Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 228 of 240
Found at i:68592187 original size:14 final size:15
Alignment explanation
Indices: 68592161--68592191 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68592151 TCGAGGTTCA
68592161 TCAACACATTTTTCT
1 TCAACACATTTTTCT
68592176 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
68592190 TC
1 TC
68592192 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:68595675 original size:23 final size:24
Alignment explanation
Indices: 68595649--68595696 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
68595639 GTATTATGAG
* *
68595649 TTCTAATATT-TAATAAGTTTATT
1 TTCTAATATTGTAAAAAGTCTATT
*
68595672 TTCTAATGTTGTAAAAAGTCTATT
1 TTCTAATATTGTAAAAAGTCTATT
68595696 T
1 T
68595697 ATAGGTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
TTCTAATATTGTAAAAAGTCTATT
Found at i:68605017 original size:17 final size:16
Alignment explanation
Indices: 68604991--68605022 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
68604981 CCCCAAATTA
68604991 TTTTTTTCTTTTTTTT
1 TTTTTTTCTTTTTTTT
68605007 TTTTTTGTCTTTTTTT
1 TTTTTT-TCTTTTTTT
68605023 GTTATGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTT
Found at i:68607687 original size:52 final size:48
Alignment explanation
Indices: 68607668--68607870 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
68607658 TGACAAGTGG
* *
68607668 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
68607714 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
68607766 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
68607812 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
68607858 AAAGTGATAAGTG
1 AAAGTGATAAGTG
68607871 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:68607722 original size:98 final size:98
Alignment explanation
Indices: 68607602--68607870 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
68607592 TTTGAGTACT
*
68607602 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
68607667 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
68607700 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
68607765 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
68607798 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
68607863 GATAAGTG
65 GAAAAGTG
68607871 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:68607878 original size:37 final size:37
Alignment explanation
Indices: 68607834--68607979 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
68607824 GATAGCTTTA
*
68607834 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
68607871 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
68607908 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
68607945 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
68607980 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:68609038 original size:12 final size:13
Alignment explanation
Indices: 68609021--68609054 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
68609011 CCAAATAAGT
68609021 AATAAA-TAATAA
1 AATAAAGTAATAA
68609033 AATAAAGTAAT-A
1 AATAAAGTAATAA
68609045 AATAAAGTAA
1 AATAAAGTAA
68609055 AGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (13 bp):
AATAAAGTAATAA
Found at i:68609050 original size:17 final size:15
Alignment explanation
Indices: 68609028--68609071 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
68609018 AGTAATAAAT
68609028 AATAAAATAAAGTAATA
1 AATAAAATAAAG-AA-A
*
68609045 AATAAAGTAAAGAAA
1 AATAAAATAAAGAAA
68609060 AATAATAATAAA
1 AATAA-AATAAA
68609072 AATTGGGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAAAATAAAGAAA
Found at i:68617859 original size:27 final size:27
Alignment explanation
Indices: 68617829--68617882 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
68617819 AATAAGCTAA
68617829 AACATAAGGATTAGATAAATTTAATTC
1 AACATAAGGATTAGATAAATTTAATTC
*
68617856 AACATAAGGATTAGATGAATTTAATTC
1 AACATAAGGATTAGATAAATTTAATTC
68617883 TTACTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.33
Consensus pattern (27 bp):
AACATAAGGATTAGATAAATTTAATTC
Found at i:68619316 original size:14 final size:15
Alignment explanation
Indices: 68619290--68619320 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68619280 TCCAGGTTCA
68619290 TCAACACATTTTTCT
1 TCAACACATTTTTCT
68619305 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
68619319 TC
1 TC
68619321 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:68631186 original size:87 final size:87
Alignment explanation
Indices: 68631031--68631197 Score: 282
Period size: 87 Copynumber: 1.9 Consensus size: 87
68631021 TTCAGCACTA
* *
68631031 TTAATGCATTCATATTCTCGGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAACCTATT
1 TTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAACCTACT
68631096 AAATTGCATACTTCACGTAGTG
66 AAATTGCATACTTCACGTAGTG
* *
68631118 TTAATGCATTGATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCAGCCGAATCC-AC
1 TTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAA-CCTAC
68631182 TAAATTGCATACTTCA
65 TAAATTGCATACTTCA
68631198 AGTGCAGAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 73 0.97
88 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (87 bp):
TTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAACCTACT
AAATTGCATACTTCACGTAGTG
Found at i:68632679 original size:20 final size:21
Alignment explanation
Indices: 68632654--68632694 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
68632644 GAAAATATAT
*
68632654 TTTCCATTCAA-TTTTCCATC
1 TTTCCAGTCAAGTTTTCCATC
68632674 TTTCCAGTCAAGTTTTCCATC
1 TTTCCAGTCAAGTTTTCCATC
68632695 CCCTCAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.20, C:0.29, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTCCAGTCAAGTTTTCCATC
Found at i:68632870 original size:36 final size:36
Alignment explanation
Indices: 68632830--68632902 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
68632820 AATTTATATG
68632830 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
1 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
68632866 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
1 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
68632902 T
1 T
68632903 TCAATCACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (36 bp):
TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
Found at i:68633345 original size:14 final size:15
Alignment explanation
Indices: 68633319--68633349 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68633309 TCCAGGTTCA
68633319 TCAACACATTTTTCT
1 TCAACACATTTTTCT
68633334 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
68633348 TC
1 TC
68633350 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:68648023 original size:18 final size:19
Alignment explanation
Indices: 68648000--68648037 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
68647990 GGAAGCAAGC
*
68648000 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
68648018 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
68648037 A
1 A
68648038 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:68652208 original size:14 final size:15
Alignment explanation
Indices: 68652184--68652212 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68652174 CAGGTTCATT
68652184 AACACATTTTTCTTC
1 AACACATTTTTCTTC
68652199 AACA-ATTTTTCTTC
1 AACACATTTTTCTTC
68652213 CCATTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
AACACATTTTTCTTC
Found at i:68662122 original size:16 final size:17
Alignment explanation
Indices: 68662091--68662123 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68662081 TATTAGCAAA
68662091 AATAATGGTCATGACATC
1 AATAATGG-CATGACATC
68662109 AATAATGG-ATGACAT
1 AATAATGGCATGACAT
68662124 ATATGACGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (17 bp):
AATAATGGCATGACATC
Found at i:68665100 original size:21 final size:21
Alignment explanation
Indices: 68665074--68665114 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68665064 ATCTGCTCAA
* *
68665074 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
68665095 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
68665115 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:68668242 original size:18 final size:17
Alignment explanation
Indices: 68668210--68668243 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68668200 CTGTTTGTGT
*
68668210 TGCTTTTATATGTTATA
1 TGCTTTTAGATGTTATA
68668227 TGCTTTTAAGATGTTAT
1 TGCTTTT-AGATGTTAT
68668244 TTAAATCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (17 bp):
TGCTTTTAGATGTTATA
Found at i:68669284 original size:16 final size:16
Alignment explanation
Indices: 68669263--68669313 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
68669253 TTTTAATTTT
68669263 TATGTTATGTACATTC
1 TATGTTATGTACATTC
*
68669279 TATGTT-T-TATTATT-
1 TATGTTATGTA-CATTC
*
68669293 TATGTTATGTACATAC
1 TATGTTATGTACATTC
68669309 TATGT
1 TATGT
