Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_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: 5289199
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 23
Found at i:4273628 original size:18 final size:18
Alignment explanation
Indices: 4273605--4273650 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4273595 GAGGCGTCCG
4273605 TCTTCTCAACAAAAAC-CT
1 TCTTCTCAAC-AAAACTCT
* *
4273623 TCTTCTCAACCAAGCTCT
1 TCTTCTCAACAAAACTCT
4273641 TCTTCTCAAC
1 TCTTCTCAAC
4273651 TAAGGGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.28, C:0.37, G:0.02, T:0.33
Consensus pattern (18 bp):
TCTTCTCAACAAAACTCT
Found at i:4274204 original size:65 final size:66
Alignment explanation
Indices: 4274087--4274220 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 66
4274077 TTTCAAATAC
* **
4274087 ATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCGAATG-
1 ATTTTGTATACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATCGAATGC
4274151 T
66 T
* **
4274152 ATTTTGTATATCGATGCAC-AGACCATGCATCGATGCACTCCAGGCTCA-TTTGAAACATCGAAT
1 ATTTTGTATACCGATGCACAAG-CCATGCATCGATGCACTCCAGAAT-ATTTTGAAACATCGAAT
4274215 GCT
64 GCT
4274218 ATT
1 ATT
4274221 AGTGTACGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
64 2 0.03
65 53 0.88
66 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (66 bp):
ATTTTGTATACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATCGAATGC
T
Found at i:4274233 original size:65 final size:64
Alignment explanation
Indices: 4274087--4274235 Score: 160
Period size: 65 Copynumber: 2.3 Consensus size: 64
4274077 TTTCAAATAC
* **
4274087 ATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCGAATGT
1 ATTTAGTGTA-CGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATCGAATGT
* * **
4274152 ATTTTGTATATCGATGCAC-AGACCATGCATCGATGCACTCCAGGCTCA-TTTGAAACATCGAAT
1 ATTTAGTGTA-CGATGCACAAG-CCATGCATCGATGCACTCCAGAAT-ATTTTGAAACATCGAAT
4274215 GCT
63 G-T
4274218 A-TTAGTGTACGGATGCAC
1 ATTTAGTGTAC-GATGCAC
4274236 CTCTAGTGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
64 3 0.04
65 66 0.92
66 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (64 bp):
ATTTAGTGTACGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATCGAATGT
Found at i:4279746 original size:44 final size:43
Alignment explanation
Indices: 4279652--4279749 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 43
4279642 TTTTGTGCTC
* *
4279652 TGTGCATCGATACACTAGACAGTGTACCGATGCATCCCTTGAA
1 TGTGCATCGATACACCAGACAGTGCACCGATGCATCCCTTGAA
* * *
4279695 TGTGCATCGATACACCATGA-AGGTGCACTGATGTATTCCTTGAA
1 TGTGCATCGATACACCA-GACA-GTGCACCGATGCATCCCTTGAA
4279739 TGTGCATCGAT
1 TGTGCATCGAT
4279750 GCACTTTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 17 0.35
44 31 0.65
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTGCATCGATACACCAGACAGTGCACCGATGCATCCCTTGAA
Found at i:4279750 original size:23 final size:23
Alignment explanation
Indices: 4279679--4279750 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
4279669 GACAGTGTAC
* *
4279679 CGATGCATCCCTTGAATGTGCAT
1 CGATGTATACCTTGAATGTGCAT
* * *
4279702 CGA--TACACCATGAAGGTGCA-
1 CGATGTATACCTTGAATGTGCAT
*
4279722 CTGATGTATTCCTTGAATGTGCAT
1 C-GATGTATACCTTGAATGTGCAT
4279746 CGATG
1 CGATG
4279751 CACTTTGTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.39
23 20 0.56
24 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (23 bp):
CGATGTATACCTTGAATGTGCAT
Found at i:4281732 original size:22 final size:23
Alignment explanation
Indices: 4281692--4281744 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
4281682 TTGGATTGAT
*
4281692 ATGATTTTGGATTGTTTGAATTTG
1 ATGA-TTTGGATTGTTTGAATTAG
4281716 ATGATTTGGA-TGTTTGAATTAG
1 ATGATTTGGATTGTTTGAATTAG
4281738 ATG-TTTG
1 ATGATTTG
4281745 AACTTAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 6 0.21
24 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (23 bp):
ATGATTTGGATTGTTTGAATTAG
Found at i:4282497 original size:65 final size:65
Alignment explanation
Indices: 4282385--4282537 Score: 159
Period size: 65 Copynumber: 2.4 Consensus size: 65
4282375 GCACTCCATT
* * * **
4282385 TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAAT-ATTTTGAAAC
1 TCGAATGTATTTTGTATACCGATACACAAGCCATGCATCGATGCACTCCAGAATCA-TTTGAAAC
4282449 A
65 A
* **
4282450 TCGAATGTATTTTTTATACCGATACAC-AGACCATGCATCGAAT-CACTCCAGGCTCATTTGAAA
1 TCGAATGTATTTTGTATACCGATACACAAG-CCATGCATCG-ATGCACTCCAGAATCATTTGAAA
4282513 CA
64 CA
* * *
4282515 TCGAATGTAATTAGTGTACCGAT
1 TCGAATGTATTTTGTATACCGAT
4282538 GCACCCCTAG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
64 2 0.03
65 68 0.93
66 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (65 bp):
TCGAATGTATTTTGTATACCGATACACAAGCCATGCATCGATGCACTCCAGAATCATTTGAAACA
Found at i:4285415 original size:14 final size:14
Alignment explanation
Indices: 4285396--4285423 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4285386 AATGTTCCAC
4285396 AATAGAACATGTGA
1 AATAGAACATGTGA
4285410 AATAGAACATGTGA
1 AATAGAACATGTGA
4285424 CTTATACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AATAGAACATGTGA
Found at i:4285660 original size:6 final size:6
Alignment explanation
Indices: 4285651--4285713 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
4285641 GCATTTCATG
* * * * *
4285651 TTCAAT TTCAAT TTCAAT TTGAGT TTGAAT TTCAAT TTCAAT TTGAGT
1 TTCAAT TTCAAT TTCAAT TTCAAT TTCAAT TTCAAT TTCAAT TTCAAT
*
4285699 TTGAAT TTCAAT TTC
1 TTCAAT TTCAAT TTC
4285714 GGCTCCACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (6 bp):
TTCAAT
Found at i:4285670 original size:24 final size:24
Alignment explanation
Indices: 4285654--4285713 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
4285644 TTTCATGTTC
4285654 AATTTCAATTTCAATTTGAGTTTG
1 AATTTCAATTTCAATTTGAGTTTG
4285678 AATTTCAATTTCAATTTGAGTTTG
1 AATTTCAATTTCAATTTGAGTTTG
4285702 AATTTCAATTTC
1 AATTTCAATTTC
4285714 GGCTCCACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (24 bp):
AATTTCAATTTCAATTTGAGTTTG
Found at i:4287139 original size:20 final size:19
Alignment explanation
Indices: 4287093--4287139 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4287083 ATTTCTAAAC
*
4287093 CGATTAAAATTTTACAAAA
1 CGATTAAAATTTGACAAAA
* *
4287112 CAATTAAAATTTGACACAAT
1 CGATTAAAATTTGACA-AAA
4287132 CGATTAAA
1 CGATTAAA
4287140 TATAACATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (19 bp):
CGATTAAAATTTGACAAAA
Found at i:4287495 original size:19 final size:20
Alignment explanation
Indices: 4287452--4287495 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4287442 GTTAAAATAA
**
4287452 AGTATCGATACTTTTTTATT
1 AGTATCGATACTTTTTTACC
*
4287472 TGTATCGATACTTTTTT-CC
1 AGTATCGATACTTTTTTACC
4287491 AGTAT
1 AGTAT
4287496 GCTTCCCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (20 bp):
AGTATCGATACTTTTTTACC
Found at i:4289770 original size:22 final size:22
Alignment explanation
Indices: 4289745--4289787 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4289735 GCGTAAGTTT
*
4289745 TTATATATGTATCGATACTTTG
1 TTATATAGGTATCGATACTTTG
* *
4289767 TTATATCGGTCTCGATACTTT
1 TTATATAGGTATCGATACTTT
4289788 AATTCCATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (22 bp):
TTATATAGGTATCGATACTTTG
Found at i:4289839 original size:2 final size:2
Alignment explanation
Indices: 4289832--4289867 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4289822 AAATGTATCG
4289832 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
4289868 TTACATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4290428 original size:23 final size:22
Alignment explanation
Indices: 4290398--4290443 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
4290388 TTTAAAAAAA
*
4290398 CGCTACCTATTACGTTATATAAG
1 CGCTACCTAATACGTTAT-TAAG
*
4290421 CGCTACCTAATATGTTATTAAG
1 CGCTACCTAATACGTTATTAAG
4290443 C
1 C
4290444 TTGATAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (22 bp):
CGCTACCTAATACGTTATTAAG
Found at i:4290513 original size:225 final size:226
Alignment explanation
Indices: 4290010--4290933 Score: 1437
Period size: 225 Copynumber: 4.1 Consensus size: 226
4290000 TAACAAATCA
* *
4290010 AGTAATTAACCGGTTATGTTATCATTAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
* * *
4290075 TTTAGGTGTTACCTAATATATTCATAATACTAATAACAAATTAAGTAATTAACCTA-TTTATTAT
66 TTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * *
4290139 CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCGCT-TCTATTATG-TATATAAGTGCTAC
131 CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTAC
*
4290202 CTAATATATTATTATGCTTGATAATATTTCC
196 CTAATATATTATTATGCTTGATAATGTTTCC
* * **
4290233 AGTAATTAACTGGTTATGTTATCGTCGGATTTCTAAGGCTCTATCGGCTTAAACTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
* * *
4290298 TGTAGGCGTTACCTAATATGTTCATAATTCTAATAACAAATTAAGTAGTTAACCTATTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * **
4290363 CTTCGGATTTCTAAAG-CCCATCAGCTTTAAAAAAACGCTACCTATTACGTTATATAAGCGCTAC
131 CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTAC
* *
4290427 CTAATATGTTATTAAGCTTGATAATGTTTCC
196 CTAATATATTATTATGCTTGATAATGTTTCC
**
4290458 AGTAATTAACCAATTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
* *
4290523 TTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTATCTTATTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTAT
* *
4290588 CATCGGATTTCCAAAACCCCATCAGC-TTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTAC
131 CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTAC
* *
4290652 CTAATATGTTATTATGCTTGATAATGTTTTC
196 CTAATATATTATTATGCTTGATAATGTTTCC
* * *
4290683 AGTAATTAACCGGTTATGTTATCATCATATTTCTAAGGCTCTATCATCTTAAACTTTGGTAACAT
1 AGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
* *
4290748 TTTAGGCATTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTAACCCATTTT-TTAT
66 TTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * * *
4290812 CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCACTACCCATTATGTTATATAAGTGCTAC
131 CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTAC
* *
4290877 CTAATATATTATTATGTTTGATAATGTTTCT
196 CTAATATATTATTATGCTTGATAATGTTTCC
4290908 AGTAATTAACCGGTTATGTTATCGTC
