Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 89 of 290
Found at i:27176360 original size:13 final size:13
Alignment explanation
Indices: 27176342--27176368 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27176332 TGAGACGAAT
27176342 GATTTTTTTTTCA
1 GATTTTTTTTTCA
27176355 GATTTTTTTTTCA
1 GATTTTTTTTTCA
27176368 G
1 G
27176369 TTCAATGTGT
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:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (13 bp):
GATTTTTTTTTCA
Found at i:27180130 original size:20 final size:20
Alignment explanation
Indices: 27180093--27180130 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27180083 GCGCACTATT
*
27180093 TTTTTCTTTATTTTTTTTCC
1 TTTTTCTTTATTTATTTTCC
27180113 TTTTTCTTT-TCTTATTTT
1 TTTTTCTTTAT-TTATTTT
27180131 AACAAGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTATTTATTTTCC
Found at i:27190485 original size:22 final size:19
Alignment explanation
Indices: 27190459--27190506 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
27190449 ATGCAATCTT
27190459 AGATATGATACAATCTTAGA
1 AGATATGAT-CAATCTTAGA
27190479 TATGATATG--CAATCTTAGA
1 -A-GATATGATCAATCTTAGA
27190498 AGATATGAT
1 AGATATGAT
27190507 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
AGATATGATCAATCTTAGA
Found at i:27190504 original size:17 final size:19
Alignment explanation
Indices: 27190447--27190497 Score: 88
Period size: 17 Copynumber: 2.8 Consensus size: 19
27190437 ATAATCTTCA
27190447 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
27190466 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
27190483 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
27190498 AGATATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.57
19 13 0.43
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:27190523 original size:22 final size:22
Alignment explanation
Indices: 27190447--27190520 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 22
27190437 ATAATCTTCA
27190447 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
27190466 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
27190483 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
27190505 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
27190521 GATTTAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 17 0.36
19 10 0.21
22 8 0.17
23 12 0.26
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:27190530 original size:22 final size:22
Alignment explanation
Indices: 27190489--27190534 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27190479 TATGATATGC
*
27190489 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
27190512 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
27190533 AA
1 AA
27190535 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:27190533 original size:21 final size:23
Alignment explanation
Indices: 27190476--27190534 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
27190466 ATACAATCTT
* *
27190476 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
27190498 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
27190520 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
27190535 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:27197812 original size:18 final size:18
Alignment explanation
Indices: 27197789--27197842 Score: 99
Period size: 18 Copynumber: 2.9 Consensus size: 18
27197779 GAGGGAGATG
27197789 AGAAGAAAGAAAGAAAAT
1 AGAAGAAAGAAAGAAAAT
27197807 AGAAGAAAGAAAGAAAAT
1 AGAAGAAAGAAAGAAAAT
27197825 AGAAGAAAGAAAAGAAAA
1 AGAAGAAAG-AAAGAAAA
27197843 GGTAAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 27 0.77
19 8 0.23
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (18 bp):
AGAAGAAAGAAAGAAAAT
Found at i:27204165 original size:33 final size:32
Alignment explanation
Indices: 27204128--27204231 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 32
27204118 GAGGAGTAGA
27204128 GTACTACGGTGGATACAGGTCAGGG-GGAGTGCT
1 GTACTA-GGTGGATACAGGTC-GGGAGGAGTGCT
* * * *
27204161 GTACTGAGGTGGATACGGGCCGGGAGAAGTACT
1 GTACT-AGGTGGATACAGGTCGGGAGGAGTGCT
**
27204194 GTACTAGGATGGATATGGGTCGGGAGGAGTGCT
1 GTACTAGG-TGGATACAGGTCGGGAGGAGTGCT
*
27204227 ATACT
1 GTACT
27204232 GCAGTGGATA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 6 0.10
33 52 0.88
34 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.41, T:0.22
Consensus pattern (32 bp):
GTACTAGGTGGATACAGGTCGGGAGGAGTGCT
Found at i:27204240 original size:33 final size:32
Alignment explanation
Indices: 27204136--27204242 Score: 101
Period size: 33 Copynumber: 3.2 Consensus size: 32
27204126 GAGTACTACG
*
27204136 GTGGATACAGGTCAGGG-GGAGTGCTGTACTGA
1 GTGGATACGGGTC-GGGAGGAGTGCTGTACTGA
* * *
27204168 GGTGGATACGGGCCGGGAGAAGTACTGTACT-A
1 -GTGGATACGGGTCGGGAGGAGTGCTGTACTGA
* *
27204200 GGATGGATATGGGTCGGGAGGAGTGCTATACTGCA
1 -G-TGGATACGGGTCGGGAGGAGTGCTGTACTG-A
27204235 GTGGATAC
1 GTGGATAC
27204243 AACCCAAAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
32 6 0.10
33 52 0.87
34 1 0.02
35 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.42, T:0.21
Consensus pattern (32 bp):
GTGGATACGGGTCGGGAGGAGTGCTGTACTGA
Found at i:27208237 original size:648 final size:649
Alignment explanation
Indices: 27206988--27209592 Score: 4596
Period size: 648 Copynumber: 4.0 Consensus size: 649
27206978 GGATTGGGGT
*
27206988 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACGGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
** * *
27207053 ACAACTTATGCATACGCAAAACATATGTCACATCATTAACTTCATTGACCAAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* * *
27207118 ATAGATATATATATATATTTATATATATAATTCATACGTATAGGCCAAATCATACATCAATTGGA
131 ATAGA-ATATATATATA---A-GT-CAT-A--CATA--TACA--CCAAATCATACATCAATTGGA
27207183 ATAAATTTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAAT
183 ATAAATTTTCATTACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAAT
*
27207248 TCACATGTTTGCATCATAACATAATTTAAAACATGCATTCGTTTATAAGTAATCCATTTATACAT
248 TCACATGTTTGCATCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACAT
