Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 213 of 770
Found at i:63596625 original size:16 final size:17
Alignment explanation
Indices: 63596585--63596634 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
63596575 TAGAATATTA
63596585 ATTCTATTATATATTTATCT
1 ATTCTATTATATA--TA-CT
63596605 ATTCTATTATATATA-T
1 ATTCTATTATATATACT
*
63596621 ATTCTAATATATAT
1 ATTCTATTATATAT
63596635 TAGTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATACT
Found at i:63598388 original size:18 final size:18
Alignment explanation
Indices: 63598367--63598403 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63598357 AATTCGACGC
* *
63598367 AGTGGATAAATTAGATAA
1 AGTGGAAAAATGAGATAA
63598385 AGTGGAAAAATGAGATAA
1 AGTGGAAAAATGAGATAA
63598403 A
1 A
63598404 CCAGCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTGGAAAAATGAGATAA
Found at i:63601278 original size:17 final size:17
Alignment explanation
Indices: 63601256--63601289 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63601246 ATAGATTCGC
*
63601256 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
63601273 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
63601290 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:63610302 original size:24 final size:25
Alignment explanation
Indices: 63610260--63610312 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
63610250 TTTTCTTTCT
63610260 ATATTATTAATATTATTT-ATTTAA
1 ATATTATTAATATTATTTAATTTAA
*
63610284 ATATTATTAATA-TATTTTAATTTAT
1 ATATTATTAATATTA-TTTAATTTAA
63610309 ATAT
1 ATAT
63610313 ATTTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 15 0.58
25 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTAATATTATTTAATTTAA
Found at i:63610315 original size:24 final size:23
Alignment explanation
Indices: 63610259--63610328 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
63610249 ATTTTCTTTC
63610259 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
63610281 TAAATATTATTAATA-TATTTTAATT
1 TATATA-TATTAATATTA-TTT-ATT
*
63610306 TATATATATTTAA-ATTATATATT
1 TATATATA-TTAATATTATTTATT
63610329 GAAATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 4 0.10
23 5 0.13
24 16 0.41
25 14 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Found at i:63610323 original size:15 final size:14
Alignment explanation
Indices: 63610293--63610328 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
63610283 AATATTATTA
*
63610293 ATATATTTTAATTT
1 ATATATTTTAAATT
63610307 ATATATATTTAAATT
1 ATATAT-TTTAAATT
63610322 ATATATT
1 ATATATT
63610329 GAAATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:63610540 original size:21 final size:21
Alignment explanation
Indices: 63610500--63610538 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
63610490 AAATCATGGA
63610500 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
63610521 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
63610539 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:63613082 original size:12 final size:12
Alignment explanation
Indices: 63613065--63613089 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63613055 ATTTTATAAC
63613065 ATAAATATTGTT
1 ATAAATATTGTT
63613077 ATAAATATTGTT
1 ATAAATATTGTT
63613089 A
1 A
63613090 ATAGCCTCTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:63624848 original size:13 final size:15
Alignment explanation
Indices: 63624822--63624861 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
63624812 CCTTAATTTA
63624822 TTAATATTTATTAAT
1 TTAATATTTATTAAT
63624837 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
63624850 TTAATATTTATT
1 TTAATATTTATT
63624862 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:63627648 original size:14 final size:14
Alignment explanation
Indices: 63627629--63627657 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
63627619 ACAGATGGAT
63627629 TCGTATAATTCTTA
1 TCGTATAATTCTTA
63627643 TCGTATAATTCTTA
1 TCGTATAATTCTTA
63627657 T
1 T
63627658 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:63631890 original size:20 final size:21
Alignment explanation
Indices: 63631824--63631892 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
63631814 TCACTTCGTT
63631824 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
63631845 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
63631866 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
63631887 -CTTTTT
1 TCTTTTT
63631893 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:63634291 original size:18 final size:18
Alignment explanation
Indices: 63634258--63634351 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
63634248 AAGGTTTTCT
63634258 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
63634273 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
63634291 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
63634309 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
63634327 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
63634345 TATTGAT
1 TATTGAT
63634352 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:63642617 original size:14 final size:14
Alignment explanation
Indices: 63642598--63642625 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63642588 TATATTAGTA
63642598 TTTTCTATTCTATT
1 TTTTCTATTCTATT
63642612 TTTTCTATTCTATT
1 TTTTCTATTCTATT
63642626 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:63642633 original size:6 final size:6
Alignment explanation
Indices: 63642622--63642700 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
63642612 TTTTCTATTC
* *
63642622 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
63642669 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
63642701 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:63642648 original size:11 final size:11
Alignment explanation
Indices: 63642623--63642704 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
63642613 TTTCTATTCT
63642623 ATTAGTATTAG
1 ATTAGTATTAG
63642634 ---AGTATTAG
1 ATTAGTATTAG
**
63642642 ATTAGTATTCT
1 ATTAGTATTAG
*
63642653 ATT-CTATTAG
1 ATTAGTATTAG
63642663 TATTAG-ATTAG
1 -ATTAGTATTAG
63642674 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
63642689 ATTAGTATTAG
1 ATTAGTATTAG
63642700 -TTAGT
1 ATTAGT
63642705 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:63642689 original size:20 final size:21
Alignment explanation
Indices: 63642659--63642704 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
63642649 TTCTATTCTA
63642659 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
63642680 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
63642700 TTAGT
1 TTAGT
63642705 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:63650918 original size:32 final size:32
Alignment explanation
Indices: 63650877--63650938 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
63650867 CATCTATTTT
63650877 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
63650909 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
63650939 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:63655082 original size:22 final size:22
Alignment explanation
Indices: 63655056--63655099 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
63655046 TTATCTCTTT
63655056 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
63655078 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
63655100 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:63657356 original size:21 final size:21
Alignment explanation
Indices: 63657332--63657375 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
63657322 ACGACCTAAT
*
63657332 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
63657353 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
63657374 TA
1 TA
63657376 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:63667298 original size:13 final size:13
Alignment explanation
Indices: 63667280--63667307 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63667270 AATATAGGGG
63667280 AAAATGTACCATT
1 AAAATGTACCATT
63667293 AAAATGTACCATT
1 AAAATGTACCATT
63667306 AA
1 AA
63667308 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:63674639 original size:32 final size:32
Alignment explanation
Indices: 63674603--63674664 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
63674593 AGCTTTTGGT
63674603 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
63674635 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
63674665 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:63682850 original size:6 final size:6
Alignment explanation
Indices: 63682839--63682917 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
63682829 GGGATCACTA
63682839 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
63682882 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
63682918 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:63682861 original size:20 final size:21
Alignment explanation
Indices: 63682835--63682880 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
63682825 AGCCGGGATC