1 AGTAATTAACCGGTTATGTTATCGTC
4290934 TATATTTTTT
Statistics
Matches: 636, Mismatches: 60, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
223 131 0.21
224 56 0.09
225 440 0.69
226 9 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (226 bp):
AGTAATTAACCGGTTATGTTATCGTCAGATTTCTAAGGCTCTATCAACTTAAACTTTGGTAACAT
TTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTAT
CGTCGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTATATAAGCGCTAC
CTAATATATTATTATGCTTGATAATGTTTCC
Found at i:4294134 original size:323 final size:322
Alignment explanation
Indices: 4293539--4294178 Score: 1059
Period size: 323 Copynumber: 2.0 Consensus size: 322
4293529 TCTTTTTCTA
*
4293539 TTGTTAAGCTTTCAAGCTTAACTTTCAAATCAATTTTTTTTCTCTAAATCATTGATTTTGATTTT
1 TTGTTAAGCTTTCAAGCTTAACTTTCAAATCAA-TTTTTTTCCCTAAATCATTGATTTTGATTTT
*
4293604 TGAAAGCTCTAAATCATTTTTCAAAGTTTATTTTGTTTTTCAAAATCTAATATTGCTTTAAAAAG
65 TGAAAGCTCTAAATCATTTTTCAAAGTTTATTCTGTTTTTCAAAATCTAATATTGCTTTAAAAAG
*
4293669 AAAATCATTTTCAACTTTGAATTTTGAAATCAATTTCTTATATTTGGAATTAATAGTCTTAAATT
130 AAAATCATTTTCAACTTTGAATTTTGAAATCAATTTCTTATATTTGGAATTAATAGTCTCAAATT
* *
4293734 CCAAATACAACTTATCATAGGTATCTTGTAACTCTTTAAATAAATAAGAATTTGAATCACAAGAG
195 CCAAATACAACTCATCATAGGAATCTTGTAACTCTTTAAATAAATAAGAATTTGAATCACAAGAG
* * *
4293799 TTAGATGATACCTCGGGCTTTTCAAGAGCCATTAAGGACATCGCCTTTGTTGGTTCTTCTTTTT
260 TTAGAGGATACCTCGGGCTTTT-AAGAGCCATTAAGGACACCACCTTTGTTGGTTCTTCTTTTT
4293863 TTGTTAAGCTTTCAAGCTTAACTTTCAAATCAA-TTTTTTCCCTAAATCATTGATTTTGATTTTT
1 TTGTTAAGCTTTCAAGCTTAACTTTCAAATCAATTTTTTTCCCTAAATCATTGATTTTGATTTTT
* * *
4293927 TAAATCTCTAAATCATTTTTCAAAGTTTCATTCTGTTTTTCAAAATCTAATTTTGCTTTAAAAAG
66 GAAAGCTCTAAATCATTTTTCAAAGTTT-ATTCTGTTTTTCAAAATCTAATATTGCTTTAAAAAG
* *
4293992 AAAATCATTTTTAACTTTGAATTTTGAAATCAATTTCTTATATTTGGAATTCAT-GATCTCAAAT
130 AAAATCATTTTCAACTTTGAATTTTGAAATCAATTTCTTATATTTGGAATTAATAG-TCTCAAAT
** * * *
4294056 TCCAAATAGGACTCATTATAGGAATCTTGTAACTCTTTAAATGAATAAGAATTTGAATCATAAGA
194 TCCAAATACAACTCATCATAGGAATCTTGTAACTCTTTAAATAAATAAGAATTTGAATCACAAGA
*
4294121 GTTAGAGGATACCTCGGGCTTTTAGGAGCCATTAAGGACACCACCTTTGTTGGTTCTT
259 GTTAGAGGATACCTCGGGCTTTTAAGAGCCATTAAGGACACCACCTTTGTTGGTTCTT
4294179 ATTTATTGTT
Statistics
Matches: 295, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
322 89 0.30
323 173 0.59
324 33 0.11
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (322 bp):
TTGTTAAGCTTTCAAGCTTAACTTTCAAATCAATTTTTTTCCCTAAATCATTGATTTTGATTTTT
GAAAGCTCTAAATCATTTTTCAAAGTTTATTCTGTTTTTCAAAATCTAATATTGCTTTAAAAAGA
AAATCATTTTCAACTTTGAATTTTGAAATCAATTTCTTATATTTGGAATTAATAGTCTCAAATTC
CAAATACAACTCATCATAGGAATCTTGTAACTCTTTAAATAAATAAGAATTTGAATCACAAGAGT
TAGAGGATACCTCGGGCTTTTAAGAGCCATTAAGGACACCACCTTTGTTGGTTCTTCTTTTT
Found at i:4301164 original size:13 final size:13
Alignment explanation
Indices: 4301148--4301183 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
4301138 AATACAAAAA
4301148 GAAGTGCAAAAGT
1 GAAGTGCAAAAGT
*
4301161 GAAGTTCAAAAGT
1 GAAGTGCAAAAGT
4301174 GAAGTGCAAA
1 GAAGTGCAAA
4301184 GTTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.08, G:0.28, T:0.17
Consensus pattern (13 bp):
GAAGTGCAAAAGT
Found at i:4301268 original size:14 final size:13
Alignment explanation
Indices: 4301242--4301271 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
4301232 ACTCAAAAAG
4301242 AAGAAAAAAAGAA
1 AAGAAAAAAAGAA
4301255 AAGAAAAGAAAGAA
1 AAGAAAA-AAAGAA
4301269 AAG
1 AAG
4301272 TTGGAAGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:4309974 original size:18 final size:18
Alignment explanation
Indices: 4309951--4310024 Score: 148
Period size: 18 Copynumber: 4.1 Consensus size: 18
4309941 TCATATATAA
4309951 GAGTTCTAAGATAGAAAG
1 GAGTTCTAAGATAGAAAG
4309969 GAGTTCTAAGATAGAAAG
1 GAGTTCTAAGATAGAAAG
4309987 GAGTTCTAAGATAGAAAG
1 GAGTTCTAAGATAGAAAG
4310005 GAGTTCTAAGATAGAAAG
1 GAGTTCTAAGATAGAAAG
4310023 GA
1 GA
4310025 AGTAGAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.22
Consensus pattern (18 bp):
GAGTTCTAAGATAGAAAG
Found at i:4312118 original size:21 final size:21
Alignment explanation
Indices: 4312093--4312155 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
4312083 CTAGAAATTA
4312093 AAAATAAAAACAATAATATAT
1 AAAATAAAAACAATAATATAT
*
4312114 AAAATGAAAACAATAATA-AT
1 AAAATAAAAACAATAATATAT
* * *
4312134 ATAATCAAAATATATAATATAT
1 AAAATAAAAACA-ATAATATAT
4312156 TTCAGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 11 0.31
21 23 0.64
22 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATAAAAACAATAATATAT
Found at i:4312204 original size:38 final size:39
Alignment explanation
Indices: 4312138--4312234 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 39
4312128 AATAATATAA
*
4312138 TCAAAATATATAA-TATATTTCAGTAAAACCATATATATTT
1 TCAAAATATATAATTATATTTCA--AAAACCACATATATTT
* *
4312178 T-AAAATATATAATTTATATTTC-AAAACTACATATGTTT
1 TCAAAATATATAA-TTATATTTCAAAAACCACATATATTT
4312216 TCAAAA-ATATAATATATAT
1 TCAAAATATATAAT-TATAT
4312235 ATATATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
37 1 0.02
38 25 0.50
39 15 0.30
40 1 0.02
41 8 0.16
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.41
Consensus pattern (39 bp):
TCAAAATATATAATTATATTTCAAAAACCACATATATTT
Found at i:4312300 original size:16 final size:16
Alignment explanation
Indices: 4312279--4312315 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
4312269 ATATGTTTTG
4312279 AATATGTTTTCAAAAC
1 AATATGTTTTCAAAAC
4312295 AATATGTTTTCAAAAC
1 AATATGTTTTCAAAAC
4312311 AATAT
1 AATAT
4312316 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (16 bp):
AATATGTTTTCAAAAC
Found at i:4312331 original size:22 final size:24
Alignment explanation
Indices: 4312306--4312350 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4312296 ATATGTTTTC
4312306 AAAACAAT-AT-ATATATATATTA
1 AAAACAATAATAATATATATATTA
*
4312328 AAAACCATAATAATATATATATT
1 AAAACAATAATAATATATATATT
4312351 TATATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAACAATAATAATATATATATTA
Found at i:4313243 original size:201 final size:201
Alignment explanation
Indices: 4312893--4313256 Score: 453
Period size: 201 Copynumber: 1.8 Consensus size: 201
4312883 TCCTTATTCG
* * * * *
4312893 CACCATGCGATCGATATGCTCTCGAGTTAAGTGGAATCGAACTTGAAAGATTAAGTCGACAGATA
1 CACCATGCAATCAATATGCTCTCGAGTTAAGTGAAATCGAACTTGAAAGATTAAGTCGAAAAATA
* * ** * * * **
4312958 GCTCTTCTGGACTTAAGCTATGTTGAAATTTAGGCTGGGAGATAGTTCCTCGTTGTTAAATCACA
66 GCTCTTCTCGACTTAAACTATGTCAAAATCTAGGCTGGAAGATAGTTCCTCATTCCTAAATCACA
* *
4313023 ACCGATTTAGGCCTTCTTCTAGACTTGAAGACCTTAGTTAGAATTTTGTTTGGAAGGTGGTTTGT
131 ACCGATTTAGGCATTCTTCTAGACTTAAAGACCTTAGTTAGAATTTTGTTTGGAAGGTGGTTTGT
4313088 TATTAC
196 TATTAC
* * * **
4313094 CACCATGCAATCAATGTGCTCTCGAGTTGAGTGAAATCGAACTTGAAAGCTTTGGTC-AAAAACT
1 CACCATGCAATCAATATGCTCTCGAGTTAAGTGAAATCGAACTTGAAAGATTAAGTCGAAAAA-T
4313158 AGCTCTTCTCGACTTAAACTATGTCAAAATCTAGGCTGGAA-AGTAGTTCCTCATTCCTAAATCA
65 AGCTCTTCTCGACTTAAACTATGTCAAAATCTAGGCTGGAAGA-TAGTTCCTCATTCCTAAATCA
* ** * * *
4313222 CAGCCTCTTTGGGTATTCTTCTTGACTTAAAGACC
129 CAACCGATTTAGGCATTCTTCTAGACTTAAAGACC
4313257 ACAGTGACCA
Statistics
Matches: 134, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
200 4 0.03
201 130 0.97
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (201 bp):
CACCATGCAATCAATATGCTCTCGAGTTAAGTGAAATCGAACTTGAAAGATTAAGTCGAAAAATA
GCTCTTCTCGACTTAAACTATGTCAAAATCTAGGCTGGAAGATAGTTCCTCATTCCTAAATCACA
ACCGATTTAGGCATTCTTCTAGACTTAAAGACCTTAGTTAGAATTTTGTTTGGAAGGTGGTTTGT
TATTAC
Found at i:4320862 original size:17 final size:18
Alignment explanation
Indices: 4320840--4320877 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4320830 TTTGGTAAGA
*
4320840 AAATAA-TAAAAGCGATT
1 AAATAAGTAAAAGCAATT
4320857 AAATAAGTAAAAGCAATT
1 AAATAAGTAAAAGCAATT
4320875 AAA
1 AAA
4320878 GTAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (18 bp):
AAATAAGTAAAAGCAATT
Found at i:4327192 original size:17 final size:18
Alignment explanation
Indices: 4327170--4327207 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4327160 TTTGGTAAGA
*
4327170 AAATAA-TAAAAGCAATT
1 AAATAAGTAAAACCAATT
4327187 AAATAAGTAAAACCAATT
1 AAATAAGTAAAACCAATT
4327205 AAA
1 AAA
4327208 GTAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAGTAAAACCAATT
Found at i:4334273 original size:26 final size:26
Alignment explanation
Indices: 4334241--4334306 Score: 100
Period size: 24 Copynumber: 2.6 Consensus size: 26
4334231 ATATTTTGAA
*
4334241 ATATATAATATATATTTCAAAACTAT
1 ATATATAATATATATTTAAAAACTAT
4334267 ATATATAATAT-T-TTTAAAAACTAT
1 ATATATAATATATATTTAAAAACTAT
4334291 ATATATATATATATAT
1 ATATATA-ATATATAT
4334307 ATATATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
24 18 0.50
25 5 0.14
26 12 0.33
27 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATATAATATATATTTAAAAACTAT
Found at i:4334277 original size:24 final size:24
Alignment explanation
Indices: 4334229--4334320 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
4334219 GTAAAACCGT
**
4334229 ATATATTTTGAAA-TATATA-AT-
1 ATATATTTAAAAACTATATATATA
*
4334250 ATATATTTCAAAACTATATATATA
1 ATATATTTAAAAACTATATATATA
*
4334274 ATATTTTTAAAAACTATATATAT-
1 ATATATTTAAAAACTATATATATA
* * *
4334297 ATATATATATATA-TATATATATA
1 ATATATTTAAAAACTATATATATA
4334320 A
1 A
4334321 AAACAATAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 11 0.19
22 15 0.25
23 12 0.20
24 21 0.36
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (24 bp):
ATATATTTAAAAACTATATATATA
Found at i:4334339 original size:2 final size:2
Alignment explanation
Indices: 4334288--4334319 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4334278 TTTTAAAAAC
4334288 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
4334320 AAAACAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4334506 original size:3 final size:3
Alignment explanation
Indices: 4334491--4334541 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
4334481 ATATTATTAC
4334491 TAA TAA -AA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4334536 TAA TAA
1 TAA TAA
4334542 AACTTGGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4335667 original size:14 final size:14
Alignment explanation