27207313 ATTTTATAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATC
313 ATTTTATAACTTACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATC
*
27207378 AACCACGTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTGAAACATACTAACAA
378 AACCACGTGACCTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAA
*
27207443 TGCTCATGTATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATATT
443 TGCTCATGTATATAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACT
27207508 AAAAACAACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATT
508 AAAAACAACCGACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATT
27207573 TAAACTAGCATACATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAAC
573 TAAACTAGCATACATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAAC
27207638 TAATATACCAAG
638 TAATATACCAAG
*
27207650 TATACGGTGCTACCGATCATATTACAGTTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
1 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
27207715 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
27207780 ATAG-ATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
131 ATAGAATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
*
27207844 ACTAACCCTTTTATCCATGTACGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
196 ACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
27207909 TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
261 TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
27207974 CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACCT
326 CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACCT
* *
27208039 ACCTTAGTTCAATTAACATCCATATAAACATATGGCTAAAATATACTAACAATGCTCATGTATAT
391 ACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATAT
* * * *
27208104 AATGCGCAACTTACTCCAAAATAAAGACTATATTTAGCATTAATTACATACTAAAAACAATCGAC
456 AATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGAC
27208169 CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
521 CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
27208234 ATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACCAAG
586 ATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACCAAG
* * *
27208298 TATACGGTGCTACCGATCATATTACAGTTCAAACAAATATGCATTTCATTTTACAGGTCGAAATT
1 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
*
27208363 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGATCGAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
* *
27208428 ATAG-ATATATATATAAGTCACACGTATACACCAAATCATACATCAATTGGAATAAATTTTCATT
131 ATAGAATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
*
27208492 ACTAACCCTTTTATCCATGTATGTGGCATTAATGCATTTGTCTATGTGAAATTCACATGTTTGCA
196 ACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
*
27208557 TCATAACATAATTCAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
261 TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
* * *
27208622 CGATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTATGTTCATCAACCACGTGACCT
326 CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACCT
27208687 ACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATAT
391 ACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATAT
* *
27208752 AATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTAAATATTAAAAACAACCGAC
456 AATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGAC
27208817 CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
521 CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
* *
27208882 ATTCATCCATCACTTTAATTATCACATTACACATTTTCCATAAAAAACTAACTAATATACCAAG
586 ATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACCAAG
*
27208946 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCAAAATT
1 TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
27209011 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
66 ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
27209076 ATAGATATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCAT
131 ATAGA-ATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCAT
* * * *
27209141 TACTAACCCTTTTATCCATGTATGCGGCATTAATGCGTTTGTCTGTATGAAATTCATATGTTTG-
195 TACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGC
*
27209205 --C--AACATAATTTAAAACAAT-CATTCGGTTATAAGTAACCCATTTATACATATTTTATAACT
260 ATCATAACATAATTTAAAAC-ATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACT
27209265 TACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGAC
324 TACAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGAC
* * *
27209330 CTACCTTAGTTCAATTAACATCCAAATAAAAATATGGCTGAAACATACTAGCAATGCTCATGTAT
389 CTACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTAT
* *
27209395 ATAATACGCAACTTACTCCAAAATAAAGACTACACTTAGCATTAATTACATACTAAAAACAACCG
454 ATAATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCG
*
27209460 ACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACAGAATAATTTAAACTAGCAT
519 ACCAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCAT
*
27209525 ACATTCATCCATCACTTTAATTATCACATTACACATTTTCCATCAAAAACTAACTAATATACCAA
584 ACATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACCAA
27209590 G
649 G
27209591 TA
1 TA
27209593 CATATATTAT
Statistics
Matches: 1874, Mismatches: 66, Indels: 23
0.95 0.03 0.01
Matches are distributed among these distances:
645 370 0.20
646 2 0.00
647 1 0.00
648 1234 0.66
650 119 0.06
652 4 0.00
654 1 0.00
655 2 0.00
656 1 0.00
657 1 0.00
660 11 0.01
662 128 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (649 bp):
TATACGGTGCTACCGATCATATTACAATTCAGACAAATATGCATTTCATTTTACAGATCGAAATT
ACAACTTATGCATATACAAAACATATGTCACATCATTAACTTTATTGACCGAATATTAGACCTAT
ATAGAATATATATATAAGTCATACATATACACCAAATCATACATCAATTGGAATAAATTTTCATT
ACTAACCCTTTTATCCATGTATGTGGCATTAATGCGTTTGTCTATGTGAAATTCACATGTTTGCA
TCATAACATAATTTAAAACATGCATTCGGTTATAAGTAATCCATTTATACATATTTTATAACTTA
CAATTAACTAACAATCTATATAGCCATGCATATGCTTTGATTTCTATTCATCAACCACGTGACCT
ACCTTAGTTCAATTAACATCCAAATAAACATATGGCTAAAACATACTAACAATGCTCATGTATAT
AATGCGCAACTTACTCCAAAATAAAGACTACACTTACCATTAATTACATACTAAAAACAACCGAC
