Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 99 of 310
Found at i:31809879 original size:12 final size:12
Alignment explanation
Indices: 31809833--31809880 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
31809823 CTTATAAACT
31809833 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
31809845 TTCTATTAGGACT
1 TTAAATTAGGA-A
31809858 TTAAATTAGGAA
1 TTAAATTAGGAA
*
31809870 TTAGATTAGGA
1 TTAAATTAGGA
31809881 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:31810187 original size:61 final size:60
Alignment explanation
Indices: 31810087--31810207 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 60
31810077 ATCAAATTGC
*
31810087 GCTAAGTTGAGTGGTTTGGAAATACTATATTTATAAGTAATTCAACGAAAGAGGGTTAAA
1 GCTAAGTTGAGCGGTTTGGAAATACTATATTTATAAGTAATTCAACGAAAGAGGGTTAAA
* *
31810147 NGCTAAGTTGAGCGGTTTGGAAATACTATATTTATGAGTAATTCAACGAAAGAGTGTTAAA
1 -GCTAAGTTGAGCGGTTTGGAAATACTATATTTATAAGTAATTCAACGAAAGAGGGTTAAA
31810208 CCTACTGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.31
Consensus pattern (60 bp):
GCTAAGTTGAGCGGTTTGGAAATACTATATTTATAAGTAATTCAACGAAAGAGGGTTAAA
Found at i:31818646 original size:131 final size:131
Alignment explanation
Indices: 31818412--31818806 Score: 760
Period size: 131 Copynumber: 3.0 Consensus size: 131
31818402 TTGGCCGACC
*
31818412 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAAATATTAAT
1 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
31818477 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
66 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
31818542 G
131 G
31818543 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
1 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
31818608 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
66 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
31818673 G
131 G
31818674 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
1 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
31818739 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGG--TA-TATTTAGTCTTTCAT
66 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
31818801 G
131 G
31818802 TCTTT
1 TCTTT
31818807 ATTGTCTCTA
Statistics
Matches: 263, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
128 21 0.08
129 2 0.01
131 240 0.91
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (131 bp):
TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
G
Found at i:31823252 original size:13 final size:13
Alignment explanation
Indices: 31823234--31823258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31823224 AATTAGTATA
31823234 TGTGAAAATTTTG
1 TGTGAAAATTTTG
31823247 TGTGAAAATTTT
1 TGTGAAAATTTT
31823259 ATCGTTGTGT
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:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:31824495 original size:42 final size:42
Alignment explanation
Indices: 31824347--31824550 Score: 200
Period size: 44 Copynumber: 4.7 Consensus size: 42
31824337 ATATGTGTTA
* * *
31824347 TCGTGTAAGACCACATCTAGGG-CGTTGGCATCG-ACTTATAATT
1 TCGTGTAAGACCACGTCT-GGGACATTGGCATCGTA-TT-TGATT
* * **
31824390 TACGTGTAAGACCACATCTAGGATGTTGGCATCG-ACTTATGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATT
31824434 TACGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
*
31824477 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATT
* * *
31824520 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
31824551 TGTACGAGCT
Statistics
Matches: 143, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.20
43 43 0.30
44 69 0.48
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATT
Found at i:31828403 original size:39 final size:40
Alignment explanation
Indices: 31828358--31828542 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
31828348 GCTCCTCGTT
* * *
31828358 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
31828398 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
31828437 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
31828477 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
31828518 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
31828543 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31828458 original size:40 final size:39
Alignment explanation
Indices: 31828325--31828542 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
31828315 AAATCACGTA
* * **
31828325 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
31828364 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
31828403 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
31828443 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
31828483 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
31828523 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
31828543 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:31836410 original size:40 final size:40
Alignment explanation
Indices: 31836228--31836450 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
31836218 TCCTCGTTCA
* * * * *
31836228 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31836267 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31836307 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31836347 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
31836387 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31836427 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31836451 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31836459 original size:41 final size:41
Alignment explanation
Indices: 31836382--31836459 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31836372 TTAGTATCTC
* * *
31836382 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31836423 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31836460 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31841900 original size:13 final size:13
Alignment explanation
Indices: 31841882--31841908 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31841872 TGAATTAGTA
31841882 TGTGTGAAAATTT
1 TGTGTGAAAATTT
31841895 TGTGTGAAAATTT
1 TGTGTGAAAATTT
31841908 T
1 T
31841909 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:31843120 original size:44 final size:44
Alignment explanation
Indices: 31843002--31843121 Score: 179
Period size: 44 Copynumber: 2.7 Consensus size: 44
31842992 TATGTGTTAT
* *
31843002 CGTGTAAGACCACATCTAGGG-CGTTGGCATCGACTTATAATTTA
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATTGACTTATAATTTA
* * *
31843046 CGTGTAAGACCACGTCTGGGATGTTGGCATTGGCTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATAATTTA
31843090 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
31843122 TACGAGCTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 3 0.04
44 66 0.96
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATAATTTA
Found at i:31848579 original size:16 final size:16
Alignment explanation
Indices: 31848558--31848588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31848548 ATTGGGTTGA
*
31848558 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
31848574 GAAAATTAATTAATT
1 GAAAATTAATTAATT
31848589 AAATTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:31848613 original size:4 final size:5
Alignment explanation
Indices: 31848576--31848611 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
31848566 TTTAATTGGA
31848576 AAATT -AATT -AATT AAATT AAATT AAATT AAA-T AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAAT
31848612 AATGTCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 12 0.41
5 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:31848836 original size:25 final size:25
Alignment explanation
Indices: 31848802--31848879 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
31848792 AAGATTGTTT
*
31848802 TTCTATTAAATAGACATTAAATGCA
1 TTCTACTAAATAGACATTAAATGCA
* **
31848827 TTCTACTAAA-AG--ATT--GT-TT
1 TTCTACTAAATAGACATTAAATGCA
*
31848846 TTCTATTAAATAGACATTAAATGCA
1 TTCTACTAAATAGACATTAAATGCA
31848871 TTCTACTAA
1 TTCTACTAA
31848880 TTCAACTAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 12
0.64 0.15 0.20
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
22 6 0.16
24 3 0.08
25 17 0.45
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (25 bp):
TTCTACTAAATAGACATTAAATGCA
Found at i:31848836 original size:44 final size:44
Alignment explanation
Indices: 31848782--31848879 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
31848772 CTCTCTCCTA
*
31848782 ATTCAACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
1 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
31848826 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
1 ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
31848870 ATTCTACTAA
1 ATTCTACTAA
31848880 TTCAACTAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (44 bp):
ATTCTACTAAAAGATTGTTTTTCTATTAAATAGACATTAAATGC
Found at i:31857752 original size:47 final size:46
Alignment explanation
Indices: 31857698--31857821 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
31857688 TGTGTGTGCT
31857698 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-AT-GAAATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGATAGAAA-GCC
* * *
31857745 AGTGTAAGACATGTCTGGGATATGCATCAG-CATTGATACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATA-GAAAGCC
*
31857791 AGTGTAAGACATGTCTGGGACATGCTTCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