Indices: 4335648--4335677 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4335638 TTTTTATAAA
4335648 AAAAAAAACTTATT
1 AAAAAAAACTTATT
4335662 AAAAAAAACTTATT
1 AAAAAAAACTTATT
4335676 AA
1 AA
4335678 TGTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAAAAACTTATT
Found at i:4340335 original size:16 final size:16
Alignment explanation
Indices: 4340303--4340337 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4340293 TTAAAGATAT
* *
4340303 AATTTTATATTTTTAA
1 AATTTTATATATCTAA
4340319 AATTTTATATATCTAA
1 AATTTTATATATCTAA
4340335 AAT
1 AAT
4340338 CTTAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTATATATCTAA
Found at i:4340954 original size:37 final size:37
Alignment explanation
Indices: 4340904--4340978 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4340894 CTAACAATGA
4340904 AACTCGAATATTTTCTTTTGGGGTCAGCGTTTGATCG
1 AACTCGAATATTTTCTTTTGGGGTCAGCGTTTGATCG
4340941 AACTCGAATATTTTCTTTTGGGGTCAGCGTTTGATCG
1 AACTCGAATATTTTCTTTTGGGGTCAGCGTTTGATCG
4340978 A
1 A
4340979 GTCAGGTCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (37 bp):
AACTCGAATATTTTCTTTTGGGGTCAGCGTTTGATCG
Found at i:4342673 original size:124 final size:123
Alignment explanation
Indices: 4342395--4342641 Score: 365
Period size: 123 Copynumber: 2.0 Consensus size: 123
4342385 AGGTCAGATC
* * * *
4342395 TAGAGAGATTTTTAACGA-GACTCTTAATCTAGGTCTTGATTAATAAAACTTATTTTACCGAGAA
1 TAGAGAGCTTTTTAACAAGGA-TCTTAATCTAAGTCTTGACTAATAAAACTTATTTTACCGAGAA
* * *
4342459 AAAAAAAGAATAGTTGCTGAGATTGCATGTCGGCATAGCTTAGCTATAGTTTTTTTTAT
65 AAAAAAAGAACAGTTGCTGAGATTGCATGTCGGCATAGCTTAGCTATAGTTTTTGTAAT
* *
4342518 TAGAGAGGTTTTTAACAAGGATCTTAATCTAAGTCTTGACTAATAAAACTTATTTTACGGAGAAA
1 TAGAGAGCTTTTTAACAAGGATCTTAATCTAAGTCTTGACTAATAAAACTTATTTTACCGAG-AA
4342583 AAAAAAAGAACAGCTT-CTGAGATTGCATGTCGGCATAGCTTAGCTATAG-TTTTGTAAT
65 AAAAAAAGAACAG-TTGCTGAGATTGCATGTCGGCATAGCTTAGCTATAGTTTTTGTAAT
4342641 T
1 T
4342642 GATGTAGCTT
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
123 62 0.55
124 49 0.43
125 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (123 bp):
TAGAGAGCTTTTTAACAAGGATCTTAATCTAAGTCTTGACTAATAAAACTTATTTTACCGAGAAA
AAAAAAGAACAGTTGCTGAGATTGCATGTCGGCATAGCTTAGCTATAGTTTTTGTAAT
Found at i:4346949 original size:46 final size:47
Alignment explanation
Indices: 4346854--4346953 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 47
4346844 AGGATTATAT
*
4346854 TTATTATTTTATTAGGAATTAAGGTTAAGTTAAAATATTTTTTTAGTTA
1 TTATTATTTTATTAGGAATTAAGGTTAAG-T-AAATATTTGTTTAGTTA
* *
4346903 TTATTATTTTATTAGGAATT-AGAGTTAAG-ACATGTTTAGTTT-GTTA
1 TTATTATTTTATTAGGAATTAAG-GTTAAGTAAATATTT-GTTTAGTTA
4346949 TTATT
1 TTATT
4346954 TTATTCATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
46 15 0.33
47 3 0.07
48 2 0.04
49 26 0.57
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (47 bp):
TTATTATTTTATTAGGAATTAAGGTTAAGTAAATATTTGTTTAGTTA
Found at i:4365368 original size:59 final size:59
Alignment explanation
Indices: 4365295--4365419 Score: 250
Period size: 59 Copynumber: 2.1 Consensus size: 59
4365285 GATTTCAGAG
4365295 GAACACCAGCTGTCCCTCCATGTTTCAGAAGCTTCCGGTAGCTCCACCCGTGGTCTCTC
1 GAACACCAGCTGTCCCTCCATGTTTCAGAAGCTTCCGGTAGCTCCACCCGTGGTCTCTC
4365354 GAACACCAGCTGTCCCTCCATGTTTCAGAAGCTTCCGGTAGCTCCACCCGTGGTCTCTC
1 GAACACCAGCTGTCCCTCCATGTTTCAGAAGCTTCCGGTAGCTCCACCCGTGGTCTCTC
4365413 GAACACC
1 GAACACC
4365420 GTCCACGTTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.24
Consensus pattern (59 bp):
GAACACCAGCTGTCCCTCCATGTTTCAGAAGCTTCCGGTAGCTCCACCCGTGGTCTCTC
Found at i:4366760 original size:22 final size:22
Alignment explanation
Indices: 4366729--4366771 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4366719 CTGATATTTT
4366729 TAAATAAATAAATATTCTACTTA
1 TAAATAAATAAATATT-TACTTA
*
4366752 TAAA-AAATATATATTTACTT
1 TAAATAAATAAATATTTACTT
4366772 TAGTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATAAATAAATATTTACTTA
Found at i:4366923 original size:2 final size:2
Alignment explanation
Indices: 4366916--4366970 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
4366906 ACCTTACTTA
4366916 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
4366958 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
4366971 CTTTAATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4370786 original size:15 final size:14
Alignment explanation
Indices: 4370766--4370825 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 14
4370756 AAAGAGAGAT
4370766 GAAAAACAAGAAAAA
1 GAAAAA-AAGAAAAA
4370781 GAAAAAAGAGAAAAA
1 GAAAAAA-AGAAAAA
*
4370796 AAAGAAAAAGAGAAAA
1 GAA-AAAAAGA-AAAA
* *
4370812 GGAAAGAAGAAAAA
1 GAAAAAAAGAAAAA
4370826 AAATTGAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.13
15 24 0.63
16 9 0.24
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:4370800 original size:24 final size:24
Alignment explanation
Indices: 4370749--4370816 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
4370739 ATTCATCAGA
*
4370749 AAAAAGAAAAGAGAGATGAAAAACAAG
1 AAAAAGAAAA-A-AGA-GAAAAAAAAG
4370776 AAAAAGAAAAAAGAGAAAAAAAAG
1 AAAAAGAAAAAAGAGAAAAAAAAG
*
4370800 AAAAAGAGAAAAG-GAAA
1 AAAAAGAAAAAAGAGAAA
4370817 GAAGAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.10
24 21 0.54
25 3 0.08
26 1 0.03
27 10 0.26
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (24 bp):
AAAAAGAAAAAAGAGAAAAAAAAG
Found at i:4370819 original size:18 final size:17
Alignment explanation
Indices: 4370776--4370811 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4370766 GAAAAACAAG
4370776 AAAAAGAAAAAAGAGAAA
1 AAAAAG-AAAAAGAGAAA
4370794 AAAAAGAAAAAGAGAAA
1 AAAAAGAAAAAGAGAAA
4370811 A
1 A
4370812 GGAAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAGAAA
Found at i:4370819 original size:27 final size:27
Alignment explanation
Indices: 4370746--4370826 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
4370736 CTTATTCATC
* *
4370746 AGAAAAA-AGAAAAGAGAGATGAAAAACA
1 AGAAAAAGAGAAAAG-GA-AAGAAAAAAA
*
4370774 AGAAAAAGA-AAAA--AGAGAAAAAAA
1 AGAAAAAGAGAAAAGGAAAGAAAAAAA
4370798 AGAAAAAGAGAAAAGGAAAGAAGAAAAA
1 AGAAAAAGAGAAAAGGAAAGAA-AAAAA
4370826 A
1 A
4370827 AATTGAATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
24 16 0.36
25 5 0.11
27 5 0.11
28 17 0.39
29 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (27 bp):
AGAAAAAGAGAAAAGGAAAGAAAAAAA
Found at i:4370826 original size:15 final size:14
Alignment explanation
Indices: 4370746--4370826 Score: 57
Period size: 14 Copynumber: 6.1 Consensus size: 14
4370736 CTTATTCATC
* *
4370746 AGAAAAAAGAAAAG
1 AGAAAGAAGAAAAA
* *
4370760 AGAGATGAA-AAACA
1 AGA-AAGAAGAAAAA
4370774 AGAAA-AAGAAAAA
1 AGAAAGAAGAAAAA
4370787 AG--AGAA-AAAAA
1 AGAAAGAAGAAAAA
4370798 AGAAA-AAGAGAAAA
1 AGAAAGAAGA-AAAA
*
4370812 GGAAAGAAGAAAAA
1 AGAAAGAAGAAAAA
4370826 A
1 A
4370827 AATTGAATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
11 8 0.16
12 6 0.12
13 9 0.18
14 21 0.41
15 7 0.14
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (14 bp):
AGAAAGAAGAAAAA
Found at i:4373578 original size:36 final size:36
Alignment explanation
Indices: 4373532--4373849 Score: 198
Period size: 36 Copynumber: 8.8 Consensus size: 36
4373522 TAGCAATTTA
4373532 TCTCACTTGAGATTGTTTTTCTT-AAAGAAAATTGTT
1 TCTCACTTGAGATTGTTTTTCTTAAAAG-AAATTGTT
* *** ** * * *
4373568 TCTCTCTTGAGAAAATTTCACTCGAAATAGCAATT-TA
1 TCTCACTTGAGATTGTTTTTCT-TAAA-AGAAATTGTT
* *
4373605 TCTCACTTGAGATTGTTTTTCTCAAAA-CAATATGTT
1 TCTCACTTGAGATTGTTTTTCTTAAAAGAAAT-TGTT
* ** ** *
4373641 TCTCGCTTGAGAAAGTTTCACTTAAAATAAATT-TT
1 TCTCACTTGAGATTGTTTTTCTTAAAAGAAATTGTT
*
4373676 ATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTT
1 -TCTCACTTGAGATTGTTTTTCTTAAAAGAAATTGTT
* ** * ** * *
4373713 TCTCGCTTGAGAAAGGTTCACTTGAAATAGCAATT-TA
1 TCTCACTTGAGATTGTTTTTCTT-AAA-AGAAATTGTT
*
4373750 TCTCACTTGAGATTGTTTTTCTTAAAATAAATTGTT
1 TCTCACTTGAGATTGTTTTTCTTAAAAGAAATTGTT
* ** ** * * *
4373786 TCTCGCTTGAGAAAGTTTCACTCGAAATAGCAATT-TA
1 TCTCACTTGAGATTGTTTTTCT-TAAA-AGAAATTGTT
4373823 TCTCACTTGAGATTGTTTTTCTTAAAA
1 TCTCACTTGAGATTGTTTTTCTTAAAA
4373850 TATTTCCAGA
Statistics
Matches: 206, Mismatches: 63, Indels: 27
0.70 0.21 0.09
Matches are distributed among these distances:
34 4 0.02
35 10 0.05
36 110 0.53
37 64 0.31
38 16 0.08
39 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (36 bp):
TCTCACTTGAGATTGTTTTTCTTAAAAGAAATTGTT
Found at i:4373641 original size:73 final size:73
Alignment explanation
Indices: 4373519--4373849 Score: 535
Period size: 73 Copynumber: 4.5 Consensus size: 73
4373509 GGATGTTTTA
* *
4373519 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAGA-AAATTGTTTCTCTCTTGAGAAAA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAA-ACAAATTGTTTCTCGCTTGAGAAAG
4373583 TTTCACTCG
65 TTTCACTCG
*
4373592 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTCAAAAC-AATATGTTTCTCGCTTGAGAAAG
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAT-TGTTTCTCGCTTGAGAAAG
**
4373656 TTTCACTTA
65 TTTCACTCG
4373665 AAATA--AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGAAAG
1 AAATAGCAA-TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGAAAG
* *
4373728 GTTCACTTG
65 TTTCACTCG
*
4373737 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAATTGTTTCTCGCTTGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGAAAGT
4373802 TTCACTCG
66 TTCACTCG
4373810 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
4373850 TATTTCCAGA
Statistics
Matches: 241, Mismatches: 11, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
71 2 0.01
72 66 0.27
73 171 0.71
74 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGAAAGT
TTCACTCG
Found at i:4373791 original size:145 final size:144
Alignment explanation
Indices: 4373518--4373849 Score: 524
Period size: 145 Copynumber: 2.3 Consensus size: 144
4373508 AGGATGTTTT
*
4373518 AAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAGAAAATTGTTTCTCTCTTGAGAAAA
1 AAAATA-CAATTTATCTCACTTGAGATTGTTTTTCTTAAA-AAAATTGTTTCTCGCTTGAGAAAA
* *
4373583 TTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTCAAAACAATATGTTTCTCGCT
64 GTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTCAAAAAAATATGTTTCTCGCT
*