63682835 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
63682856 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
63682876 ACTAA
1 ACTAA
63682881 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:63682905 original size:11 final size:11
Alignment explanation
Indices: 63682835--63682881 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
63682825 AGCCGGGATC
63682835 ACTAA-CTAAT
1 ACTAATCTAAT
63682845 ACTAATCTAAT
1 ACTAATCTAAT
63682856 -CTAA-CTAAT
1 ACTAATCTAAT
63682865 ACTAATCTAAT
1 ACTAATCTAAT
63682876 ACTAAT
1 ACTAAT
63682882 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:63682931 original size:14 final size:14
Alignment explanation
Indices: 63682914--63682941 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63682904 CTCTAATACT
63682914 AATAGAATAGAAAA
1 AATAGAATAGAAAA
63682928 AATAGAATAGAAAA
1 AATAGAATAGAAAA
63682942 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:63690230 original size:40 final size:40
Alignment explanation
Indices: 63690171--63690312 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
63690161 AAATTGAATG
* * *
63690171 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
63690211 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
63690251 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
63690291 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
63690313 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:63690336 original size:40 final size:39
Alignment explanation
Indices: 63690209--63690338 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
63690199 ATGCTGGAAA
* * *
63690209 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
63690250 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
63690288 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
63690329 TTATATCCGG
1 TTATATCCGG
63690339 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:63694846 original size:27 final size:27
Alignment explanation
Indices: 63694791--63694901 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
63694781 AGCATGGCTG
* *
63694791 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
63694817 CCAGAACAGATAATTGTGGCAGAGCTA
1 CCAGAACAGATAATTGTGGCAGAGCCA
63694844 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
63694871 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
63694898 CCAG
1 CCAG
63694902 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:63695339 original size:16 final size:16
Alignment explanation
Indices: 63695317--63695357 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
63695307 CTCAAAATAC
63695317 CGGCTTTTCGACATTT
1 CGGCTTTTCGACATTT
* *
63695333 TGGCTTTTCGGCATTT
1 CGGCTTTTCGACATTT
63695349 CGGCTTTTC
1 CGGCTTTTC
63695358 AGCTTTTGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.07, C:0.24, G:0.22, T:0.46
Consensus pattern (16 bp):
CGGCTTTTCGACATTT
Found at i:63695351 original size:8 final size:8
Alignment explanation
Indices: 63695317--63695364 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
63695307 CTCAAAATAC
63695317 CGGCTTTT
1 CGGCTTTT
*
63695325 CGACATTTT
1 CGGC-TTTT
63695334 -GGCTTTT
1 CGGCTTTT
*
63695341 CGGCATTT
1 CGGCTTTT
63695349 CGGCTTTT
1 CGGCTTTT
*
63695357 CAGCTTTT
1 CGGCTTTT
63695365 GCCGATTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.08, C:0.23, G:0.21, T:0.48
Consensus pattern (8 bp):
CGGCTTTT
Found at i:63696383 original size:24 final size:25
Alignment explanation
Indices: 63696325--63696376 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
63696315 TTGCTCATTG
*
63696325 ATCAACTCCTAAATCTTCTCCCCTT
1 ATCAGCTCCTAAATCTTCTCCCCTT
63696350 ATCAGCTCCTAAATCTTCT-CCCTT
1 ATCAGCTCCTAAATCTTCTCCCCTT
63696374 ATC
1 ATC
63696377 CTCTCCTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.37
Consensus pattern (25 bp):
ATCAGCTCCTAAATCTTCTCCCCTT
Found at i:63699427 original size:24 final size:24
Alignment explanation
Indices: 63699393--63699442 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
63699383 AATGATGTAT
*
63699393 AATGTCTCCCTTATATGTAACCGA
1 AATGTCCCCCTTATATGTAACCGA
*
63699417 AATGTCCCCCTTGTATGTAACCGA
1 AATGTCCCCCTTATATGTAACCGA
63699441 AA
1 AA
63699443 ATCACTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (24 bp):
AATGTCCCCCTTATATGTAACCGA
Found at i:63702899 original size:14 final size:15
Alignment explanation
Indices: 63702882--63702910 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63702872 TCACGAAAAT
63702882 TTCACACAT-ATAAA
1 TTCACACATAATAAA
63702896 TTCACACATAATAAA
1 TTCACACATAATAAA
63702911 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:63704126 original size:28 final size:28
Alignment explanation
Indices: 63704061--63704161 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
63704051 ATAGTGAATC
*
63704061 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
63704090 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
63704118 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
63704148 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63704162 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:63708899 original size:24 final size:24
Alignment explanation
Indices: 63708867--63709049 Score: 258
Period size: 24 Copynumber: 7.6 Consensus size: 24
63708857 TATCTCAAAT
63708867 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
63708891 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
63708915 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
63708939 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* * *
63708963 GCACTAAGTGTGCGATTTATTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
63708987 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
63709011 GCACTATGTGCGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
63709035 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
63709050 ACATAATAAG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 147 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:63709062 original size:72 final size:72
Alignment explanation
Indices: 63708867--63709071 Score: 236
Period size: 72 Copynumber: 2.8 Consensus size: 72
63708857 TATCTCAAAT
* *
63708867 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACT-AT-GGCACTATGTGTGCGA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAAGCACTATGTGTGCGA
*
63708930 TTCACTATG
64 TTCACTATA
* ** * *
63708939 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCG-ATTTATTATAGCACTACGTGTGCGAT
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTGCGAT
**
63709003 TTGCTATA
65 TCACTATA
* * * *
63709011 GCACTATGTGCGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAAGCACTATGTGTGC
63709072 CACATTCGGT
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 103 0.94
73 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAAGCACTATGTGTGCGATT
CACTATA
Found at i:63714045 original size:28 final size:28
Alignment explanation
Indices: 63713980--63714080 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
63713970 ATAGTGAATC
*
63713980 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
63714009 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
63714037 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
63714067 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63714081 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:63717290 original size:18 final size:19
Alignment explanation
Indices: 63717243--63717294 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
63717233 TTTCTTAGAC
63717243 ACTTTCTTTTCTTTCTTCA
1 ACTTTCTTTTCTTTCTTCA
*
63717262 A-TCTCTCTTTCTTT-TTCA
1 ACTTTCT-TTTCTTTCTTCA
63717280 ACTTTCTTTTCTTTC
1 ACTTTCTTTTCTTTC
63717295 ACACATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (19 bp):
ACTTTCTTTTCTTTCTTCA
Found at i:63717388 original size:22 final size:22
Alignment explanation
Indices: 63717360--63717415 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
63717350 TTTTATTTCC
*
63717360 TTTTCTTTTCTTCCATGTCTTT
1 TTTTCTTTTCTTCAATGTCTTT
* *
63717382 TTTTCTTCTC-TCAATTTCTTT
1 TTTTCTTTTCTTCAATGTCTTT
*
63717403 TTCTCATTTTCTT
1 TTTTC-TTTTCTT
63717416 TCATTACAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 13 0.48
22 13 0.48
23 1 0.04
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTCTTTTCTTCAATGTCTTT
Found at i:63730102 original size:23 final size:24
Alignment explanation
Indices: 63730067--63730111 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
63730057 AATGATGTAT
63730067 AATGTCTCCCTTGTATGTAACCGA
1 AATGTCTCCCTTGTATGTAACCGA
63730091 AATGTC-CCCTTGTATGTAACC
1 AATGTCTCCCTTGTATGTAACC
63730112 AAAAATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (24 bp):
AATGTCTCCCTTGTATGTAACCGA
Found at i:63730414 original size:52 final size:51
Alignment explanation
Indices: 63730323--63730466 Score: 145
Period size: 52 Copynumber: 2.8 Consensus size: 51
63730313 TAATGCATGG
* **
63730323 TTTACAATGCAAAC-TAAA-TAAACAT-ATGAGTTATTTAATGCAAGAC-TTAA
1 TTTATAATGCAAACTTAAACT-AACATGA-GAGTTACATAATGCAAGACATT-A
* *
63730373 TTTAATAATGCAAACTTAAACTAACATGGGAGTTACATAATGCAAGTCATTA