CAAAATGATCATGCAATACATGCAACACTTACCATTTAGCAACCGAATAATTTAAACTAGCATAC
ATTCATCCATCACTTTAATTATCACATTACAAATTTTCCATCAAAAACTAACTAATATACCAAG
Found at i:27219996 original size:6 final size:6
Alignment explanation
Indices: 27219955--27220009 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
27219945 ACAAGTTTGT
* * * *
27219955 AAAATA AACAT- AAAAGA AAAATA AAAGA-G AAGATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA
27220002 AAAATA AA
1 AAAATA AA
27220010 TGGACTCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
5 4 0.11
6 33 0.87
7 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:27220924 original size:69 final size:69
Alignment explanation
Indices: 27220813--27220950 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
27220803 CTCATATGTC
**
27220813 ACACTAAGCCACCAAGTCAGAAAGTGATAGTACTGACCTCGTCATGGGTATTCATCACATGCTGT
1 ACACTAAGCCACCAAGTCAGAAAGTGATAGTACCAACCTCGTCATGGGTATTCATCACATGCTGT
27220878 AGAT
66 AGAT
27220882 ACACTAAGCCACCAAGTCAGAAAGTGATAGTACCAACCTCGTCATGGGTATTCATCACATGCTGT
1 ACACTAAGCCACCAAGTCAGAAAGTGATAGTACCAACCTCGTCATGGGTATTCATCACATGCTGT
27220947 AGAT
66 AGAT
27220951 GGAAAGTAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (69 bp):
ACACTAAGCCACCAAGTCAGAAAGTGATAGTACCAACCTCGTCATGGGTATTCATCACATGCTGT
AGAT
Found at i:27231306 original size:5 final size:5
Alignment explanation
Indices: 27231296--27231327 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27231286 TTGTGTGTTC
27231296 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27231328 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27231310 original size:9 final size:9
Alignment explanation
Indices: 27231296--27231326 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27231286 TTGTGTGTTC
27231296 TTTATTTTA
1 TTTATTTTA
27231305 TTTATTTTA
1 TTTATTTTA
27231314 TTTTATTTTA
1 -TTTATTTTA
27231324 TTT
1 TTT
27231327 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27235761 original size:5 final size:5
Alignment explanation
Indices: 27235751--27235782 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27235741 TTGTGTGTTC
27235751 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27235783 TCACAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27235765 original size:9 final size:9
Alignment explanation
Indices: 27235751--27235781 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27235741 TTGTGTGTTC
27235751 TTTATTTTA
1 TTTATTTTA
27235760 TTTATTTTA
1 TTTATTTTA
27235769 TTTTATTTTA
1 -TTTATTTTA
27235779 TTT
1 TTT
27235782 TTCACAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27237308 original size:56 final size:56
Alignment explanation
Indices: 27237247--27237383 Score: 168
Period size: 56 Copynumber: 2.4 Consensus size: 56
27237237 TCCCAGAAAG
*
27237247 GGTCTTACTAAG-ACACATAAATTGAAATCACATATCAATGCCAACATATTAAACGT
1 GGTCTTACT-AGCACACATAAATCGAAATCACATATCAATGCCAACATATTAAACGT
* * * * * *
27237303 TGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTAGCACACATAAATCGAAATCACATATCAATGCCAACATATTAAACGT
* * *
27237359 GGACTTACTCGCACACATATATCGA
1 GGTCTTACTAGCACACATAAATCGA
27237384 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (56 bp):
GGTCTTACTAGCACACATAAATCGAAATCACATATCAATGCCAACATATTAAACGT
Found at i:27238016 original size:15 final size:15
Alignment explanation
Indices: 27237993--27238022 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27237983 TCAAAAATTC
27237993 TAATACAAAACATAT
1 TAATACAAAACATAT
*
27238008 TAATCCAAAACATAT
1 TAATACAAAACATAT
27238023 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:27238554 original size:15 final size:14
Alignment explanation
Indices: 27238522--27238565 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27238512 TCCAAATAGT
* *
27238522 AAAATTAAAACACGA
1 AAAATTAACACA-TA
27238537 AAAATTAACACATA
1 AAAATTAACACATA
*
27238551 AAAATTCACACATA
1 AAAATTAACACATA
27238565 A
1 A
27238566 TAAACGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAATTAACACATA
Found at i:27247682 original size:26 final size:26
Alignment explanation
Indices: 27247646--27247696 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
27247636 ATAGTAGGCC
*
27247646 TTGAGCTGGTGTTTATTTAGCAGGTT
1 TTGAGCCGGTGTTTATTTAGCAGGTT
27247672 TTGAGCCGGTGTTTATTTAGCAGGT
1 TTGAGCCGGTGTTTATTTAGCAGGT
27247697 ACTATGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.16, C:0.10, G:0.31, T:0.43
Consensus pattern (26 bp):
TTGAGCCGGTGTTTATTTAGCAGGTT
Found at i:27249589 original size:21 final size:21
Alignment explanation
Indices: 27249565--27249607 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27249555 CAGCTATTTT
27249565 ACCTTTATAAGTTAAACTCGA
1 ACCTTTATAAGTTAAACTCGA
27249586 ACCTTTATAAGTTAAACTCGA
1 ACCTTTATAAGTTAAACTCGA
27249607 A
1 A
27249608 TTATGGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
ACCTTTATAAGTTAAACTCGA
Found at i:27250557 original size:3 final size:3
Alignment explanation
Indices: 27250543--27250578 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
27250533 GTCTAAGTGA
*
27250543 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27250579 GAATCTCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27252427 original size:21 final size:20
Alignment explanation
Indices: 27252395--27252433 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27252385 TTTGTCATGA
27252395 TTAGATTAAATTATTATATG
1 TTAGATTAAATTATTATATG
* *
27252415 TTAGCATTTAATTTTTATA
1 TTAG-ATTAAATTATTATA
27252434 ATTGTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTAGATTAAATTATTATATG
Found at i:27252874 original size:25 final size:25
Alignment explanation
Indices: 27252844--27252927 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
27252834 AAATATATGC
27252844 ACCATATATTAGCTATCAAAAGAAA
1 ACCATATATTAGCTATCAAAAGAAA
* * * *
27252869 ACCATACATATA--TACCGAAAATATATGC
1 ACCATATAT-TAGCTATC-AAAAGA-A--A
27252897 ACCATATATTAGCTATCAAAAGAAA
1 ACCATATATTAGCTATCAAAAGAAA
27252922 ACCATA
1 ACCATA
27252928 CATATATACC
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 3 0.07