4373648 TGAGAAAGTTTCACTT
129 TGAGAAAGTTTCACTC
*
4373664 AAAATA-AATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTTGAGAAAG
1 AAAATACAA-TTTATCTCACTTGAGATTGTTTTTCTTAAAA-AAATTGTTTCTCGCTTGAGAAAA
* *
4373728 GTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAAT-TGTTTCTCGC
64 GTTCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTCAAAA-AAATATGTTTCTCGC
4373792 TTGAGAAAGTTTCACTC
128 TTGAGAAAGTTTCACTC
*
4373809 GAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
1 AAAATA-CAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
4373850 TATTTCCAGA
Statistics
Matches: 173, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
144 3 0.02
145 128 0.74
146 40 0.23
147 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (144 bp):
AAAATACAATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAATTGTTTCTCGCTTGAGAAAAGT
TCACTCGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTCAAAAAAATATGTTTCTCGCTTG
AGAAAGTTTCACTC
Found at i:4373965 original size:93 final size:93
Alignment explanation
Indices: 4373856--4374052 Score: 297
Period size: 93 Copynumber: 2.1 Consensus size: 93
4373846 AAAATATTTC
4373856 CAGAAGAAGATTGTAATAAGAAGAACTCATCTGAAGAGAAATAAGAAGTTCATAATCTGAAGAAC
1 CAGAAGAAGATTGTAATAAGAAGAACTCATCTGAAGAGAAATAAGAAGTTCATAATCTGAAGAAC
4373921 GTATTCAACCTTTTGCTCGACTCTATCG
66 GTATTCAACCTTTTGCTCGACTCTATCG
* * * **
4373949 CAGAAGAAG-TTCGTAATAAGAAGAGCTCATCTGAATAGGAATATTAAGTTCATAATCTGAAGAA
1 CAGAAGAAGATT-GTAATAAGAAGAACTCATCTGAAGAGAAATAAGAAGTTCATAATCTGAAGAA
* * *
4374013 CTTGTTCAACCTTTTGGTCGACTCTATCG
65 CGTATTCAACCTTTTGCTCGACTCTATCG
*
4374042 CAGAAGGAGAT
1 CAGAAGAAGAT
4374053 AGAGCAGCAT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.02
93 90 0.97
94 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (93 bp):
CAGAAGAAGATTGTAATAAGAAGAACTCATCTGAAGAGAAATAAGAAGTTCATAATCTGAAGAAC
GTATTCAACCTTTTGCTCGACTCTATCG
Found at i:4378476 original size:36 final size:36
Alignment explanation
Indices: 4378288--4378477 Score: 258
Period size: 36 Copynumber: 5.3 Consensus size: 36
4378278 TAAATAAGAA
* * *
4378288 GAACGAAAGAAAGAATCG-CACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
*
4378323 GAACAGAAGGAAGCATCGACACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
*
4378359 GAACGGAAGGAAGCATC-AGCACTTCCGATTCATGTC
1 GAACGGAAGGAAGCATCGA-CACTTCCGATTCAAGTC
* *
4378395 GAACGGAAGGAATCATCGACACTTCCTATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
* * *
4378431 GAACAGAAGGAAGCATCGACACTTCTGATTTAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
*
4378467 GAATGGAAGGA
1 GAACGGAAGGA
4378478 TGTATCGCAC
Statistics
Matches: 136, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
35 15 0.11
36 120 0.88
37 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (36 bp):
GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
Found at i:4381616 original size:2 final size:2
Alignment explanation
Indices: 4381609--4381640 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4381599 TTTCCCCTAA
4381609 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
4381641 CGAATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4382396 original size:5 final size:5
Alignment explanation
Indices: 4382386--4382410 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4382376 TTTTAGTCAT
4382386 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
4382411 AGTTAGCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:4382519 original size:16 final size:15
Alignment explanation
Indices: 4382498--4382552 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
4382488 TAGGTCCTCA
4382498 TATTTTATGTTATTTT
1 TATTTTATG-TATTTT
4382514 TATTTTACTGT-TTTT
1 TATTTTA-TGTATTTT
*
4382529 TATCATT-TGATATTTT
1 TAT-TTTATG-TATTTT
4382545 TATTTTAT
1 TATTTTAT
4382553 TTTTATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 2 0.06
15 10 0.31
16 18 0.56
17 2 0.06
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (15 bp):
TATTTTATGTATTTT
Found at i:4386430 original size:36 final size:36
Alignment explanation
Indices: 4386378--4386516 Score: 260
Period size: 36 Copynumber: 3.9 Consensus size: 36
4386368 AATTGAGTAT
* *
4386378 TATCAGCTTTGATACATTCGTGTATCAAAGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
4386414 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
4386450 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
4386486 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
4386517 CCAGCACTGT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 101 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4394042 original size:36 final size:36
Alignment explanation
Indices: 4393990--4394092 Score: 197
Period size: 36 Copynumber: 2.9 Consensus size: 36
4393980 AGTTGAGTGT
*
4393990 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
4394026 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
4394062 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
4394093 CCAGCACCGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4400202 original size:6 final size:6
Alignment explanation
Indices: 4400193--4400277 Score: 61
Period size: 6 Copynumber: 14.2 Consensus size: 6
4400183 AGAGAAATAG
* * * *
4400193 AAAGAA AAAGAAA AAAGAA GGGAA-AA ATAGAA AAAGAG GAA-AA -AAGAA
1 AAAGAA AAAG-AA AAAGAA --AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
4400241 AAAGAA AAAGAA AAAG-A AAAGAG AAAGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA -AAAGAA A
4400278 CCGATCAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
4 2 0.03
5 9 0.15
6 35 0.56
7 14 0.23
8 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:4400240 original size:16 final size:17
Alignment explanation
Indices: 4400197--4400245 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
4400187 AAATAGAAAG
4400197 AAAAAGAAAAAAGAAGGGA
1 AAAAAG-AAAAAG-AGGGA
4400216 AAAATAGAAAAAGA-GGA
1 AAAA-AGAAAAAGAGGGA
4400233 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
4400246 AAAAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.31
17 7 0.24
18 1 0.03
19 10 0.34
20 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAGAGGGA
Found at i:4400275 original size:36 final size:33
Alignment explanation
Indices: 4400172--4400277 Score: 88
Period size: 36 Copynumber: 3.0 Consensus size: 33
4400162 ATAAAAAGAT
*
4400172 AGAAAAAAAGAAGAGAAATAGAAAGAAAAAGAAAAA
1 AGAAAAAAA-AA-AGAAAAAGAAAGAAAAAG-AAAA
* * *
4400208 AGAAGGGAAAAATAGAAAAAG-AGGAAAAAAGAAAA
1 AGAA--AAAAAAAAGAAAAAGAAAG-AAAAAGAAAA
4400243 AGAAAAAGAAAAAGAAAAGAGAAAGAAGAAAGAAA
1 AGAAAAA-AAAAAGAAAA-AGAAAGAA-AAAGAAA
4400278 CCGATCAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
33 2 0.04
34 9 0.16
35 14 0.25
36 26 0.46
37 1 0.02
38 4 0.07
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (33 bp):
AGAAAAAAAAAAGAAAAAGAAAGAAAAAGAAAA
Found at i:4403245 original size:12 final size:12
Alignment explanation
Indices: 4403228--4403252 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4403218 ACACCCTAAG
4403228 CCAAATTAAACC
1 CCAAATTAAACC
4403240 CCAAATTAAACC
1 CCAAATTAAACC
4403252 C
1 C
4403253 ATATACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (12 bp):
CCAAATTAAACC
Found at i:4406924 original size:24 final size:24
Alignment explanation
Indices: 4406897--4406957 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
4406887 AAATTACATA
4406897 AATACAAGAGTGCATATTCACACT
1 AATACAAGAGTGCATATTCACACT
* * **
4406921 AATACAGGAGTGCATGTTTGCACT
1 AATACAAGAGTGCATATTCACACT
*
4406945 ATTACAAGAGTGC
1 AATACAAGAGTGC
4406958 TCAATTGCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (24 bp):
AATACAAGAGTGCATATTCACACT
Found at i:4412316 original size:20 final size:20
Alignment explanation
Indices: 4412291--4412353 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
4412281 GTTTAAATCC
*
4412291 TTCGAGTCATCTATAAGTCT
1 TTCGAGCCATCTATAAGTCT
** * *
4412311 TTCGAGGAATATGATAAGTCC
1 TTCGAGCCATCT-ATAAGTCT
* *
4412332 TTCGGGCCATCTATAAGACT
1 TTCGAGCCATCTATAAGTCT
4412352 TT
1 TT
4412354 GGGCATGATG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (20 bp):
TTCGAGCCATCTATAAGTCT
Found at i:4412466 original size:239 final size:240
Alignment explanation
Indices: 4411845--4412985 Score: 1415
Period size: 239 Copynumber: 4.8 Consensus size: 240
4411835 AGGGTTTCTT
* * * * * *
4411845 GATGATAAGTCCTTTGGTCCATCCATAATACCTTTGGAAAGGATGTTTTCACATGATTTTCG-AA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGAATGATGTTTTCACATGATTTTCGAAA
* * *
4411909 AATGAGAAAGCGATTTCCAAAGTTTCCCATTTAAATATTTTCTGAAAACTGACTTTTCTGAAAAG
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAACTGACTTTTCTGAAAAG
* * *
4411974 TAAGAAAACGATTTCCAAAGTGTC-TA---AGTAAGTCTTTCGGGCCATCAGTAAGTCTTTTGAG
131 TAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* *
4412035 CATGATGTTTCAATCCTTC-AGGTCATTTATAAGTCTTTCGAGCAA
196 CATGATGTTTAAATCCTTCGA-GTCATCTATAAGTCTTTCGAGCAA
* ** * * *
4412080 GATGATAATTAATTCGGGCCATCCATAAGACCTTCGAGAATGATGTTTTCAAATGATTTTTGAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGAATGATGTTTTCACATGATTTTCGAAA
* * * * * *
4412145 AATGAGAAAGCGATTTCTAAAGTTTCTCATATAAATCTTTTATGAAAACTCATTTTTCTGAAAAG
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAACTGACTTTTCTGAAAAG
* * * * * * * *
4412210 TAAGAAAACGATTTCCAAAGCTTCTCACTTAGTATGTCCTTTGGGTCATTAGTAACTCTTTCAAG
131 TAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
*
4412275 CATGATGTTTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGGAA
196 CATGATGTTTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGCAA
* * * *
4412320 TATGATAAGTCCTTCGGGCCATCTATAAGA-CTTTGGGCATGATGTTTTCACATGATTTTCGAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGAATGATGTTTTCACATGATTTTCGAAA
* * * *
4412384 AACGAGAAAGCAATTTCCAAAGTTTCTCGTTTAAAT-TTATTCTAAAAACTGACATTTCTGAAAA
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTT-TTCTAAAAACTGACTTTTCTGAAAA
* * * *
4412448 GTAAGAAAATGTTTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGA
130 GTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
*
4412513 GCATGATGTTTAAATCCTT-AAGATCATCTATAAGTCTTTCGAGCAA
195 GCATGATGTTTAAATCCTTCGAG-TCATCTATAAGTCTTTCGAGCAA
* * *