1 TTT-ATAATGCAAACTTAAACTAACATGAGAGTTACATAATGCAAGACATTA
* * *
63730425 TTTATGATGCATACTT-AACTAACATGAAAGTTACATAATGCA
1 TTTATAATGCAAACTTAAACTAACATGAGAGTTACATAATGCA
63730467 TTACTTTATT
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
50 27 0.34
51 21 0.26
52 29 0.36
53 3 0.04
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (51 bp):
TTTATAATGCAAACTTAAACTAACATGAGAGTTACATAATGCAAGACATTA
Found at i:63730459 original size:50 final size:52
Alignment explanation
Indices: 63730358--63730466 Score: 143
Period size: 50 Copynumber: 2.1 Consensus size: 52
63730348 ATGAGTTATT
**
63730358 TAATGCAAGACTTAATTTAATAATGCAAACTTAAACTAACATGGGAGTTACA
1 TAATGCAAGACTTAATTTAATAATGCAAACTTAAACTAACATGAAAGTTACA
* * *
63730410 TAATGCAAGTCATT-ATTT-ATGATGCATACTT-AACTAACATGAAAGTTACA
1 TAATGCAAGAC-TTAATTTAATAATGCAAACTTAAACTAACATGAAAGTTACA
63730460 TAATGCA
1 TAATGCA
63730467 TTACTTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 24 0.47
51 11 0.22
52 14 0.27
53 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (52 bp):
TAATGCAAGACTTAATTTAATAATGCAAACTTAAACTAACATGAAAGTTACA
Found at i:63743816 original size:47 final size:47
Alignment explanation
Indices: 63743596--63744048 Score: 268
Period size: 46 Copynumber: 9.6 Consensus size: 47
63743586 TATTGTGAGA
* *
63743596 TAGTGCAAGACATGTCTGGGACATGCATCGGCC-TCGAGAC-A-TAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACGAGT--GC
* **
63743642 CAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAAGAC-A-TAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACGAGT--GC
* **
63743688 CAGTGTAAGACATGTCTGGGACATGCATCGGTTA-TGAGA-G-GTG-
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACGAGTGC
*
63743731 TCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGACGAGTGC
1 T-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATTGAGACGAGTGC
* * *
63743780 TAGTGTAAGAAATGTTTGGGACATGTATCGGCCATTGAGACGTAAG-GC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACG--AGTGC
* ** *
63743828 -AGTGTAAGACATGTTTGGGACATGCATCGGGTA-CGAGA-G-GTGGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACGAGT-GC
** * * *
63743872 -AGTGTAAGACCATGTCTGGGACATGGCATCAACACAAAT-ATG-CTAGAGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-ATTGA-GACGAGTGC
* * * * *
63743921 TTGTGTAAGACCATGT-TCGGGACATGGCATCGACACA--GATATGCTAGAGC
1 TAGTGTAAGA-CATGTCT-GGGACAT-GCATCGGC-CATTGAGA--CGAGTGC
* *
63743971 TTGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGATGAGTGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATTGAGACGAGTGC
*
63744019 TAGTGTAAGACATGTCTGGGATATGGCATC
1 TAGTGTAAGACATGTCTGGGACAT-GCATC
63744049 AGCAGCTGCA
Statistics
Matches: 338, Mismatches: 37, Indels: 63
0.77 0.08 0.14
Matches are distributed among these distances:
42 1 0.00
44 21 0.06
45 29 0.09
46 103 0.30
47 71 0.21
48 32 0.09
49 8 0.02
50 72 0.21
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGACGAGTGC
Found at i:63743866 original size:139 final size:137
Alignment explanation
Indices: 63743597--63743902 Score: 411
Period size: 139 Copynumber: 2.2 Consensus size: 137
63743587 ATTGTGAGAT
* * * *
63743597 AGTGCAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACATAAGCCAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGACAT-AGCCAGTGTAAGAAATGTCTG
* *
63743660 GGACATGCATCGGCCTCAAGACATAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTTATGA
65 GGACATGCATCGGCCTCAAGACATAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGTACGA
*
63743725 GAGGTGTC
130 GAGGTGGC
* * *
63743733 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGT-GCTAGTGTAAGAAATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGAC-A-TAGCCAGTGTAAGAAATGTCT
* ** * * *
63743797 GGGACATGTATCGGCCATTGAGACGTAAGGCAGTGTAAGACATGTTTGGGACATGCATCGGGTAC
64 GGGACATGCATCGGCC-TCAAGACATAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGTAC
63743862 GAGAGGTGGC
128 GAGAGGTGGC
63743872 AGTGTAAGACCATGTCTGGGACATGGCATCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCA
63743903 ACACAAATAT
Statistics
Matches: 149, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
136 8 0.05
137 14 0.09
138 44 0.30
139 82 0.55
140 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (137 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGACATAGCCAGTGTAAGAAATGTCTGG
GACATGCATCGGCCTCAAGACATAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGGTACGAG
AGGTGGC
Found at i:63744002 original size:50 final size:50
Alignment explanation
Indices: 63743873--63744048 Score: 234
Period size: 50 Copynumber: 3.6 Consensus size: 50
63743863 AGAGGTGGCA
* *
63743873 GTGTAAGACCATGTCTGGGACATGGCATCAACACAAATATGCTAGAGCTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATGCTAGAGCTT
63743923 GTGTAAGACCATGT-TCGGGACATGGCATCGACACAGATATGCTAGAGCTT
1 GTGTAAGACCATGTCT-GGGACATGGCATCGACACAGATATGCTAGAGCTT
* ** * * *
63743973 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG--AGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATGCTAGAGCTT
*
63744021 GTGTAAGA-CATGTCTGGGATATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
63744049 AGCAGCTGCA
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
47 19 0.17
48 13 0.11
49 1 0.01
50 81 0.70
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (50 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATGCTAGAGCTT
Found at i:63747573 original size:41 final size:40
Alignment explanation
Indices: 63747419--63747584 Score: 197
Period size: 40 Copynumber: 4.1 Consensus size: 40
63747409 TGGGACATTT
* * * * * *
63747419 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAG
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* *
63747459 CCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAA
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
*
63747499 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAA
1 CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
* * * * *
63747539 CCAGGTTTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAG
1 CCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAA
63747580 CCCGG
1 CCCGG
63747585 ATACCATTCG
Statistics
Matches: 107, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 81 0.76
41 26 0.24
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAA
Found at i:63755658 original size:40 final size:40
Alignment explanation
Indices: 63755557--63755715 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
63755547 TGATAACCGA
* * *
63755557 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
* *
63755597 GCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
63755636 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
63755676 GCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
63755716 TTGAATTCCG
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.33
40 70 0.67
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:63761550 original size:39 final size:39
Alignment explanation
Indices: 63761429--63761621 Score: 183
Period size: 40 Copynumber: 4.8 Consensus size: 39
63761419 GGATATAGCT
* * * * *
63761429 ACTCGCTCAAATGCCTTTGGGACATAGGCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTA
* * *
63761469 ACTCGCACAAATGCCTTCTGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTC-GGGCTTAGCCCGGAATTAGTA
*
63761509 ACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
* * *
63761548 ACTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATAGTC
1 ACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTA
* *
63761588 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
63761622 TATCATTCGA
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 39 0.30
40 60 0.47
41 29 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
Found at i:63761551 original size:79 final size:81
Alignment explanation
Indices: 63761464--63761621 Score: 223
Period size: 79 Copynumber: 2.0 Consensus size: 81
63761454 AGGCCGGTTA
* * * *
63761464 TAGTAACTCGCACAAATGCCTTCTGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAAAGCCTTC
63761527 GGG-CTTAGCCCGGAAT
65 GGGACTTAGCCCGGAAT
** *
63761543 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAAGCCTTCG
63761608 GGACTTAGCCCGGA
66 GGACTTAGCCCGGA
63761622 TATCATTCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.04
79 39 0.57
80 16 0.23
81 11 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAAGCCTTCG
GGACTTAGCCCGGAAT
Found at i:63770649 original size:19 final size:19
Alignment explanation
Indices: 63770612--63770649 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
63770602 ACCTGTCAGA
*
63770612 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
63770631 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
63770650 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:63773822 original size:27 final size:27
Alignment explanation
Indices: 63773793--63774005 Score: 182
Period size: 27 Copynumber: 7.9 Consensus size: 27
63773783 TACCCTACAG
* *
63773793 GGGTATTTTAGTAAATTTACAAACTGG
1 GGGTATTTTAGTAATTTTACAAACTGA
* * * *
63773820 GGGTATTTCAATAATTTTACAAATTGG
1 GGGTATTTTAGTAATTTTACAAACTGA
* * *
63773847 GGGTATTTTAGAAATTTTA-TAATTCGA