31857822 TACGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 4 0.06
45 2 0.03
46 30 0.45
47 31 0.46
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATAGAAAGCC
Found at i:31873169 original size:16 final size:18
Alignment explanation
Indices: 31873143--31873175 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31873133 TGTAATTGGG
31873143 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
31873160 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
31873176 TTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:31873188 original size:26 final size:24
Alignment explanation
Indices: 31873154--31873207 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
31873144 TGAGAAAATT
31873154 ATTTAATTGA-AAAATTAATTTATTTA
1 ATTTAATTGAGAAAA-TAA--TATTTA
*
31873180 ATTTTATTGAGAAAATAATATTTA
1 ATTTAATTGAGAAAATAATATTTA
31873204 ATTT
1 ATTT
31873208 GAGAAATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 10 0.38
26 12 0.46
27 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAATTGAGAAAATAATATTTA
Found at i:31874567 original size:11 final size:11
Alignment explanation
Indices: 31874536--31874561 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31874526 TTATTACTTA
31874536 AATTTCACAAC
1 AATTTCACAAC
31874547 AATTTCACAAC
1 AATTTCACAAC
31874558 AATT
1 AATT
31874562 ATACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTTCACAAC
Found at i:31884191 original size:43 final size:43
Alignment explanation
Indices: 31884116--31884201 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
31884106 GTTACGTGAA
* * *
31884116 TCGCATCCATTATGAACTCGGACCTGTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
* * *
31884159 TCGCATCCATAATGAACTCA-AGCCTCTTAACGAGGTCGGATGC
1 TCGCATCCATAATGAACTCAGA-CCTCTCAACGAGCTCAGATGC
31884202 CACATATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
Found at i:31886810 original size:46 final size:46
Alignment explanation
Indices: 31886757--31886927 Score: 306
Period size: 46 Copynumber: 3.7 Consensus size: 46
31886747 TGAGCATCCA
31886757 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
31886803 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
31886849 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
31886895 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31886928 GCGGGTTACA
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:31894724 original size:46 final size:46
Alignment explanation
Indices: 31894674--31894849 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31894664 TGGTTGAGCA
31894674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31894720 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31894765 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31894813 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31894850 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31894830 original size:93 final size:93
Alignment explanation
Indices: 31894671--31894842 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31894661 GGATGGTTGA
* *
31894671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31894736 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31894764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31894829 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31894843 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31906418 original size:45 final size:45
Alignment explanation
Indices: 31906354--31906441 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
31906344 CAGAGTTAGC
*
31906354 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATTATCCCGG
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
31906399 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
31906442 TAGGTATTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (45 bp):
TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
Found at i:31944336 original size:79 final size:79
Alignment explanation
Indices: 31944200--31944418 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
31944190 AACTTCTATT
* * ** * * *
31944200 CAGCTCTTGTGAGCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCA
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
*
31944265 TGTTT-TGATTGGAC
66 TGTTTCAG-TTGGAC
*
31944279 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTA-CAGGCTTCTGTTTGGC
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGG-TTCTGTTTGGC
*
31944343 ATGTTTCAGTTGGAT
65 ATGTTTCAGTTGGAC
** * * * *
31944358 CAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTT
31944419 AGGTGTGTTC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 78 0.66
80 36 0.30
81 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (79 bp):
CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
TGTTTCAGTTGGAC
Found at i:31944427 original size:40 final size:40
Alignment explanation
Indices: 31944199--31944418 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
31944189 CAACTTCTAT
* ** *
31944199 TCAGCTCTTGTGAGCTTCTG-TTGGCATGTTTTGGATGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* * *
31944238 CCAGCTCTTATGAGGTTCTGTTTGGCATGTTT-TGATTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAG-TTGGA
*
31944278 CCAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* *
31944317 TCAACTCTTA-CAGGCTTCTGTTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGA-GCTTCTGTTTGGCATGTTTCAGTTGGA
** * *
31944357 TCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
31944397 TCAGCTCTTATGAGCTTCTGTT
1 TCAGCTCTTATGAGCTTCTGTT
31944419 AGGTGTGTTC
Statistics
Matches: 158, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 49 0.31
40 107 0.68
41 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.41
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
Found at i:31944430 original size:119 final size:117
Alignment explanation
Indices: 31944212--31944433 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 117
31944202 GCTCTTGTGA
** ** * *
31944212 GCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCATGTTTTGATTGG
1 GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTAGATTGG
*
31944277 ACCAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTACAG
66 ACCAGCTCTTATGAGCTTCTTTAGG-ATGTTTCAGTTGGATCAACTCTTACAG
* * * *
31944330 GCTTCTGTTTGGCATGTTTCAGTTGGATCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAG-TT
1 GCTTCTG-TTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTT-AGATT
*
31944394 GGATCAGCTCTTATGAGCTTCTGTTAGG-TGTGTTCAGTTG
64 GGACCAGCTCTTATGAGCTTCT-TTAGGATGT-TTCAGTTG
31944434 ATCTGACAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 10 0.11
119 73 0.83
120 5 0.06
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (117 bp):
GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTAGATTGG
ACCAGCTCTTATGAGCTTCTTTAGGATGTTTCAGTTGGATCAACTCTTACAG
Found at i:31944926 original size:12 final size:12
Alignment explanation
Indices: 31944909--31944933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31944899 ACTAGCTTGT
31944909 GGCTATGTTTAA
1 GGCTATGTTTAA
31944921 GGCTATGTTTAA
1 GGCTATGTTTAA
31944933 G
1 G
31944934 CCTTGTATGT
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (12 bp):
GGCTATGTTTAA
Found at i:31959986 original size:24 final size:24
Alignment explanation
Indices: 31959955--31960015 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
31959945 TGAATCGGCA
* *
31959955 AAAT-TTGAAATGCCGGAAAGCTG
1 AAATATTGAAAAGCCGAAAAGCTG
31959978 AAATATTGAAAAGCCGAAAAGCTG
1 AAATATTGAAAAGCCGAAAAGCTG
*
31960002 AAATACTGAAAAGC
1 AAATATTGAAAAGC
31960016 AAAAGTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (24 bp):
AAATATTGAAAAGCCGAAAAGCTG
Found at i:31960325 original size:29 final size:28
Alignment explanation
Indices: 31960276--31960347 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
31960266 GGTGAATTTG
* **
31960276 GGCCTAGTGGGCCATAAGAATATAAACTA
1 GGCCTAGTGGGCTATTTGAATA-AAACTA
* *
31960305 GGCC-AGATGGGCTATTTGAATAAAATTG
1 GGCCTAG-TGGGCTATTTGAATAAAACTA
31960333 GGCCTAGTGGGCTAT
1 GGCCTAGTGGGCTAT
31960348 ATGCATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
GGCCTAGTGGGCTATTTGAATAAAACTA
Found at i:31960345 original size:28 final size:29
Alignment explanation
Indices: 31960273--31960348 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
31960263 GAAGGTGAAT
*
31960273 TTGGGCCTAGTGGGCCATAAGAATATAAA
1 TTGGGCCTAGTGGGCTATAAGAATATAAA
* * **
31960302 CTAGGCC-AGATGGGCTATTTGAATA-AAA
1 TTGGGCCTAG-TGGGCTATAAGAATATAAA
31960330 TTGGGCCTAGTGGGCTATA
1 TTGGGCCTAGTGGGCTATA
31960349 TGCATGTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCTATAAGAATATAAA
Found at i:31972807 original size:19 final size:19
Alignment explanation
Indices: 31972785--31972852 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
31972775 CTGTCAGAAA
31972785 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
** * * *
31972804 ATAATTAAAGTGTAGTCAGAAA
1 ATAATT-AA-T-TTTTTATAAG
31972826 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
31972845 ATAATTAA
1 ATAATTAA
31972853 AGTGTACTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 19 0.53
20 3 0.08
21 3 0.08
22 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (19 bp):
ATAATTAATTTTTTATAAG
Found at i:31972822 original size:41 final size:41
Alignment explanation
Indices: 31972777--31972858 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