68669314 CTTATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (16 bp):
TATGTTATGTACATTC
Found at i:68669338 original size:12 final size:12
Alignment explanation
Indices: 68669318--68669364 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
68669308 CTATGTCTTA
* *
68669318 TTATTTTATCAT
1 TTATGTTATTAT
68669330 TTATGTTATTAT
1 TTATGTTATTAT
68669342 TTATGTTTTATTAT
1 TTATG--TTATTAT
68669356 TTATGTTAT
1 TTATGTTAT
68669365 GTACATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (12 bp):
TTATGTTATTAT
Found at i:68669350 original size:26 final size:29
Alignment explanation
Indices: 68669321--68669387 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 29
68669311 TGTCTTATTA
*
68669321 TTTTATCATTTATGTTAT-T-ATT-TATG
1 TTTTATTATTTATGTTATGTAATTCTATG
68669347 TTTTATTATTTATGTTATGTACATTCTATG
1 TTTTATTATTTATGTTATGTA-ATTCTATG
68669377 TTTTATTATTT
1 TTTTATTATTT
68669388 TATTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 17 0.47
27 1 0.03
29 3 0.08
30 15 0.42
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.66
Consensus pattern (29 bp):
TTTTATTATTTATGTTATGTAATTCTATG
Found at i:68669358 original size:64 final size:67
Alignment explanation
Indices: 68669261--68669390 Score: 212
Period size: 64 Copynumber: 2.0 Consensus size: 67
68669251 AATTTTAATT
68669261 TTTATGTTATGTACATTCTATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTA
1 TTTATGTTATGTA-ATTCTATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTA
68669326 TCA
65 TCA
* *
68669329 TTTATGTTAT-T-ATT-TATGTTTTATTATTTATGTTATGTACATTCTATGTTTTATTATTTTAT
1 TTTATGTTATGTAATTCTATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTAT
68669391 TTAATTTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
64 46 0.77
65 3 0.05
67 1 0.02
68 10 0.17
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.62
Consensus pattern (67 bp):
TTTATGTTATGTAATTCTATGTTTTATTATTTATGTTATGTACATACTATGTCTTATTATTTTAT
CA
Found at i:68669381 original size:23 final size:21
Alignment explanation
Indices: 68669291--68669383 Score: 52
Period size: 23 Copynumber: 4.3 Consensus size: 21
68669281 TGTTTTATTA
*
68669291 TTTATGTTATGTACATACTATGT
1 TTTAT-TTATGTACAT-TTATGT
* *
68669314 CTTA-TTATTTTATCATTTATGT
1 TTTATTTA-TGTA-CATTTATGT
68669336 TATTATTTATGT---TTTAT-T
1 T-TTATTTATGTACATTTATGT
68669354 ATTTATGTTATGTACATTCTATGT
1 -TTTAT-TTATGTACATT-TATGT
68669378 TTTATT
1 TTTATT
68669384 ATTTTATTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 23
0.66 0.06 0.28
Matches are distributed among these distances:
18 5 0.09
19 12 0.22
21 3 0.06
22 11 0.20
23 19 0.35
24 4 0.07
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTATTTATGTACATTTATGT
Found at i:68669384 original size:30 final size:30
Alignment explanation
Indices: 68669253--68669387 Score: 166
Period size: 30 Copynumber: 4.4 Consensus size: 30
68669243 TATAATTTAA
68669253 TTTTAATT-TTTATGTTATGTACATTCTATG
1 TTTT-ATTATTTATGTTATGTACATTCTATG
*
68669283 TTTTATTATTTATGTTATGTACATACTATG
1 TTTTATTATTTATGTTATGTACATTCTATG
* * *
68669313 TCTTATTATTTTATCATTTATGTTATTATT-TATG
1 TTTTATTA-TTTAT--GTTATG-TA-CATTCTATG
68669347 TTTTATTATTTATGTTATGTACATTCTATG
1 TTTTATTATTTATGTTATGTACATTCTATG
68669377 TTTTATTATTT
1 TTTTATTATTT
68669388 TATTTAATTT
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
29 6 0.07
30 49 0.54
31 10 0.11
33 10 0.11
34 13 0.14
35 2 0.02
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTTATTATTTATGTTATGTACATTCTATG
Found at i:68669713 original size:157 final size:155
Alignment explanation
Indices: 68669541--68670088 Score: 753
Period size: 157 Copynumber: 3.5 Consensus size: 155
68669531 TACAAAAAGA
* * ** * *
68669541 AATAAAAAATGAAAATAGTATATTTACTGAAAGTAATAAAATTCGAAAAAAAGAAAATTACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
* * *
68669606 AAAGGGTCAAAATAAAGGTTTTTTACTAAATTTATAAAAAAAGACACTAAAATAATATATTTCAG
66 AAAGGGCCAAAATAAAGGTTTTTTACTAAATTTATAAAAAAA-ACACTAAATTAATACATTTCA-
*
68669671 ACATTATGTACTAAAATAATATAAAAT
129 ACTTTATGTACTAAAATAATATAAAAT
* *
68669698 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
** *
68669763 AAATAGCCAAAAT-AAGGATTTTTTACTAAATTTATATAAAAAAACACCAAATTAATACATTTCT
66 AAAGGGCCAAAATAAAGG-TTTTTTACTAAATTTATA-AAAAAAACACTAAATTAATACATTTC-
*
68669827 AATTTTATGTACTAAAATAATATAAAAT
128 AACTTTATGTACTAAAATAATATAAAAT
* * *
68669855 AAAAAAATACGAAAATAG--TATTTTTTGAAAGTATTAAAATTC-AAAAATAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAA-AAGAAAAATACGAA
* * ** *
68669917 CAAATGACCAAAATATGGGGTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTT
65 CAAAGGGCCAAAATAAAGGTTTTTTACTAAA-TT-TATAAAAAAA-ACACTAAATTAATACATTT
68669982 CAAACTTTATGTACTAAAATAATATAAAAT
127 C-AACTTTATGTACTAAAATAATATAAAAT
*
68670012 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
68670077 AAAGGGCCAAAA
66 AAAGGGCCAAAA
68670089 AATCGGGAAA
Statistics
Matches: 345, Mismatches: 35, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
154 4 0.01
155 59 0.17
156 14 0.04
157 210 0.61
158 7 0.02
159 47 0.14
160 4 0.01
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (155 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAAC
AAAGGGCCAAAATAAAGGTTTTTTACTAAATTTATAAAAAAAACACTAAATTAATACATTTCAAC
TTTATGTACTAAAATAATATAAAAT
Found at i:68670140 original size:27 final size:27
Alignment explanation
Indices: 68670109--68670179 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
68670099 ACATGGCACA
* * *
68670109 GGTGCCGCTTGTGGCAGTGGCATCTTT
1 GGTGCCGCCTATGGCAGTGGCACCTTT
* * * *
68670136 GGTGCTGCCTCTGCCACTGGCACCTTT
1 GGTGCCGCCTATGGCAGTGGCACCTTT
68670163 GGTGCCGCCTATGGCAG
1 GGTGCCGCCTATGGCAG
68670180 ACCCTCGACC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.08, C:0.30, G:0.34, T:0.28
Consensus pattern (27 bp):
GGTGCCGCCTATGGCAGTGGCACCTTT
Found at i:68672298 original size:18 final size:18
Alignment explanation
Indices: 68672275--68672325 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
68672265 AGTGTTCAAA
68672275 AAGATAATCCACTCCTAC
1 AAGATAATCCACTCCTAC
*
68672293 AAGATAATCCATTCCTAC
1 AAGATAATCCACTCCTAC
68672311 AAGATAATCCACTCC
1 AAGATAATCCACTCC
68672326 ATTGATTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.39, C:0.31, G:0.06, T:0.24
Consensus pattern (18 bp):
AAGATAATCCACTCCTAC
Found at i:68675999 original size:17 final size:18
Alignment explanation
Indices: 68675977--68676010 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
68675967 CGACCGTGAC
68675977 AAACGCGA-CGCGACCGA
1 AAACGCGACCGCGACCGA
68675994 AAACGCGACCGCGACCG
1 AAACGCGACCGCGACCG
68676011 CAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.38, G:0.29, T:0.00
Consensus pattern (18 bp):
AAACGCGACCGCGACCGA
Found at i:68679318 original size:14 final size:15
Alignment explanation
Indices: 68679294--68679322 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68679284 CAGGTTCATT
68679294 AACACATTTTTCTTC
1 AACACATTTTTCTTC
68679309 AACA-ATTTTTCTTC
1 AACACATTTTTCTTC
68679323 CCATTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
AACACATTTTTCTTC
Found at i:68681601 original size:27 final size:25
Alignment explanation
Indices: 68681554--68681609 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
68681544 TAAAAATATA
68681554 ATTTTATAATCTTAATATTTAAAAT
1 ATTTTATAATCTTAATATTTAAAAT
*
68681579 ATTTTATAACTTTATAATATTTAAAAT
1 ATTTTATAA-TCT-TAATATTTAAAAT
68681606 ATTT
1 ATTT
68681610 AAAGGATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 9 0.32
26 2 0.07
27 17 0.61
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTTATAATCTTAATATTTAAAAT
Found at i:68685645 original size:27 final size:27
Alignment explanation
Indices: 68685615--68685667 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
68685605 AATTAATTTT
68685615 TAATAT-TTTTTGAATTTTTA-AAAATTA
1 TAATATATTTTT--ATTTTTATAAAATTA
68685642 TAATATATTTTTATTTTTATAAAATT
1 TAATATATTTTTATTTTTATAAAATT
68685668 TTTAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TAATATATTTTTATTTTTATAAAATTA
Found at i:68685684 original size:38 final size:38
Alignment explanation
Indices: 68685627--68685713 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
68685617 ATATTTTTTG
*
68685627 AATTTTTAAAAATTATAATATA-TTTTTATTTTTAT-AA
1 AATTTTTAAAAATTATAATA-ACTTTCTATTTTTATGAA
* *
68685664 AATTTTTAAATAATCT-TAATAACTTTCTATTTTTTTGGA
1 AATTTTTAAA-AAT-TATAATAACTTTCTATTTTTATGAA
68685703 AATTTTTAAAA
1 AATTTTTAAAA
68685714 TTAATTAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
37 11 0.26
38 20 0.47
39 12 0.28
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (38 bp):
AATTTTTAAAAATTATAATAACTTTCTATTTTTATGAA
Found at i:68692233 original size:24 final size:25
Alignment explanation
Indices: 68692206--68692256 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
68692196 TTGAGTTCGA
68692206 ATTTTA-TATTTTT-TAAATATTATT
1 ATTTTATTATTTTTGT-AATATTATT
*
68692230 A-TTTATTATTTTTGTAATTTTATT
1 ATTTTATTATTTTTGTAATATTATT
68692254 ATT
1 ATT
68692257 AATTAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