1 GGGTATTTTAGTAATTTTACAAACT-GA
* *
63773874 GGGTATTTT-GATAATTTTACAATCCGA
1 GGGTATTTTAG-TAATTTTACAAACTGA
** * *
63773901 GGGTATTTCGGTAATTTTATAAACCGA
1 GGGTATTTTAGTAATTTTACAAACTGA
* * *
63773928 GGGTATTTTGGTAATTTTACAAATTCA
1 GGGTATTTTAGTAATTTTACAAACTGA
*
63773955 GGGTA-TTTCGATAATTTTACAAA-TCGA
1 GGGTATTTTAG-TAATTTTACAAACT-GA
*
63773982 GGGTATTTCAGTAATTTTACAAAC
1 GGGTATTTTAGTAATTTTACAAAC
63774006 CAGGGTCTAA
Statistics
Matches: 152, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.07
27 137 0.90
28 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACTGA
Found at i:63773893 original size:81 final size:81
Alignment explanation
Indices: 63773793--63774011 Score: 257
Period size: 81 Copynumber: 2.7 Consensus size: 81
63773783 TACCCTACAG
* * * ** *
63773793 GGGTATTTT-AGTAAATTTACAAACTGGGGGTATTTCAATAATTTTACAAATTGGGGGTATTTTA
1 GGGTATTTTGA-TAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTTA
*
63773857 GAAATTTTA-TAATTCGA
65 GAAATTTTACAAATTC-A
* * * * *
63773874 GGGTATTTTGATAATTTTACAATCCGAGGGTATTTCGGTAATTTTATAAACCGAGGGTATTTTGG
1 GGGTATTTTGATAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTTAG
*
63773939 TAATTTTACAAATTCA
66 AAATTTTACAAATTCA
*
63773955 GGGTATTTCGATAATTTTACAAA-TCGAGGGTATTTCAGTAATTTTACAAACC-AGGGT
1 GGGTATTTTGATAATTTTACAAACT-GAGGGTATTTCAGTAATTTTACAAACCGAGGGT
63774012 CTAATTGGCA
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.04
81 106 0.91
82 6 0.05
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGATAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTTAG
AAATTTTACAAATTCA
Found at i:63774210 original size:22 final size:22
Alignment explanation
Indices: 63774147--63774211 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
63774137 AATACGTTTA
*
63774147 GCACAAAGCCATAGTCAAGA-TG
1 GCACAAAGCCATAATC-AGATTG
** *
63774169 GCACAAAGCCATTTTTAGATTG
1 GCACAAAGCCATAATCAGATTG
*
63774191 GCACAGAGCCATAATCAGATT
1 GCACAAAGCCATAATCAGATT
63774212 ACGCGGCTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 3 0.09
22 32 0.91
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (22 bp):
GCACAAAGCCATAATCAGATTG
Found at i:63774608 original size:27 final size:27
Alignment explanation
Indices: 63774578--63774708 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 27
63774568 ACCCTACAGA
* *
63774578 GGTATTTCGATAATTTTATAAACTGGC
1 GGTATTTCGGTAATTTTACAAACTGGC
** *
63774605 GGTATTTCGGTAATTTTACAATTTGGG
1 GGTATTTCGGTAATTTTACAAACTGGC
* * *
63774632 GGTATTTTGGTAATTTTACAAATTAAG-
1 GGTATTTCGGTAATTTTACAAACT-GGC
* *
63774659 GGTATTTCAGTAATTTTACAAACCGAG-
1 GGTATTTCGGTAATTTTACAAACTG-GC
* *
63774686 GGTATCTCAGTAATTTTACAAAC
1 GGTATTTCGGTAATTTTACAAAC
63774709 CGAGTCTTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 87 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAACTGGC
Found at i:63776398 original size:2 final size:2
Alignment explanation
Indices: 63776391--63776420 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
63776381 ACCAAAACAG
63776391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63776421 GTGGCGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63776501 original size:27 final size:26
Alignment explanation
Indices: 63776453--63776504 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
63776443 GCGAGGCTGC
*
63776453 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
63776479 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
63776505 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:63778543 original size:40 final size:40
Alignment explanation
Indices: 63778512--63778730 Score: 352
Period size: 40 Copynumber: 5.5 Consensus size: 40
63778502 CGCTCGAATA
* *
63778512 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
63778552 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
63778592 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
63778632 CCTTCGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* * *
63778672 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
63778712 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
63778731 TTATCATCCA
Statistics
Matches: 169, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.01
40 166 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:63778607 original size:80 final size:80
Alignment explanation
Indices: 63778473--63778730 Score: 362
Period size: 80 Copynumber: 3.2 Consensus size: 80
63778463 AAGCCAAGTA
* * * * * *
63778473 CCTTCGGGATTTAACCC-GATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCCGGATA-T
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACT
*
63778535 AGTAACTCGTACAAATG
64 AGTAACTCGCACAAATG
63778552 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
63778616 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
*
63778632 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* * *
63778697 TCACTAGCGCAAATG
66 TAACTCGCACAAATG
63778712 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
63778731 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
79 18 0.11
80 144 0.88
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTCGCACAAATG
Found at i:63784508 original size:81 final size:81
Alignment explanation
Indices: 63784373--63784558 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 81
63784363 TATTCGAATG
* ** * * *
63784373 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTATATCCGGACTAAGAT-CCGAAGG
1 ATATCCGGGCAAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAG-TCCCGAAGG
*
63784437 CATTTATGCGAGTTA-C
65 CATTTATGCGAGTGATC
*
63784453 TATATCCGGGCCAAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAG
1 -ATATCCGGG-CAAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGTCCCGAAG
*
63784517 GCATTTATGCTAGTGATC
64 GCATTTATGCGAGTGATC
* *
63784535 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCAAAAACCCGAAGGC
63784559 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
80 14 0.15
81 57 0.63
82 20 0.22
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCAAAAACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGTCCCGAAGGC
ATTTATGCGAGTGATC
Found at i:63784528 original size:40 final size:40
Alignment explanation
Indices: 63784373--63784558 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
63784363 TATTCGAATG
* * *
63784373 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACT
* * *
63784414 ATATCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
* ** * *
63784454 ATATCCGGGCCAAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGG-CTAAGTCCCGAAGGCATTTATGCTAGTGACT
63784495 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
63784534 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGTCCCGAAGGC
63784559 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.50
41 58 0.48
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:63793376 original size:27 final size:27
Alignment explanation
Indices: 63793261--63793375 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
63793251 ACCCTACAGA
* * *
63793261 GGTATTTCGATAATTTTACAAATTGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
63793288 GGTATTTCGGTAATTTTA-TAATCCGGG
1 GGTATTTCGGTAATTTTACAAAT-CGAG
* * *
63793315 GGTATTTCAGTAACTTTACAAA-CCAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
63793342 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
63793369 GGTATTT
1 GGTATTT
63793376 TACAAACCGG
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.06
27 64 0.90
28 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:63797727 original size:27 final size:27
Alignment explanation
Indices: 63797689--63797742 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
63797679 TTAGATGCCG
63797689 GGTTCATTAGGCCATCTAAAGCCCCAT
1 GGTTCATTAGGCCATCTAAAGCCCCAT
63797716 GGTTCATTAGGCCATCTAAAGCCCCAT
1 GGTTCATTAGGCCATCTAAAGCCCCAT
63797743 TCGGTGCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (27 bp):
GGTTCATTAGGCCATCTAAAGCCCCAT
Found at i:63810721 original size:56 final size:56
Alignment explanation
Indices: 63810653--63810764 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
63810643 GCCAACGTCC
* *
63810653 CAGACTTGGTCTTACATGTAGTCACATATCGATGCCATTGTCCCAGACAGGGTCTT
1 CAGACGTGGTCTTACATGTAGTCACATATCGATGCCACTGTCCCAGACAGGGTCTT
63810709 CAGACGTGGTCTTACATGTAGTCACATATCGATGCCACTGTCCCAGACAGGGTCTT
1 CAGACGTGGTCTTACATGTAGTCACATATCGATGCCACTGTCCCAGACAGGGTCTT
63810765 TCTCGCACAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (56 bp):
CAGACGTGGTCTTACATGTAGTCACATATCGATGCCACTGTCCCAGACAGGGTCTT
Found at i:63820354 original size:39 final size:39
Alignment explanation
Indices: 63820289--63820381 Score: 141
Period size: 39 Copynumber: 2.3 Consensus size: 39
63820279 AAAATTGAGC
*
63820289 ATAGCGGCATTTTTTGTCCAAACGCCACTAAAAACTGAGAA
1 ATAGCGGCA--TTTTGTCCAAACGCCACTAAAAACTAAGAA
* *
63820330 ATAGCGGCATTTTGTCTAAACGCCACTAAAAACTAAGCA
1 ATAGCGGCATTTTGTCCAAACGCCACTAAAAACTAAGAA
63820369 ATAGCGGCATTTT
1 ATAGCGGCATTTT
63820382 TTTAACAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 40 0.82
41 9 0.18
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (39 bp):