31972767 TAAAATTCCT
31972777 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
31972818 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
31972859 CTTAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (41 bp):
GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
Found at i:31973780 original size:21 final size:20
Alignment explanation
Indices: 31973735--31973780 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
31973725 TTGTTGGAAT
31973735 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
31973754 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
31973775 GGTTGA
1 GGTTGA
31973781 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:31979378 original size:25 final size:25
Alignment explanation
Indices: 31979347--31979399 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
31979337 TAAGGAGCCT
31979347 GAAACGACAATTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
*
31979372 GAAACGACAGTTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
31979397 GAA
1 GAA
31979400 GCTAGGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (25 bp):
GAAACGACAATTGATAGGGATTACC
Found at i:31985979 original size:48 final size:48
Alignment explanation
Indices: 31985908--31986010 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
31985898 ACACGGGTGT
* *
31985908 GTGGCTGGCTGTGTAACTCAAGTCAGAGAGTTACATGGGTAAGGAGAC
1 GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
31985956 GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
1 GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
31986004 G-GGCTGG
1 GTGGCTGG
31986011 AACACGACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 6 0.11
48 47 0.89
ACGTcount: A:0.27, C:0.15, G:0.36, T:0.22
Consensus pattern (48 bp):
GTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGAC
Found at i:31989226 original size:22 final size:24
Alignment explanation
Indices: 31989186--31989229 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
31989176 TATATTTAGT
31989186 TTAATTAAACATAATTAATTAAGG
1 TTAATTAAACATAATTAATTAAGG
*
31989210 TTAA-TAAA-ATACTTAATTAA
1 TTAATTAAACATAATTAATTAA
31989230 AGTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
TTAATTAAACATAATTAATTAAGG
Found at i:31992342 original size:40 final size:40
Alignment explanation
Indices: 31992291--31992406 Score: 187
Period size: 40 Copynumber: 2.9 Consensus size: 40
31992281 ACACCATGTT
*
31992291 GGGATAAAATCGACCCACCCATCCCTGCACACCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
*
31992331 GGGATATAATCGACCCACCCATCCCTGCACAGCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
* * *
31992371 GGGATATAATCGACCCATCCAACCCTACACACCATA
1 GGGATATAATCGACCCACCCATCCCTGCACACCATA
31992407 AGGTACCGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.18
Consensus pattern (40 bp):
GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
Found at i:31992786 original size:50 final size:48
Alignment explanation
Indices: 31992724--31992844 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
31992714 ACGCCCGTGT
*
31992724 GCCTTGCCAGTGT-GAGCCACACGCCCGTGTGGGTCACACAGCCCAAATTG
1 GCCTTACCAGTGTGGA-CCACACG--CGTGTGGGTCACACAGCCCAAATTG
* * * *
31992774 GCCTTACTAGTGTGGATCACACGCGTGTGGGTCACACTGGCCAAATTG
1 GCCTTACCAGTGTGGACCACACGCGTGTGGGTCACACAGCCCAAATTG
*
31992822 GCCTTACCAGTGTGGATCACACG
1 GCCTTACCAGTGTGGACCACACG
31992845 GCCTAGCCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
48 45 0.70
50 17 0.27
51 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (48 bp):
GCCTTACCAGTGTGGACCACACGCGTGTGGGTCACACAGCCCAAATTG
Found at i:31992818 original size:48 final size:48
Alignment explanation
Indices: 31992749--31992844 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
31992739 GCCACACGCC
*
31992749 CGTGTGGGTCACACAGCCCAAATTGGCCTTACTAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
* *
31992797 CGTGTGGGTCACACTGGCCAAATTGGCCTTACCAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
31992845 GCCTAGCCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (48 bp):
CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
Found at i:31998494 original size:25 final size:25
Alignment explanation
Indices: 31998462--31998510 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
31998452 GATTTGACAC
31998462 GATGAGAAAGTGTTTGTGTACTTAT
1 GATGAGAAAGTGTTTGTGTACTTAT
31998487 GATGAGAAAGTGTTTGTGTACTTA
1 GATGAGAAAGTGTTTGTGTACTTA
31998511 CTTTTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (25 bp):
GATGAGAAAGTGTTTGTGTACTTAT
Found at i:32000263 original size:54 final size:54
Alignment explanation
Indices: 32000064--32000270 Score: 233
Period size: 54 Copynumber: 3.9 Consensus size: 54
32000054 TTTCCTTTTT
* * * *
32000064 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCTTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * **
32000117 GAACTCACCAACGCCATGCCTTGGCTTGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* *
32000171 GTAAC-T-CTCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTAC-CAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
32000225 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
32000271 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 20, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 46 0.36
54 74 0.58
55 5 0.04
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:32000304 original size:47 final size:47
Alignment explanation
Indices: 32000249--32000370 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
32000239 CATGCCTTGG
* *
32000249 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
32000296 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
32000343 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
32000371 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:32001713 original size:19 final size:19
Alignment explanation
Indices: 32001691--32001732 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
32001681 TTTCTTTCAA
32001691 ATTTGTCCTATTCTTGCCC
1 ATTTGTCCTATTCTTGCCC
32001710 ATTTGTCCTATTCTTGCCC
1 ATTTGTCCTATTCTTGCCC
32001729 ATTT
1 ATTT
32001733 TTGTCCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.29, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTTGTCCTATTCTTGCCC
Found at i:32009937 original size:60 final size:60
Alignment explanation
Indices: 32009844--32009956 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
32009834 TGGGGGAGAG
*
32009844 TTGTGACAGCCCTAAAGTGACCCTAGTAGGAAAGTGGTTTCGGGACCGATAAATGCATAT
1 TTGTGACAGCCCTAAAGTGACCCTAGTAGGAAAGCGGTTTCGGGACCGATAAATGCATAT
*
32009904 TTGTGACAGCCCTAAAGTGACCCTAGTAGGAAAGCGGTTTCGGGACCGCTAAA
1 TTGTGACAGCCCTAAAGTGACCCTAGTAGGAAAGCGGTTTCGGGACCGATAAA
32009957 CCGAGTCACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (60 bp):
TTGTGACAGCCCTAAAGTGACCCTAGTAGGAAAGCGGTTTCGGGACCGATAAATGCATAT
Found at i:32011368 original size:150 final size:151
Alignment explanation
Indices: 32011091--32011396 Score: 596
Period size: 150 Copynumber: 2.0 Consensus size: 151
32011081 ATGAGAAATT
32011091 TGATTCGTAGTGAAGAGTGGTCAGAATAGTCAAACAGTGAAACAGGGGAAACTTTAAGAAAAATC
1 TGATTCGTAGTGAAGAGTGGTCAGAATAGTCAAACAGTGAAACAGGGGAAACTTTAAGAAAAATC
32011156 TGGTATTGATTGGCCAAGCGAAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATAT
66 TGGTATTGATTGGCCAAGCGAAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATAT
*
32011221 TTAGGGAAAATTAACGGCTAG
131 TCAGGGAAAATTAACGGCTAG
32011242 TGATT-GTAGTGAAGAGTGGTCAGAATAGTCAAACAGTGAAACAGGGGAAACTTTAAGAAAAATC
1 TGATTCGTAGTGAAGAGTGGTCAGAATAGTCAAACAGTGAAACAGGGGAAACTTTAAGAAAAATC
32011306 TGGTATTGATTGGCCAAGCGAAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATAT
66 TGGTATTGATTGGCCAAGCGAAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATAT
32011371 TCAGGGAAAATTAACGGCTAG
131 TCAGGGAAAATTAACGGCTAG
32011392 TGATT
1 TGATT
32011397 TGGAGTTTTG
Statistics
Matches: 154, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
150 149 0.97
151 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (151 bp):
TGATTCGTAGTGAAGAGTGGTCAGAATAGTCAAACAGTGAAACAGGGGAAACTTTAAGAAAAATC
TGGTATTGATTGGCCAAGCGAAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATAT
TCAGGGAAAATTAACGGCTAG
Found at i:32011989 original size:27 final size:27
Alignment explanation
Indices: 32011958--32012135 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32011948 TAAATTGTAC
32011958 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32011985 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32012011 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32012039 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32012067 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32012094 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32012121 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32012136 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32012072 original size:82 final size:81
Alignment explanation
Indices: 32011959--32012114 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32011949 AAATTGTACA
* *
32011959 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32012023 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32012040 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32012105 TGCGAGTTGA
65 TGCGAATTGA
32012115 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32012126 original size:82 final size:81