23 4 0.17
24 17 0.74
25 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTATTATTTTTGTAATATTATT
Found at i:68692261 original size:24 final size:24
Alignment explanation
Indices: 68692212--68692261 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
68692202 TCGAATTTTA
*
68692212 TATTTTTTAAATATTATTATTTAT
1 TATTTTTTAAATATTATTATTAAT
*
68692236 TATTTTTGT-AATTTTATTATTAAT
1 TATTTTT-TAAATATTATTATTAAT
68692260 TA
1 TA
68692262 GAATTATAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTTTTAAATATTATTATTAAT
Found at i:68700393 original size:35 final size:35
Alignment explanation
Indices: 68700347--68700413 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
68700337 GTTCTTTAAT
68700347 ATATTTTTATACTAACTTTGTCAATACTTCTATTC
1 ATATTTTTATACTAACTTTGTCAATACTTCTATTC
68700382 ATATTTTTATACTAACTTTGTCAATACTTCTA
1 ATATTTTTATACTAACTTTGTCAATACTTCTA
68700414 CCCCTAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.03, T:0.51
Consensus pattern (35 bp):
ATATTTTTATACTAACTTTGTCAATACTTCTATTC
Found at i:68700433 original size:35 final size:35
Alignment explanation
Indices: 68700352--68700433 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
68700342 TTAATATATT
* ** **
68700352 TTTATACTAACTTTGTCAATACTTCTATTCATATT
1 TTTATAATAACTTTGTCAATACTTCTACCCATAAG
* *
68700387 TTTATACTAACTTTGTCAATACTTCTACCCCTAAG
1 TTTATAATAACTTTGTCAATACTTCTACCCATAAG
68700422 TTTA-AGATAACT
1 TTTATA-ATAACT
68700434 CAAAGAGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (35 bp):
TTTATAATAACTTTGTCAATACTTCTACCCATAAG
Found at i:68700844 original size:15 final size:16
Alignment explanation
Indices: 68700824--68700855 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
68700814 TTTAAATATA
68700824 TAATAAAA-ATAAAAT
1 TAATAAAACATAAAAT
68700839 TAATAAAACATAAAAT
1 TAATAAAACATAAAAT
68700855 T
1 T
68700856 TTATCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
TAATAAAACATAAAAT
Found at i:68719933 original size:19 final size:18
Alignment explanation
Indices: 68719909--68719947 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
68719899 TTCTAACATA
68719909 TATCTACCTAAATAAGATT
1 TATCTACCTAAATAA-ATT
68719928 TATCTACCTAAATAAATT
1 TATCTACCTAAATAAATT
68719946 TA
1 TA
68719948 AAATATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (18 bp):
TATCTACCTAAATAAATT
Found at i:68721784 original size:6 final size:6
Alignment explanation
Indices: 68721773--68721840 Score: 118
Period size: 6 Copynumber: 11.3 Consensus size: 6
68721763 ATTATTAATA
* *
68721773 TTCTTT TCCTTT TTCTTT TCCTTT TTCTTT TTCTTT TTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
68721821 TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TT
68721841 GCTTAAGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:68722036 original size:111 final size:111
Alignment explanation
Indices: 68721836--68722252 Score: 699
Period size: 111 Copynumber: 3.7 Consensus size: 111
68721826 TTTCTTTTTC
* * ** *
68721836 TTTTTGCTTAAGAATATATTGAACCTTTTGACGCCAAAAGAGACAACAGCCAAGCACCCCACCCT
1 TTTTT-CTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
* *
68721901 GGTTACTCAGCCTAACATACTCCTAATTTATTATATTTAAATATATA
65 GGTTACTCAACCCAACATACTCCTAATTTATTATATTTAAATATATA
*
68721948 TTTTTCTTAAGAATATATTGAACTTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCG
1 TTTTTCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCG
68722013 GTTACTCAACCCAACATACTCCTAATTTATTATATTTAAATATATA
66 GTTACTCAACCCAACATACTCCTAATTTATTATATTTAAATATATA
*
68722059 TTTTTCTTAAGAATATATTGAACTTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCG
1 TTTTTCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCG
*
68722124 GTTACTCAACCCAACATACTCCTAATTTATTATATTTAAACATATA
66 GTTACTCAACCCAACATACTCCTAATTTATTATATTTAAATATATA
* * *
68722170 TTTTTCTTAAGAATATATTGAACCTTTTGACGCAAAGAGATATGACAGTCAAGCACCCCACCCCG
1 TTTTTCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCG
*
68722235 GTTACTCAGCCCAACATA
66 GTTACTCAACCCAACATA
68722253 TTCTTAAAAA
Statistics
Matches: 291, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
111 286 0.98
112 5 0.02
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (111 bp):
TTTTTCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCG
GTTACTCAACCCAACATACTCCTAATTTATTATATTTAAATATATA
Found at i:68726936 original size:45 final size:45
Alignment explanation
Indices: 68726885--68726989 Score: 174
Period size: 45 Copynumber: 2.3 Consensus size: 45
68726875 AATGGTAGCA
* *
68726885 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCG
* *
68726930 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCG
68726975 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
68726990 GTCGGCACAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCG
Found at i:68727970 original size:16 final size:17
Alignment explanation
Indices: 68727945--68727976 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
68727935 TAAACCCTAA
68727945 TTTTTCCTTTCTTTCTC
1 TTTTTCCTTTCTTTCTC
68727962 TTTTT-CTTTCTTTCT
1 TTTTTCCTTTCTTTCT
68727977 TTCTCCCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCCTTTCTTTCTC
Found at i:68728364 original size:9 final size:9
Alignment explanation
Indices: 68728350--68728399 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
68728340 CATTTGAATA
*
68728350 AATAATTGT
1 AATAATTAT
68728359 AATAATTAT
1 AATAATTAT
68728368 AATAATTAT
1 AATAATTAT
68728377 -ATACA-TAT
1 AATA-ATTAT
*
68728385 AATATTTAT
1 AATAATTAT
68728394 ATATAA
1 A-ATAA
68728400 CTTAAACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 6 0.18
9 25 0.74
10 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:68730322 original size:17 final size:17
Alignment explanation
Indices: 68730300--68730333 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
68730290 GTTTTTAAGG
68730300 TCTGTACTAATAAAAGC
1 TCTGTACTAATAAAAGC
68730317 TCTGTACTAATAAAAGC
1 TCTGTACTAATAAAAGC
68730334 ATGGCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
TCTGTACTAATAAAAGC
Found at i:68748849 original size:24 final size:25
Alignment explanation
Indices: 68748816--68748869 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
68748806 AATATGATAC
68748816 TATTCTCTAGATTAATACTTAATCT
1 TATTCTCTAGATTAATACTTAATCT
68748841 TATT-TCTAGATTAATACTTAATCT
1 TATTCTCTAGATTAATACTTAATCT
68748865 TATTC
1 TATTC
68748870 GTGGGTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (25 bp):
TATTCTCTAGATTAATACTTAATCT
Found at i:68750100 original size:17 final size:18
Alignment explanation
Indices: 68750067--68750100 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68750057 AAAATTTTAA
68750067 TAAAATATATAATAGTAG
1 TAAAATATATAATAGTAG
*
68750085 TAAAATTTAT-ATAGTA
1 TAAAATATATAATAGTA
68750101 AATAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (18 bp):
TAAAATATATAATAGTAG
Found at i:68750106 original size:18 final size:18
Alignment explanation
Indices: 68750064--68750110 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
68750054 TTTAAAATTT
68750064 TAATAAAATATATAATAG
1 TAATAAAATATATAATAG
* *
68750082 TAGTAAAATTTAT-ATAG
1 TAATAAAATATATAATAG
68750099 TAA-ATAAATATA
1 TAATA-AAATATA
68750111 ATTATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 1 0.04
17 12 0.50
18 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
TAATAAAATATATAATAG
Found at i:68755714 original size:2 final size:2
Alignment explanation
Indices: 68755676--68755706 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
68755666 GAAAGAAAAA
*
68755676 AG AG AG AG AG AG AG AG AG AG AG TG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
68755707 TGGAGAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:68763098 original size:12 final size:13
Alignment explanation
Indices: 68763083--68763116 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
68763073 AATAAAAAAG
68763083 AAAATTTATTTAA
1 AAAATTTATTTAA
*
68763096 AAAA-ATATTTAA
1 AAAATTTATTTAA
68763108 AAAATTTAT
1 AAAATTTAT
68763117 ATGATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATTTATTTAA
Found at i:68774519 original size:6 final size:6
Alignment explanation
Indices: 68774508--68774539 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
68774498 TAGCAAAGAA
68774508 TTCACT TTCACT TTCACT TTCACT TTCACT TT
1 TTCACT TTCACT TTCACT TTCACT TTCACT TT
68774540 TTTTTTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.31, G:0.00, T:0.53
Consensus pattern (6 bp):
TTCACT
Found at i:68778297 original size:28 final size:28
Alignment explanation
Indices: 68778242--68778298 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
68778232 TAAGATTTTT
* * * *
68778242 AAATTTTTTGTTCATGTTTGTTTATTTA
1 AAATTTTGTGTTCAAGTTCGCTTATTTA
*
68778270 AAATTTTGTGTTCAAGTTCGCTTGTTTA
1 AAATTTTGTGTTCAAGTTCGCTTATTTA
68778298 A
1 A
68778299 TGTTCACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.56
Consensus pattern (28 bp):
AAATTTTGTGTTCAAGTTCGCTTATTTA