ATAGCGGCATTTTGTCCAAACGCCACTAAAAACTAAGAA
Found at i:63820443 original size:41 final size:41
Alignment explanation
Indices: 63820289--63820442 Score: 174
Period size: 41 Copynumber: 3.8 Consensus size: 41
63820279 AAAATTGAGC
* *
63820289 ATAGCGGCATTTTTTGTCCAAACGCCACTAAAAACTGAGAA
1 ATAGCGGCATTTTTTGTCCAAACGCCACTAAAAACTAAGCA
*
63820330 ATAGCGGCA--TTTTGTCTAAACGCCACTAAAAACTAAGCA
1 ATAGCGGCATTTTTTGTCCAAACGCCACTAAAAACTAAGCA
* * * *
63820369 ATAGCGGCATTTTTT-TAACAAACGCCAC-AAAAAGCTTATCT
1 ATAGCGGCATTTTTTGT-CCAAACGCCACTAAAAA-CTAAGCA
* *
63820410 ATAGCGCCATTTTTTATCCAAACGCCA-TAAAAA
1 ATAGCGGCATTTTTTGTCCAAACGCCACTAAAAA
63820443 GTTGAGCAGC
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
39 36 0.37
40 6 0.06
41 54 0.56
42 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (41 bp):
ATAGCGGCATTTTTTGTCCAAACGCCACTAAAAACTAAGCA
Found at i:63824172 original size:21 final size:20
Alignment explanation
Indices: 63824146--63824200 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
63824136 TTTATTTTTG
63824146 GGTTTAGTGTTTATTATGTAA
1 GGTTTAG-GTTTATTATGTAA
* * *
63824167 GGTTTAAGGTTTATTTTTTAT
1 GGTTT-AGGTTTATTATGTAA
63824188 GGTTTAGGGTTTA
1 GGTTTA-GGTTTA
63824201 ATGGTCATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (20 bp):
GGTTTAGGTTTATTATGTAA
Found at i:63824508 original size:21 final size:21
Alignment explanation
Indices: 63824438--63824551 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
63824428 TACATGGAAT
*** *
63824438 TAGGGTTTAAGGTTTAAAATT
1 TAGGGTTTAAGGTTTAGTCTA
**
63824459 TA-GGTTTAAGGTTTAGGGTA
1 TAGGGTTTAAGGTTTAGTCTA
* * *
63824479 TTTGGGTTTATGGTTTAGTTTA
1 -TAGGGTTTAAGGTTTAGTCTA
* *
63824501 TAGGGTTTAAGGTATTCG-GTA
1 TAGGGTTTAAGGT-TTAGTCTA
* *
63824522 TCGGGTTTAGGGTTTAGTCTA
1 TAGGGTTTAAGGTTTAGTCTA
63824543 TAGGGTTTA
1 TAGGGTTTA
63824552 GGGTATTGGG
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
20 17 0.24
21 37 0.51
22 18 0.25
ACGTcount: A:0.22, C:0.03, G:0.31, T:0.45
Consensus pattern (21 bp):
TAGGGTTTAAGGTTTAGTCTA
Found at i:63824528 original size:42 final size:42
Alignment explanation
Indices: 63824482--63824572 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
63824472 TAGGGTATTT
* *
63824482 GGGTTTATGGTTTAGTTTATAGGGTTTAAGGTATTCGGTATC
1 GGGTTTAGGGTTTAGTCTATAGGGTTTAAGGTATTCGGTATC
* *
63824524 GGGTTTAGGGTTTAGTCTATAGGGTTTAGGGTATTGGGTATC
1 GGGTTTAGGGTTTAGTCTATAGGGTTTAAGGTATTCGGTATC
63824566 GGGTTTA
1 GGGTTTA
63824573 CAAATTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.18, C:0.04, G:0.35, T:0.43
Consensus pattern (42 bp):
GGGTTTAGGGTTTAGTCTATAGGGTTTAAGGTATTCGGTATC
Found at i:63824569 original size:21 final size:21
Alignment explanation
Indices: 63824503--63824572 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
63824493 TTAGTTTATA
* *
63824503 GGGTTTAAGGTATTCGGTATC
1 GGGTTTAGGGTATTGGGTATC
** *
63824524 GGGTTTAGGGT-TTAGTCTATA
1 GGGTTTAGGGTATT-GGGTATC
63824545 GGGTTTAGGGTATTGGGTATC
1 GGGTTTAGGGTATTGGGTATC
63824566 GGGTTTA
1 GGGTTTA
63824573 CAAATTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.90
22 2 0.05
ACGTcount: A:0.17, C:0.06, G:0.37, T:0.40
Consensus pattern (21 bp):
GGGTTTAGGGTATTGGGTATC
Found at i:63826012 original size:2 final size:2
Alignment explanation
Indices: 63826005--63826029 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63825995 GAGACTAGTC
63826005 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
63826030 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63828065 original size:30 final size:30
Alignment explanation
Indices: 63828031--63828091 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
63828021 TCCTTAACTC
63828031 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
63828061 AAACTTTTGCATAGTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
63828091 A
1 A
63828092 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:63830364 original size:24 final size:24
Alignment explanation
Indices: 63830332--63830394 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
63830322 AATCTCAAAT
63830332 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
63830356 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
63830380 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
63830395 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:63833196 original size:27 final size:27
Alignment explanation
Indices: 63833166--63833258 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
63833156 TTCAAAGGGT
63833166 TTTTGAATTTCCATTTTAGCCTATAAA
1 TTTTGAATTTCCATTTTAGCCTATAAA
* * *
63833193 TTTTCAAGTTCCATTTTAGTCTAATTTCAAA
1 TTTTGAATTTCCATTTTAGCCT-A--T-AAA
*
63833224 GGGTTTTTGAATTTTCATTTTAGCCTATAAA
1 ----TTTTGAATTTCCATTTTAGCCTATAAA
63833255 TTTT
1 TTTT
63833259 CAAGTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
27 23 0.45
28 1 0.02
30 1 0.02
31 6 0.12
32 1 0.02
34 1 0.02
35 18 0.35
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (27 bp):
TTTTGAATTTCCATTTTAGCCTATAAA
Found at i:63833243 original size:62 final size:62
Alignment explanation
Indices: 63833141--63833264 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
63833131 TGTAGTAAAC
63833141 CCATTTTAGTCTAATTTCAAAGGGTTTTTGAATTTCCATTTTAGCCTATAAATTTTCAAGTT
1 CCATTTTAGTCTAATTTCAAAGGGTTTTTGAATTTCCATTTTAGCCTATAAATTTTCAAGTT
*
63833203 CCATTTTAGTCTAATTTCAAAGGGTTTTTGAATTTTCATTTTAGCCTATAAATTTTCAAGTT
1 CCATTTTAGTCTAATTTCAAAGGGTTTTTGAATTTCCATTTTAGCCTATAAATTTTCAAGTT
63833265 TATTACTGTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (62 bp):
CCATTTTAGTCTAATTTCAAAGGGTTTTTGAATTTCCATTTTAGCCTATAAATTTTCAAGTT
Found at i:63833538 original size:20 final size:20
Alignment explanation
Indices: 63833513--63833553 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
63833503 TTGCAGGTGT
63833513 AATTTAAGTTGCTAGAATCG
1 AATTTAAGTTGCTAGAATCG
* *
63833533 AATTTAATTTGCTGGAATCG
1 AATTTAAGTTGCTAGAATCG
63833553 A
1 A
63833554 CTCTACCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
AATTTAAGTTGCTAGAATCG
Found at i:63834557 original size:9 final size:9
Alignment explanation
Indices: 63834545--63834711 Score: 105
Period size: 9 Copynumber: 19.1 Consensus size: 9
63834535 TATATCATAT
63834545 CATAACTTA
1 CATAACTTA
63834554 CATAACTTA
1 CATAACTTA
*
63834563 CAAAACTTA
1 CATAACTTA
*
63834572 CACAA--TA
1 CATAACTTA
*
63834579 CATAA-ATA
1 CATAACTTA
*
63834587 TATAACTTA
1 CATAACTTA
*
63834596 TATAACTTA
1 CATAACTTA
*
63834605 CGTAA--TA
1 CATAACTTA
*
63834612 CATAA-ATA
1 CATAACTTA
* ** *
63834620 TATTTCATA
1 CATAACTTA
*
63834629 TCATAATTTA
1 -CATAACTTA
63834639 CATAACTTA
1 CATAACTTA
*
63834648 CATACCTTA
1 CATAACTTA
*
63834657 CATAAATT-
1 CATAACTTA
* * *
63834665 TATATCATA
1 CATAACTTA
63834674 TCATAACTTA
1 -CATAACTTA
63834684 CATAACTTA
1 CATAACTTA
63834693 CATAACTTA
1 CATAACTTA
*
63834702 CTTAACTTA
1 CATAACTTA
63834711 C
1 C
63834712 GTAATACATA
Statistics
Matches: 123, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
7 12 0.10
8 14 0.11
9 87 0.71
10 10 0.08
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:63834592 original size:33 final size:33
Alignment explanation
Indices: 63834555--63834622 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
63834545 CATAACTTAC
63834555 ATAACTTACAAAACTTACACAATACATAAATAT
1 ATAACTTACAAAACTTACACAATACATAAATAT
* * **
63834588 ATAACTTATATAACTTACGTAATACATAAATAT
1 ATAACTTACAAAACTTACACAATACATAAATAT
63834621 AT
1 AT
63834623 TTCATATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.32
Consensus pattern (33 bp):
ATAACTTACAAAACTTACACAATACATAAATAT
Found at i:63834663 original size:45 final size:45
Alignment explanation
Indices: 63834529--63834702 Score: 223
Period size: 45 Copynumber: 4.0 Consensus size: 45
63834519 ATCTTAATGT
*
63834529 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACA
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTACA
* * * * *
63834574 -CAATACATA-AATAT-ATAACTTATATAACTTACGTAA--TACA
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTACA
* * *
63834614 TAAATATATTTCATATCATAATTTACATAACTTACATACCTTACA
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTACA
*
63834659 TAAATTTATATCATATCATAACTTACATAACTTACATAACTTAC
1 TAAATATATATCATATCATAACTTACATAACTTACATAACTTAC
63834703 TTAACTTACG
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
40 4 0.04
41 6 0.06
42 23 0.22
43 22 0.21
44 7 0.07
45 44 0.42
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (45 bp):
TAAATATATATCATATCATAACTTACATAACTTACATAACTTACA
Found at i:63836518 original size:12 final size:12
Alignment explanation
Indices: 63836501--63836526 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
63836491 AAGATTGAGG
63836501 GATGAATCTGAT
1 GATGAATCTGAT
63836513 GATGAATCTGAT
1 GATGAATCTGAT
63836525 GA
1 GA
63836527 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:63838614 original size:30 final size:30
Alignment explanation
Indices: 63838559--63838689 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
63838549 ATAGTGAATC
*
63838559 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
63838588 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