Alignment explanation
Indices: 32011955--32012135 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32011945 GATTAAATTG
* *
32011955 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32012020 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32012036 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32012100 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32012118 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32012136 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32013221 original size:38 final size:38
Alignment explanation
Indices: 32013170--32013251 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
32013160 TTGAAGCCCC
32013170 GTGTAGGGAGATATCCAAG-TCGTAATGGGCAAAGGTCA
1 GTGTAGGGAGATATCC-AGTTCGTAATGGGCAAAGGTCA
32013208 GTGTAGGGAGATATCCAGTTCGTAATGGGCAAAGGTCA
1 GTGTAGGGAGATATCCAGTTCGTAATGGGCAAAGGTCA
32013246 GTGTAG
1 GTGTAG
32013252 TCGACCCCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 2 0.05
38 41 0.95
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.23
Consensus pattern (38 bp):
GTGTAGGGAGATATCCAGTTCGTAATGGGCAAAGGTCA
Found at i:32022333 original size:19 final size:19
Alignment explanation
Indices: 32022305--32022358 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
32022295 GTGTACACGA
* *
32022305 ATGAATTACTGTTATATGG
1 ATGAAGTACTGTTATAAGG
*
32022324 ATGAAGTACTGCTTAAAAGG
1 ATGAAGTACTG-TTATAAGG
32022344 ATG-AGTTACTGTTAT
1 ATGAAG-TACTGTTAT
32022359 CGAATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (19 bp):
ATGAAGTACTGTTATAAGG
Found at i:32025024 original size:26 final size:26
Alignment explanation
Indices: 32024994--32025063 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
32024984 TGACTCACCA
*
32024994 TAGCTCGTATGAGCTTACCGATATAT
1 TAGCTCGTAAGAGCTTACCGATATAT
* * * *
32025020 TAGCTCATACGAGCTTACCGGTGTAT
1 TAGCTCGTAAGAGCTTACCGATATAT
*
32025046 CAGCTCGTAAGAGCTTAC
1 TAGCTCGTAAGAGCTTAC
32025064 TGTTTTCAGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
TAGCTCGTAAGAGCTTACCGATATAT
Found at i:32032717 original size:23 final size:23
Alignment explanation
Indices: 32032605--32032728 Score: 110
Period size: 23 Copynumber: 5.3 Consensus size: 23
32032595 TATCGATATA
*
32032605 TCAGCTC-GTAAGAGCTCACTGTTT
1 TCAGCTCAGT-AGAGCTTACTG-TT
* * * *
32032629 TCAGCTTATTGGAGCTTACTG-C
1 TCAGCTCAGTAGAGCTTACTGTT
* *
32032651 TCAGCTC-GATAGAGCATACTATT
1 TCAGCTCAG-TAGAGCTTACTGTT
*
32032674 TCAGCTCAATAGAGCTTACTGTT
1 TCAGCTCAGTAGAGCTTACTGTT
32032697 TCAGCTCAGTAGAGCTTACTGTT
1 TCAGCTCAGTAGAGCTTACTGTT
32032720 CATCAGCTC
1 --TCAGCTC
32032729 GGGAGGAGCT
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
22 15 0.19
23 41 0.52
24 15 0.19
25 8 0.10
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (23 bp):
TCAGCTCAGTAGAGCTTACTGTT
Found at i:32034762 original size:22 final size:21
Alignment explanation
Indices: 32034713--32034762 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
32034703 CTTTAACATT
**
32034713 GGCGTGTCCCAGGGTCACACG
1 GGCGTGTCCCAGGACCACACG
* *
32034734 GGTGTGTCCCTAGGACCACTCG
1 GGCGTGTCCC-AGGACCACACG
32034756 GGCGTGT
1 GGCGTGT
32034763 GAGCCCTGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.12, C:0.30, G:0.38, T:0.20
Consensus pattern (21 bp):
GGCGTGTCCCAGGACCACACG
Found at i:32044183 original size:53 final size:49
Alignment explanation
Indices: 32044103--32044361 Score: 249
Period size: 47 Copynumber: 5.3 Consensus size: 49
32044093 CCATGGCAAC
32044103 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGATATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATC---GAG
* ** * *
32044156 ATGTGATTATGTGCTTCCGTATAAGACCATATATGGGATATGGTATCG-G
1 ATGTGA-TATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
* * * * * * *
32044205 -TGTGATATATGCTACTGTATAAGACCATATCTGGGATATGACATC-AG
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
* * *
32044252 -TGAGATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
* * * *
32044299 ATGTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGAT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
*
32044348 ATATGAATATGTGA
1 ATGTG-ATATGTGA
32044362 AAGGCCATAG
Statistics
Matches: 176, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
46 25 0.14
47 46 0.26
48 18 0.10
49 37 0.21
50 9 0.05
53 35 0.20
54 6 0.03
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (49 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAG
Found at i:32044424 original size:42 final size:41
Alignment explanation
Indices: 32044316--32044416 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
32044306 ATGTGATTTC
* *
32044316 GTGTAAGACCATAGTTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGGCCATAGTTGGGCTATGGCATC-ATATATGAAGAT
* * * *
32044358 GTGAAAGGCCATAGCTGGGTTATGGCATCATTATCTGAAGAT
1 GTGTAAGGCCATAGTTGGGCTATGGCATCA-TATATGAAGAT
32044400 GTGTAAGGCCATAGTTG
1 GTGTAAGGCCATAGTTG
32044417 AACTATGGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (41 bp):
GTGTAAGGCCATAGTTGGGCTATGGCATCATATATGAAGAT
Found at i:32044511 original size:15 final size:15
Alignment explanation
Indices: 32044491--32044524 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
32044481 GGCAAGTGTT
32044491 ATATGGAACTATGTG
1 ATATGGAACTATGTG
32044506 ATATGGAACTATGTG
1 ATATGGAACTATGTG
32044521 ATAT
1 ATAT
32044525 AAGGAAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (15 bp):
ATATGGAACTATGTG
Found at i:32045171 original size:22 final size:26
Alignment explanation
Indices: 32045127--32045178 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
32045117 AAATTGATTC
32045127 ATAAATGTATTAAAATGTTGGTGA-AA
1 ATAAATGTATTAAAATG-TGGTGAGAA
32045153 ATAAATG-ATT-AAATG-GGTGAGAA
1 ATAAATGTATTAAAATGTGGTGAGAA
32045176 ATA
1 ATA
32045179 TGGTTTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.20
23 5 0.20
24 5 0.20
25 3 0.12
26 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (26 bp):
ATAAATGTATTAAAATGTGGTGAGAA
Found at i:32049088 original size:14 final size:15
Alignment explanation
Indices: 32049069--32049107 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
32049059 ACCCATTTTT
32049069 CAGTGGTTTCGA-AA
1 CAGTGGTTTCGAGAA
32049083 CAGTGGTTTC-AGAA
1 CAGTGGTTTCGAGAA
*
32049097 CAGTAGTTTCG
1 CAGTGGTTTCG
32049108 GGACCACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (15 bp):
CAGTGGTTTCGAGAA
Found at i:32065416 original size:43 final size:42
Alignment explanation
Indices: 32065351--32065474 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
32065341 AGCTCATACA
* * * *
32065351 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACATGTAATCACATAACG
* * * * *
32065393 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA-TTAACT
1 ATGCCA-TGTCCCAGACATGGTCTTACATGTAATC-ACATAACG
32065436 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAATCACAT
32065475 CTCGTAACCT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
42 7 0.11
43 56 0.86
44 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGTAATCACATAACG
Found at i:32068712 original size:14 final size:14
Alignment explanation
Indices: 32068693--32068722 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32068683 TTATATCGAG
32068693 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
32068707 ACCAATCCAATTCA
1 ACCAATCCAAATCA
32068721 AC
1 AC
32068723 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:32074326 original size:62 final size:57
Alignment explanation
Indices: 32074245--32074377 Score: 167
Period size: 62 Copynumber: 2.2 Consensus size: 57
32074235 TCCAAAAATA
* * * *
32074245 ATATTATTTTAATATTTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATT
1 ATATTATTTTAATAATTTAATATTAAATTTAATATAATATTTATC--AT-GATAAATATT
*
32074305 CTATTATTTTAATACGATTTAATATTAAATTTAATATAATATTTATCATGATAAATATT
1 ATATTATTTTAATA--ATTTAATATTAAATTTAATATAATATTTATCATGATAAATATT
*
32074364 ATATTAATTTAATA
1 ATATTATTTTAATA
32074378 TTAAAGTGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 22 0.34
60 14 0.22
62 28 0.44
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (57 bp):
ATATTATTTTAATAATTTAATATTAAATTTAATATAATATTTATCATGATAAATATT
Found at i:32074338 original size:12 final size:12
Alignment explanation
Indices: 32074321--32074382 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
32074311 TTTTAATACG
32074321 ATTTAATATTAA
1 ATTTAATATTAA
32074333 ATTTAATA-TAA
1 ATTTAATATTAA
32074344 TATTT-ATCATGATAA
1 -ATTTAAT-AT--TAA
32074359 ATATT-ATATT-A
1 AT-TTAATATTAA
32074370 ATTTAATATTAA
1 ATTTAATATTAA
32074382 A
1 A
32074383 GTGATTAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.05
11 13 0.31
12 16 0.38
14 4 0.10
15 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:32077319 original size:12 final size:12
Alignment explanation
Indices: 32077302--32077326 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32077292 GAGTAAGTGT
32077302 TTCTACTTAATC
1 TTCTACTTAATC
32077314 TTCTACTTAATC
1 TTCTACTTAATC
32077326 T
1 T
32077327 AATGGTGATT
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:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCTACTTAATC
Found at i:32077641 original size:23 final size:23
Alignment explanation
Indices: 32077610--32077690 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 23
32077600 TAAGTGGATG
*
32077610 TGTTTGGAGGGAATATTTGGTTA
1 TGTTTGGAGGGTATATTTGGTTA
* * **