25 19 0.43
26 3 0.07
27 3 0.07
28 13 0.30
29 3 0.07
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (25 bp):
ACCATATATTAGCTATCAAAAGAAA
Found at i:27252880 original size:29 final size:29
Alignment explanation
Indices: 27252846--27252934 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
27252836 ATATATGCAC
27252846 CATATATTAGCTATCAAAAGAAAACCATA
1 CATATATTAGCTATCAAAAGAAAACCATA
* * ** *
27252875 CATATA-TA-C---CGAAAATATATGCA-C
1 CATATATTAGCTATC-AAAAGAAAACCATA
27252899 CATATATTAGCTATCAAAAGAAAACCATA
1 CATATATTAGCTATCAAAAGAAAACCATA
27252928 CATATAT
1 CATATAT
27252935 ACCAATTCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
24 7 0.16
25 10 0.23
26 1 0.02
27 1 0.02
28 10 0.23
29 14 0.33
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.26
Consensus pattern (29 bp):
CATATATTAGCTATCAAAAGAAAACCATA
Found at i:27252896 original size:53 final size:53
Alignment explanation
Indices: 27252833--27252937 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
27252823 TAACATTTTC
27252833 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACCG
1 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACCG
27252886 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACC
1 AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACC
27252938 AATTCATAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.25
Consensus pattern (53 bp):
AAAATATATGCACCATATATTAGCTATCAAAAGAAAACCATACATATATACCG
Found at i:27262044 original size:20 final size:20
Alignment explanation
Indices: 27262019--27262057 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27262009 CAGTCGCAAT
27262019 ATCAGTGTGGGCCTTAGCCA
1 ATCAGTGTGGGCCTTAGCCA
27262039 ATCAGTGTGGGCCTTAGCC
1 ATCAGTGTGGGCCTTAGCC
27262058 CACTTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
ATCAGTGTGGGCCTTAGCCA
Found at i:27266089 original size:8 final size:8
Alignment explanation
Indices: 27266076--27266104 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27266066 GGATCCTCTC
27266076 TTTTTCTT
1 TTTTTCTT
27266084 TTTTTC-T
1 TTTTTCTT
27266091 TTTTTCTT
1 TTTTTCTT
27266099 TTTTTC
1 TTTTTC
27266105 ATCTTCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:27266096 original size:15 final size:15
Alignment explanation
Indices: 27266076--27266104 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27266066 GGATCCTCTC
27266076 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
27266091 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
27266105 ATCTTCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:27268987 original size:26 final size:26
Alignment explanation
Indices: 27268956--27269063 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27268946 TGAAATTCCC
*
27268956 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27268982 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27269008 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
27269034 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27269060 ATCA
1 ATCA
27269064 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27271848 original size:14 final size:15
Alignment explanation
Indices: 27271824--27271852 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27271814 CAATTCTTTA
27271824 ATTTAAAAATTAATT
1 ATTTAAAAATTAATT
27271839 ATTT-AAAATTAATT
1 ATTTAAAAATTAATT
27271853 TAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAAAATTAATT
Found at i:27273090 original size:38 final size:38
Alignment explanation
Indices: 27273039--27273115 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
27273029 GTTGAGAATT
27273039 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
1 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
27273077 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
1 GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
27273115 G
1 G
27273116 TATATGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (38 bp):
GAATGATTTAGGTGTTAAATTGTTAGAAATTAAGCTTA
Found at i:27273134 original size:38 final size:38
Alignment explanation
Indices: 27273054--27273137 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
27273044 ATTTAGGTGT
** ** *
27273054 TAAATTGTTAGAAATTAAGCTTAGAATGATTTAGGTGT
1 TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATGC
*
27273092 TAAATTGTTAGAAATTAAGCTTAGTAT-ATGAAAATGAC
1 TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATG-C
27273130 TAAATTGT
1 TAAATTGT
27273138 AAGCTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 5 0.13
38 34 0.87
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (38 bp):
TAAATTGTTAGAAATTAAGCTTAGAATGATGAAAATGC
Found at i:27277870 original size:40 final size:40
Alignment explanation
Indices: 27277825--27277950 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
27277815 CGAACACAAC
*
27277825 AACAGAAGCTCATAAGAGCTGATCCAACTAAAATACGCCA
1 AACAGAAGCTCATAAGAGCTGATCCACCTAAAATACGCCA
* * *
27277865 AACAGAAGCTCATAAGAGCT-AGTCCACCCAAAACATGCC-
1 AACAGAAGCTCATAAGAGCTGA-TCCACCTAAAATACGCCA
*
27277904 AACAGAAGCTCATAAGAGCTGATCCACCT-GAATCACGCCA
1 AACAGAAGCTCATAAGAGCTGATCCACCTAAAAT-ACGCCA
27277944 AACAGAA
1 AACAGAA
27277951 AGTATAACGC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.03
39 31 0.42
40 41 0.55
ACGTcount: A:0.43, C:0.28, G:0.16, T:0.13
Consensus pattern (40 bp):
AACAGAAGCTCATAAGAGCTGATCCACCTAAAATACGCCA
Found at i:27281619 original size:26 final size:26
Alignment explanation
Indices: 27281590--27281697 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
27281580 TGATACAAAT
27281590 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27281616 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27281642 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27281668 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27281694 TGAT
1 TGAT
27281698 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27283356 original size:27 final size:27
Alignment explanation
Indices: 27283316--27283456 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 27
27283306 AGGAAGCATC
*
27283316 CTGGTGGCTATGCCGCAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
27283343 CTGGTGGCTTTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
27283369 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* *
27283397 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* * *
27283424 CTAGTGGCTTTTCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
*
27283451 TTGGTG
1 CTGGTG
27283457 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:27283396 original size:54 final size:54
Alignment explanation
Indices: 27283314--27283456 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
27283304 GAAGGAAGCA
* *
27283314 TCCTGGTGGCTATGCCGCAATTATCTGATCTGGTGGCTTTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
27283368 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* * * * *
27283422 TTCTAGTGGCTTTTCCACAA-TATCTGTATTTGGTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
27283457 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:27286869 original size:12 final size:12
Alignment explanation
Indices: 27286852--27286877 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27286842 ACTACCACCA
27286852 ATTAATACAATG
1 ATTAATACAATG
27286864 ATTAATACAATG
1 ATTAATACAATG
27286876 AT
1 AT
27286878 AACTCACTAA
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:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATTAATACAATG
Found at i:27287095 original size:7 final size:8
Alignment explanation
Indices: 27287076--27287109 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
27287066 TTTTTACTTA
27287076 AAAAATTT
1 AAAAATTT
27287084 AAAAATTT
1 AAAAATTT
27287092 AAAAATTT
1 AAAAATTT
27287100 -AAAATTT
1 AAAAATTT
27287107 AAA
1 AAA
27287110 TCTATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAAATTT
Found at i:27287097 original size:16 final size:15
Alignment explanation
Indices: 27287076--27287109 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
27287066 TTTTTACTTA
27287076 AAAAATTTAAAAATTT
1 AAAAATTT-AAAATTT
27287092 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
27287107 AAA
1 AAA
27287110 TCTATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:27287283 original size:10 final size:11
Alignment explanation
Indices: 27287256--27287285 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
27287246 ACTCCCTCTT
27287256 TTCTTTTTTAC
1 TTCTTTTTTAC
27287267 TTCTTTTTTAC
1 TTCTTTTTTAC
27287278 TT-TTTTTT
1 TTCTTTTTT
27287286 CCCACAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTTTTTTAC
Found at i:27288782 original size:18 final size:18
Alignment explanation
Indices: 27288739--27288784 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
27288729 AGTTTATTTT
* *
27288739 TTATTTATATTATAATAT
1 TTATTTTTATTATAATAG
* *
27288757 TTAATTTTATTATAATCG
1 TTATTTTTATTATAATAG
27288775 TTATTTTTAT
1 TTATTTTTAT
27288785 ATTAATTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATTTTTATTATAATAG
Found at i:27292246 original size:9 final size:9
Alignment explanation
Indices: 27292232--27292257 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27292222 TAAAGATAAA
27292232 AAAAAAAAG
1 AAAAAAAAG
27292241 AAAAAAAAG
1 AAAAAAAAG
27292250 AAAAAAAA
1 AAAAAAAA
27292258 AAGAAGAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:27292246 original size:11 final size:11
Alignment explanation
Indices: 27292223--27292262 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
27292213 TCCCATTCTT
27292223 AAAGATAAAAAA
1 AAAGA-AAAAAA
27292235 AAA-AAGAAAAA
1 AAAGAA-AAAAA
27292246 AAAGAAAAAAA
1 AAAGAAAAAAA
27292257 AAAGAA
1 AAAGAA
27292263 GAAGCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.04
11 20 0.77
12 5 0.19
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:27292246 original size:14 final size:15
Alignment explanation
Indices: 27292223--27292265 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
27292213 TCCCATTCTT
*
27292223 AAAGATAAAAAA-AA
1 AAAGAAAAAAAAGAA
27292237 AAAGAAAAAAAAGAA
1 AAAGAAAAAAAAGAA
*
27292252 AAA-AAAAAGAAGAA
1 AAAGAAAAAAAAGAA
27292266 GCAAAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAAAGAA
Found at i:27292273 original size:14 final size:12
Alignment explanation
Indices: 27292229--27292265 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
27292219 TCTTAAAGAT
*
27292229 AAAAAAAAAAAG
1 AAAAAAAAGAAG
27292241 AAAAAAAAGAA-
1 AAAAAAAAGAAG
27292252 AAAAAAAAGAAG
1 AAAAAAAAGAAG
27292264 AA
1 AA
27292266 GCAAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:27293385 original size:33 final size:33
Alignment explanation
Indices: 27293343--27293410 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
27293333 AAATTTATAA
*
27293343 ATATGAGGTAAATATATAATATATGTGGAAACT
1 ATATGAGGTAAATATATAATATATATGGAAACT
27293376 ATATGAGGTAAATATATAATATATATGGAAACT
1 ATATGAGGTAAATATATAATATATATGGAAACT
27293409 AT
1 AT
27293411 CTATTTAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (33 bp):
ATATGAGGTAAATATATAATATATATGGAAACT
Found at i:27293767 original size:41 final size:41
Alignment explanation
Indices: 27293709--27293792 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
27293699 CTTACCACAT
* * *
27293709 ATAATTTTTTTATTTTTTAAAAAAGATTAAAGTACCCTTAA
1 ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
*
27293750 ATAAATTTTTTATTTTTTTAAAAAGACTAAAGTACCCTAAA
1 ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
27293791 AT
1 AT
27293793 TTCAGCCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (41 bp):
ATAAATTTTTTATTTTTTAAAAAAGACTAAAGTACCCTAAA
Found at i:27293890 original size:30 final size:29
Alignment explanation
Indices: 27293834--27293891 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
27293824 TGTTTAATAT
27293834 AAATAAGGTCCTTAATTTTGTTAAAAAAA
1 AAATAAGGTCCTTAATTTTGTTAAAAAAA
* * *
27293863 AAATAAGTTCCTTAATTTTTTTTAAAAAA
1 AAATAAGGTCCTTAATTTTGTTAAAAAAA
27293892 TATGTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (29 bp):
AAATAAGGTCCTTAATTTTGTTAAAAAAA
Found at i:27295268 original size:21 final size:21
Alignment explanation