63838618 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
63838646 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
63838676 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63838690 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:63838669 original size:58 final size:58
Alignment explanation
Indices: 63838558--63838689 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
63838548 TATAGTGAAT
* * * * *
63838558 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
63838617 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
63838675 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
63838690 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:63843412 original size:31 final size:31
Alignment explanation
Indices: 63843371--63843434 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63843361 CCTTTTCACA
*
63843371 TTTCACATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
63843402 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
63843433 TT
1 TT
63843435 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:63843675 original size:24 final size:24
Alignment explanation
Indices: 63843648--63843793 Score: 233
Period size: 24 Copynumber: 6.2 Consensus size: 24
63843638 CCTAGCCTCT
*
63843648 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
63843672 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
63843696 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
63843719 TTTTGATAACTCGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
63843743 TTTTGATAACTGAGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
63843767 -TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
63843790 TTTT
1 TTTT
63843794 TCACTTCCTC
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 44 0.39
24 69 0.61
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:63843741 original size:71 final size:71
Alignment explanation
Indices: 63843648--63843793 Score: 247
Period size: 71 Copynumber: 2.1 Consensus size: 71
63843638 CCTAGCCTCT
* *
63843648 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
1 TTTTAATAACTCGGGCAAAAGCCCTTTTAATAACTGAGGCATAAGCCCTTTAATAACTGGGGCAT
63843713 AAGCCC
66 AAGCCC
* * *
63843719 TTTTGATAACTCGGGCATAAGCCCTTTTGATAACTGAGGCATAAGCCCTTTAATAACTGGGGCAT
1 TTTTAATAACTCGGGCAAAAGCCCTTTTAATAACTGAGGCATAAGCCCTTTAATAACTGGGGCAT
63843784 AAGCCC
66 AAGCCC
63843790 TTTT
1 TTTT
63843794 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (71 bp):
TTTTAATAACTCGGGCAAAAGCCCTTTTAATAACTGAGGCATAAGCCCTTTAATAACTGGGGCAT
AAGCCC
Found at i:63843793 original size:47 final size:48
Alignment explanation
Indices: 63843648--63843793 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 48
63843638 CCTAGCCTCT
*
63843648 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
63843696 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTCGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
63843743 TTTTGATAACTGAGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
63843790 TTTT
1 TTTT
63843794 TCACTTCCTC
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
47 69 0.77
48 21 0.23
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (48 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:63843867 original size:20 final size:20
Alignment explanation
Indices: 63843842--63843908 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
63843832 TTATGATTAC
63843842 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
63843862 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
63843882 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
63843902 ACCATGT
1 ATCATGT
63843909 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:63843873 original size:11 final size:11
Alignment explanation
Indices: 63843842--63843897 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
63843832 TTATGATTAC
63843842 ATCATGTGCAT
1 ATCATGTGCAT
*
63843853 ATCA--TACAT
1 ATCATGTGCAT
63843862 ATCATGTGCAT
1 ATCATGTGCAT
*
63843873 ATCA--TACAT
1 ATCATGTGCAT
*
63843882 GTCATGTGCAT
1 ATCATGTGCAT
63843893 ATCAT
1 ATCAT
63843898 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:63843977 original size:25 final size:25
Alignment explanation
Indices: 63843945--63843992 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63843935 ATACATAAAC
* * *
63843945 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63843970 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63843993 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63846332 original size:39 final size:39
Alignment explanation
Indices: 63846248--63846400 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
63846238 TATGGTAACC
** * *
63846248 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
63846288 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
63846327 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
63846366 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
63846401 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:63846374 original size:78 final size:79
Alignment explanation
Indices: 63846217--63846399 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
63846207 TCGTTCAAAC
* * **
63846217 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
63846282 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
63846297 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
63846361 CAATTTGCACAATT
66 CAATTTGCACAATT
63846375 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
63846400 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:63849374 original size:46 final size:46
Alignment explanation
Indices: 63849319--63849499 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
63849309 TAGGATGGTT
63849319 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
63849365 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
63849411 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
63849458 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63849500 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:63849480 original size:93 final size:93
Alignment explanation
Indices: 63849321--63849491 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
63849311 GGATGGTTGA
* *
63849321 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
63849386 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
63849414 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
63849479 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
63849492 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63852470 original size:15 final size:15
Alignment explanation
Indices: 63852450--63852518 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
63852440 GTATCTTGGG
63852450 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
63852465 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
63852480 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
63852495 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
63852510 TTTCTTTAT
1 TTTCTTTAT
63852519 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:63852519 original size:30 final size:30
Alignment explanation
Indices: 63852441--63852528 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
63852431 CATAGTATCG
* * * *
63852441 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
63852471 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
63852501 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
63852529 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:63854948 original size:46 final size:46
Alignment explanation
Indices: 63854898--63855073 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
63854888 ATGGTTGGCA
63854898 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
63854944 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
63854991 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
63855037 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63855074 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:63855053 original size:93 final size:93
Alignment explanation
Indices: 63854894--63855065 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
63854884 TAGGATGGTT
* *
63854894 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
63854959 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
63854987 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
63855052 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
63855066 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:63868052 original size:40 final size:40
Alignment explanation
Indices: 63868007--63868173 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
63867997 CGGAATATAA
63868007 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
63868047 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
63868087 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
63868127 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
63868166 CCGGATAT
1 CCGGATAT
63868174 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63871207 original size:48 final size:47