32077633 TGTTGGGAGGCTATATTTGGTGG
1 TGTTTGGAGGGTATATTTGGTTA
* *
32077656 TG-TTGGAGGGTATGTTTAGTTA
1 TGTTTGGAGGGTATATTTGGTTA
32077678 TGTTTGGAGGGTA
1 TGTTTGGAGGGTA
32077691 AATTGATTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 16 0.35
23 30 0.65
ACGTcount: A:0.17, C:0.01, G:0.40, T:0.42
Consensus pattern (23 bp):
TGTTTGGAGGGTATATTTGGTTA
Found at i:32079723 original size:20 final size:20
Alignment explanation
Indices: 32079698--32079735 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32079688 AATATATGTG
*
32079698 GTCAAGCCACTATAATTGTA
1 GTCAAGCCACCATAATTGTA
*
32079718 GTCAAGCTACCATAATTG
1 GTCAAGCCACCATAATTG
32079736 ATATTGCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (20 bp):
GTCAAGCCACCATAATTGTA
Found at i:32081072 original size:42 final size:42
Alignment explanation
Indices: 32081013--32081092 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
32081003 CTTACCGCAA
*
32081013 AACCAACAGGCTCATTCTGTCATCAATTGAGCGAAAATGCTG
1 AACCAACAGGCTCATTCTGTCATCAATTGAGCAAAAATGCTG
*
32081055 AACCAATAGGCTCATTCTGTCATCAATTGAGCAAAAAT
1 AACCAACAGGCTCATTCTGTCATCAATTGAGCAAAAAT
32081093 TAAACTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (42 bp):
AACCAACAGGCTCATTCTGTCATCAATTGAGCAAAAATGCTG
Found at i:32082913 original size:19 final size:19
Alignment explanation
Indices: 32082889--32082929 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
32082879 CCGTGGAGCC
32082889 TCTATTTCTCAAAAATTTA
1 TCTATTTCTCAAAAATTTA
32082908 TCTATTTCTCAAAAATTTA
1 TCTATTTCTCAAAAATTTA
32082927 TCT
1 TCT
32082930 TCGTTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (19 bp):
TCTATTTCTCAAAAATTTA
Found at i:32094324 original size:13 final size:13
Alignment explanation
Indices: 32094306--32094330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32094296 GCTCGGCACG
32094306 GACACGCCCGTGT
1 GACACGCCCGTGT
32094319 GACACGCCCGTG
1 GACACGCCCGTG
32094331 CTCGATTACT
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:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:32106076 original size:14 final size:13
Alignment explanation
Indices: 32106043--32106067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32106033 ATAAATGTAA
32106043 ATTTTAATTTATG
1 ATTTTAATTTATG
32106056 ATTTTAATTTAT
1 ATTTTAATTTAT
32106068 TTATTTTAAA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTTTAATTTATG
Found at i:32109151 original size:10 final size:9
Alignment explanation
Indices: 32109137--32109202 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 9
32109127 TATATTTTTT
32109137 AAAAAATTA
1 AAAAAATTA
*
32109146 TAAAAATTTCAA
1 -AAAAAATT--A
32109158 AAAAAATTCA
1 AAAAAATT-A
32109168 AAAAAATATA
1 AAAAAAT-TA
32109178 TAAAGAAAGTTA
1 -AAA-AAA-TTA
32109190 AAAAAATTA
1 AAAAAATTA
32109199 AAAA
1 AAAA
32109203 TTTTCTAGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
9 7 0.15
10 19 0.40
11 14 0.30
12 6 0.13
13 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (9 bp):
AAAAAATTA
Found at i:32113875 original size:20 final size:20
Alignment explanation
Indices: 32113850--32113887 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32113840 GACGGAATAG
* *
32113850 AACCACGAAACTGTGAACAA
1 AACCACAAAAATGTGAACAA
32113870 AACCACAAAAATGTGAAC
1 AACCACAAAAATGTGAAC
32113888 TGAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.11
Consensus pattern (20 bp):
AACCACAAAAATGTGAACAA
Found at i:32114187 original size:21 final size:20
Alignment explanation
Indices: 32114161--32114200 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
32114151 TTGGCCTAAC
*
32114161 AAACAAAATCTAAATTAAAAT
1 AAACAAAATC-AAATGAAAAT
32114182 AAACAAAATCAAATGAAAA
1 AAACAAAATCAAATGAAAA
32114201 GACAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (20 bp):
AAACAAAATCAAATGAAAAT
Found at i:32120712 original size:46 final size:46
Alignment explanation
Indices: 32120660--32120784 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
32120650 GGTTGAGCAT
* * *
32120660 CCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
32120706 CTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
32120752 CCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32120785 GGGGCGGGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:32123219 original size:47 final size:46
Alignment explanation
Indices: 32123156--32123284 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 46
32123146 GTGGGAATAA
* * * *** *
32123156 TACCTTAATTTGGCTACAAGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTAC-AGCCATGGTATAGGTACTCCAAGAGAAGT
* *
32123203 TACCTTGATTTGGCTACAGTCATGGTATAGGTACTCCAAGATAAGT
1 TACCTTGATTTGGCTACAGCCATGGTATAGGTACTCCAAGAGAAGT
* *
32123249 AACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTAC-AGCCATGGTATAGGTACT
32123285 TACCGATTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
46 37 0.54
47 32 0.46
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGGCTACAGCCATGGTATAGGTACTCCAAGAGAAGT
Found at i:32125010 original size:19 final size:21
Alignment explanation
Indices: 32124988--32125038 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
32124978 ATATTTTACT
32124988 ATGTTT-T-ATTTATTATATC
1 ATGTTTATAATTTATTATATC
32125007 ATGTTTACTATAATTTATTATATC
1 ATG-TT--TATAATTTATTATATC
32125031 ATGTTTAT
1 ATGTTTAT
32125039 TATAATTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 3 0.11
22 1 0.04
23 3 0.11
24 15 0.56
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
ATGTTTATAATTTATTATATC
Found at i:32125013 original size:14 final size:14
Alignment explanation
Indices: 32124996--32125042 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
32124986 CTATGTTTTA
32124996 TTTATTATATCATG
1 TTTATTATATCATG
*
32125010 TTTACTATA--A--
1 TTTATTATATCATG
32125020 TTTATTATATCATG
1 TTTATTATATCATG
32125034 TTTATTATA
1 TTTATTATA
32125043 ATTGGAGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.30
12 2 0.07
14 17 0.63
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (14 bp):
TTTATTATATCATG
Found at i:32125022 original size:24 final size:24
Alignment explanation
Indices: 32124995--32125045 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
32124985 ACTATGTTTT
32124995 ATTTATTATATCATGTTTACTATA
1 ATTTATTATATCATGTTTACTATA
*
32125019 ATTTATTATATCATGTTTATTATA
1 ATTTATTATATCATGTTTACTATA
32125043 ATT
1 ATT
32125046 GGAGACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTATTATATCATGTTTACTATA
Found at i:32126699 original size:356 final size:354
Alignment explanation
Indices: 32126047--32126754 Score: 1038
Period size: 356 Copynumber: 2.0 Consensus size: 354
32126037 TACACGGGCG
* *
32126047 GTTCACATAGCCTTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACATGTTCAT
1 GTTCACATAGCCGTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACACGTTCAT
* * * * * *
32126112 GTGGCCGATTTGGGGATTTTTTTTGATATCCACATGGCCGTGTCTCGTGGGCACATAGGCGTGTA
66 GTGGCCAATTTGGGGATTTTTTTCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGTA
* * * ** *
32126177 CGATTGGGAATTAGGGTTTATGTGATTTGTTTCCATACGGCCTGGCCACACGGGCATGTGCCATG
131 CAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACGGGCATGTGCCATG
* ** *
32126242 GATACACCGTCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTTGTGTCTGCCTTG
196 GATACACCGCCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTCATGTCTGCCCTG
** * *
32126307 TACCCTATTTTAGTTCAAACGAACAAAGAGTTACACGGCCTGATCACATGGCCATATCCCTAGGT
261 TACCCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCAT-GGT
* * *
32126372 CACACAGGCGTGTGCCTCTCTACATGGGTA
325 CACACAGGCGCGTGCCTCCCCACATGGGTA
* *
32126402 GTTCACATAGCCGTGTGCGCTTGAGATTTAGGGTTTTTGGACTAATTTGGGTGCCACACGTTCAT
1 GTTCACATAGCCGTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACACGTTCAT
32126467 GTGGCCAATTTGGGGATTTTTTGTCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGT
66 GTGGCCAATTTGGGGATTTTTT-TCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGT
* * * *
32126532 GCAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACTGGCGTTTGCCAT
130 ACAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACGGGCATGTGCCAT
* ** ** *
32126597 GGATACACTGCCATTTCTGGTGGGCACACGGGCGCGTGAGACCCTTGCACGGTCATGTCTGCCCT
195 GGATACACCGCCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTCATGTCTGCCCT
**
32126662 GTATGCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCATGGT
260 GTACCCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCATGGT
*
32126727 CACACATGCGCGTGCCTCCCCACATGGG
325 CACACAGGCGCGTGCCTCCCCACATGGG
32126755 CGTTTTGACC
Statistics
Matches: 312, Mismatches: 40, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
355 109 0.35
356 203 0.65
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (354 bp):
GTTCACATAGCCGTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACACGTTCAT
GTGGCCAATTTGGGGATTTTTTTCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGTA
CAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACGGGCATGTGCCATG
GATACACCGCCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTCATGTCTGCCCTG
TACCCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCATGGTC
ACACAGGCGCGTGCCTCCCCACATGGGTA
Found at i:32130133 original size:47 final size:45
Alignment explanation
Indices: 32130060--32130264 Score: 209
Period size: 47 Copynumber: 4.4 Consensus size: 45
32130050 GATTTCTTGT
* * *
32130060 GTGCCAGTGTAAGGCATGTCTGGGACATGCATTGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGA
* *
32130106 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGATGA
*
32130154 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-GATGA
** * * *
32130201 -TAGCCAACGTAAGACGTGTCTGGGACATGCATCGGCTA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-A
*
32130245 GTGCTAGTGTAAGACATGTC
1 GTGCCAGTGTAAGACATGTC
32130265 CAAGACATGC
Statistics
Matches: 133, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 16 0.12
45 2 0.02
46 23 0.17
47 64 0.48
48 25 0.19
49 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
Found at i:32130221 original size:94 final size:91
Alignment explanation
Indices: 32130060--32130264 Score: 245
Period size: 94 Copynumber: 2.2 Consensus size: 91
32130050 GATTTCTTGT
* * ** **
32130060 GTGCCAGTGTAAGGCATGTCTGGGACATGCATTGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAACGTAAGACCATG
32130125 TCTGGGACATGGCATCGGCGT-AGAGATGA
66 TCTGGGACAT-GCATCGGC-TAAGAG-T-A
* *
32130154 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAACGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAACGTAAGACCA
*
32130217 TGTCTGGGACATGCATCGGCTAAGAGTT
64 TGTCTGGGACATGCATCGGCTAAGAGTA
*
32130245 GTGCTAGTGTAAGACATGTC
1 GTGCCAGTGTAAGACATGTC
32130265 CAAGACATGC
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
91 19 0.19
92 2 0.02
93 12 0.12
94 50 0.51
95 15 0.15
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAACGTAAGACCATG
TCTGGGACATGCATCGGCTAAGAGTA
Found at i:32136155 original size:22 final size:22
Alignment explanation
Indices: 32136114--32136174 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
32136104 AGCTCAACAT
* *
32136114 ATATAAGAGCATATC-T-TATC
1 ATATCAGAGCAAATCATATATC
32136134 ATATCAGAGCAAATCATATATC
1 ATATCAGAGCAAATCATATATC
* * *
32136156 AGATCATACCAAATCATAT
1 ATATCAGAGCAAATCATAT
32136175 CATATCCCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 13 0.38
21 1 0.03
22 20 0.59
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (22 bp):
ATATCAGAGCAAATCATATATC
Found at i:32137000 original size:49 final size:47
Alignment explanation
Indices: 32136864--32137002 Score: 125
Period size: 49 Copynumber: 2.8 Consensus size: 47
32136854 ACCTGGACAG
* * * *
32136864 TCTATATGATTTCACATGGTTATGTGGTCCACACGGTCTAACCACGCTA
1 TCTATATGATTTCACATGG--CTGTGGTCCACACGGTCTACCCACACAA
* ** * * *
32136913 TTTGCATGATTTTACATGGCTGCATGGTCCATATGGTCTACCCACACAA
1 TCTATATGATTTCACATGGCTG--TGGTCCACACGGTCTACCCACACAA
*
32136962 TCTATATGATTTCACATGGCCCTGTGGCCCACACGGTCTAC
1 TCTATATGATTTCACATGG--CTGTGGTCCACACGGTCTAC
32137003 ATGATTTCAT
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
47 2 0.03
49 64 0.93
51 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (47 bp):
TCTATATGATTTCACATGGCTGTGGTCCACACGGTCTACCCACACAA
Found at i:32142120 original size:42 final size:42
Alignment explanation
Indices: 32141977--32142968 Score: 1794
Period size: 42 Copynumber: 23.9 Consensus size: 42
32141967 GCATGAGCAT
* *
32141977 TTGA-ATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
32142018 TTG--ATATATCCGGGCTCAGACCCGAAGGCATTTGTGCAAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142058 TTG--ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142098 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
32142140 TTG--ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142180 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142222 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142264 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142306 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142348 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142390 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142432 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142474 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142516 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142558 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142600 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142642 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142684 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142726 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142768 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
32142810 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
32142852 TTG--ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
32142892 TTG--ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
32142932 TTG-C-TATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
32142969 TTGTGGTTAT
Statistics
Matches: 931, Mismatches: 15, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
40 219 0.24
41 3 0.00
42 709 0.76
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (42 bp):
TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:32145098 original size:40 final size:40
Alignment explanation
Indices: 32145043--32145156 Score: 167
Period size: 40 Copynumber: 2.9 Consensus size: 40
32145033 NNNNNNNNNN
32145043 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
*
32145083 TTGATATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG
* * * *
32145123 TTGCTATACCCGGGTTAAGACCCGAATGCAATTG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTG
32145157 AGCTTGTGGT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.04
40 61 0.91
41 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
Found at i:32153130 original size:40 final size:40
Alignment explanation
Indices: 32153075--32153221 Score: 240
Period size: 40 Copynumber: 3.7 Consensus size: 40
32153065 GAGCATTTGA
32153075 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
32153115 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
32153155 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* * *
32153195 CTATACCCGGGTTAAGACCCGAAGGCA
1 ATATATCCGGGCTAAGACCCGAAGGCA
32153222 ATTGAGCTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:32153211 original size:80 final size:80
Alignment explanation
Indices: 32153075--32153225 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 80
32153065 GAGCATTTGA
* *
32153075 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGG
32153140 CAATTGTGCAAGTTG
66 CAATTGTGCAAGTTG
* *
32153155 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGG
32153220 CAATTG
66 CAATTG
32153226 AGCTTGTGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGG
CAATTGTGCAAGTTG
Found at i:32153240 original size:80 final size:80
Alignment explanation
Indices: 32153075--32153244 Score: 259
Period size: 80 Copynumber: 2.1 Consensus size: 80
32153065 GAGCATTTGA
* *
32153075 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGG
* *
32153140 CAATTGTGCAAGTTG
66 CAATTGAGCAAGTGG
* *
32153155 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGG
**
32153220 CAATTGAGCTTGTGG
66 CAATTGAGCAAGTGG
*
32153235 TTATATCCGG
1 ATATATCCGG
32153245 TTAAATTCCG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGG
CAATTGAGCAAGTGG
Found at i:32166210 original size:24 final size:24
Alignment explanation
Indices: 32166178--32166225 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
32166168 ATTCTCAGAG
*
32166178 ATAGAAAAATAAGTGAATTGTACC
1 ATAGAAAAATAAATGAATTGTACC
32166202 ATAGAAAAATAAATGAATTGTACC
1 ATAGAAAAATAAATGAATTGTACC
32166226 TAAGTCAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (24 bp):
ATAGAAAAATAAATGAATTGTACC
Found at i:32173394 original size:12 final size:12
Alignment explanation
Indices: 32173377--32173417 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
32173367 AATTAGAATG
*
32173377 TAAAAAGTAAAC
1 TAAAAAGTAAAA
**
32173389 TAAAAAACAAAA
1 TAAAAAGTAAAA
32173401 TAAAAAGTAAAA
1 TAAAAAGTAAAA
32173413 TAAAA
1 TAAAA
32173418 TAAAAATGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (12 bp):
TAAAAAGTAAAA
Found at i:32174486 original size:26 final size:26
Alignment explanation
Indices: 32174451--32174501 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
32174441 AACAGCCCAA
32174451 AACCCAACTAAACCCAAACCCCAAAC
1 AACCCAACTAAACCCAAACCCCAAAC
* * *
32174477 AACCTAACTAAACCCTAAGCCCAAA
1 AACCCAACTAAACCCAAACCCCAAA
32174502 AGGGCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.41, G:0.02, T:0.08
Consensus pattern (26 bp):
AACCCAACTAAACCCAAACCCCAAAC
Found at i:32175669 original size:47 final size:48
Alignment explanation
Indices: 32175608--32175717 Score: 143
Period size: 50 Copynumber: 2.3 Consensus size: 48
32175598 TTATTTTTGC
*
32175608 TATT-TTATTATTAAAAATAATTAATTAAC-AGTATTATTAGTATTGT
1 TATTATTATTATTAAAAATAATTAATTAACTAGTATTATTACTATTGT
** * *
32175654 TATTATTATTATTAAATTTAATTATTTAACATTATTATTATTACTATTGT
1 TATTATTATTATTAAAAATAATTAATTAAC--TAGTATTATTACTATTGT
32175704 TATTATTATTATTA
1 TATTATTATTATTA
32175718 CTTTTTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 4 0.07
47 22 0.40
50 29 0.53
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (48 bp):
TATTATTATTATTAAAAATAATTAATTAACTAGTATTATTACTATTGT
Found at i:32175802 original size:3 final size:3
Alignment explanation
Indices: 32175639--32175787 Score: 90
Period size: 3 Copynumber: 50.0 Consensus size: 3
32175629 TAATTAACAG
* * * * *
32175639 TAT TAT TAG TAT TGT TAT TAT TAT TAT TA- AAT T-T AAT TATT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * *
32175683 CAT TAT TAT TAT TAC TAT TGT TAT TAT TAT TAT TACT T-T T-T TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T-AT