Found at i:68779629 original size:16 final size:17
Alignment explanation
Indices: 68779610--68779652 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
68779600 TTTATTTTAA
68779610 TAATTTAATAAAG-AAT
1 TAATTTAATAAAGTAAT
*
68779626 TAATTTAATAAAGTATT
1 TAATTTAATAAAGTAAT
68779643 TAATATTAAT
1 TAAT-TTAAT
68779653 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.54
17 6 0.25
18 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
TAATTTAATAAAGTAAT
Found at i:68779661 original size:17 final size:18
Alignment explanation
Indices: 68779641--68779674 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68779631 TAATAAAGTA
*
68779641 TTTAAT-ATTAATTTTAT
1 TTTAATAATAAATTTTAT
68779658 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
68779675 AAAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:68780073 original size:19 final size:19
Alignment explanation
Indices: 68780046--68780090 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
68780036 TTGAAATCTA
68780046 AAAAGTATGACTAAATTTCC
1 AAAA-TATGACTAAATTTCC
68780066 AAAATATGACTAAATTTCC
1 AAAATATGACTAAATTTCC
68780085 AAAATA
1 AAAATA
68780091 GAAGTATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAATATGACTAAATTTCC
Found at i:68780577 original size:15 final size:14
Alignment explanation
Indices: 68780555--68780588 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
68780545 AAAATTAATC
*
68780555 TATTTTTTAAAAAT
1 TATTTTTTTAAAAT
68780569 TATTTTTTTAAAAT
1 TATTTTTTTAAAAT
68780583 TATTTT
1 TATTTT
68780589 CAATGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTTTTAAAAT
Found at i:68787520 original size:22 final size:22
Alignment explanation
Indices: 68787461--68787521 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
68787451 ATTTAAAAAG
68787461 AGATATAGGTATATATACATAATA
1 AGATATA--TATATATACATAATA
* * **
68787485 AGATATAAAGATATTTATAATA
1 AGATATATATATATACATAATA
*
68787507 AGGTATATATATATA
1 AGATATATATATATA
68787522 TATGTATATG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 22 0.76
24 7 0.24
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (22 bp):
AGATATATATATATACATAATA
Found at i:68787795 original size:16 final size:13
Alignment explanation
Indices: 68787765--68787789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68787755 TCAACAAGAA
68787765 ATAATAATACTAT
1 ATAATAATACTAT
68787778 ATAATAATACTA
1 ATAATAATACTA
68787790 AAATATTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATAATACTAT
Found at i:68788459 original size:24 final size:24
Alignment explanation
Indices: 68788432--68788482 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
68788422 AAACAGTTTC
* * *
68788432 AAAAGGAAGAAAAAAAT-GAAGGG
1 AAAAAGAAAAAAAAAATAAAAGGG
*
68788455 AAAAATAAAAAAAAAATAAAAGGG
1 AAAAAGAAAAAAAAAATAAAAGGG
68788479 AAAA
1 AAAA
68788483 TAGAGTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (24 bp):
AAAAAGAAAAAAAAAATAAAAGGG
Found at i:68790264 original size:6 final size:6
Alignment explanation
Indices: 68790253--68790283 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
68790243 AATGTTATTT
68790253 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
68790284 AAAATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:68796917 original size:37 final size:36
Alignment explanation
Indices: 68796874--68796947 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
68796864 TTAACGGTTA
*
68796874 TAAATTTTAAAATAT-TAAAAATTAAAAAAATAAAAAT
1 TAAA-TTTAAAATATATAAAAAATAAAAAAA-AAAAAT
* * *
68796911 TAAATTTCAAATTTATAAAAAATACAAAAAAAAAAT
1 TAAATTTAAAATATATAAAAAATAAAAAAAAAAAAT
68796947 T
1 T
68796948 GTTACATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 15 0.47
37 17 0.53
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (36 bp):
TAAATTTAAAATATATAAAAAATAAAAAAAAAAAAT
Found at i:68799707 original size:54 final size:56
Alignment explanation
Indices: 68799648--68799752 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 56
68799638 GAATTTTTTT
* *
68799648 TAAATTTT-AACTTTTT-AATATATATTTTGGAATTTTT-ATAATT-TTTTAAAAATA
1 TAAATTTTGAACTTTTTAAAAAT-TATTTT-GAATTTTTGAAAATTATTTTAAAAATA
*
68799702 TAAATTTTGAATTTTTTAAAAATTATTTTGAATTTTTGAAAATTATTTTAA
1 TAAATTTTGAACTTTTTAAAAATTATTTTGAATTTTTGAAAATTATTTTAA
68799753 TTATTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
54 16 0.36
55 18 0.41
56 10 0.23
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (56 bp):
TAAATTTTGAACTTTTTAAAAATTATTTTGAATTTTTGAAAATTATTTTAAAAATA
Found at i:68799731 original size:21 final size:21
Alignment explanation
Indices: 68799687--68799759 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 21
68799677 GAATTTTTAT
68799687 AATTTTTTAAAAATATAAATTTTG
1 AATTTTTTAAAAAT-T--ATTTTG
68799711 AATTTTTTAAAAATTATTTTG
1 AATTTTTTAAAAATTATTTTG
*
68799732 AA-TTTTTGAAAATTATTTT-
1 AATTTTTTAAAAATTATTTTG
68799751 AATTATTTT
1 AATT-TTTT
68799760 TTTGTAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
19 2 0.04
20 17 0.37
21 12 0.26
23 1 0.02
24 14 0.30
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
AATTTTTTAAAAATTATTTTG
Found at i:68801159 original size:6 final size:6
Alignment explanation
Indices: 68801150--68801185 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
68801140 GGATTTTAAT
*
68801150 TAATCC TAATCC TAATCC TAATCC TAATCG TAATCC
1 TAATCC TAATCC TAATCC TAATCC TAATCC TAATCC
68801186 AACTCTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (6 bp):
TAATCC
Found at i:68803484 original size:98 final size:98
Alignment explanation
Indices: 68803313--68803509 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
68803303 GTGCAATAAA
*
68803313 ACTTTAAAAGAAAATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAAAATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
68803378 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
68803411 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAAAATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
68803476 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
68803509 A
1 A
68803510 TTATTTTTTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAAAATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:68804211 original size:27 final size:28
Alignment explanation
Indices: 68804178--68804230 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
68804168 ATATAAAGAT
*
68804178 AAAAATATTCATTTAAAA-AAATATAGG
1 AAAAATATTCATTAAAAATAAATATAGG
*
68804205 AAAAATATTCGTTAAAAATAAATATA
1 AAAAATATTCATTAAAAATAAATATA
68804231 TACACGTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAATATTCATTAAAAATAAATATAGG
Found at i:68804900 original size:19 final size:19
Alignment explanation
Indices: 68804861--68804929 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
68804851 AAATTAAATC
68804861 TCTAAGA-T-CATATC-T-
1 TCTAAGATTACATATCATA
68804876 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
68804895 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
68804914 TCTAAGATTACATATC
1 TCTAAGATTACATATC
68804930 CTCGAAGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 6 0.12
18 1 0.02
19 33 0.69
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:68805611 original size:24 final size:23
Alignment explanation
Indices: 68805576--68805652 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 23
68805566 GCCAATGTCC
*
68805576 TTTTTT-ATATATTTTTTTAGAAT
1 TTTTTTAAAATATTTTTTT-GAAT
**
68805599 TTTTTTAAAATATAAATTTTGAAT
1 TTTTTTAAAATAT-TTTTTTGAAT
* *
68805623 TTTTTAAAAAGTATTTTAATT-AAT
1 TTTTTTAAAA-TATTTT-TTTGAAT
68805647 TTTTTT
1 TTTTTT
68805653 GTATTTTTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
23 6 0.14
24 27 0.64
25 9 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTTAAAATATTTTTTTGAAT
Found at i:68810713 original size:14 final size:15
Alignment explanation
Indices: 68810682--68810711 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
68810672 AACTAAACAT
68810682 TTTGTATTAAAAAAAA
1 TTTGTATT-AAAAAAA
68810698 TTTGTATTAAAAAA
1 TTTGTATTAAAAAA
68810712 TTAAATATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
TTTGTATTAAAAAAA
Found at i:68810885 original size:9 final size:9
Alignment explanation
Indices: 68810871--68810896 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
68810861 TTTGGTTAAA
68810871 ATATAAAAC
1 ATATAAAAC
68810880 ATATAAAAC
1 ATATAAAAC
68810889 ATATAAAA
1 ATATAAAA
68810897 AAATATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
ATATAAAAC
Found at i:68812855 original size:21 final size:20
Alignment explanation
Indices: 68812817--68812855 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68812807 TGTTGGGTTG
*
68812817 ATTGATATGGAATTATGTGC
1 ATTGATATGGAATGATGTGC
*
68812837 ATTGAGTATTGAATGATGT
1 ATTGA-TATGGAATGATGT
68812856 ACCTTGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.03, G:0.26, T:0.41
Consensus pattern (20 bp):
ATTGATATGGAATGATGTGC
Found at i:68814403 original size:39 final size:39
Alignment explanation