Indices: 27295244--27295283 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27295234 AATAAAAATA
27295244 TTTTT-ATAATTTTTGTACTC
1 TTTTTAATAATTTTTGTACTC
27295264 TTTTTAATAATTTTTGTACT
1 TTTTTAATAATTTTTGTACT
27295284 TTTGAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTTAATAATTTTTGTACTC
Found at i:27312982 original size:46 final size:48
Alignment explanation
Indices: 27312836--27313193 Score: 268
Period size: 46 Copynumber: 7.6 Consensus size: 48
27312826 TCATTTGTGT
* *
27312836 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCAC-ATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGA-GATGTAGA
* * * *
27312882 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTA--TTGAGACG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC-G-ACCTCGAGATGTAGA
27312930 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAGA
27312976 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGA-CTACGAGATGT-G-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGTAGA
* * *
27313021 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAGATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-CTCGAGATGT-AGA
* * * * ** *
27313070 GCCAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCG-ATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGAT-GTAGA
* * * *
27313119 G-TCAGTGTAAGACCATGTCTGGGACGTGGCACCGA-CT--TGATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGTA-GA
* *
27313166 GCCATTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
27313194 TCATTGATAT
Statistics
Matches: 255, Mismatches: 33, Indels: 48
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.04
45 19 0.07
46 80 0.31
47 51 0.20
48 25 0.10
49 34 0.13
50 35 0.14
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAGA
Found at i:27313080 original size:94 final size:93
Alignment explanation
Indices: 27312839--27313193 Score: 300
Period size: 94 Copynumber: 3.8 Consensus size: 93
27312829 TTTGTGTGCT
* * * *
27312839 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-A-TTATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCACGAGATGTGAGAGCCAGTGTAAGACCATGTCT
* * * * *
27312902 GGGACATGGCATC-AGTATTGAGACGAGAGC
65 GGGACATGGCATCGACTA-CGAGATGTG-TC
* * *
27312932 TAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGT-A-AGCTAGTGTAAGA-CATGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCG-GCACGAGATGTGAGAGCCAGTGTAAGACCATGTC
27312994 TGGGACAT-GCATCGACTACGAGATGTGTC
64 TGGGACATGGCATCGACTACGAGATGTGTC
27313023 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGATGTGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC-GAGATGTGAGAGCCAGTGTAAGACCATGT
* * * **
27313088 CTGGGACATGGCGTTGGCCT-CGATTTCGATAGTC
63 CTGGGACATGGC-ATCGACTACGAGAT-G-T-GTC
* * ** *
27313122 AGTGTAAGACCATGTCTGGGACGTGGCA-CCG-ACTTGATG-GATGAGCCATTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACGAGATGTGA-GAGCCAGTGTAAGACCATGT
27313184 CTGGGACATG
63 CTGGGACATG
27313194 TCATTGATAT
Statistics
Matches: 223, Mismatches: 23, Indels: 28
0.81 0.08 0.10
Matches are distributed among these distances:
90 9 0.04
91 17 0.08
92 24 0.11
93 17 0.08
94 57 0.26
95 18 0.08
96 41 0.18
97 7 0.03
98 3 0.01
99 30 0.13
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGTGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGACTACGAGATGTGTC
Found at i:27318856 original size:47 final size:44
Alignment explanation
Indices: 27318785--27318954 Score: 150
Period size: 47 Copynumber: 3.7 Consensus size: 44
27318775 CATTTGTGCA
*
27318785 CTAGTGTAAGACATGTCTGGGACATGCAT-GGACCACATT-ATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG----CATTGATGAAAG
*
27318831 CTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGATGAAAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT--GATGAAAG
* **
27318879 CTAGTGTAAGACATGTCTGGGACATGCATCGGC-TACGA-GATGTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGATGA-AAG
*
27318923 TTAGTGTAAGACCATGTCTGGGACATGGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC
27318955 AACATAAAGA
Statistics
Matches: 107, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
43 2 0.02
44 13 0.12
45 19 0.18
46 24 0.22
47 26 0.24
48 21 0.20
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGAAAG
Found at i:27318920 original size:46 final size:46
Alignment explanation
Indices: 27318785--27319003 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 46
27318775 CATTTGTGCA
*
27318785 CTAGTGTAAGA-CATGTCTGGGACAT-GCAT-GGACCAC-ATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG--CACGA-GATGA-AG
* *
27318831 CTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGATGAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGATG-AAG
*
27318879 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATG-TG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAGATGAAG
* ** **
27318923 TTAGTGTAAGACCATGTCTGGGACATGGCATCAACATAAAGATGTGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGA--TGA-AG
* *
27318973 CCAGTGTAAGACCATGTTTGGGACATGGCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCAT
27319004 TAGCCTCGAT
Statistics
Matches: 144, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
44 11 0.08
45 15 0.10
46 34 0.24
47 29 0.20
48 22 0.15
49 4 0.03
50 29 0.20
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGATGAAG
Found at i:27318953 original size:92 final size:94
Alignment explanation
Indices: 27318785--27318999 Score: 249
Period size: 94 Copynumber: 2.3 Consensus size: 94
27318775 CATTTGTGCA
*
27318785 CTAGTGTAAGACATGTCTGGGACATGCATGGACCACATTATGAGAGCTAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATGGACCACATGAT-AGAGCTAGTGTAAGACCATGTCT
** **
27318850 GAGACATGGCATCGGCATTGAGA-TGAAAG
65 GAGACATGGCATCAACATAAAGAGTGAAAG
* * *
27318879 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGA-GAT-GTGTTAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCAT-GGACCAC-ATGATAGAGCTAGTGTAAGACCATGTC
* *
27318941 TGGGACATGGCATCAACATAAAGATGTGAGAG
64 TGAGACATGGCATCAACATAAAGA-GTGAAAG
* *
27318973 CCAGTGTAAGACCATGTTTGGGACATG