* * * * * * **
32175728 TAT TTT TAT TTT TGT TAC TAT TAT TAT TGT TAT TAT TCT TAT TAT CGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
32175776 TAC TAT TAT TAT
1 TAT TAT TAT TAT
32175788 ATTTTCCCTT
Statistics
Matches: 107, Mismatches: 33, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
2 6 0.06
3 94 0.88
4 7 0.07
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:32175973 original size:74 final size:74
Alignment explanation
Indices: 32175890--32176038 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
32175880 ATTTACCTAG
32175890 TATTTTTTAAAATATATATATTTATATTTATTATTTATTTACTTATATTCTCTTATAATTTCAAA
1 TATTTTTTAAAATATATATATTTATATTTATTATTTATTTACTTATATTCTCTTATAATTTCAAA
32175955 CTTAGATTA
66 CTTAGATTA
*
32175964 TATTTTTTAAAATATATATATTTATATTTATTATTTATTTACTTATATTCTTTTATAATTTCAAA
1 TATTTTTTAAAATATATATATTTATATTTATTATTTATTTACTTATATTCTCTTATAATTTCAAA
32176029 CTTAGATTA
66 CTTAGATTA
32176038 T
1 T
32176039 TTACTATTAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (74 bp):
TATTTTTTAAAATATATATATTTATATTTATTATTTATTTACTTATATTCTCTTATAATTTCAAA
CTTAGATTA
Found at i:32177800 original size:40 final size:39
Alignment explanation
Indices: 32177702--32177964 Score: 269
Period size: 40 Copynumber: 6.6 Consensus size: 39
32177692 TCCTCGTTCA
* * * * *
32177702 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
32177741 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
32177780 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
32177820 GAATGCCTTTGGGACTTAACCCGGATTTAATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * *
32177860 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCAC
** * * * *
32177900 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
32177941 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32177965 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 40 0.21
40 143 0.73
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:32177973 original size:41 final size:41
Alignment explanation
Indices: 32177896--32177973 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32177886 TTTGTATCTC
* * *
32177896 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32177937 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32177974 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32179915 original size:18 final size:18
Alignment explanation
Indices: 32179892--32179929 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32179882 CTCAAACTGT
32179892 CAATTTTTGACATTATGA
1 CAATTTTTGACATTATGA
32179910 CAATTTTTGACATTATGA
1 CAATTTTTGACATTATGA
32179928 CA
1 CA
32179930 TTAATTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (18 bp):
CAATTTTTGACATTATGA
Found at i:32184283 original size:7 final size:7
Alignment explanation
Indices: 32184273--32184375 Score: 86
Period size: 7 Copynumber: 14.1 Consensus size: 7
32184263 TAAAAAAGGT
32184273 AAAAAGA
1 AAAAAGA
*
32184280 AAAAGGTA
1 AAAAAG-A
32184288 AAACAA-A
1 AAA-AAGA
*
32184295 AAAGAGA
1 AAAAAGA
32184302 AAAAAGAA
1 AAAAAG-A
32184310 TAGAAAAGA
1 -A-AAAAGA
32184319 AAAAAG-
1 AAAAAGA
32184325 AAAAAGA
1 AAAAAGA
32184332 AAAAA-A
1 AAAAAGA
*
32184338 GAAAAGA
1 AAAAAGA
32184345 AAAAAGA
1 AAAAAGA
32184352 AAAAAGA
1 AAAAAGA
*
32184359 AAAGAAAA
1 AAA-AAGA
32184367 GAAAAAGA
1 -AAAAAGA
32184375 A
1 A
32184376 GAGGCCAAGG
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
6 12 0.15
7 43 0.55
8 12 0.15
9 6 0.08
10 5 0.06
ACGTcount: A:0.81, C:0.01, G:0.17, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:32184314 original size:5 final size:5
Alignment explanation
Indices: 32184294--32184371 Score: 71
Period size: 5 Copynumber: 16.8 Consensus size: 5
32184284 GGTAAAACAA
* * *
32184294 AAAAG AGAA- AAAAG AATAG AAAAG AAAA- AAGA- AAAAG -AAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
32184339 AAAAG AAAA- AAGAA- AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AA-AAG AAAAG AAAAG AAAAG AAAA
32184372 AGAAGAGGCC
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 19 0.31
5 42 0.69
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:32184316 original size:26 final size:26
Alignment explanation
Indices: 32184264--32184372 Score: 118
Period size: 26 Copynumber: 4.2 Consensus size: 26
32184254 TACTTCACTT
* *
32184264 AAAAAAG-GTAAAAAGAAAAAGGTAAAAC
1 AAAAAAGAGAAAAAAG-AAAA-G-AAAAG
*
32184292 AAAAAAGAGAAAAAAGAATAGAAAAG
1 AAAAAAGAGAAAAAAGAAAAGAAAAG
*
32184318 AAAAAAGA-AAAAGAAAAAAAGAAAAG
1 AAAAAAGAGAAAA-AAGAAAAGAAAAG
32184344 -AAAAA-AGAAAAAAGAAAAGAAAAG
1 AAAAAAGAGAAAAAAGAAAAGAAAAG
32184368 AAAAA
1 AAAAA
32184373 GAAGAGGCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
24 13 0.18
25 17 0.24
26 23 0.32
27 1 0.01
28 10 0.14
29 7 0.10
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.03
Consensus pattern (26 bp):
AAAAAAGAGAAAAAAGAAAAGAAAAG
Found at i:32184318 original size:19 final size:19
Alignment explanation
Indices: 32184294--32184377 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 19
32184284 GGTAAAACAA
*
32184294 AAAAGAGAAAAAAGAATAG
1 AAAAGAGAAAAAAGAAAAG
32184313 -AAA-AGAAAAAAG---A-
1 AAAAGAGAAAAAAGAAAAG
32184326 AAAAGA-AAAAAAGAAAAG
1 AAAAGAGAAAAAAGAAAAG
*
32184344 AAAAAAGAAAAAAGAAAAG
1 AAAAGAGAAAAAAGAAAAG
32184363 AAAAGA-AAAAGAAGA
1 AAAAGAGAAAA-AAGA
32184378 GGCCAAGGCG
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
14 11 0.20
15 1 0.02
17 10 0.18
18 12 0.22
19 21 0.38
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (19 bp):
AAAAGAGAAAAAAGAAAAG
Found at i:32184377 original size:14 final size:13
Alignment explanation
Indices: 32184273--32184372 Score: 93
Period size: 13 Copynumber: 7.8 Consensus size: 13
32184263 TAAAAAAGGT
*
32184273 AAAAAGAAAAAGG
1 AAAAAGAAAAAAG
* *
32184286 TAAAACAAAAAAG
1 AAAAAGAAAAAAG
*
32184299 AGAAAA-AAGAATAG
1 A-AAAAGAA-AAAAG
32184313 -AAAAGAAAAAAG
1 AAAAAGAAAAAAG
32184325 AAAAAGAAAAAA-
1 AAAAAGAAAAAAG
32184337 AGAAAAGAAAAAAG
1 A-AAAAGAAAAAAG
*
32184351 AAAAA-AGAAAAG
1 AAAAAGAAAAAAG
32184363 -AAAAGAAAAA
1 AAAAAGAAAAA
32184373 GAAGAGGCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
11 4 0.06
12 19 0.26
13 40 0.56
14 9 0.12
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:32185986 original size:142 final size:143
Alignment explanation
Indices: 32185514--32186219 Score: 828
Period size: 142 Copynumber: 5.0 Consensus size: 143
32185504 GATCGAAGAC
* * * * * * * *
32185514 GGTGGATCTTGTCCTCTTGAAGTTGCAGTGGAGCATATTGAAGCAACTAGTCTTATCTCCCTAAA
1 GGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
* * *
32185579 GTTGCAGTGGAGTAGA-TCGAAGAC-GCCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATT
66 GTTGCAGCGGAGCAGACT-GAAGACAG-CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
* *
32185642 GAAGGTACAAATTAT
129 AAAGCTACAAATTAT
** * * *
32185657 GGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCAAATTGAAGCCACTAGCCTTATCTCCCTGAA
1 GGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
* * * ** * * *
32185722 GTTGCAGCGAAACAAACTGAAGACAGTGAATCTTATTTCCCTAAAATCGCAGTGGAACAGATTAA
66 GTTGCAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA
32185787 AGCTACAAATTAT
131 AGCTACAAATTAT
* ** *
32185800 GGTGGATCTTATCTTTCTGAAGTTGCAGTGGAATAGACTGAAGCCACCAGCCTTATCTCCCTGAA
1 GGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
* * * * * *
32185865 GTTGCAGCAGAGCAGACTGAAGGCAGCTAATCTTATTT-CCTGAAGTTACAATAGAACAGATTAA
66 GTTGCAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA
32185929 AGCTACAAATTAT
131 AGCTACAAATTAT
* * *
32185942 GGTGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACCAGCCTTATCTCCATGAA
1 GGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
* * *
32186007 GTTGCAGCGGAGCAGACTGAAGACAGCAAAT-TTTTTTCCCTGACA-TTGTAGTGGAACATATTA
66 GTTGCAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGA-AGTTGCAGTGGAACAGATTA
*
32186070 AAGCTATAAATTAT
130 AAGCTACAAATTAT
* * * * * *
32186084 GGTGAATCTTATCTTCCTGAAGCTGCAGTGGAGTAGATTGAAGCCGCCAGCCTCATCTCCCTAAA
1 GGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
* * ** * * * * *
32186149 GTTACAGCGGAGCAGACTGAAGGCAGCAAATCCCATCTCCCTGAAATCGCAGTGGAGCAGATTGA
66 GTTGCAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA
32186214 AGCTAC
131 AGCTAC
32186220 TAATCCTATC
Statistics
Matches: 476, Mismatches: 81, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
141 5 0.01
142 236 0.50
143 233 0.49
144 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
GGTGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAA
GTTGCAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA
AGCTACAAATTAT
Found at i:32186665 original size:26 final size:26
Alignment explanation
Indices: 32186630--32186680 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
32186620 ACCAACCCAA
*
32186630 AACCTAACTAAACCCAAACCCCAAAC
1 AACCCAACTAAACCCAAACCCCAAAC
* *
32186656 AACCCAACTAAACCCTAAGCCCAAA
1 AACCCAACTAAACCCAAACCCCAAA
32186681 AGGGCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.41, G:0.02, T:0.08
Consensus pattern (26 bp):
AACCCAACTAAACCCAAACCCCAAAC
Found at i:32187836 original size:18 final size:18
Alignment explanation
Indices: 32187813--32187915 Score: 102
Period size: 18 Copynumber: 5.7 Consensus size: 18
32187803 TTATTTAACA
*
32187813 TTATTATTATTACTATTG
1 TTATTATTATTATTATTG
32187831 TTATTATTATTATTACTT-
1 TTATTATTATTATTA-TTG
* *
32187849 TT-TTAATTATTTTTATTT