Alignment explanation
Indices: 63871148--63871522 Score: 195
Period size: 48 Copynumber: 7.9 Consensus size: 47
63871138 ACCACAATAT
*
63871148 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AAC
* * * * * *
63871196 GAGAGCTAGTGTAAGA-TATGTCTAGGACAT-GCATCAGCCTCGAGAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-AC
*
63871242 GTA-AGCTAGTGTAAGA-CATGTCTGGGGA-AT-GCATCAG-ATATG-A-
1 G-AGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCAT-TGAAC
* * * * *
63871285 GATGTGTTAGTGTAAGACCATGTCTAGGACATGGCATCAGCA-CGTATA-
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-A-AC
* * * ** *
63871333 GTGGTGTCT-GTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATAT
1 G-AGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-AC
* * * * *
63871384 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTTC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--AC
* * * * * *
63871433 AATAG-TCAATGTAAGACCATGTTTGGGGCATGGCATCGAC-TTG-AC
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAC
* *
63871478 GGATGAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGCATT
1 -GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
63871523 ATACCATATG
Statistics
Matches: 253, Mismatches: 49, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.06
45 13 0.05
46 48 0.19
47 47 0.19
48 56 0.22
49 35 0.14
50 36 0.14
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAC
Found at i:63871252 original size:46 final size:46
Alignment explanation
Indices: 63871106--63871415 Score: 201
Period size: 46 Copynumber: 6.6 Consensus size: 46
63871096 TTATTTGTCT
* * * *
63871106 GCTAGTGTAAGGCATGTCTAGGACATGCATCAACCA-CAATATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATC-AGCATCGAGATGAGA
* * * * * *
63871152 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACGAGA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCATCGAGATGAGA
* *
63871200 GCTAGTGTAAGATATGTCTAGGACATGCATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGATG-AGA
* * *
63871246 GCTAGTGTAAGACATGTCTGGGGA-ATGCATCAG-ATATGAGAT--GT
1 GCTAGTGTAAGACATGTCT-AGGACATGCATCAGCAT-CGAGATGAGA
* * *
63871290 GTTAGTGTAAGACCATGTCTAGGACATGGCATCAGCA-CGTATAGTG-GT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCATCG-AGA-TGAGA
* *
63871338 GTCT-GTGTAAGACCATGTCTGGGACATGGCATC-GACA-CGGATATATGAGA
1 G-CTAGTGTAAGA-CATGTCTAGGACAT-GCATCAG-CATC-G--AGATGAGA
63871388 GCTAGTGTAAGACCATGTCTAGGACATG
1 GCTAGTGTAAGA-CATGTCTAGGACATG
63871416 GCGTCGGCCT
Statistics
Matches: 214, Mismatches: 30, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
44 14 0.07
45 11 0.05
46 64 0.30
47 34 0.16
48 56 0.26
49 7 0.03
50 28 0.13
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCATCGAGATGAGA
Found at i:63871405 original size:50 final size:49
Alignment explanation
Indices: 63871107--63871417 Score: 177
Period size: 48 Copynumber: 6.6 Consensus size: 49
63871097 TATTTGTCTG
* * *
63871107 CTAGTGTAAG-GCATGTCTAGGACAT-GCATCAACCAC-AATA-TGAGAG-
1 CTAGTGTAAGACCATGTCTAGGACATGGCATC-AGCACGTATAGTG-GAGT
* * * * * *
63871153 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGAAACG-AGAG-
1 CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGT-ATA-GTGGAGT
* ** *
63871201 CTAGTGTAAGA-TATGTCTAGGACAT-GCATCAGC-C-TCGAGATGTAAG-
1 CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATAG-TG-GAGT
* *
63871247 CTAGTGTAAGA-CATGTCTGGGGA-AT-GCATCAG-A--TATGAGAT-GTGT
1 CTAGTGTAAGACCATGTCT-AGGACATGGCATCAGCACGTAT-AG-TGGAGT
*
63871292 -TAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATAGTGGTGT
1 CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATAGTGGAGT
*
63871340 CT-GTGTAAGACCATGTCTGGGACATGGCATC-GACACGGATATA-TGAGAG-
1 CTAGTGTAAGACCATGTCTAGGACATGGCATCAG-CAC-G-TATAGTG-GAGT
63871389 CTAGTGTAAGACCATGTCTAGGACATGGC
1 CTAGTGTAAGACCATGTCTAGGACATGGC
63871418 GTCGGCCTCG
Statistics
Matches: 212, Mismatches: 26, Indels: 50
0.74 0.09 0.17
Matches are distributed among these distances:
43 1 0.00
44 15 0.07
45 11 0.05
46 55 0.26
47 33 0.16
48 57 0.27
49 9 0.04
50 31 0.15
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACGTATAGTGGAGT
Found at i:63873069 original size:19 final size:20
Alignment explanation
Indices: 63873045--63873082 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63873035 GGTACCACCA
63873045 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
63873064 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
63873083 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:63873409 original size:47 final size:49
Alignment explanation
Indices: 63873292--63873466 Score: 167
Period size: 47 Copynumber: 3.8 Consensus size: 49
63873282 AACCCGCCCC
* *
63873292 TAAGTGAACTCGGACTCAACTCAACGAG--CGCG--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCG-GATGCCAGTT-ACATCCA
**
63873337 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
63873385 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
63873430 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
63873467 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 29 0.27
46 30 0.28
47 31 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:63873455 original size:93 final size:92
Alignment explanation
Indices: 63873297--63873466 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
63873287 GCCCCTAAGT
*
63873297 GAACTCGGACTCAACTCAACGAGCGCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCGCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
63873362 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
** * *
63873389 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCGCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
63873454 CGAGTTCGGATGC
65 CGAGTTCGGATGC
63873467 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 26 0.36
93 46 0.64
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCGCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:63873482 original size:46 final size:46
Alignment explanation
Indices: 63873291--63873475 Score: 143
Period size: 45 Copynumber: 4.0 Consensus size: 46
63873281 TAACCCGCCC
** * * * *
63873291 CTAAGTGAACTCGGACTCAACTCAACGAGCGCGGCGTTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
*
63873337 -TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * *
63873384 CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCAT
63873430 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
63873475 C
1 C
63873476 CTAGTGACAT
Statistics
Matches: 110, Mismatches: 14, Indels: 30
0.71 0.09 0.19
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 33 0.30
46 30 0.27
47 30 0.27
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:63888657 original size:28 final size:28
Alignment explanation
Indices: 63888588--63888688 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
63888578 GACAAGATTG
* * * *
63888588 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
63888618 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
63888646 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
63888675 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
63888689 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:63890177 original size:19 final size:20
Alignment explanation
Indices: 63890153--63890190 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63890143 GGTACCACCA
63890153 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
63890172 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
63890191 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:63890504 original size:46 final size:45
Alignment explanation
Indices: 63890419--63890540 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 45
63890409 CGCCCCTAAG
* * *
63890419 TGAACTCGGACTCAACTCAACAAGCTCGGGAGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTC-GGAATTCGCATCCATAAA
* *
63890465 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCATCCATAAA
*
63890511 TGAACTCGGACTTAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
63890541 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 3 0.04
46 66 0.96
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCATCCATAAA
Found at i:63892325 original size:42 final size:42
Alignment explanation
Indices: 63892269--63892362 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
63892259 GGACACGGGC
* * * **
63892269 GTGTCATGGCCGTGTGAGGGACACGGGCCATCGACATGGGCGT
1 GTGTCA-GGCCGTGTGAGGAACACGAGCCATCCACACAGGCGT
63892312 GTGTCAGGCCGTGTGAGGAACACGAGCCATCCACACAGGCGT
1 GTGTCAGGCCGTGTGAGGAACACGAGCCATCCACACAGGCGT
*
63892354 GTGTTAGGC
1 GTGTCAGGC
63892363 TATGTGAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 39 0.87
43 6 0.13
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.18
Consensus pattern (42 bp):
GTGTCAGGCCGTGTGAGGAACACGAGCCATCCACACAGGCGT
Found at i:63893489 original size:42 final size:41
Alignment explanation
Indices: 63893442--63893593 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 41
63893432 TACCACCCCA
* *
63893442 ATGCCATATCCCAGATATGGTCTTGCATAGGATCT-AGTATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAATCTCA-TATCG