4412559 GATGATAAGTCCTTCGAGCCATCCATAAGACCTTCGGGAATGATGCTTTCACATGATTTTCAAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGAATGATGTTTTCACATGATTTTCGAAA
* * * *
4412624 AATGAGAAAACGATTTCCAAAGTTTCTCATTTAAATCTTTT-AACAAAACAGACTTTTCTAAAAA
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTA-AAAACTGACTTTTCTGAAAA
* * * *
4412688 GTAAGAAAACGATTTCCAAATTTTTTTGCTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGA
130 GTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
* * *
4412753 GCATGATGTTTAAATCCTTCG-GTCATCTATAAGTTTTTCAAGTAA
195 GCATGATGTTTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGCAA
** * * * *
4412798 GATGATAAGTGTTTCAGGCCATCCATAAGACCTTCGGGAAGGATATTTTCACATGATTTTTGAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGAATGATGTTTTCACATGATTTTCGAAA
* * ** * * * * * *
4412863 AATGAGAAAGTGATTT-CGAAGTTTCTCATTTATTTTTTTTTTTTGAAAATTGACTTTTTTTTAA
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTA--AATCTTTTCTAAAAACTGAC-TTTTCTGAA
* *
4412927 AAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTAGGGCCATCTGTAAG
128 AAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAG
4412986 ACCTTCGGAC
Statistics
Matches: 770, Mismatches: 120, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
235 50 0.06
236 82 0.11
237 1 0.00
238 19 0.02
239 292 0.38
240 262 0.34
241 64 0.08
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (240 bp):
GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGAATGATGTTTTCACATGATTTTCGAAA
AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAACTGACTTTTCTGAAAAG
TAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
CATGATGTTTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGCAA
Found at i:4412758 original size:479 final size:478
Alignment explanation
Indices: 4411845--4412979 Score: 1501
Period size: 479 Copynumber: 2.4 Consensus size: 478
4411835 AGGGTTTCTT
* * * *
4411845 GATGATAAGTCCTTTGGTCCATCCATAATACCTTTGGAAAGGATGTTTTCACATGATTTTCG-AA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGAAGGATGTTTTCACATGATTTTCGAAA
*
4411909 AATGAGAAAGCGATTTCCAAAGTTTCCCATTTAAATATTTTCTGAAAACTGACTTTTCTGAAAAG
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAAT-TTTTCTGAAAACTGACTTTTCTGAAAAG
* * * *
4411974 TAAGAAAACGATTTCCAAAGTGTC-TA---AGTAAGTCTTTCGGGCCATCAGTAAGTCTTTTGAG
130 TAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAG
* * * * * *
4412035 CATGATGTTTCAATCCTTCAGGTCATTTATAAGTCTTTCGAGCAAGATGATAATTAATTCGGGCC
195 CATGATGTTTAAATCCTTAAGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTAATTCGAGCC
* ** * *
4412100 ATCCATAAGACCTTCGAGAATGATGTTTTCAAATGATTTTTGAAAAATGAGAAAGCGATTTCTAA
260 ATCCATAAGACCTTCGAGAATGATGCTTTCAAATGATTTTCAAAAAATGAGAAAACGATTTCCAA
** * * *
4412165 AGTTTCTCATATAAATCTTTTATGAAAACTCATTTTTCTGAAAAGTAAGAAAACGATTTCCAAAG
325 AGTTTCTCATATAAATCTTTTAACAAAACACACTTTTCTAAAAAGTAAGAAAACGATTTCCAAAG
* * * *
4412230 CTTCTCACTTAGTATGTCCTTTGGGTCATTAGTAACTCTTTCAAGCATGATGTTTAAATCCTTCG
390 CTTCTCACTTAGTAAGTCCTTCGGGCCATCAGTAACTCTTTCAAGCATGATGTTTAAATCCTTCG
*
4412295 AGTCATCTATAAGTCTTTCGAGGAA
455 -GTCATCTATAAGTCTTTCAAGGAA
* * * *
4412320 TATGATAAGTCCTTCGGGCCATCTATAAGA-CTTTGGGCATGATGTTTTCACATGATTTTCGAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGAAGGATGTTTTCACATGATTTTCGAAA
* * * * *
4412384 AACGAGAAAGCAATTTCCAAAGTTTCTCGTTTAAATTTATTCTAAAAACTGACATTTCTGAAAAG
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATTT-TTCTGAAAACTGACTTTTCTGAAAAG
* * *
4412449 TAAGAAAATGTTTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAG
130 TAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAG
**
4412514 CATGATGTTTAAATCCTTAAGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAGCC
195 CATGATGTTTAAATCCTTAAGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTAATTCGAGCC
* *
4412579 ATCCATAAGACCTTCGGGAATGATGCTTTCACATGATTTTCAAAAAATGAGAAAACGATTTCCAA
260 ATCCATAAGACCTTCGAGAATGATGCTTTCAAATGATTTTCAAAAAATGAGAAAACGATTTCCAA
* * *
4412644 AGTTTCTCATTTAAATCTTTTAACAAAACAGACTTTTCTAAAAAGTAAGAAAACGATTTCCAAAT
325 AGTTTCTCATATAAATCTTTTAACAAAACACACTTTTCTAAAAAGTAAGAAAACGATTTCCAAAG
* * ** * **
4412709 TTTTTTGCTTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGTTTAAATCCTTCG
390 CTTCTCACTTAGTAAGTCCTTCGGGCCATCAGTAACTCTTTCAAGCATGATGTTTAAATCCTTCG
* *
4412774 GTCATCTATAAGTTTTTCAAGTAA
455 GTCATCTATAAGTCTTTCAAGGAA
** * * * *
4412798 GATGATAAGTGTTTCAGGCCATCCATAAGACCTTCGGGAAGGATATTTTCACATGATTTTTGAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGAAGGATGTTTTCACATGATTTTCGAAA
* * ** * * * *
4412863 AATGAGAAAGTGATTT-CGAAGTTTCTCATTTATTTTTTTTTTTTGAAAATTGACTTTTTTTTAA
66 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTA---AATTTTTCTGAAAACTGAC-TTTTCTGAA
*
4412927 AAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTAGGGCCATC
127 AAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATC
4412980 TGTAAGACCT
Statistics
Matches: 564, Mismatches: 85, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
474 30 0.05
475 104 0.18
476 2 0.00
478 60 0.11
479 299 0.53
480 11 0.02
481 58 0.10
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (478 bp):
GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGAAGGATGTTTTCACATGATTTTCGAAA
AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATTTTTCTGAAAACTGACTTTTCTGAAAAGT
AAGAAAACGATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGC
ATGATGTTTAAATCCTTAAGATCATCTATAAGTCTTTCGAGCAAGATGATAAGTAATTCGAGCCA
TCCATAAGACCTTCGAGAATGATGCTTTCAAATGATTTTCAAAAAATGAGAAAACGATTTCCAAA
GTTTCTCATATAAATCTTTTAACAAAACACACTTTTCTAAAAAGTAAGAAAACGATTTCCAAAGC
TTCTCACTTAGTAAGTCCTTCGGGCCATCAGTAACTCTTTCAAGCATGATGTTTAAATCCTTCGG
TCATCTATAAGTCTTTCAAGGAA
Found at i:4413589 original size:3 final size:3
Alignment explanation
Indices: 4413581--4413610 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4413571 TCTTACCTTA
*
4413581 TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4413611 ATTTATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4413599 original size:12 final size:12
Alignment explanation
Indices: 4413578--4413640 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
4413568 CAATCTTACC
4413578 TTAT-ATTATTA
1 TTATAATTATTA
4413589 TTATAATTATTA
1 TTATAATTATTA
*
4413601 TTATTATTA-TA
1 TTATAATTATTA
*
4413612 TTTATATTTA-TA
1 -TTATAATTATTA
*
4413624 TTTATAAATATTA
1 -TTATAATTATTA
4413637 TTAT
1 TTAT
4413641 TTACAAACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
11 6 0.14
12 36 0.82
13 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATAATTATTA
Found at i:4413604 original size:18 final size:18
Alignment explanation
Indices: 4413581--4413641 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
4413571 TCTTACCTTA
4413581 TATTATTATTATAATTAT
1 TATTATTATTATAATTAT
*
4413599 TATTATTATTATATTTA-
1 TATTATTATTATAATTAT
*
4413616 TATT-TATATTTATAAATAT
1 TATTAT-TA-TTATAATTAT
4413635 TATTATT
1 TATTATT
4413642 TACAAACCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 23 0.64
19 5 0.14
20 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATTATTATAATTAT
Found at i:4435933 original size:22 final size:22
Alignment explanation
Indices: 4435901--4435952 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
4435891 GTATCGAGTC
4435901 AAGTATCGGTACCCCAGCACTA
1 AAGTATCGGTACCCCAGCACTA
*
4435923 AAGTATTGGTACCCCAGCACTA
1 AAGTATCGGTACCCCAGCACTA
4435945 AAGTATCG
1 AAGTATCG
4435953 ATACTCATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (22 bp):
AAGTATCGGTACCCCAGCACTA
Found at i:4436170 original size:20 final size:20
Alignment explanation
Indices: 4436120--4436170 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4436110 CAACAGTTGG
* * *
4436120 GTATCGATACCAAAGGTTTA
1 GTATCGATACTAAAGGGTCA
*
4436140 GTATCGATACTGAAGGGTCA
1 GTATCGATACTAAAGGGTCA
4436160 GTATCGATACT
1 GTATCGATACT
4436171 CACAAATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (20 bp):
GTATCGATACTAAAGGGTCA
Found at i:4440133 original size:18 final size:18
Alignment explanation
Indices: 4440110--4440148 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4440100 TATACAAGGT
4440110 AATTATGGCAATATTTCG
1 AATTATGGCAATATTTCG
4440128 AATTATGGCAATATTTCG
1 AATTATGGCAATATTTCG
4440146 AAT
1 AAT
4440149 ATATCACGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
AATTATGGCAATATTTCG
Found at i:4443788 original size:2 final size:2
Alignment explanation
Indices: 4443781--4443820 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4443771 CTTTGCTCAC
4443781 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
4443821 GTAATAAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4451340 original size:20 final size:21
Alignment explanation
Indices: 4451303--4451349 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
4451293 GTCATGCAAC
4451303 TAATAATAGTTGCATAATGCA
1 TAATAATAGTTGCATAATGCA
*
4451324 TAATAATGGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
*
4451344 TTATAA
1 TAATAA
4451350 GTTGGCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:4451364 original size:24 final size:23
Alignment explanation
Indices: 4451336--4451388 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4451326 ATAATGGTTC
4451336 ATAATGCATT-ATAAGTTGGCAATA
1 ATAATG-ATTCAT-AGTTGGCAATA
* *
4451360 ATAATGGTTCATAGTTGGCACTA
1 ATAATGATTCATAGTTGGCAATA
4451383 ATAATG
1 ATAATG
4451389 GTTGAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (23 bp):
ATAATGATTCATAGTTGGCAATA
Found at i:4460697 original size:3 final size:3
Alignment explanation
Indices: 4460689--4460744 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
4460679 TTTTTTACCA
*
4460689 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4460737 TAT TAT TA
1 TAT TAT TA
4460745 AATATATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4462161 original size:13 final size:13
Alignment explanation
Indices: 4462145--4462191 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
4462135 TATATAATAA
4462145 TAAATATTTATTT
1 TAAATATTTATTT
*
4462158 TAAATAAATTATTT
1 TAAAT-ATTTATTT
4462172 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
4462185 TCAATAT
1 TAAATAT
4462192 CAAAGAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:4462851 original size:17 final size:17
