TTACTGTTGGCGGAT
8945418 GGCAGCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.33, T:0.43
Consensus pattern (15 bp):
TTACTGTTGGCGGAT
Found at i:8951893 original size:30 final size:30
Alignment explanation
Indices: 8951854--8951910 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
8951844 TAATTATAAC
* *
8951854 AATTGATAAATTGAGTGACTTAATTGTTAT
1 AATTGATAAATAGAGTAACTTAATTGTTAT
* *
8951884 AATTTATAAATAGAGTAATTTAATTGT
1 AATTGATAAATAGAGTAACTTAATTGT
8951911 AACTAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (30 bp):
AATTGATAAATAGAGTAACTTAATTGTTAT
Found at i:8953558 original size:41 final size:40
Alignment explanation
Indices: 8953513--8953589 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
8953503 TGACTTTTTT
** *
8953513 TACAAAAATTGCTATAGACTTGTATTTTAGTGGCGTTCTTA
1 TACAAAAACCGCTATAGACTTGTA-CTTAGTGGCGTTCTTA
**
8953554 TACAAACGCCGCTATAGACTTGTACTTAGTGGCGTT
1 TACAAAAACCGCTATAGACTTGTACTTAGTGGCGTT
8953590 TGCATTTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 11 0.35
41 20 0.65
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (40 bp):
TACAAAAACCGCTATAGACTTGTACTTAGTGGCGTTCTTA
Found at i:8956748 original size:42 final size:42
Alignment explanation
Indices: 8956685--8956833 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 42
8956675 GGCGTTTGTA
* * *
8956685 TCCAAAAACGCCGCTACAGATCTGACCTTTTGCGACGTTTGC
1 TCCAAAAATGCCGCTATAGATCTGACCTTTTGCGACATTTGC
* * *
8956727 TCCAAAAATGCCACTATAGATCCGACCTTTTGCGACATTTTC
1 TCCAAAAATGCCGCTATAGATCTGACCTTTTGCGACATTTGC
** * * * * **
8956769 TTAAAAAATGCCGTTATAGATCTTGACCTATTGTGGCATTTAT
1 TCCAAAAATGCCGCTATAGATC-TGACCTTTTGCGACATTTGC
* *
8956812 TCC-AAAACGCCGCCATAGATCT
1 TCCAAAAATGCCGCTATAGATCT
8956834 AGACATATTG
Statistics
Matches: 85, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 69 0.81
43 15 0.18
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCCAAAAATGCCGCTATAGATCTGACCTTTTGCGACATTTGC
Found at i:8957355 original size:36 final size:36
Alignment explanation
Indices: 8957315--8957408 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
8957305 TGCTTAAATC
8957315 CATCAATAAAATATGTATGTATATCATGCAT-AGAAA
1 CATCAATAAAATATGTATGTATATCATGCATAAG-AA
* *
8957351 CATCAATAACATGTGTATGTATATCATGCATAAGAA
1 CATCAATAAAATATGTATGTATATCATGCATAAGAA
*
8957387 CATCAATATAATCATGTCATGT
1 CATCAATAAAAT-ATGT-ATGT
8957409 TTGCTTTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
36 41 0.82
37 5 0.10
38 4 0.08
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (36 bp):
CATCAATAAAATATGTATGTATATCATGCATAAGAA
Found at i:8958313 original size:14 final size:15
Alignment explanation
Indices: 8958289--8958330 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
8958279 TCTAAGTGTC
8958289 TCTTATTCACATAG-G
1 TCTT-TTCACATAGAG
8958304 TAC-TTTCACATAGAG
1 T-CTTTTCACATAGAG
8958319 TCTTTTCACATA
1 TCTTTTCACATA
8958331 TGCTTGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.42
15 13 0.54
16 1 0.04
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (15 bp):
TCTTTTCACATAGAG
Found at i:8965083 original size:21 final size:21
Alignment explanation
Indices: 8965039--8965088 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8965029 ATTTGAAGTG
*
8965039 CCACATATTTGTCCCGAATGA
1 CCACATAATTGTCCCGAATGA
*
8965060 CCACATAATTGTCCCGGA-GTA
1 CCACATAATTGTCCCGAATG-A
8965081 CCACATAA
1 CCACATAA
8965089 AACCCTCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (21 bp):
CCACATAATTGTCCCGAATGA
Found at i:8970028 original size:24 final size:24
Alignment explanation
Indices: 8970001--8970046 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8969991 CGAGCGATAA
8970001 AGCGTACTTCAAGTTGAGCAGTTG
1 AGCGTACTTCAAGTTGAGCAGTTG
*
8970025 AGCGTACTTCAGGTTGAGCAGT