Indices: 68814360--68814435 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
68814350 TATAGGTAAC
68814360 GAGTTTAACAGAGTTTCAAGTTCGGATCGAGGAACTGCT
1 GAGTTTAACAGAGTTTCAAGTTCGGATCGAGGAACTGCT
* * * *
68814399 GAGTTTAACTGAGTTTCGAGTTTGGATTGAGGAACTG
1 GAGTTTAACAGAGTTTCAAGTTCGGATCGAGGAACTG
68814436 TTTATCAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (39 bp):
GAGTTTAACAGAGTTTCAAGTTCGGATCGAGGAACTGCT
Found at i:68815310 original size:132 final size:132
Alignment explanation
Indices: 68815141--68815404 Score: 492
Period size: 132 Copynumber: 2.0 Consensus size: 132
68815131 TTTCCTTAAA
*
68815141 GACAAAAGATTAATTGGTCCACTAATTCATAATGCTAGATTCTTTCATGCAAATCAGACATCAAA
1 GACAAAAGATTAATTGGCCCACTAATTCATAATGCTAGATTCTTTCATGCAAATCAGACATCAAA
* *
68815206 CAAAGGAACAAAGACCCACTCACCTTTATATATGAGTAATATATGCAGAGATTGAATATTATATT
66 CAAAGGAACAAAGACCCACTCACCGTTATATATGAGTAATATATGCAGAGATTGAATATCATATT
68815271 TT
131 TT
68815273 GACAAAAGATTAATTGGCCCACTAATTCATAATGCTAGATTCTTTCATGCAAATCAGACATCAAA
1 GACAAAAGATTAATTGGCCCACTAATTCATAATGCTAGATTCTTTCATGCAAATCAGACATCAAA
*
68815338 CAAAGGAACAAAGACCCACTCACCGTTATATATGTGTAATATATGCAGAGATTGAATATCATATT
66 CAAAGGAACAAAGACCCACTCACCGTTATATATGAGTAATATATGCAGAGATTGAATATCATATT
68815403 TT
131 TT
68815405 AAAAAATAAT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 128 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (132 bp):
GACAAAAGATTAATTGGCCCACTAATTCATAATGCTAGATTCTTTCATGCAAATCAGACATCAAA
CAAAGGAACAAAGACCCACTCACCGTTATATATGAGTAATATATGCAGAGATTGAATATCATATT
TT
Found at i:68821124 original size:113 final size:111
Alignment explanation
Indices: 68820889--68821426 Score: 816
Period size: 113 Copynumber: 4.8 Consensus size: 111
68820879 CCAAAAAGAA
* *
68820889 AAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC--A
1 AAAAAAA-TAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
68820952 -AAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
65 GAAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* * *
68820998 AAAAAATTTAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
*
68821063 AAAAAATTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
66 AAAAAA--ATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
*
68821111 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAAT-AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
* *
68821176 GAAAAAATTTTTTTATTTTTTTTCGTGTTAGAATCAGATACAAAAATACG
65 GAAAAAA--ATTTTATTTTTTTTCGTGTCAGAATCAGATA-AAAAATACG
68821226 AAAAAAAT-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
**
68821290 AAAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
66 AAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
* *
68821336 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACGCAGTACAAA
1 AAAAAAAT-AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
68821401 GAAAAAAAAATTTAATTTTTTTTCGT
65 G--AAAAAAATTTTATTTTTTTTCGT
68821427 ATTTTTTATC
Statistics
Matches: 395, Mismatches: 21, Indels: 20
0.91 0.05 0.05
Matches are distributed among these distances:
108 50 0.13
109 6 0.02
110 40 0.10
111 10 0.03
112 54 0.14
113 107 0.27
114 101 0.26
115 27 0.07
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (111 bp):
AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
AAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:68821159 original size:114 final size:112
Alignment explanation
Indices: 68820889--68821426 Score: 829
Period size: 114 Copynumber: 4.8 Consensus size: 112
68820879 CCAAAAAGAA
* *
68820889 AAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC--A
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
68820952 -AAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
66 GAAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
** *
68820998 -AAAAAATTTAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
68821062 GAAAAAATTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
66 GAAAAAA--ATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
*
68821111 AAAAAAATAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
* *
68821176 GAAAAAATTTTTTTATTTTTTTTCGTGTTAGAATCAGATACAAAAATACG
66 GAAAAAA--ATTTTATTTTTTTTCGTGTCAGAATCAGATA-AAAAATACG
68821226 AAAAAAAT--AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
**
68821289 GAAAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
66 GAAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
* *
68821336 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTACGCAGTACAAA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
68821401 GAAAAAAAAATTTAATTTTTTTTCGT
66 G--AAAAAAATTTTATTTTTTTTCGT
68821427 ATTTTTTATC
Statistics
Matches: 395, Mismatches: 21, Indels: 20
0.91 0.05 0.05
Matches are distributed among these distances:
108 56 0.14
110 40 0.10
111 10 0.03
112 54 0.14
113 100 0.25
114 108 0.27
115 27 0.07
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (112 bp):
AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
GAAAAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:68821757 original size:11 final size:11
Alignment explanation
Indices: 68821740--68821768 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
68821730 TAGCACCCAA
68821740 ATTTTTTTT-T
1 ATTTTTTTTGT
68821750 ATTTTTTTTGT
1 ATTTTTTTTGT
68821761 ATTTTTTT
1 ATTTTTTT
68821769 ATCTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.86
Consensus pattern (11 bp):
ATTTTTTTTGT
Found at i:68821837 original size:115 final size:113
Alignment explanation
Indices: 68821457--68822091 Score: 757
Period size: 115 Copynumber: 5.6 Consensus size: 113
68821447 ACGAAAATTT
* * * *
68821457 TTTTTTCTTTGTACTGTATACTGGGTGCCGGCCATTGACTGGCCAGCACCAAAAAAAATTATTTA
1 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC----CAAATT-TTTT
* *
68821522 TTTATTTTTTTCGTATTTTTTTATCTTATTCTGACACG-AAAAAAATAAAAAAA
61 TTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT-AAAATA
** *
68821575 AATTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTTTTT-T
1 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAT
* * *
68821639 ATTTTTTCGTA-TTTTTTATTTGATTCTGACACGAAAAAAAATAAATTT
66 -TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATA
* *
68821687 TTTTTTCTTTGTACTGTGTACTGGGTGCCAGCCATTGACAGGCTAGCACCCAAATTTTTTTTTAT
1 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAT
* * *
68821752 TTTTTTTGTATTTTTTTATCTGATTTTAACACGAAAAAAAATAAAAAATA
66 TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT--AAAATA
*
68821802 TTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAA
1 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT--
* *
68821867 AATTTTTTTCGTATTTTTTTATCTGATTCTGACACGGAAAAAAAT-AAATT
64 -ATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATA
* * * *
68821917 TTTTTTCTTTATACTGTGTACTGGGTGCCGGCCATTGATATGCCAGCACCCAAAAATTTTTTTAA
1 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAATTTTTTT-T
*
68821982 AATTTTTTTCGTATTTTTTTATCTGATTCTGACACG----AAAA-AAAA-A
63 TATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATA
68822027 --------TTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCGAAATTTTTTTTTT
1 TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAA-TTTTTTTTT
*
68822084 GTTTTTTT
64 ATTTTTTT
68822092 TTCTTTTTTG
Statistics
Matches: 458, Mismatches: 45, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
101 10 0.02
102 47 0.10
111 7 0.02
112 91 0.20
113 53 0.12
114 5 0.01
115 150 0.33
117 10 0.02
118 85 0.19
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (113 bp):
TTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAT
TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAATA
Found at i:68821885 original size:230 final size:226
Alignment explanation
Indices: 68821411--68822025 Score: 836
Period size: 230 Copynumber: 2.7 Consensus size: 226
68821401 GAAAAAAAAA
68821411 TTTAATTTTTTTTCGTATTTTTTATCTGATTCTGACACG------A-AAATTTTTTTTTCTTTGT
1 TTTAA-TTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAATAAATTTTTTTTTCTTTGT
* * * *
68821469 ACTGTATACTGGGTGCCGGCCATTGACTGGCCAGCACCAAAAAAAATTATTTATTTATTTTTTTC
65 ACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC----CAAATT-TTTTTTTATTTTTTTC
* *
68821534 GTATTTTTTTATCTTATTCTGACACG-AAAAAAATAAAAAAAAATTTTCTTTGTACTGTGTACTG
125 GTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAAAAAAATTTTCTTTGTACTGCGTACTG
68821598 GGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTT
190 GGTGCCGGCCATTGACAGGCCAACACCCAAATTTTTT
* *
68821635 TTTTA-TTTTTTCGTATTTTTTATTTGATTCTGACACGAAAAAAAATAAATTTTTTTTTCTTTGT
1 TTTAATTTTTTTCGTATTTTTTATCTGATTCTGACACG-AAAAAAATAAATTTTTTTTTCTTTGT
* * *
68821699 ACTGTGTACTGGGTGCCAGCCATTGACAGGCTAGCACCCAAATTTTTTTTTATTTTTTTTGTATT
65 ACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTTCGTATT
* * **
68821764 TTTTTATCTGATTTTAACACGAAAAAAAATAAAAAATATTTTTTCTTTGTACTGCGTACTGGGTG
130 TTTTTATCTGATTCTGACACGAAAAAAAATAAAAAA-AAATTTTCTTTGTACTGCGTACTGGGTG
*
68821829 CCGGCCATTGACAGGCCAGCACCCAAATTTTTT