Alignment explanation
Indices: 4462831--4462865 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4462821 ATTTTTTTTC
*
4462831 TTTTCAAAATTTTTATA
1 TTTTCAAAATATTTATA
*
4462848 TTTTCATAATATTTATA
1 TTTTCAAAATATTTATA
4462865 T
1 T
4462866 GTTTTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTCAAAATATTTATA
Found at i:4462889 original size:15 final size:13
Alignment explanation
Indices: 4462869--4462906 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
4462859 TTTATATGTT
4462869 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
4462884 TTATTTTATTTCA
1 TTATTTTATTTCA
4462897 TTA-TTTATTT
1 TTATTTTATTT
4462907 TGTCAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:4473848 original size:16 final size:16
Alignment explanation
Indices: 4473822--4473866 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4473812 TTTGAATACA
*
4473822 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
4473839 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
4473854 ATTCAATTTATTT
1 ATTCAATTTATTT
4473867 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:4474735 original size:83 final size:83
Alignment explanation
Indices: 4474634--4475001 Score: 673
Period size: 83 Copynumber: 4.4 Consensus size: 83
4474624 ATATCCTAGT
4474634 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
4474699 TGATCTGGTTAGATAGAA
66 TGATCTGGTTAGACAGAA
*
4474717 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
4474782 TGATCTGGTTAGACAGAA
66 TGATCTGGTTAGACAGAA
4474800 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
4474865 TGATCTGGTTAGACAGAA
66 TGATCTGGTTAGACAGAA
4474883 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
4474948 TGATCTGGTTGGACAGAA
66 TGATCTGGTTAGACAGAA
* ** *
4474966 CCAATTATTGAATTGGGAAGATGAATTTGCTCATAG
1 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAG
4475002 TAGAAATAAG
Statistics
Matches: 277, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 277 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTAGACAGAA
Found at i:4475996 original size:113 final size:113
Alignment explanation
Indices: 4475798--4476561 Score: 1261
Period size: 113 Copynumber: 6.8 Consensus size: 113
4475788 ATTCAAATCT
*
4475798 ATCATTTGATGGATTATCTTTTCCAGA-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATCATCTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
4475862 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
*
4475911 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
4475976 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
4476024 ATCATTTGATGGATCATCTTTTCCAGAGAAAG-TCATAATGAGAAGAA-TCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
4476087 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAA-TC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* *
4476134 TATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGA
1 -ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
4476199 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
*
4476248 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
4476313 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAA-TC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * *
4476360 TATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAATGA
1 -ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
4476425 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
4476474 ATCATTTGATGGATCAACATTGCCA-AGTATAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
4476538 GAAAGAAGAAGTTTATAATAAGAA
62 GGAAGAAGAAGTTCATAATGAGAA
4476562 CTTGTTCAAT
Statistics
Matches: 615, Mismatches: 25, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
110 2 0.00
111 91 0.15
112 34 0.06
113 451 0.73
114 5 0.01
115 1 0.00
116 31 0.05
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
Found at i:4476893 original size:3 final size:3
Alignment explanation
Indices: 4476885--4476982 Score: 187
Period size: 3 Copynumber: 32.7 Consensus size: 3
4476875 TTTTTACCCA
4476885 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4476933 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4476981 TA
1 TA
4476983 AATATATATT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4478408 original size:13 final size:13
Alignment explanation
Indices: 4478392--4478438 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
4478382 ATATAATAAA
4478392 TAAATATTTATTT
1 TAAATATTTATTT
*
4478405 TAAATAAATTATTT
1 TAAAT-ATTTATTT
4478419 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
4478432 TCAATAT
1 TAAATAT
4478439 CAAAGAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:4482552 original size:2 final size:2
Alignment explanation
Indices: 4482545--4482572 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4482535 TAAAGTATCA
4482545 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
4482573 TTATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4486870 original size:33 final size:33
Alignment explanation
Indices: 4486816--4486880 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
4486806 ATGAGGCAGT
* * **
4486816 ACCGATACTATCACAATAGAATGTTAAAATGGA
1 ACCGATACTATCAAAACAGAATACTAAAATGGA
*
4486849 ACCGATACTGTCAAAACAGAATACTAAAATGG
1 ACCGATACTATCAAAACAGAATACTAAAATGG
4486881 TATCGATAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (33 bp):
ACCGATACTATCAAAACAGAATACTAAAATGGA
Found at i:4490251 original size:22 final size:22
Alignment explanation
Indices: 4490226--4490278 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
4490216 AAATATATTT
4490226 TATTATTAACGTAATTTAAAAA
1 TATTATTAACGTAATTTAAAAA
* ***
4490248 TATTTTTATTTTAATTTAAAAA
1 TATTATTAACGTAATTTAAAAA
*
4490270 CATATATTA
1 TAT-TATTA
4490279 GGTAAAATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTATTAACGTAATTTAAAAA
Found at i:4490346 original size:30 final size:30
Alignment explanation
Indices: 4490296--4490491 Score: 136
Period size: 30 Copynumber: 6.5 Consensus size: 30
4490286 TATTTTGAAG
* * *
4490296 TTAAGATAAGAATAAAATATATTTAATAAT
1 TTAAAATAATAATATAATATATTTAATAAT
*
4490326 TTAAAATAATAATATAATATATTTAATAAA
1 TTAAAATAATAATATAATATATTTAATAAT
* * *
4490356 TTAAAATAA-AATAT-ATA-CTTTAAAAAG
1 TTAAAATAATAATATAATATATTTAATAAT
*
4490383 TTAAAATAATAATAATATATACTTTTTTTCAA-AAT
1 TTAAAATAATAAT-ATA-ATA---TATTT-AATAAT
* * *
4490418 TT-AGATAAGAATAAAATATATTTAACT-AT
1 TTAAAATAATAATATAATATATTTAA-TAAT
* * * *
4490447 TTGAAATAATATTATAATATATTTAGTAAA
1 TTAAAATAATAATATAATATATTTAATAAT
*
4490477 TTAAGATAA-AATATA
1 TTAAAATAATAATATA
4490492 TACTTTGAAA
Statistics
Matches: 131, Mismatches: 22, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
27 16 0.12
28 8 0.06
29 21 0.16
30 61 0.47
31 3 0.02
32 3 0.02
33 2 0.02
34 8 0.06
35 7 0.05
36 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (30 bp):
TTAAAATAATAATATAATATATTTAATAAT
Found at i:4490387 original size:57 final size:56
Alignment explanation
Indices: 4490312--4490527 Score: 173
Period size: 57 Copynumber: 3.7 Consensus size: 56
4490302 TAAGAATAAA
* *
4490312 ATATATTTAATAATTTAAAATAATAATATAATATATTTAATAAATTAAAATAAAAT
1 ATATATTTAAAAAGTTAAAATAATAATATAATATATTTAATAAATTAAAATAAAAT
* * *
4490368 ATATACTTTAAAAAGTTAAAATAATAATAATATATACTTTTTTTCAA-AATTTAGATAAGAATAA
1 ATATA-TTTAAAAAGTTAAAATAATAAT-ATA-ATA---TATTT-AATAAATTA-A-AATAA-AA
*
4490432 A
56 T
** * * * * *
4490433 ATATATTTAACTATTTGAAATAATATTATAATATATTTAGTAAATTAAGATAAAAT
1 ATATATTTAAAAAGTTAAAATAATAATATAATATATTTAATAAATTAAAATAAAAT
* * * *
4490489 ATATACTTTGAAAAGTTGAAACAATAATAAAATATATTT
1 ATATA-TTTAAAAAGTTAAAATAATAATATAATATATTT
4490528 TTCAAAGTTT
Statistics
Matches: 124, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
56 12 0.10
57 49 0.40
58 5 0.04
59 12 0.10
62 12 0.10
63 6 0.05
64 21 0.17
65 7 0.06
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (56 bp):
ATATATTTAAAAAGTTAAAATAATAATATAATATATTTAATAAATTAAAATAAAAT
Found at i:4490432 original size:121 final size:119
Alignment explanation
Indices: 4490299--4490556 Score: 378
Period size: 121 Copynumber: 2.2 Consensus size: 119
4490289 TTTGAAGTTA
4490299 AGATAAGAATAAAATATATTTAA-TAATTTAAAATAATAATATAATATATTTAATAAATTAAAAT
1 AGATAAGAATAAAATATATTTAACT-ATTTAAAATAATAATATAATATATTTAATAAATTAAAAT
* *
4490363 AAAATATATACTTTAAAAAGTTAAAATAATAATAATATATACTTTTTTTCAAAATTT-
65 AAAATATATACTTTAAAAAGTTAAAACAATAATAA-A-ATA-TATTTTTCAAAATTTC
* * * *
4490420 AGATAAGAATAAAATATATTTAACTATTTGAAATAATATTATAATATATTTAGTAAATTAAGATA
1 AGATAAGAATAAAATATATTTAACTATTTAAAATAATAATATAATATATTTAATAAATTAAAATA
* * *
4490485 AAATATATACTTTGAAAAGTTGAAACAATAATAAAATATATTTTTCAAAGTTTC
66 AAATATATACTTTAAAAAGTTAAAACAATAATAAAATATATTTTTCAAAATTTC
4490539 A-ATAAGAATAAAATATAT
1 AGATAAGAATAAAATATAT
4490557 ACTTTTAAAT
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
118 30 0.24
119 4 0.03
120 1 0.01
121 90 0.71
122 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (119 bp):
AGATAAGAATAAAATATATTTAACTATTTAAAATAATAATATAATATATTTAATAAATTAAAATA
AAATATATACTTTAAAAAGTTAAAACAATAATAAAATATATTTTTCAAAATTTC
Found at i:4490515 original size:60 final size:58
Alignment explanation
Indices: 4490328--4490518 Score: 165
Period size: 60 Copynumber: 3.2 Consensus size: 58
4490318 TTAATAATTT
* *
4490328 AAAATAATAATATAATATATTTAATAAATTAAAATAAAATATATACTTTAAAAAGTTAA
1 AAAATAATAATATAATATATTTAATAAATTAAGATAAAATATATACTTT-AAAAGTTGA
* * * * * *
4490387 AATAATAATAATATATACTTTTTTTCA-AAATTTAGATAAGAATAAAATATA-TTTAACTATTTG
1 AA-AATAATAATATA-A-TATATTTAATAAATTAAGATAA-AAT---ATATACTTTAA-AAGTTG
4490450 -
58 A
* *
4490450 -AAATAATATTATAATATATTTAGTAAATTAAGATAAAATATATACTTTGAAAAGTTGA
1 AAAATAATAATATAATATATTTAATAAATTAAGATAAAATATATACTTT-AAAAGTTGA
4490508 AACAATAATAA
1 AA-AATAATAA
4490519 AATATATTTT
Statistics
Matches: 101, Mismatches: 17, Indels: 27
0.70 0.12 0.19
Matches are distributed among these distances:
56 5 0.05
57 7 0.07
58 2 0.02
59 11 0.11
60 31 0.31
61 22 0.22
62 10 0.10
63 2 0.02
64 6 0.06
65 5 0.05
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (58 bp):
AAAATAATAATATAATATATTTAATAAATTAAGATAAAATATATACTTTAAAAGTTGA
Found at i:4490574 original size:31 final size:32
Alignment explanation
Indices: 4490473--4490585 Score: 101