1 TTATT-ATTATTATTATTG
* *
32187867 TTGTTACTATTATTATTG
1 TTATTATTATTATTATTG
* *
32187885 TTATTATTCTTATTATCG
1 TTATTATTATTATTATTG
*
32187903 TTACTATTATTAT
1 TTATTATTATTAT
32187916 ATTTTCCCTT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.06
18 62 0.89
19 4 0.06
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TTATTATTATTATTATTG
Found at i:32187930 original size:3 final size:3
Alignment explanation
Indices: 32187812--32187915 Score: 77
Period size: 3 Copynumber: 34.7 Consensus size: 3
32187802 ATTATTTAAC
* *
32187812 ATT ATT ATT ATT ACT ATT GTT ATT ATT ATT ATT ACTT -TT -TT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT -ATT
* * * * * * * *
32187857 ATT TTT ATT TTT GTT ACT ATT ATT ATT GTT ATT ATT CTT ATT ATC GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
32187905 ACT ATT ATT AT
1 ATT ATT ATT AT
32187916 ATTTTCCCTT
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
2 4 0.05
3 69 0.90
4 4 0.05
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:32195116 original size:11 final size:10
Alignment explanation
Indices: 32195090--32195123 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
32195080 GGAGAGCACC
*
32195090 AAGAGTCAAA
1 AAGAGCCAAA
32195100 AAGAGCCAAA
1 AAGAGCCAAA
32195110 AACGAGCCAAA
1 AA-GAGCCAAA
32195121 AAG
1 AAG
32195124 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:32196186 original size:21 final size:22
Alignment explanation
Indices: 32196150--32196193 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
32196140 ATTTCTCTTC
*
32196150 ACTTTAATTGAATTAGTTAATT
1 ACTTTAAATGAATTAGTTAATT
32196172 ACTTTAAAT-AATTAGTTAATT
1 ACTTTAAATGAATTAGTTAATT
32196193 A
1 A
32196194 AAACAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (22 bp):
ACTTTAAATGAATTAGTTAATT
Found at i:32200947 original size:53 final size:54
Alignment explanation
Indices: 32200819--32201073 Score: 204
Period size: 55 Copynumber: 4.8 Consensus size: 54
32200809 ACGCGGGTAC
* * ** *
32200819 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
32200868 CTTATCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
32200921 -TTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTT-ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * * *
32200976 CTTATCAATGCCACGTCTTGACATGGTCTTACATGATTTCCTTGTCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
32201029 CCTTACCAATTTCCATGCCTTGGCATGGTCTCACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
32201074 AAACCCTAAT
Statistics
Matches: 163, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 4 0.02
53 45 0.28
54 10 0.06
55 64 0.39
56 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:32201004 original size:55 final size:53
Alignment explanation
Indices: 32200866--32201010 Score: 177
Period size: 53 Copynumber: 2.7 Consensus size: 53
32200856 ATCCTTTTGA
* * *
32200866 AACTTATCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
32200919 AA-TTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTT-ATCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
*
32200973 TAACTTATCAATGCCACGTCTTGACATGGTCTTACATG
1 -AACTTATCAATGCCATGTCTTGACATGGTCTTACATG
32201011 ATTTCCTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.05
53 40 0.52
54 1 0.01
55 30 0.39
56 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (53 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:32208529 original size:53 final size:55
Alignment explanation
Indices: 32208444--32208602 Score: 180
Period size: 53 Copynumber: 2.9 Consensus size: 55
32208434 ATCCTTTTGA
* *
32208444 AACTTACCACTGCCATGTCTTGACATGGTCTTATATGGTATCATTGCCTTAT-G-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTATAGT
* * * * * *
32208497 AA-TTCACCAATGCCATGCCTTGGCATGATCTTACATGGGACCTTTGCCTTATAGT
1 AACTT-ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTATAGT
* * * *
32208552 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTA
32208603 GAAACCAATT
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 41 0.48
54 1 0.01
55 39 0.46
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (55 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCATTGCCTTATAGT
Found at i:32209891 original size:22 final size:23
Alignment explanation
Indices: 32209860--32209902 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
32209850 GTTACAACTT
32209860 GATAGGAAAAACACGGGCGTGGG
1 GATAGGAAAAACACGGGCGTGGG
*
32209883 GATA-GAAAACCACGGGCGTG
1 GATAGGAAAAACACGGGCGTG
32209903 CTAGGGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.16, G:0.40, T:0.09
Consensus pattern (23 bp):
GATAGGAAAAACACGGGCGTGGG
Found at i:32210474 original size:5 final size:5
Alignment explanation
Indices: 32210464--32210553 Score: 67
Period size: 5 Copynumber: 16.8 Consensus size: 5
32210454 TTTTAATTGT
* *
32210464 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTTTTCT TTTTC TTTTGA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA TTTT-A
*
32210511 TTTTTA TTTTCA TTTCAA TTTTA TTATT- TTATTA TTTTA TTTT
1 -TTTTA TTTT-A TTT-TA TTTTA TT-TTA TT-TTA TTTTA TTTT
32210554 GAAAGACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
4 4 0.06
5 43 0.61
6 20 0.28
7 4 0.06
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:32210554 original size:45 final size:43
Alignment explanation
Indices: 32210469--32210555 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 43
32210459 ATTGTTTTTA
* *
32210469 TTTTATTTTATTTTATTTTATTTATTTTTCTTTTTCTTTTGAT
1 TTTTATTTTATTTAATTTTATTTATTTTTCTTTTTATTTTGAT
32210512 TTTTATTTTCATTTCAATTTTA-TTATTTTAT-TATTTTATTTTGA
1 TTTTATTTT-ATTT-AATTTTATTTATTTT-TCT-TTTTATTTTGA
32210556 AAGACATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 9 0.24
44 12 0.32
45 17 0.45
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (43 bp):
TTTTATTTTATTTAATTTTATTTATTTTTCTTTTTATTTTGAT
Found at i:32233601 original size:49 final size:49
Alignment explanation
Indices: 32233542--32233664 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
32233532 CGTCAAAGTT
* *
32233542 GATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAG-GCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCC
* * * *
32233591 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGTCTATCGGTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCC
* *
32233640 AATGCCATGTCCTAGACAGGTCTTA
1 GATGCCATGTCCCAGACAGGTCTTA
32233665 TAGTGACACA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
48 1 0.02
49 64 0.98
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCC
Found at i:32236300 original size:20 final size:20
Alignment explanation
Indices: 32236275--32236316 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32236265 AGAGTAAATC
32236275 ATATTTTATTTAAAAACGAA
1 ATATTTTATTTAAAAACGAA
32236295 ATATTTTATTTAAAAACGAA
1 ATATTTTATTTAAAAACGAA
32236315 AT
1 AT
32236317 TACCTCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATTTTATTTAAAAACGAA
Found at i:32238275 original size:46 final size:46
Alignment explanation
Indices: 32238209--32238381 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
32238199 CATTTCGTAG
* * *
32238209 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACGTCCCAAGG
1 CCGATGCATGTCTCAGACATGTCTTACACTAGCACT-CGTCCCAAGA
* * * *
32238255 TCGATGCATGTCTCAAACATGTCTTACACTAGCACTCGTCTCAATA
1 CCGATGCATGTCTCAGACATGTCTTACACTAGCACTCGTCCCAAGA
* * * *** * *
32238301 CCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATATGG
1 CCGATG-CATGTCTCAGACAT-GTCTTACACTAGCACTCGTCCCAAGA
* *
32238349 CCGATGCATGTCCCAGACATGTATTACACTAGC
1 CCGATGCATGTCTCAGACATGTCTTACACTAGC
32238382 CCACAATAAC
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 53 0.51
47 27 0.26
48 23 0.22
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCTCAGACATGTCTTACACTAGCACTCGTCCCAAGA
Found at i:32244027 original size:50 final size:49
Alignment explanation
Indices: 32243910--32244034 Score: 155
Period size: 49 Copynumber: 2.5 Consensus size: 49
32243900 GTTGCCGATG
**
32243910 CCATGTCCCAGACGTGGTCTTACACTAGCTATCATCACCGAGGCCGATG
1 CCATGTCCCAGACGTGGTCTTACACTAGCTATCATCACCGAGGCCGACA
* * *
32243959 CCATGTCCCAGACGTGGTCTTACACTAGCTCTCA-CATATTC-ATGCCGACA
1 CCATGTCCCAGACGTGGTCTTACACTAGCTATCATC--A-CCGAGGCCGACA
*
32244009 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACGTGGTCTTACACT
32244035 GACACATTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.01
49 33 0.49
50 32 0.48
51 1 0.01
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (49 bp):
CCATGTCCCAGACGTGGTCTTACACTAGCTATCATCACCGAGGCCGACA
Found at i:32247645 original size:16 final size:16
Alignment explanation
Indices: 32247621--32247669 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
32247611 TTCGCTGTAT
32247621 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
32247637 TGGATTAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
32247653 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
32247669 T
1 T
32247670 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:32247920 original size:16 final size:16
Alignment explanation
Indices: 32247883--32247923 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
32247873 TTAATCATAT
*
32247883 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
32247899 TT-AAATATATTATAA
1 TTAAAATATATTATAA
32247914 TTAAAATATA
1 TTAAAATATA
32247924 GACATTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTATAA
Done.