194 CCGGCCATTGACAGGCCAACACCCAAATTTTTT
68821862 TTTAAAATTTTTTTCGTATTTTTTTATCTGATTCTGACACGGAAAAAAATAAA-TTTTTTTTCTT
1 TTT--AATTTTTTTCGTA-TTTTTTATCTGATTCTGACAC-GAAAAAAATAAATTTTTTTTTCTT
* * * **
68821926 TATACTGTGTACTGGGTGCCGGCCATTGATATGCCAGCACCCAAAAATTTTTTTAAAATTTTTTT
62 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAATTTTTTT-TTATTTTTTT
68821991 CGTATTTTTTTATCTGATTCTGACACGAAAAAAAA
124 CGTATTTTTTTATCTGATTCTGACACGAAAAAAAA
68822026 ATTGTACTGT
Statistics
Matches: 345, Mismatches: 28, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
222 31 0.09
224 4 0.01
225 37 0.11
226 19 0.06
227 60 0.17
229 2 0.01
230 110 0.32
231 31 0.09
232 11 0.03
233 40 0.12
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (226 bp):
TTTAATTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAATAAATTTTTTTTTCTTTGTA
CTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTTCGTATTT
TTTTATCTGATTCTGACACGAAAAAAAATAAAAAAAAATTTTCTTTGTACTGCGTACTGGGTGCC
GGCCATTGACAGGCCAACACCCAAATTTTTT
Found at i:68823205 original size:30 final size:30
Alignment explanation
Indices: 68823157--68823223 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
68823147 CAGTTAGACT
* *
68823157 TAAATT-TTAAAATTTAAAAAGTATAG-GAAC
1 TAAATTCTTAAAATATAAAAA-TAT-GCAAAC
68823187 TAAATTCTTAAAA-ATAAAAATATGCAAAC
1 TAAATTCTTAAAATATAAAAATATGCAAAC
68823216 TAAATTCT
1 TAAATTCT
68823224 AAACTTACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 14 0.42
30 12 0.36
31 6 0.18
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (30 bp):
TAAATTCTTAAAATATAAAAATATGCAAAC
Found at i:68831009 original size:15 final size:15
Alignment explanation
Indices: 68830989--68831017 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
68830979 TTGTCTATGT
68830989 AATATATAAAAGGAA
1 AATATATAAAAGGAA
68831004 AATATATAAAAGGA
1 AATATATAAAAGGA
68831018 TTAATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (15 bp):
AATATATAAAAGGAA
Found at i:68831909 original size:12 final size:13
Alignment explanation
Indices: 68831883--68831907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68831873 TATATATTTT
68831883 TTTAAAAAATAAA
1 TTTAAAAAATAAA
68831896 TTTAAAAAATAA
1 TTTAAAAAATAA
68831908 TTAATTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAATAAA
Found at i:68833376 original size:5 final size:5
Alignment explanation
Indices: 68833362--68833410 Score: 75
Period size: 5 Copynumber: 10.2 Consensus size: 5
68833352 ATTTTTAAGT
*
68833362 TTATA ATATA TTATA TTATA TTATA TTATA TTATA TT-TA -TATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
68833410 T
1 T
68833411 AATTTATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 1 0.03
4 4 0.10
5 35 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:68833411 original size:15 final size:15
Alignment explanation
Indices: 68833367--68833418 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
68833357 TAAGTTTATA
68833367 ATATATTATATTATATT
1 ATATATTATA-TAT-TT
68833384 ATAT-TATATTATATTT
1 ATATAT-TA-TATATTT
68833400 ATATATTATATAATTT
1 ATATATTATAT-ATTT
68833416 ATA
1 ATA
68833419 ACACATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 3 0.10
16 16 0.52
17 10 0.32
18 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATTATATATTT
Found at i:68839306 original size:19 final size:19
Alignment explanation
Indices: 68839257--68839312 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
68839247 CTTTGTTTTG
* *
68839257 ATTTAATAATTTAATAAATA
1 ATTTTATAATTTAA-AATTA
* *
68839277 ATTATCT-ATTTAAAATTA
1 ATTTTATAATTTAAAATTA
*
68839295 ATTTTATAATTTTAAATT
1 ATTTTATAATTTAAAATT
68839313 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
18 9 0.32
19 15 0.54
20 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTATAATTTAAAATTA
Found at i:68840844 original size:20 final size:20
Alignment explanation
Indices: 68840819--68840858 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
68840809 TTTTTTTGTT
68840819 GTGATTTTTAAATTCTATTA
1 GTGATTTTTAAATTCTATTA
*
68840839 GTGATTTTTAAATTTTATTA
1 GTGATTTTTAAATTCTATTA
68840859 ATTTTGACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (20 bp):
GTGATTTTTAAATTCTATTA
Found at i:68844806 original size:21 final size:23
Alignment explanation
Indices: 68844771--68844812 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
68844761 TGTTTCCCAA
*
68844771 TATTTATTATATATTTATATTAT
1 TATTTATTATATATTCATATTAT
68844794 TATTT-TT-TATATTCATATT
1 TATTTATTATATATTCATATT
68844813 CATGTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTATTATATATTCATATTAT
Found at i:68845114 original size:21 final size:22
Alignment explanation
Indices: 68845088--68845134 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
68845078 AAATTATTAT
*
68845088 TTTTGTTATTGTTTT-TTACTG
1 TTTTGTTATTATTTTCTTACTG
* *
68845109 TTTTGTTGTTATTTTCTTATTG
1 TTTTGTTATTATTTTCTTACTG
68845131 TTTT
1 TTTT
68845135 CTCACTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.09, C:0.04, G:0.13, T:0.74
Consensus pattern (22 bp):
TTTTGTTATTATTTTCTTACTG
Found at i:68845146 original size:33 final size:32
Alignment explanation
Indices: 68845088--68845187 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 32
68845078 AAATTATTAT
* * *
68845088 TTTTGTTATTGTTTTTTACTGTTTTGTTGTTA
1 TTTTCTTATTGTTTTCTACTATTTTGTTGTTA
68845120 TTTTCTTATTGTTTTCTCACTATTTTGTT-TTCA
1 TTTTCTTATTGTTTTCT-ACTATTTTGTTGTT-A
* * *
68845153 -TTTCACTATTATGTTGCTACTATTTTGTTGTTA
1 TTTTC-TTATTGT-TTTCTACTATTTTGTTGTTA
68845186 TT
1 TT
68845188 ATTTGAATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
32 21 0.38
33 28 0.50
34 7 0.12
ACGTcount: A:0.13, C:0.10, G:0.11, T:0.66
Consensus pattern (32 bp):
TTTTCTTATTGTTTTCTACTATTTTGTTGTTA
Found at i:68846888 original size:23 final size:22
Alignment explanation
Indices: 68846862--68846916 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
68846852 GCAATTAACC
68846862 ATTTATTTATATGTAAATAAAAT
1 ATTTATTTATATGTAAA-AAAAT
*
68846885 ATTTAATTTTATATTTAAAAAAAT
1 ATTT-A-TTTATATGTAAAAAAAT
*
68846909 -TTAATTTA
1 ATTTATTTA
68846917 GTTTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 4 0.14
22 1 0.04
23 6 0.21
24 6 0.21
25 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTATTTATATGTAAAAAAAT
Found at i:68846896 original size:25 final size:22
Alignment explanation
Indices: 68846867--68846915 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
68846857 TAACCATTTA
68846867 TTTATATGTAAATAAAATATTTAAT
1 TTTATAT-TAAA-AAAA-ATTTAAT
*
68846892 TTTATATTTAAAAAAATTTAAT
1 TTTATATTAAAAAAAATTTAAT
68846914 TT
1 TT
68846916 AGTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 4 0.17
24 3 0.13
25 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTATATTAAAAAAAATTTAAT
Found at i:68846916 original size:21 final size:22
Alignment explanation
Indices: 68846862--68846924 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 22
68846852 GCAATTAACC
*
68846862 ATTT-ATTTATATGTAAATAAAAT
1 ATTTAATTTATAT-TTAA-AAAAT
68846885 ATTTAATTTTATATTTAAAAAA-
1 ATTTAA-TTTATATTTAAAAAAT
68846907 ATTTAATTTAGT-TTTAAA
1 ATTTAATTTA-TATTTAAA
68846925 TAATTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 10 0.28
22 7 0.19
23 8 0.22
24 4 0.11
25 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTAATTTATATTTAAAAAAT
Found at i:68847999 original size:29 final size:30
Alignment explanation
Indices: 68847951--68848008 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
68847941 GAAATTCATC
*
68847951 ATTAGCCCTTCAAAGTTTTTAAAAATTTTA
1 ATTAGCCCTTCAAACTTTTTAAAAATTTTA
* **
68847981 ATTAGGCCTT-AAACTTTTTGGAAATTTT
1 ATTAGCCCTTCAAACTTTTTAAAAATTTT
68848009 TATCAAGCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (30 bp):
ATTAGCCCTTCAAACTTTTTAAAAATTTTA
Found at i:68848029 original size:30 final size:30
Alignment explanation
Indices: 68847987--68848044 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
68847977 TTTAATTAGG
68847987 CCTTAAACTTTTTGGAAA-TTTTTATCAAGC
1 CCTTAAACTTTTT-GAAACTTTTTATCAAGC
*
68848017 CCTTGAAA-TTTTTGAAACTTTTTTTCAA
1 CCTT-AAACTTTTTGAAACTTTTTATCAA
68848045 TGAAGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 18 0.72
31 3 0.12
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (30 bp):
CCTTAAACTTTTTGAAACTTTTTATCAAGC
Found at i:68861796 original size:22 final size:22
Alignment explanation
Indices: 68861766--68861832 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
68861756 TGCACTATTG
*
68861766 AACAAAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
68861788 TACAGAGAGCAC-AAATGTGCTA
1 AACAGAGAGCACTAAA-GTGCTA
* *
68861810 AACAGAAAGCACTAATGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
68861832 A
1 A
68861833 TAATCGGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 3 0.08
22 33 0.87
23 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:68875988 original size:297 final size:293
Alignment explanation
Indices: 68875269--68876430 Score: 1127
Period size: 296 Copynumber: 3.9 Consensus size: 293