Period size: 31 Copynumber: 3.6 Consensus size: 32
4490463 ATATATTTAG
* *
4490473 TAAATTAAG-ATAAAATATATACTTTGAAAAGT
1 TAAAATAAGAATAAAATATATACTTT-TAAAGT
* * *
4490505 TGAAACAATAATAAAATATAT--TTTTCAAAGT
1 TAAAATAAGAATAAAATATATACTTTT-AAAGT
**
4490536 TTCAATAAGAATAAAATATATACTTTTAAA-T
1 TAAAATAAGAATAAAATATATACTTTTAAAGT
4490567 TAAAATAA-ATATAAAATAT
1 TAAAATAAGA-ATAAAATAT
4490586 TTTTATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
30 1 0.02
31 41 0.63
32 8 0.12
33 15 0.23
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.35
Consensus pattern (32 bp):
TAAAATAAGAATAAAATATATACTTTTAAAGT
Found at i:4490607 original size:27 final size:26
Alignment explanation
Indices: 4490575--4490660 Score: 97
Period size: 25 Copynumber: 3.3 Consensus size: 26
4490565 ATTAAAATAA
4490575 ATATAAAATATTTTTATATTAAGTTAAT
1 ATATAAAATATTTTTA-A-TAAGTTAAT
**
4490603 A-ATAAAATACATTTAATAAGTTAAT
1 ATATAAAATATTTTTAATAAGTTAAT
*
4490628 ATAAAAAATATTTCTTAA-AA-TTAAT
1 ATATAAAATATTT-TTAATAAGTTAAT
4490653 ATATAAAA
1 ATATAAAA
4490661 AATATTATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 22 0.44
26 11 0.22
27 16 0.32
28 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAAAATATTTTTAATAAGTTAAT
Found at i:4491946 original size:28 final size:28
Alignment explanation
Indices: 4491894--4491957 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
4491884 AAAAACATAT
* ** *
4491894 AATATATGGTTTTTAAAACGGTTTTGAA
1 AATATATAGTTTTTAAAACAATTTTAAA
*
4491922 AATATATAGTTTTTAAAATAATTTTAAA
1 AATATATAGTTTTTAAAACAATTTTAAA
*
4491950 AATGTATA
1 AATATATA
4491958 AATATATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (28 bp):
AATATATAGTTTTTAAAACAATTTTAAA
Found at i:4491964 original size:36 final size:36
Alignment explanation
Indices: 4491922--4492147 Score: 219
Period size: 37 Copynumber: 6.2 Consensus size: 36
4491912 CGGTTTTGAA
* **
4491922 AATATATAG-TTTTTAAAATAATTTTAAAAATGTAT
1 AATATATAGTTTTTTAAAATAATTTTGAAAACATAT
* *
4491957 AAATATATAGTTTTTTTAAATAGTTTTCGAAAACATAT
1 -AATATATAGTTTTTTAAAATAATTTT-GAAAACATAT
* *
4491995 AATATATAGTTTTTTAAAACGATTTTTGAAAACATAT
1 AATATATAGTTTTTTAAAA-TAATTTTGAAAACATAT
* *
4492032 AGTCTATAGTTTTTTAAAA-AAGGTTTTGAAAACATAT
1 AATATATAGTTTTTTAAAATAA--TTTTGAAAACATAT
* * *
4492069 AGTATATAG-CTTTTAAAATAATTTT-AAAAAATGTAT
1 AATATATAGTTTTTTAAAATAATTTTGAAAACA--TAT
*
4492105 AATATATAG-TTTTTAAAATATTTTTGAAAACGTATAT
1 AATATATAGTTTTTTAAAATAATTTTGAAAAC--ATAT
4492142 AATATA
1 AATATA
4492148 CTTTTTTTGA
Statistics
Matches: 161, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
34 5 0.03
35 5 0.03
36 42 0.26
37 96 0.60
38 12 0.07
39 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
AATATATAGTTTTTTAAAATAATTTTGAAAACATAT
Found at i:4492005 original size:73 final size:71
Alignment explanation
Indices: 4491922--4492147 Score: 265
Period size: 74 Copynumber: 3.1 Consensus size: 71
4491912 CGGTTTTGAA
*
4491922 AATATATAGTTTTTAAAATAATTTTAAAAATGTATAAATATATAGTTTTTTTAAATAGTTTTCGA
1 AATATATAGTTTTTAAAATAATTTTAAAAATGTAT-AATATATAGTTTTTTAAAATAGTTTT-GA
4491987 AAACATAT
64 AAACATAT
* * * ** * * *
4491995 AATATATAGTTTTTTAAAACGATTTTTGAAAACATATAGTCTATAGTTTTTTAAAAAAGGTTTTG
1 AATATATAG-TTTTTAAAA-TAATTTTAAAAATGTATAATATATAGTTTTTTAAAATA-GTTTTG
4492060 AAAACATAT
63 AAAACATAT
* * *
4492069 AGTATATAGCTTTTAAAATAATTTTAAAAAATGTATAATATATAG-TTTTTAAAATATTTTTGAA
1 AATATATAGTTTTTAAAATAATTTT-AAAAATGTATAATATATAGTTTTTTAAAATAGTTTTGAA
4492133 AACGTATAT
65 AAC--ATAT
4492142 AATATA
1 AATATA
4492148 CTTTTTTTGA
Statistics
Matches: 126, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
71 10 0.08
72 15 0.12
73 40 0.32
74 44 0.35
75 17 0.13
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (71 bp):
AATATATAGTTTTTAAAATAATTTTAAAAATGTATAATATATAGTTTTTTAAAATAGTTTTGAAA
ACATAT
Found at i:4492164 original size:24 final size:23
Alignment explanation
Indices: 4492125--4492185 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 23
4492115 TTTTAAAATA
*
4492125 TTTTTGAAAACGTATATAATATACTT
1 TTTTTGAAAA--TATATAATATA-TG
4492151 TTTTTG-AAA-ATATAATATATG
1 TTTTTGAAAATATATAATATATG
*
4492172 GTTTTGAAAATATA
1 TTTTTGAAAATATA
4492186 ATATATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 6 0.19
22 13 0.42
23 3 0.10
25 3 0.10
26 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTTTGAAAATATATAATATATG
Found at i:4492178 original size:21 final size:21
Alignment explanation
Indices: 4492138--4492191 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
4492128 TTGAAAACGT
**
4492138 ATATAATATACTTTTTTTGAAA
1 ATATAATATA-TGGTTTTGAAA
4492160 ATATAATATATGGTTTTGAAA
1 ATATAATATATGGTTTTGAAA
4492181 ATATAATATAT
1 ATATAATATAT
4492192 TATATAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (21 bp):
ATATAATATATGGTTTTGAAA
Found at i:4492217 original size:3 final size:3
Alignment explanation
Indices: 4492209--4492244 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4492199 TTTTAAATAG
4492209 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4492245 TATTTTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4492259 original size:16 final size:16
Alignment explanation
Indices: 4492225--4492272 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
4492215 ATTATTATTA
4492225 TTATTATTATTATTATTAT
1 TTATT-TTATT-TT-TTAT
*
4492244 TTATTTTCTTTTTTAT
1 TTATTTTATTTTTTAT
4492260 TTATTTTATTTTT
1 TTATTTTATTTTT
4492273 CCCTCGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 16 0.59
17 2 0.07
18 4 0.15
19 5 0.19
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTTATTTTTTAT
Found at i:4495474 original size:192 final size:191
Alignment explanation
Indices: 4495119--4495482 Score: 602
Period size: 192 Copynumber: 1.9 Consensus size: 191
4495109 ACTTTGATGC
* * * *
4495119 ATTGTAAGGAATCAGAGTAGATCGGGTTTACACCAAGTACATCAAAAGTCAGCCTTTTAAGAATG
1 ATTGTAAGGAAACAGAATAGACCGGGTCTACACCAAGTACATCAAAAGTCAGCCTTTTAAGAATG
* *
4495184 TGTTGGAAAAAGTTGCAGGGGTAGATGAAAAGTGGGTAATTGACTAAATTCAGCACAAAGGTAAA
66 GGTTGGAAAAAGTTGCAGGGGTAGATGAAAAGTGGGTAATTGACCAAATTCAGCACAAAGGTAAA
* * * *
4495249 GGATAAGGAATTGTTTGGACCCACTTCAAGCAATTAATGAAGGAATATACTACTTCATTGT
131 GGAGAAGGAATTGCTTAGACCCACATCAAGCAATTAATGAAGGAATATACTACTTCATTGT
*
4495310 ATTGTGAAGGAAACAGAATGGACCGGGTCTACACCAAGTACATCAAAAGTCAGCCTTTTAAGAAT
1 ATTGT-AAGGAAACAGAATAGACCGGGTCTACACCAAGTACATCAAAAGTCAGCCTTTTAAGAAT
* *
4495375 GGGTTGGCAAAAGTTGCAGGGGTAGATGAAAAGTGGGTAATTGACCAGATTCAGCACAAAGGTAA
65 GGGTTGGAAAAAGTTGCAGGGGTAGATGAAAAGTGGGTAATTGACCAAATTCAGCACAAAGGTAA
4495440 AGGAGAAGGAATTGCTTAGACCCACATCAAGCAATTAATGAAG
130 AGGAGAAGGAATTGCTTAGACCCACATCAAGCAATTAATGAAG
4495483 AATCATCCTG
Statistics
Matches: 159, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
191 5 0.03
192 154 0.97
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (191 bp):
ATTGTAAGGAAACAGAATAGACCGGGTCTACACCAAGTACATCAAAAGTCAGCCTTTTAAGAATG
GGTTGGAAAAAGTTGCAGGGGTAGATGAAAAGTGGGTAATTGACCAAATTCAGCACAAAGGTAAA
GGAGAAGGAATTGCTTAGACCCACATCAAGCAATTAATGAAGGAATATACTACTTCATTGT
Found at i:4500016 original size:17 final size:17
Alignment explanation
Indices: 4499994--4500036 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
4499984 CTTTACGCGT
4499994 GAGGAGACCTCTTCCTA
1 GAGGAGACCTCTTCCTA
4500011 GAGGAGACCTCTTCCTA
1 GAGGAGACCTCTTCCTA
*
4500028 GAGGGGACC
1 GAGGAGACC
4500037 ATGCCCTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (17 bp):
GAGGAGACCTCTTCCTA
Found at i:4504494 original size:21 final size:21
Alignment explanation
Indices: 4504468--4504524 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4504458 ATTTTACACT
4504468 TATGCATCGATGCACCCAGGG
1 TATGCATCGATGCACCCAGGG
4504489 TATGCATCGATGCACCCAGGG
1 TATGCATCGATGCACCCAGGG
*
4504510 TATGCATCTATGCAC
1 TATGCATCGATGCAC
4504525 TGACGCTCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (21 bp):
TATGCATCGATGCACCCAGGG
Found at i:4510955 original size:21 final size:21
Alignment explanation
Indices: 4510913--4510956 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4510903 ACTCCGGGAG
* *
4510913 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
4510934 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
4510955 CT
1 CT
4510957 CCTCCTCCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:4524791 original size:12 final size:12
Alignment explanation
Indices: 4524774--4524798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4524764 TATATAATAT
4524774 ATGGTTTTTAAA
1 ATGGTTTTTAAA
4524786 ATGGTTTTTAAA
1 ATGGTTTTTAAA
4524798 A
1 A
4524799 CATATAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATGGTTTTTAAA
Found at i:4524818 original size:100 final size:102
Alignment explanation
Indices: 4524714--4524908 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 102
4524704 AATTTCAAAT
* ** *
4524714 ATAATTTTGAAAAA-ATAT-AATATATAATTTTTGGAAGCTTATTTAAAAAATATATAATATAT-
1 ATAATTTT-AAAAATATATAAATATATAATTTTTGAAAGAGT-TTTAAAAAACATATAATATATA
*
4524776 GGTTTTTAAAATGGTTTTT-AAAACATATAGTTTTTAAA
64 GGTTTTTAAAATGATTTTTGAAAACATATAGTTTTTAAA
* * * * * *
4524814 ATAATTTTAAAAATGTATAAATATATAGTTTTTTAAATAGTTTTCAAAAACATATAATATATAGT
1 ATAATTTTAAAAATATATAAATATATAATTTTTGAAAGAGTTTTAAAAAACATATAATATATAGG
*
4524879 TTTTTAAAATTATTTTTGAAAACATATAGT
66 TTTTTAAAATGATTTTTGAAAACATATAGT
4524909 ATATAGTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
99 5 0.06
100 30 0.38
101 32 0.41
102 12 0.15
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (102 bp):
ATAATTTTAAAAATATATAAATATATAATTTTTGAAAGAGTTTTAAAAAACATATAATATATAGG
TTTTTAAAATGATTTTTGAAAACATATAGTTTTTAAA
Found at i:4524832 original size:28 final size:28
Alignment explanation
Indices: 4524772--4524826 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
4524762 AATATATAAT
* ** *
4524772 ATATGGTTTTTAAAATGGTTTTTAAAAC
1 ATATAGTTTTTAAAATAATTTTAAAAAC
4524800 ATATAGTTTTTAAAATAATTTTAAAAA
1 ATATAGTTTTTAAAATAATTTTAAAAA
4524827 TGTATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (28 bp):
ATATAGTTTTTAAAATAATTTTAAAAAC
Found at i:4524843 original size:36 final size:35
Alignment explanation
Indices: 4524800--4525192 Score: 184
Period size: 36 Copynumber: 10.5 Consensus size: 35
4524790 TTTTTAAAAC