1 AGCGTACTTCAAGTTGAGCAGT
8970047 CGACTTAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (24 bp):
AGCGTACTTCAAGTTGAGCAGTTG
Found at i:8973199 original size:139 final size:139
Alignment explanation
Indices: 8972949--8973227 Score: 558
Period size: 139 Copynumber: 2.0 Consensus size: 139
8972939 TTTTAATACT
8972949 ATATAAGCTTTCCTTAAGTTTATATAACACCCCAACTTCCATTACCAAACCAAAAATTAAAGGAA
1 ATATAAGCTTTCCTTAAGTTTATATAACACCCCAACTTCCATTACCAAACCAAAAATTAAAGGAA
8973014 GACTATAAATTTCATAATCTTACCTTTGTATGGAGAGGTGCACGGCAATAAGAAGAATAAAAGAA
66 GACTATAAATTTCATAATCTTACCTTTGTATGGAGAGGTGCACGGCAATAAGAAGAATAAAAGAA
8973079 AGAAAGAAA
131 AGAAAGAAA
8973088 ATATAAGCTTTCCTTAAGTTTATATAACACCCCAACTTCCATTACCAAACCAAAAATTAAAGGAA
1 ATATAAGCTTTCCTTAAGTTTATATAACACCCCAACTTCCATTACCAAACCAAAAATTAAAGGAA
8973153 GACTATAAATTTCATAATCTTACCTTTGTATGGAGAGGTGCACGGCAATAAGAAGAATAAAAGAA
66 GACTATAAATTTCATAATCTTACCTTTGTATGGAGAGGTGCACGGCAATAAGAAGAATAAAAGAA
8973218 AGAAAGAAA
131 AGAAAGAAA
8973227 A
1 A
8973228 GCTTCCAGAT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (139 bp):
ATATAAGCTTTCCTTAAGTTTATATAACACCCCAACTTCCATTACCAAACCAAAAATTAAAGGAA
GACTATAAATTTCATAATCTTACCTTTGTATGGAGAGGTGCACGGCAATAAGAAGAATAAAAGAA
AGAAAGAAA
Found at i:8979320 original size:31 final size:31
Alignment explanation
Indices: 8979282--8979342 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
8979272 TGTGAAAAGA
8979282 AAAAAAAATCATCAAATCACTATATTTAAAC
1 AAAAAAAATCATCAAATCACTATATTTAAAC
8979313 AAAAAAAATCATCAAATCACTATATTTAAA
1 AAAAAAAATCATCAAATCACTATATTTAAA
8979343 AATGATTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (31 bp):
AAAAAAAATCATCAAATCACTATATTTAAAC
Found at i:8982943 original size:28 final size:28
Alignment explanation
Indices: 8982912--8982967 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8982902 CCCAGAAAGG
* * *
8982912 AAATGCGAAACTAATAAACAAACTTCTA
1 AAATGCAAAAATAACAAACAAACTTCTA
8982940 AAATGCAAAAATAACAAACAAACTTCTA
1 AAATGCAAAAATAACAAACAAACTTCTA
8982968 CGATTGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.20
Consensus pattern (28 bp):
AAATGCAAAAATAACAAACAAACTTCTA
Found at i:8983069 original size:157 final size:158
Alignment explanation
Indices: 8982782--8983100 Score: 631
Period size: 157 Copynumber: 2.0 Consensus size: 158
8982772 CCCAGAAAGG
8982782 AAATGCAAAAATAACAAACAAACTTCTACGATTGGAGAGGAAAAAACCAAAAAAACTCATCAACA
1 AAATGCAAAAATAACAAACAAACTTCTACGATTGGAGAGGAAAAAACCAAAAAAACTCATCAACA
8982847 ACATCTTCTTGAGCTATCCTTAACTCTTTCAACAATAAATCATAACAGAACGAAACCCAGAAAGG
66 ACATCTTCTTGAGCTATCCTTAACTCTTTCAACAATAAATCATAACAGAACGAAACCCAGAAAGG
8982912 AAATGCGAAACTAATAAACAAACTTCTA
131 AAATGCGAAACTAATAAACAAACTTCTA
8982940 AAATGCAAAAATAACAAACAAACTTCTACGATTGGAGAGGAAAAAACC-AAAAAACTCATCAACA
1 AAATGCAAAAATAACAAACAAACTTCTACGATTGGAGAGGAAAAAACCAAAAAAACTCATCAACA
8983004 ACATCTTCTTGAGCTATCCTTAACTCTTTCAACAATAAATCATAACAGAACGAAACCCAGAAAGG
66 ACATCTTCTTGAGCTATCCTTAACTCTTTCAACAATAAATCATAACAGAACGAAACCCAGAAAGG
8983069 AAATGCGAAACTAATAAACAAACTTCTA
131 AAATGCGAAACTAATAAACAAACTTCTA
8983097 AAAT
1 AAAT
8983101 ATTGAAGGAA
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 113 0.70
158 48 0.30
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.20
Consensus pattern (158 bp):
AAATGCAAAAATAACAAACAAACTTCTACGATTGGAGAGGAAAAAACCAAAAAAACTCATCAACA
ACATCTTCTTGAGCTATCCTTAACTCTTTCAACAATAAATCATAACAGAACGAAACCCAGAAAGG
AAATGCGAAACTAATAAACAAACTTCTA
Found at i:8991186 original size:28 final size:27
Alignment explanation
Indices: 8991133--8991187 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
8991123 CAAACTTTTC
** **
8991133 ATATTTTCAAAAAAATGAAATTTAAAA
1 ATATTTTCAAAAAAAAAAAACATAAAA
8991160 ATATTTTCAAAAAATAAAAAACATAAAA
1 ATATTTTCAAAAAA-AAAAAACATAAAA