1 CTAGTGTAAGA-CATGTCTGGGACATG
27319000 GCATTAGCCT
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
92 38 0.37
94 49 0.47
95 17 0.16
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATGGACCACATGATAGAGCTAGTGTAAGACCATGTCTG
AGACATGGCATCAACATAAAGAGTGAAAG
Found at i:27318989 original size:50 final size:50
Alignment explanation
Indices: 27318825--27319003 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
27318815 GACCACATTA
* *
27318825 TGAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGA--
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATG
*
27318873 TGAAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATA-GAGATG
* ** *
27318921 T----GTTAGTGTAAGACCATGTCTGGGACATGGCATCAACATAAAGATG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATG
* *
27318967 TGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
27319004 TAGCCTCGAT
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 24 0.22
47 15 0.14
48 17 0.15
50 29 0.26
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (50 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATG
Found at i:27320151 original size:17 final size:16
Alignment explanation
Indices: 27320125--27320156 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
27320115 CGTGTGTGGG
27320125 ACACTGGCCATAGACC
1 ACACTGGCCATAGACC
27320141 ACACATGGCCATAGAC
1 ACAC-TGGCCATAGAC
27320157 ACGGGCATGT
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:0.34, C:0.34, G:0.19, T:0.12
Consensus pattern (16 bp):
ACACTGGCCATAGACC
Found at i:27325003 original size:4 final size:4
Alignment explanation
Indices: 27324994--27325031 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
27324984 TAAATTCTCC
*
27324994 TTCT TTCT TTCT TTCT TTCT CTT-T TTCT TTCC TTCT TT
1 TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TT
27325032 TCCCTCTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:27328513 original size:24 final size:24
Alignment explanation
Indices: 27328492--27328540 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27328482 ATGTTCATTA
27328492 TAATCAACCTTTCACCTTTCATCT
1 TAATCAACCTTTCACCTTTCATCT
* * *
27328516 TATTCAGCTTTTCACCTTTCATCT
1 TAATCAACCTTTCACCTTTCATCT
27328540 T
1 T
27328541 TTTGTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATCAACCTTTCACCTTTCATCT
Found at i:27334443 original size:7 final size:7
Alignment explanation
Indices: 27334431--27334456 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27334421 AAAATCTAAG
27334431 CAAAAAC
1 CAAAAAC
27334438 CAAAAAC
1 CAAAAAC
27334445 CAAAAAC
1 CAAAAAC
27334452 CAAAA
1 CAAAA
27334457 CTCAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:27338502 original size:13 final size:13
Alignment explanation
Indices: 27338484--27338534 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
27338474 CGTGTGCCTT
27338484 ACACGCTTAGTAG
1 ACACGCTTAGTAG
**
27338497 ACACGCTCGT-GTCTT
1 ACACGCT--TAGT-AG
27338512 ACACGCTTAGTAG
1 ACACGCTTAGTAG
27338525 ACACGCTTAG
1 ACACGCTTAG
27338535 CATACATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
13 18 0.60
14 4 0.13
15 8 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (13 bp):
ACACGCTTAGTAG
Found at i:27339723 original size:26 final size:26
Alignment explanation
Indices: 27339694--27339793 Score: 77
Period size: 23 Copynumber: 4.1 Consensus size: 26
27339684 CTTTCGAGCC
* *
27339694 ATGATCGGTAAGCTCCTCCTGAGCTG
1 ATGAACGGTAAGCTCCTACTGAGCTG
* *
27339720 ATGAACAGTAAGCT-CTATTGAGCTG
1 ATGAACGGTAAGCTCCTACTGAGCTG
*
27339745 A--AACGGTAAGCTCC-AATGAGCTG
1 ATGAACGGTAAGCTCCTACTGAGCTG
* ** *
27339768 A-AAATAGTAAGCTCTTAC-GAGCTG
1 ATGAACGGTAAGCTCCTACTGAGCTG
27339792 AT
1 AT
27339794 ATATTGATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
23 19 0.32
24 18 0.30
25 11 0.18
26 12 0.20
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (26 bp):
ATGAACGGTAAGCTCCTACTGAGCTG
Found at i:27339790 original size:47 final size:49
Alignment explanation
Indices: 27339699--27339792 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 49
27339689 GAGCCATGAT
** * *
27339699 CGGTAAGCTCCTCCTGAGCTGATGAACAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCTCCTAATGAGCTGATAAACAGTAAGCTCTATCGAGCTGAAA
*
27339748 CGGTAAGCTCC-AATGAGCTGA-AAATAGTAAGCTCT-TACGAGCTGA
1 CGGTAAGCTCCTAATGAGCTGATAAACAGTAAGCTCTAT-CGAGCTGA
27339793 TATATTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
46 1 0.03
47 19 0.49
48 8 0.21
49 11 0.28
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (49 bp):
CGGTAAGCTCCTAATGAGCTGATAAACAGTAAGCTCTATCGAGCTGAAA
Found at i:27341310 original size:11 final size:11
Alignment explanation
Indices: 27341290--27341325 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
27341280 ATTAGATAAA
*
27341290 TAATAATTTAT
1 TAATATTTTAT
*
27341301 TAATATTTTAA
1 TAATATTTTAT
27341312 TAATATTTTAT
1 TAATATTTTAT
27341323 TAA
1 TAA
27341326 AAATAGCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:27342391 original size:27 final size:27
Alignment explanation
Indices: 27342360--27342455 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 27
27342350 GACTATGACT
*
27342360 TAAGTAGACAGCTTTGATATGAACACA
1 TAAGTAGATAGCTTTGATATGAACACA
*
27342387 TAAGTAAATAG-TGGAATT-ATATGAACA-A
1 TAAGTAGATAGCT----TTGATATGAACACA
*
27342415 TTAAGTAGATAGCTTTGATATGAATACA
1 -TAAGTAGATAGCTTTGATATGAACACA
*
27342443 TAAGTAAATAGCT
1 TAAGTAGATAGCT
27342456 AAAGATTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
26 3 0.05
27 29 0.52
28 2 0.04
29 19 0.34
30 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (27 bp):
TAAGTAGATAGCTTTGATATGAACACA
Found at i:27344504 original size:12 final size:12
Alignment explanation
Indices: 27344482--27344522 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
27344472 CAACTTAGCA
*
27344482 GAATAAAAATA-
1 GAATAACAATAT
27344493 GAAATAACAATAT
1 G-AATAACAATAT
27344506 GAATAACAATAT
1 GAATAACAATAT
27344518 -AATAA
1 GAATAA
27344523 AACAAATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.22
12 20 0.74
13 1 0.04