**
4524800 ATATAGTTTTTAAAATAATTTTAAAAATGTATAAAT
1 ATATAGTTTTTAAAATAATTTTAAAAACATAT-AAT
* *
4524836 ATATAGTTTTTTAAATAGTTTTCAAAAACATATAAT
1 ATATAGTTTTTAAAATAATTTT-AAAAACATATAAT
* * *
4524872 ATATAGTTTTTTAAAATTATTTTTGAAAACATATAGT
1 ATATAG-TTTTTAAAA-TAATTTTAAAAACATATAAT
** * ** *
4524909 ATATAGTTTTGTAAACGATTTTTGAAAATGATTTTTGAAAACAT
1 ATATAGTTTT-TAAAATAATTTT-AAAA--A--CAT--ATA-AT
* ** * * *
4524953 ATAGTATATAGTTTTTTAAAATATTTTTGAAAACTTATAAT
1 ATA-TA-GT--TTTTAAAATA-A-TTTTAAAAACATATAAT
* *
4524994 ATATAGTTTTTTATAAAAAATGGTTTTAAAAACATATAGT
1 ATATAG-TTTTTA-AAATAA---TTTTAAAAACATATAAT
* *
4525034 ATATAGTTTTTTAAAATATTTTTGAAAACATATAAT
1 ATATAG-TTTTTAAAATAATTTTAAAAACATATAAT
* * *
4525070 ATATAGGTTTTTAAAA-AATGGTTTTGAAAATATATAGT
1 ATATA-GTTTTTAAAATAA---TTTTAAAAACATATAAT
* * **
4525108 ACATAGTTTCTAAAATAA-TTTAAAAATGTATAAT
1 ATATAGTTTTTAAAATAATTTTAAAAACATATAAT
*
4525142 ATATAGTTTTTAAAAT-ATATTTGAAAACGTATATAAT
1 ATATAGTTTTTAAAATAAT-TTTAAAAAC--ATATAAT
4525179 ATAT--TTTTTAAAAT
1 ATATAGTTTTTAAAAT
4525193 GTATTTTTGA
Statistics
Matches: 278, Mismatches: 48, Indels: 63
0.71 0.12 0.16
Matches are distributed among these distances:
33 1 0.00
34 27 0.10
35 18 0.06
36 68 0.24
37 60 0.22
38 32 0.12
39 9 0.03
40 30 0.11
41 6 0.02
42 2 0.01
43 2 0.01
44 6 0.02
45 2 0.01
46 2 0.01
47 3 0.01
48 6 0.02
49 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
ATATAGTTTTTAAAATAATTTTAAAAACATATAAT
Found at i:4524931 original size:49 final size:49
Alignment explanation
Indices: 4524878--4524990 Score: 172
Period size: 49 Copynumber: 2.3 Consensus size: 49
4524868 TAATATATAG
* *
4524878 TTTTTTAAAATTATTTTTGAAAACATATAGTATATAGTTTTGTAAACGA
1 TTTTTGAAAATTATTTTTGAAAACATATAGTATATAGTTTTGTAAAAGA
* * *
4524927 TTTTTGAAAATGATTTTTGAAAACATATAGTATATAGTTTTTTAAAATA
1 TTTTTGAAAATTATTTTTGAAAACATATAGTATATAGTTTTGTAAAAGA
4524976 TTTTTGAAAACTTAT
1 TTTTTGAAAA-TTAT
4524991 AATATATAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 54 0.95
50 3 0.05
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (49 bp):
TTTTTGAAAATTATTTTTGAAAACATATAGTATATAGTTTTGTAAAAGA
Found at i:4524941 original size:13 final size:13
Alignment explanation
Indices: 4524915--4524950 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4524905 TAGTATATAG
*
4524915 TTTTGTAAACGAT
1 TTTTGAAAACGAT
*
4524928 TTTTGAAAATGAT
1 TTTTGAAAACGAT
4524941 TTTTGAAAAC
1 TTTTGAAAAC
4524951 ATATAGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACGAT
Found at i:4525031 original size:76 final size:75
Alignment explanation
Indices: 4524941--4525206 Score: 318
Period size: 76 Copynumber: 3.6 Consensus size: 75
4524931 TGAAAATGAT
4524941 TTTTGAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAACTTATAATATATAGTTTTTT
1 TTTTGAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAACTTATAATATATAGTTTTTT
4525006 ATAAAAAATGG
66 -TAAAAAATGG
* * *
4525017 TTTTAAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAACATATAATATATAG-GTTTT
1 TTTTGAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAACTTATAATATATAGTTTTTT
4525081 TAAAAAATGG
66 TAAAAAATGG
* * * * *
4525091 TTTTGAAAATATATAGTACATAG-TTTCTAAAATA-ATTT-AAAAATGTATAATATATAG--TTT
1 TTTTGAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAACT-TATAATATATAGTTTTT
*
4525151 TTAAAATAT--
65 TTAAAAAATGG
* *
4525160 ATTTGAAAACGTATA-TAATATA-TTTTTTAAAATGTATTTTTGAAAAC
1 TTTTGAAAACATATAGT-ATATAGTTTTTTAAAA--TATTTTTGAAAAC
4525207 ATAGTATATG
Statistics
Matches: 165, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
68 1 0.01
69 24 0.15
71 17 0.10
72 18 0.11
73 14 0.08
74 30 0.18
75 4 0.02
76 57 0.35
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (75 bp):
TTTTGAAAACATATAGTATATAGTTTTTTAAAATATTTTTGAAAACTTATAATATATAGTTTTTT
TAAAAAATGG
Found at i:4525174 original size:35 final size:35
Alignment explanation
Indices: 4524965--4525209 Score: 226
Period size: 37 Copynumber: 6.7 Consensus size: 35
4524955 AGTATATAGT
*
4524965 TTTTTAAAATATTTTTGAAAACTTATAATATATAG
1 TTTTTAAAATATTTTTGAAAACATATAATATATAG
* * *
4525000 TTTTTTATAAAAAATGGTTTTAAAAACATATAGTATATAG
1 --TTTT-TAAAATAT--TTTTGAAAACATATAATATATAG
4525040 TTTTTTAAAATATTTTTGAAAACATATAATATATAGG
1 -TTTTTAAAATATTTTTGAAAACATATAATATATA-G
* * * *
4525077 TTTTTAAAAAATGGTTTTGAAAATATATAGTACATAG
1 TTTTTAAAATAT--TTTTGAAAACATATAATATATAG
* * * **
4525114 TTTCTAAAATA-ATTTAAAAATGTATAATATATAG
1 TTTTTAAAATATTTTTGAAAACATATAATATATAG
*
4525148 TTTTTAAAATATATTTGAAAACGTATATAATATAT--
1 TTTTTAAAATATTTTTGAAAAC--ATATAATATATAG
4525183 TTTTTAAAATGTATTTTTGAAAACATA
1 TTTTTAAAA--TATTTTTGAAAACATA
4525210 GTATATGGTT
Statistics
Matches: 174, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
34 28 0.16
35 20 0.11
36 31 0.18
37 37 0.21
38 33 0.19
39 5 0.03
40 20 0.11
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (35 bp):
TTTTTAAAATATTTTTGAAAACATATAATATATAG
Found at i:4525223 original size:21 final size:21
Alignment explanation
Indices: 4525197--4525236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4525187 TAAAATGTAT
*
4525197 TTTTGAAAACATAGTATATGG
1 TTTTGAAAACATAATATATGG
*
4525218 TTTTGAAAATATAATATAT
1 TTTTGAAAACATAATATAT
4525237 TATATAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTTGAAAACATAATATATGG
Found at i:4526460 original size:20 final size:20
Alignment explanation
Indices: 4526424--4526465 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4526414 AGTATTTTTA
*
4526424 TTAACTTTTTTTCTTTC-TT
1 TTAACATTTTTTCTTTCATT
4526443 TTAACATTTTTTCTTTTCATT
1 TTAACATTTTTTC-TTTCATT
4526464 TT
1 TT
4526466 TTCCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 4 0.20
21 4 0.20
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (20 bp):
TTAACATTTTTTCTTTCATT
Found at i:4528261 original size:28 final size:28
Alignment explanation
Indices: 4528229--4528294 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
4528219 AATTCATGTC
*
4528229 CTGATTCTGTATGGGCATAATCGTCG-T
1 CTGATTCTGTATGGGCATAATCCTCGAT
* *
4528256 CTTGATTATGCATGGGCATAATCCTCGAT
1 C-TGATTCTGTATGGGCATAATCCTCGAT
4528285 CT-ATTCTGTA
1 CTGATTCTGTA
4528295 CGGGATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 7 0.22
28 23 0.72
29 2 0.06
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (28 bp):
CTGATTCTGTATGGGCATAATCCTCGAT
Found at i:4531389 original size:15 final size:15
Alignment explanation
Indices: 4531371--4531426 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
4531361 TAACCGGTTT
4531371 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
4531386 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
4531403 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
4531418 CGATTTTAA
1 CGGTTTTAA
4531427 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:4531399 original size:17 final size:17
Alignment explanation
Indices: 4531374--4531424 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
4531364 CCGGTTTCGG
4531374 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
4531391 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
4531406 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
4531423 TT
1 TT
4531425 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:4531843 original size:13 final size:13
Alignment explanation
Indices: 4531822--4531876 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
4531812 AAGTTCGATA
*
4531822 AATTCAAATACTT
1 AATTGAAATACTT
4531835 AATTGAAATACTT
1 AATTGAAATACTT
* *
4531848 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
4531862 AATTGAAATACTT
1 AATTGAAATACTT
4531875 AA
1 AA
4531877 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:4531920 original size:32 final size:32
Alignment explanation
Indices: 4531862--4531959 Score: 153
Period size: 32 Copynumber: 3.0 Consensus size: 32
4531852 AACTCAACAT
* *
4531862 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAA-ACTTCCAAGTTCGATA
4531895 AATTCAAATACTTAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAACTTCCAAGTTCGATA
4531927 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTT-AAAACTTCCAAGTTCGATA
4531959 A
1 A
4531960 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
32 40 0.65
33 22 0.35
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (32 bp):
AATTCAAATACTTAAAACTTCCAAGTTCGATA
Found at i:4531978 original size:21 final size:21
Alignment explanation
Indices: 4531954--4531993 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4531944 ACTTCAAGTT
4531954 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
4531975 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
4531994 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:4534299 original size:12 final size:12
Alignment explanation
Indices: 4534282--4534327 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
4534272 TTCGGATAAA
4534282 AACCGGTTTTTT
1 AACCGGTTTTTT
4534294 AACCGGTTTTTTT
1 AACCGG-TTTTTT
4534307 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
4534321 ATCCGGT
1 AACCGGT
4534328 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:4534312 original size:15 final size:14
Alignment explanation
Indices: 4534281--4534320 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
4534271 TTTCGGATAA
4534281 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
4534294 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
4534307 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
4534321 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:4540060 original size:12 final size:10
Alignment explanation
Indices: 4540034--4540062 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
4540024 TCACACCAAA
4540034 TTCTCTCAAT
1 TTCTCTCAAT
4540044 TTCTCTCAAT
1 TTCTCTCAAT
4540054 TTCTCTCAA
1 TTCTCTCAA
4540063 ATACTATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (10 bp):
TTCTCTCAAT
Found at i:4540147 original size:17 final size:18
Alignment explanation
Indices: 4540112--4540152 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4540102 ATATTATTTA
*
4540112 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
4540130 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
4540147 TTTACT
1 TTTACT
4540153 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Done.