68875259 TTCTTTTTGA
* * * * * **
68875269 GTTTTACTAAGCTGGTGTCACCCTCAATTAGGTCACCAACTCAGTTAGGAAATTATGAGAATGTT
1 GTTTTACTAAGTTGGTGTCACCCTCAATCAGGTCACCAACTCAATTAGGAAATTATAAAAATGCC
* * * ** * *
68875334 TTTCTGTAATTAAAATAAGTTGTACCATTTGAGGGTATTTTA-AATATTCATTTTAACAAAAACC
66 CTTC-GTAATTAAAATAAGTTATACTATTTGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACA
* ** **
68875398 AATTAAAAT-TAGCATATGATAAGATTTGAATACATGCCAATTAATTTAATAAAACTTTAAATTT
130 AATTAAAATAT-GCATATGATGAGATTTGAACCCACACCAATTAA-TT-A-AAAACTTTAAATTT
* * ** * *
68875462 ACCATTTAACCAAAGCTTCGTTTTAATATATTTTATA-ATCGTGTT-TTTTAATATGCACAAGTT
191 ACCACTTAACCAAAGTTTTATTTTAATATATTTTATACAT-TTTTTATTTTAATATGC-CAAGTT
* * *
68875525 ATTATCTCCATTAGTTGTATACA-TATACTATTTGTTAAGT
254 ATTATCTCCACTAGTTGTATATACT-TACTATTTATTAAGT
* * * * * * *
68875565 ATTTTACTAAGTTGGTGTCATCCTCAACCAAGTCACCAACTCGATCAGGAAATTATAAAAATGTT
1 GTTTTACTAAGTTGGTGTCACCCTCAATCAGGTCACCAACTCAATTAGGAAATTATAAAAATG-C
** *
68875630 ATTTCGTAATTAAAATAAGTTATACTGTTTGAGGGTATTTTAGTC-TTTCATTTTAACAAAAACA
65 CCTTCGTAATTAAAATAAGTTATACTATTTGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACA
*
68875694 AATTAAAATATGCATATGATGAGATTTGAACCCACACCAATTGGATCTAAAAACCTTTAAATTTA
130 AATTAAAATATGCATATGATGAGATTTGAACCCACACCAATT-AAT-TAAAAA-CTTTAAATTTA
* * *
68875759 TCACTCAACCAAAATTTTATTTTAATATATTTTATACATTTTTTATTTTAATATGCGCACA-TTA
192 CCACTTAACCAAAGTTTTATTTTAATATATTTTATACATTTTTTATTTTAATATGC-CA-AGTTA
68875823 TTATCTCCACTAGTTGTATATACTTACTATTTATTAAGT
255 TTATCTCCACTAGTTGTATATACTTACTATTTATTAAGT
* * * * *
68875862 GTTTTACTATGTTGGTGTCACCCTCGATCGGGTCACCAAATCAATTAGGAAATTACAAAAATGCC
1 GTTTTACTAAGTTGGTGTCACCCTCAATCAGGTCACCAACTCAATTAGGAAATTATAAAAATGCC
* * *
68875927 CTTCATAATTAAAATAATTTATTCTATTTGA-GGTCATTTTAGTCTTTTCATTTTAACAAAAACA
66 CTTCGTAATTAAAATAAGTTATACTATTTGAGGGT-ATTTTAGTCTTTTCATTTTAACAAAAACA
* * * *
68875991 AATTAAAATATGCATATGATGAGATTTGAACCCACCCCAATTAAATTAGTAAAGTATAAATTTAC
130 AATTAAAATATGCATATGATGAGATTTGAACCCACACCAATT-AATTA-AAAACTTTAAATTTAC
* * *
68876056 CACTTAACC-AAGTCTTTATTTTAATATATTTTATAC-CTTTTTATTTTAATATACAAAAGTTAT
193 CACTTAACCAAAGT-TTTATTTTAATATATTTTATACATTTTTTATTTTAATATGC-CAAGTTAT
* * *
68876119 TATCTCCAGTAGTTGTATATCTATCCTTACCA-TTATTAATT
256 TATCTCCACTAGTTGTATA--TA--CTTACTATTTATTAAGT
* ** ** * *
68876160 GTTTTACTAAGTTGGTGTCA-CCTCCATTTGGGTCACCAACTCGGTTAGAAAATTTTAAAAATGC
1 GTTTTACTAAGTTGGTGTCACCCT-CAATCAGGTCACCAACTCAATTAGGAAATTATAAAAATGC
* *
68876224 CCTTTCGTAATTAAAATAAGTTATACTATTTGACAATAGTTATTTTAGTCTTTTCATTTTAACAA
65 CC-TTCGTAATTAAAATAAGTTATACTATTTG---A-GGGTATTTTAGTCTTTTCATTTTAACAA
* * *
68876289 AAACAAATTAAAATATGCATA-CA-GTAGGATTTGAACCCACACTAACTGAGA-TAGCAAAA-TC
125 AAACAAATTAAAATATGCATATGATG-A-GATTTGAACCCACACCAA-TTA-ATTA--AAAACT-
* * * * * * * * *
68876350 TTAATTTTACCA-TTCAACTAAAGCTTCATTTTATTCTAATTTATA-AATTTTCATTTTAATATG
183 TTAAATTTACCACTT-AACCAAAGTTTTATTTTAATATATTTTATACATTTTTTATTTTAATATG
68876413 CACAAGTTATTATCTCCA
247 C-CAAGTTATTATCTCCA
68876431 TTACTTTTAT
Statistics
Matches: 727, Mismatches: 104, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
294 1 0.00
295 49 0.07
296 259 0.36
297 182 0.25
298 62 0.09
299 32 0.04
301 1 0.00
302 3 0.00
303 67 0.09
304 68 0.09
305 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (293 bp):
GTTTTACTAAGTTGGTGTCACCCTCAATCAGGTCACCAACTCAATTAGGAAATTATAAAAATGCC
CTTCGTAATTAAAATAAGTTATACTATTTGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACAA
ATTAAAATATGCATATGATGAGATTTGAACCCACACCAATTAATTAAAAACTTTAAATTTACCAC
TTAACCAAAGTTTTATTTTAATATATTTTATACATTTTTTATTTTAATATGCCAAGTTATTATCT
CCACTAGTTGTATATACTTACTATTTATTAAGT
Found at i:68885983 original size:17 final size:18
Alignment explanation
Indices: 68885961--68886001 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
68885951 AATACCAATG
68885961 TTTCTTCTGAAC-TTTC-T
1 TTTCTT-TGAACTTTTCAT
*
68885978 TTTCTTTTAACTTTTCAT
1 TTTCTTTGAACTTTTCAT
68885996 TTTCTT
1 TTTCTT
68886002 ATTCATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.12, C:0.20, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTCTTTGAACTTTTCAT
Found at i:68889742 original size:15 final size:15
Alignment explanation
Indices: 68889722--68889751 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68889712 TTGGCTAAAG
*
68889722 GGAAAAGAAAGGAAA
1 GGAAAAGAAAAGAAA
68889737 GGAAAAGAAAAGAAA
1 GGAAAAGAAAAGAAA
68889752 ATTGATGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
GGAAAAGAAAAGAAA
Found at i:68890790 original size:18 final size:18
Alignment explanation
Indices: 68890767--68890804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
68890757 AAGAAGAGAG
68890767 AAAAAAAGAGAAA-AAAAT
1 AAAAAAAGA-AAATAAAAT
*
68890785 AAAAAATGAAAATAAAAT
1 AAAAAAAGAAAATAAAAT
68890803 AA
1 AA
68890805 TTTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAAAAAGAAAATAAAAT
Found at i:68894362 original size:7 final size:7
Alignment explanation
Indices: 68894352--68894388 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
68894342 AAAAACAGAT
68894352 GATCAAA
1 GATCAAA
68894359 GATCAAA
1 GATCAAA
*
68894366 GGTCAAA
1 GATCAAA
68894373 GATCAAA
1 GATCAAA
68894380 GATCAAA
1 GATCAAA
68894387 GA
1 GA
68894389 AGCTAAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.14
Consensus pattern (7 bp):
GATCAAA
Found at i:68903720 original size:5 final size:5
Alignment explanation
Indices: 68903703--68903788 Score: 145
Period size: 5 Copynumber: 17.2 Consensus size: 5
68903693 TTTCATTCTG
* * *
68903703 ATCAT ATCTT ATCAT ATCAT AACGT ATCAT ATCAT ATCAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT
68903753 ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT A
1 ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT ATCAT A
68903789 ACATGTCCTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 75 1.00
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.40
Consensus pattern (5 bp):
ATCAT
Found at i:68903933 original size:23 final size:23
Alignment explanation
Indices: 68903904--68903948 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
68903894 GTAACACCCT
* *
68903904 AAGAATTTGAGTGTTGTTTGTTC
1 AAGAATTTGAGTGCTATTTGTTC
68903927 AAGAATTTGAGTGCTATTTGTT
1 AAGAATTTGAGTGCTATTTGTT
68903949 AAATTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (23 bp):
AAGAATTTGAGTGCTATTTGTTC
Found at i:68909736 original size:17 final size:16
Alignment explanation
Indices: 68909708--68909759 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
68909698 CTTCATATAT
*
68909708 TTTCACTTCTTTTTCC
1 TTTCATTTCTTTTTCC
*
68909724 TTTCATATTCTTTTTCA
1 TTTCAT-TTCTTTTTCC
*
68909741 TTTCATTTCTCTTTCC
1 TTTCATTTCTTTTTCC
68909757 TTT
1 TTT
68909760 GTTTTCCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCATTTCTTTTTCC
Found at i:68913056 original size:29 final size:30
Alignment explanation
Indices: 68913017--68913074 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
68913007 AACCTTTCCC
*
68913017 CTTAGCTTTTATGGCTAAACTAGAACCCTT
1 CTTAGCTTTTATGGCTAAACTAAAACCCTT
*
68913047 CTTAG-TTTTATGGCTTAACTAAAACCCT
1 CTTAGCTTTTATGGCTAAACTAAAACCCT
68913075 CCTAATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (30 bp):
CTTAGCTTTTATGGCTAAACTAAAACCCTT
Found at i:68932737 original size:16 final size:17
Alignment explanation
Indices: 68932710--68932742 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
68932700 GGTCCAATGA
68932710 TTAAAAATTATTAAAAT
1 TTAAAAATTATTAAAAT
68932727 TTAAAAA-TATTAAAAT
1 TTAAAAATTATTAAAAT
68932743 AGAGTTTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATTATTAAAAT
Found at i:68937499 original size:25 final size:27
Alignment explanation
Indices: 68937461--68937512 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
68937451 AATGTATGTA
68937461 TTTTTGAAATATTAA-TGT-TATATTT
1 TTTTTGAAATATTAATTGTATATATTT
68937486 TTTTGTGAAA-ATTAATTGTATATATTT
1 TTTT-TGAAATATTAATTGTATATATTT
68937513 AATGTACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.38
26 8 0.33
27 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (27 bp):
TTTTTGAAATATTAATTGTATATATTT
Found at i:68944341 original size:23 final size:23
Alignment explanation
Indices: 68944311--68944356 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
68944301 TAAGAGAAAG
68944311 AACTCTTAAAACTGTATAATTAT
1 AACTCTTAAAACTGTATAATTAT
68944334 AACTCTTAAAACTGTATAATTAT
1 AACTCTTAAAACTGTATAATTAT
68944357 TAGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (23 bp):
AACTCTTAAAACTGTATAATTAT
Found at i:68946469 original size:23 final size:23
Alignment explanation
Indices: 68946443--68946486 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
68946433 AATGTATGTA
68946443 TTTT-TGAAATATTAATGGTATTT
1 TTTTGTGAAA-ATTAATGGTATTT
68946466 TTTTGTGAAAATTAATGGTAT
1 TTTTGTGAAAATTAATGGTAT
68946487 ATATTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (23 bp):
TTTTGTGAAAATTAATGGTATTT
Found at i:68949605 original size:155 final size:155
Alignment explanation