* * * * *
63893484 ATGCCAATAGCCCAGCTATAGTCTTACACGAAATCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACATG-AATCTCATATCG
* * *
63893527 ATGCCATATCCCAGATACGGTCTTACATGAAGCCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
63893569 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
63893594 TACATAGTCT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 56 0.62
43 31 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:63897277 original size:16 final size:16
Alignment explanation
Indices: 63897245--63897276 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
63897235 GATGTGTAAT
63897245 TTAGTAAAAGGAAAAA
1 TTAGTAAAAGGAAAAA
63897261 TTAGATAAAAGGAAAA
1 TTAG-TAAAAGGAAAA
63897277 TAGGCCTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
TTAGTAAAAGGAAAAA
Found at i:63901579 original size:28 final size:28
Alignment explanation
Indices: 63901510--63901610 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
63901500 GACAAGATTG
* * * *
63901510 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
63901540 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
63901568 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
63901597 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
63901611 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:63901604 original size:29 final size:28
Alignment explanation
Indices: 63901539--63901610 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
63901529 AAAATTGTAC
*
63901539 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
63901567 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
63901596 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63901611 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:63903602 original size:6 final size:6
Alignment explanation
Indices: 63903584--63903703 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
63903574 AAGAAACATT
* *
63903584 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
63903633 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATTAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
63903684 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
63903704 GTGAATGTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:63903628 original size:31 final size:31
Alignment explanation
Indices: 63903593--63903703 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
63903583 TATCAGAACT
* * * *
63903593 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
63903624 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
63903655 AGAATCAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
63903686 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
63903704 GTGAATGTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 63 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:63904290 original size:27 final size:27
Alignment explanation
Indices: 63904111--63904332 Score: 234
Period size: 27 Copynumber: 8.3 Consensus size: 27
63904101 GGGGCAAAAT
* * * *
63904111 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
63904137 GGTAATTCCACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63904164 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
63904191 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63904218 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63904245 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
63904272 GGTAATTCCA-CAAATCAGGGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* ** *
63904299 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
63904326 GGTAATT
1 GGTAATT
63904333 TTATTGATCG
Statistics
Matches: 170, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
26 17 0.10
27 153 0.90
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:63904333 original size:27 final size:26
Alignment explanation
Indices: 63904261--63904361 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
63904251 TCTACCCTAC
* **
63904261 AGGGGTATTTCGGTAATTCCACAAAT
1 AGGGGTATTTTGGTAATTTTACAAAT
63904287 CAGGGGTATTTTGGTAATTTTACAAACT
1 -AGGGGTATTTTGGTAATTTTACAAA-T
***
63904315 AGGGGTATTTTGGTAATTTTATTGAT
1 AGGGGTATTTTGGTAATTTTACAAAT
*
63904341 CGAGGGTATTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
63904362 GTAAACCAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.95
28 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.42
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTACAAAT
Found at i:63904373 original size:27 final size:27
Alignment explanation
Indices: 63904263--63904393 Score: 109
Period size: 27 Copynumber: 4.9 Consensus size: 27
63904253 TACCCTACAG
* ** * * *
63904263 GGGTATTTCGGTAATTCCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
63904290 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
** * *
63904317 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
63904344 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
63904371 GGGTATATTAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
63904394 TCGAGCGTAA
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:63904397 original size:54 final size:54
Alignment explanation
Indices: 63904290--63904794 Score: 175
Period size: 54 Copynumber: 9.4 Consensus size: 54
63904280 CACAAATCAG
* * * * **
63904290 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATTAGTAATTTTATAAATCGA
** *
63904344 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATATTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATTAGTAATTTTATAAATCGA
* *** * * *** * * * * *
63904398 GCGTAAAATGGTAATTCTATAAATGTAGGGTAAAATGGTAATTCTATAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATTAGTAATTTTATAAATCGA
**** * * ** * * * * * * ** *
63904452 GGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATCTTATAGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATTAGTAATTTTAT-AAATCGA
* ** * * ** *
63904507 -AGTATTTCAGTAATTTTACAAATCGAGGGTAT-TTCAGTAATTTTGCAAATTGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATT-AGTAATTTTATAAATCGA
* *** * * *
63904560 GGGTATTTCGGTAATTTTACAAATTGAGGATAT-TTGGGTAATTTTATAAATCGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATT-AGTAATTTTATAAATCGA
* ** * * *
63904614 GGGTA-CTTGGTAATTTTA-AAGTCGAGGGTAT-TTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATT-AGTAATTTTATAAATCGA
** * * ** * *
63904666 GGGTATTTCAGTACTTTTGCAAACTGAGGGTAT-TTAGGTAATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATATTA-GTAATTTTATAAATCGA
*** * * * * *
63904720 GGGTATTTCAATAATTTTACAATCGACA--GTAT-TTCGGTAATTTTATAAACCGG
1 GGGTATTTTGGTAATTTTACAAACCA-AGGGTATATT-AGTAATTTTATAAATCGA
*
63904773 GGGTACTTTGGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
63904795 CTGGGGGTAT
Statistics
Matches: 348, Mismatches: 95, Indels: 17
0.76 0.21 0.04
Matches are distributed among these distances:
52 33 0.09
53 61 0.18
54 250 0.72
55 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATATTAGTAATTTTATAAATCGA
Found at i:63904411 original size:27 final size:27
Alignment explanation
Indices: 63904352--63904496 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
63904342 GAGGGTATTT
* * * * *
63904352 TGGTAATTTTGTAAACCAAGGGTATAT
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
63904379 TAGTAATTTTGTAAATCGAGCGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
63904406 TGGTAATTCTATAAAT-GTAGGGTAAAA
1 TGGTAATTCTGTAAATCG-AGGGTAAAA
* *
63904433 TGGTAATTCTATAAATCAAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* *
63904460 CGATAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
63904487 TGGTAATTCT
1 TGGTAATTCT
63904497 ATCTTATAGA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.99
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:63904538 original size:27 final size:27
Alignment explanation
Indices: 63904508--63904815 Score: 297
Period size: 27 Copynumber: 11.6 Consensus size: 27
63904498 TCTTATAGAA
63904508 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
63904535 GTATTTCAGTAATTTTGCAAATTGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
63904562 GTATTTCGGTAATTTTACAAATTGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* ** * *
63904589 ATATTTGGGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
63904616 GTACTT-GGTAATTTTA-AAGTCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
63904641 GTATTTCGGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
63904668 GTATTTCAGTACTTTTGCAAA-CTGAGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
*
63904695 GTATTT-AGGTAATTTTACAAATCAAGG
1 GTATTTCA-GTAATTTTACAAATCGAGG
* **
63904722 GTATTTCAATAATTTTAC-AATCGACA
1 GTATTTCAGTAATTTTACAAATCGAGG
* * * *
63904748 GTATTTCGGTAATTTTATAAACCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
63904775 GTACTTT-GGTAATTTTACAACT-GGGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
*
63904801 GTATTTCAGTTATTT
1 GTATTTCAGTAATTT
63904816 GGTAAACTAA
Statistics
Matches: 235, Mismatches: 37, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
25 15 0.06
26 55 0.23
27 160 0.68
28 5 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Done.