8991188 CAAAAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (27 bp):
ATATTTTCAAAAAAAAAAAACATAAAA
Found at i:8997435 original size:88 final size:86
Alignment explanation
Indices: 8997264--8997547 Score: 257
Period size: 88 Copynumber: 3.2 Consensus size: 86
8997254 AAAAAATTAA
* ** * * * * *
8997264 TATTAATATTATTAGCAATATTTTGATAATGGTATTATATAATTGTTTTGATAACGTAAGAAATT
1 TATTAGTATTATTATTAATATTTTAATAGTGGTATTATATAATTGTTTTGATAATGAAAGAAAAT
* * *
8997329 TTAATATAACATTCATTTAATAT
66 TT-AT-GAATAATCATTTAATAT
* * * *
8997352 TATTAGCATTATTATTAATATTTTAATAGTGGTGTTATATAATTGTTGTGATAATGAAATAAAAT
1 TATTAGTATTATTATTAATATTTTAATAGTGGTATTATATAATTGTTTTGATAATGAAAGAAAAT
* *
8997417 TTACTGGAATAGTGATTTAATAT
66 TTA-T-GAATAATCATTTAATAT
* * * * * * *
8997440 TGTTAGTTTTATTATTAATATTTGAATAGTAGTATTATATTATAGTTTTTATAAT-AAAGAAAAT
1 TATTAGTATTATTATTAATATTTTAATAGTGGTATTATATAATTGTTTTGATAATGAAAGAAAAT
*
8997504 TT-TGAAGTACTATTATTTTAATAT
66 TTATGAA-TA--ATCA-TTTAATAT
8997528 TATTAGTATTATTATTAATA
1 TATTAGTATTATTATTAATA
8997548 ATATTTTAGT
Statistics
Matches: 159, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
84 3 0.02
85 3 0.02
87 13 0.08
88 140 0.88
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.48
Consensus pattern (86 bp):
TATTAGTATTATTATTAATATTTTAATAGTGGTATTATATAATTGTTTTGATAATGAAAGAAAAT
TTATGAATAATCATTTAATAT
Found at i:8997540 original size:23 final size:23
Alignment explanation
Indices: 8997509--8997567 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
8997499 AAAATTTTGA
*
8997509 AGTACTATTATT-TTAATATTATT
1 AGTACTATTATTAATAATATT-TT
*
8997532 AGTATTATTATTAATAATATTTT
1 AGTACTATTATTAATAATATTTT
* *
8997555 AGTAGTACTATTA
1 AGTACTATTATTA
8997568 TATCATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (23 bp):
AGTACTATTATTAATAATATTTT
Found at i:8997542 original size:12 final size:12
Alignment explanation
Indices: 8997509--8997558 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
8997499 AAAATTTTGA
*
8997509 AGTACTATTATT
1 AGTAATATTATT
*
8997521 -TTAATATTATT
1 AGTAATATTATT
*
8997532 AGTATTATTATT
1 AGTAATATTATT
*
8997544 AATAATATT-TT
1 AGTAATATTATT
8997555 AGTA
1 AGTA
8997559 GTACTATTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
11 14 0.47
12 16 0.53
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (12 bp):
AGTAATATTATT
Found at i:8999557 original size:12 final size:13
Alignment explanation
Indices: 8999542--8999583 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
8999532 CGTATAAATG
8999542 ATACATATAC-AT
1 ATACATATACTAT
8999554 ATACATATACTAT
1 ATACATATACTAT
*
8999567 ATA-ATATGAATAT
1 ATACATAT-ACTAT
8999580 ATAC
1 ATAC
8999584 GACACAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (13 bp):
ATACATATACTAT
Found at i:8999692 original size:12 final size:10
Alignment explanation
Indices: 8999664--8999708 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 10
8999654 AATGAGCAAC
8999664 ATAA-ATAAT
1 ATAATATAAT
8999673 ATAATATAAT
1 ATAATATAAT
8999683 ATATACTATAAT
1 ATA-A-TATAAT
8999695 ATAA-AT-AT
1 ATAATATAAT
8999703 ATAATA
1 ATAATA
8999709 ATACGTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.19
9 7 0.22
10 8 0.25
11 2 0.06
12 9 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATATAAT
Found at i:8999727 original size:5 final size:5
Alignment explanation
Indices: 8999664--8999708 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
8999654 AATGAGCAAC
8999664 ATAA- ATAAT ATAAT ATAAT ATATACT ATAAT ATAA- AT-AT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATA-A-T ATAAT ATAAT ATAAT ATAAT A
8999709 ATACGTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.22
5 21 0.58
6 2 0.06
7 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Done.