Indices: 68949323--68949631 Score: 528
Period size: 155 Copynumber: 2.0 Consensus size: 155
68949313 GAAACAGATG
* * *
68949323 CATGATGTCATGACGAGCAAGCGGCAACATCGTGACGAGGGTCATCGGGACAAGCAAAGATCTCT
1 CATGAAGTCAAGACGAGCAAGCGGCAACATCGTGACGAGGGTCACCGGGACAAGCAAAGATCTCT
68949388 TGAGGTAGGAGCAGGGGCGACGTCACGAAGAGGAGAGTCATGACGTCGCAACAATATCTCACCTA
66 TGAGGTAGGAGCAGGGGCGACGTCACGAAGAGGAGAGTCATGACGTCGCAACAATATCTCACCTA
68949453 ATGTAGTTGCGTTTTAGACTCCAAC
131 ATGTAGTTGCGTTTTAGACTCCAAC
* *
68949478 CATGAAGTCAAGACGAGCAAGCGGCAACGTCGTGACGAGGGTCACCGGGACGAGCAAAGATCTCT
1 CATGAAGTCAAGACGAGCAAGCGGCAACATCGTGACGAGGGTCACCGGGACAAGCAAAGATCTCT
* * * * *
68949543 TGAGGTAGGAGCAGGGGTGATGTCATGAAGAGGAGAGTCATGATGTCGCAACGATATCTCACCTA
66 TGAGGTAGGAGCAGGGGCGACGTCACGAAGAGGAGAGTCATGACGTCGCAACAATATCTCACCTA
68949608 ATGTAGTTGCGTTTTAGACTCCAA
131 ATGTAGTTGCGTTTTAGACTCCAA
68949632 GTAGGACTTC
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 144 1.00
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (155 bp):
CATGAAGTCAAGACGAGCAAGCGGCAACATCGTGACGAGGGTCACCGGGACAAGCAAAGATCTCT
TGAGGTAGGAGCAGGGGCGACGTCACGAAGAGGAGAGTCATGACGTCGCAACAATATCTCACCTA
ATGTAGTTGCGTTTTAGACTCCAAC
Found at i:68952899 original size:153 final size:153
Alignment explanation
Indices: 68952514--68952882 Score: 584
Period size: 153 Copynumber: 2.4 Consensus size: 153
68952504 ATATTCCACC
* ** * *
68952514 TGATATTTCTGGTCTATCCTGTTTG-GAAATACTTGATCTTAGTGGTAACAATTTCGTCAGCATA
1 TGATATTTCTGGTCTATCCTCTTTGAGTTAT-CTTAATCTTAGTGGTAACAATTTCATCAGCATA
* * *
68952578 CCTGCATCTCTTACTCGACTCTCGAAGCTTGCATATCTTATATTGTCAAATTGCAACTTGTGCAC
65 CCTGCATCTCTTACTCGACTCTCAAAGCTTGAATATCTTATATTGTCAAATTGCAACATGTGCAC
68952643 TTTTGGTGAAGCAGATACTCATAG
130 TTTTGGTGAAGCAGATACTCATAG
68952667 TGATATTTCTGGTCTATCCTCTTTGAGTTATCTTAATCTTAGTGGTAACAATTTCATCAGCATAC
1 TGATATTTCTGGTCTATCCTCTTTGAGTTATCTTAATCTTAGTGGTAACAATTTCATCAGCATAC
*
68952732 CTGCATCTCTTACTCGACTCTCAAAGCTT-AAGTCTCTTGA-ATTGTCAAATTGCAACATGTGCA
66 CTGCATCTCTTACTCGACTCTCAAAGCTTGAA-TATCTT-ATATTGTCAAATTGCAACATGTGCA
68952795 -TTCTTGGTGAAGCAGATACTCATAG
129 CTT-TTGGTGAAGCAGATACTCATAG
*
68952820 TGATATTTCTGGTCTATCCTCTTTGAGTTATCTTTATCTTAGTGGTAACAATTTCATCAGCAT
1 TGATATTTCTGGTCTATCCTCTTTGAGTTATCTTAATCTTAGTGGTAACAATTTCATCAGCAT
68952883 TCCTTTGGCT
Statistics
Matches: 202, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
152 3 0.01
153 195 0.97
154 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (153 bp):
TGATATTTCTGGTCTATCCTCTTTGAGTTATCTTAATCTTAGTGGTAACAATTTCATCAGCATAC
CTGCATCTCTTACTCGACTCTCAAAGCTTGAATATCTTATATTGTCAAATTGCAACATGTGCACT
TTTGGTGAAGCAGATACTCATAG
Found at i:68961485 original size:21 final size:21
Alignment explanation
Indices: 68961459--68961499 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68961449 AGACGAGCAA
* *
68961459 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
68961480 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
68961500 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:68986914 original size:24 final size:24
Alignment explanation
Indices: 68986882--68986940 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
68986872 ATATGGAAAG
* *
68986882 AAATAAAAAATATTTTATATTAAT
1 AAATAAAAAATATATTATACTAAT
*
68986906 AAATAAAAAATATATTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
*
68986930 AAATAATAAAT
1 AAATAAAAAAT
68986941 TTTCTAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:68991683 original size:28 final size:28
Alignment explanation
Indices: 68991643--68991699 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
68991633 GGAAATAAAG
68991643 TAAGAATTAACTCATCATTTTAACTTAT
1 TAAGAATTAACTCATCATTTTAACTTAT
68991671 TAAGAATTAACTCATCATTTTAACTTAT
1 TAAGAATTAACTCATCATTTTAACTTAT
68991699 T
1 T
68991700 TTAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.44
Consensus pattern (28 bp):
TAAGAATTAACTCATCATTTTAACTTAT
Found at i:69003422 original size:26 final size:26
Alignment explanation
Indices: 69003383--69003456 Score: 116
Period size: 25 Copynumber: 2.9 Consensus size: 26
69003373 GATGTATGTA
69003383 TTTT-TGAAATATTAATGGTATATTTT
1 TTTTGTGAAA-ATTAATGGTATATTTT
69003409 TTTTGTGAAAATTAATGGTATA-TTT
1 TTTTGTGAAAATTAATGGTATATTTT
*
69003434 TTTTGTGAAAATTAATAGTATAT
1 TTTTGTGAAAATTAATGGTATAT
69003457 ATTTAATGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
25 24 0.53
26 16 0.36
27 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (26 bp):
TTTTGTGAAAATTAATGGTATATTTT
Found at i:69009005 original size:15 final size:14
Alignment explanation
Indices: 69008961--69009003 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
69008951 CCGTCCATAT
*
69008961 TTTATTTTTTTAGA
1 TTTATTTTTTTAAA
*
69008975 TTAATTTTATTTAAA
1 TTTATTTT-TTTAAA
69008990 TTTATTTTTTTAAA
1 TTTATTTTTTTAAA
69009004 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATTTTTTTAAA
Found at i:69011538 original size:17 final size:17
Alignment explanation
Indices: 69011518--69011552 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69011508 ATATTAAGAA
69011518 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
69011535 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
69011552 T
1 T
69011553 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:69011572 original size:43 final size:43
Alignment explanation
Indices: 69011523--69011715 Score: 121
Period size: 43 Copynumber: 4.8 Consensus size: 43
69011513 AAGAATTTTA
69011523 TTAAATTATATTTTTTATTAAATTATAT-TTAATAATAATTATG
1 TTAAATTATATTTTTTATTAAATTATATATT-ATAATAATTATG
* * * *
69011566 TTAAATTATA--TTTCA-TAGCATTATATATTATGAT-TTTA-G
1 TTAAATTATATTTTTTATTA-AATTATATATTATAATAATTATG
*** * * * *
69011605 -TAAATTCATA--TCCGAAT-ATTTA-ATATTA-AA-AATTTTA
1 TTAAATT-ATATTTTTTATTAAATTATATATTATAATAATTATG
69011642 TTAAATTATATTTTTTATTAAATTATAT-TTAATAATAATTATG
1 TTAAATTATATTTTTTATTAAATTATATATT-ATAATAATTATG
* *
69011685 TTAAATTATATTTTATAGT--ATTATATATTAT
1 TTAAATTATATTTTTTATTAAATTATATATTAT
69011716 GATTTTAGTA
Statistics
Matches: 113, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
36 3 0.03
37 9 0.08
38 15 0.13
39 9 0.08
40 12 0.11
41 27 0.24
42 6 0.05
43 32 0.28
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (43 bp):
TTAAATTATATTTTTTATTAAATTATATATTATAATAATTATG
Found at i:69011595 original size:120 final size:120
Alignment explanation
Indices: 69011451--69011894 Score: 679
Period size: 119 Copynumber: 3.7 Consensus size: 120
69011441 TACATTATAC
69011451 ATTAT-TTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
1 ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
69011515 GAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 GAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAATAATTATGTTAA
* **
69011570 ATTATATTTCATAGCATTATATATTATGATTTTAGTAAATTCATATCCGAATA-TTTAATATTAA
1 ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
*
69011634 AAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 GAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAATAATTATGTTAA
*
69011689 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
1 ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
69011754 GAATTTTATTAAATTATATTTTTTTATTAAATTATA-TT--TAATAATTATGTTAA
66 GAATTTTATTAAATTATA-TTTTTTATTAAATTATATTTAATAATAATTATGTTAA
* * * * *
69011807 A-TATTATTTTATAGTATTATATATTATGATTTTAGTAATTTAATATTAGTAATTTTATTAA-A-
1 ATTA-TATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAG-AATATT-TTAATAT
*
69011869 TAATATATTTTTATTAAATTATATTT
63 TAAGA-A-TTTTATTAAATTATATTT
69011895 AATAATAATT
Statistics
Matches: 303, Mismatches: 14, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
117 2 0.01
118 62 0.20
119 129 0.43
120 93 0.31
121 17 0.06
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAA
GAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:69011657 original size:17 final size:17
Alignment explanation
Indices: 69011637--69011671 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69011627 ATATTAAAAA
69011637 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
69011654 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
69011671 T
1 T
69011672 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:69011778 original size:18 final size:18
Alignment explanation
Indices: 69011757--69011792 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69011747 ATATTAAGAA
69011757 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
69011775 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
69011793 AATAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:69011800 original size:18 final size:18
Alignment explanation
Indices: 69011761--69011800 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
69011751 TAAGAATTTT
** *
69011761 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
69011779 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
69011797 ATTA
1 ATTA
69011801 TGTTAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Done.