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (12 bp):
GAATAACAATAT
Found at i:27344543 original size:16 final size:16
Alignment explanation
Indices: 27344516--27344555 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
27344506 GAATAACAAT
27344516 ATAATAAAACAAATAAG
1 ATAAT-AAACAAATAAG
27344533 ATAATAAACAAATAAG
1 ATAATAAACAAATAAG
27344549 ATAATAA
1 ATAATAA
27344556 TAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (16 bp):
ATAATAAACAAATAAG
Found at i:27344946 original size:2 final size:2
Alignment explanation
Indices: 27344939--27344978 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
27344929 GACTGCGTGC
*
27344939 GT GT GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
27344979 TAGAAGAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:27348144 original size:43 final size:43
Alignment explanation
Indices: 27348043--27348245 Score: 201
Period size: 43 Copynumber: 4.7 Consensus size: 43
27348033 TTATGTAAAA
* * ** * *
27348043 AAATGCCGCTAAAGAACATGACCTTTAGTGGCGTTTTTGAGA-
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
** *
27348085 AAGCGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACAC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
* * * * *
27348128 AAATACTGCTAAAGAACGTGACCTTTAACGGCGCATTCCATAC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
* * * * *
27348171 AAACGCCGTTAAGGGACGTGACCTTTAGCGGCGCCTCTCATAC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
** *
27348214 AAATGCCGCTAAAGAATATGACTTTTAGCGGC
1 AAATGCCGCTAAAGAACGTGACCTTTAGCGGC
27348246 ACTTTTACAA
Statistics
Matches: 127, Mismatches: 33, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 34 0.27
43 93 0.73
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (43 bp):
AAATGCCGCTAAAGAACGTGACCTTTAGCGGCGCCTTTCATAC
Found at i:27349090 original size:13 final size:14
Alignment explanation
Indices: 27349064--27349092 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27349054 ACTAACGACG
27349064 AATTAAACCATTAT
1 AATTAAACCATTAT
27349078 AATTAAA-CATTAT
1 AATTAAACCATTAT
27349091 AA
1 AA
27349093 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:27354134 original size:27 final size:27
Alignment explanation
Indices: 27354105--27354329 Score: 132
Period size: 27 Copynumber: 7.9 Consensus size: 27
27354095 TATGATATTT
*
27354105 ATTTATGTCAGTTATGTAAATTATGATA
1 ATTTATGTAAGTTATGTAAATTATG-TA
* *
27354133 TTCATTTATGTCAGTTATGTAAATTGTGTA
1 ---ATTTATGTAAGTTATGTAAATTATGTA
* *
27354163 AGTTATGTAAATTATGTAAATTATGTA
1 ATTTATGTAAGTTATGTAAATTATGTA
* *
27354190 ACTTATGTAAGTTATGTAAGTTATG-A
1 ATTTATGTAAGTTATGTAAATTATGTA
* * *
27354216 CATTTATGGTATGATATATATTTATGCATTATGTA
1 -ATTTAT-GTA--A-GT-TATGTA--AATTATGTA
* * * *
27354251 AGTTATGTAAGTTATG-ATATGATATA
1 ATTTATGTAAGTTATGTAAATTATGTA
* *
27354277 TATTTATATAAGTTATGTAAGTTATGT-
1 -ATTTATGTAAGTTATGTAAATTATGTA
* * *
27354304 ATGTTATGTGAGGTATGTAAGTTATG
1 AT-TTATGTAAGTTATGTAAATTATG
27354330 ATATGATATA
Statistics
Matches: 154, Mismatches: 28, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
26 9 0.06
27 84 0.55
28 9 0.06
29 3 0.02
30 4 0.03
31 26 0.17
32 5 0.03
33 3 0.02
34 10 0.06
35 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTATGTAAGTTATGTAAATTATGTA
Found at i:27354152 original size:9 final size:9
Alignment explanation
Indices: 27354138--27354368 Score: 159
Period size: 9 Copynumber: 25.9 Consensus size: 9
27354128 TGATATTCAT
*
27354138 TTATGTCAG
1 TTATGTAAG
*
27354147 TTATGTAAA
1 TTATGTAAG
*
27354156 TTGTGTAAG
1 TTATGTAAG
*
27354165 TTATGTAAA
1 TTATGTAAG
*
27354174 TTATGTAAA
1 TTATGTAAG
*
27354183 TTATGTAAC
1 TTATGTAAG
27354192 TTATGTAAG
1 TTATGTAAG
27354201 TTATGTAAG
1 TTATGTAAG
*
27354210 TTATG-ACAT
1 TTATGTA-AG
*
27354219 TTATGGTATG
1 TTAT-GTAAG
* * *
27354229 ATATAT-AT
1 TTATGTAAG
*
27354237 TTATG-CA-
1 TTATGTAAG
27354244 TTATGTAAG
1 TTATGTAAG
27354253 TTATGTAAG
1 TTATGTAAG
*
27354262 TTATGATATG
1 TTATG-TAAG
* * *
27354272 ATATAT-AT
1 TTATGTAAG
*
27354280 TTATATAAG
1 TTATGTAAG
27354289 TTATGTAAG
1 TTATGTAAG
*
27354298 TTATGTATG
1 TTATGTAAG
*
27354307 TTATGTGAG
1 TTATGTAAG
*
27354316 GTATGTAAG
1 TTATGTAAG
*
27354325 TTATGATATG
1 TTATG-TAAG
* * *
27354335 ATATAT-AT
1 TTATGTAAG
27354343 TTATGTAAG
1 TTATGTAAG
*
27354352 GTATGTAAG
1 TTATGTAAG
27354361 TTATGTAA
1 TTATGTAA
27354369 TTTTAAAGAA
Statistics
Matches: 170, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
7 5 0.03
8 15 0.09
9 133 0.78
10 16 0.09
11 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27354327 original size:63 final size:63
Alignment explanation
Indices: 27354244--27354367 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
27354234 TATTTATGCA
* *
27354244 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAGTTATGTATG
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTATG
* *
27354307 TTATGTGAGGTATGTAAGTTATGATATGATATATATTTATGTAAGGTATGTAAGTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTA
27354368 ATTTTAAAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (63 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATATAAGGTATGTAAGTTATGTATG
Found at i:27358053 original size:14 final size:14
Alignment explanation
Indices: 27358006--27358053 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
27357996 CACTAACCCT
* *
27358006 AAACCATAAACTTT
1 AAACCTTAAACTTA
* *
27358020 GAACCTTAAATCTCA
1 AAACCTTAAA-CTTA
27358035 AAACCTTAAACTTA
1 AAACCTTAAACTTA
27358049 AAACC
1 AAACC
27358054 CCTATCCCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
AAACCTTAAACTTA
Found at i:27358666 original size:41 final size:41
Alignment explanation
Indices: 27358604--27358773 Score: 171
Period size: 41 Copynumber: 4.1 Consensus size: 41
27358594 ATAAAATGTT
* * * *
27358604 TTTTGCGGCGTTTTTAGCATAAACGCCACTAATTCTAAACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* ** **
27358645 TTTTGCTGCGTTTTTCTCATAAACGCCGCTAATTATGGACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* ** **
27358686 TTTTG-TGGCGTTTTTCTCATAAACATCGCTAATGCTGGACC
1 TTTTGCT-GCGTTTTTATCATAAACGCCGCTAATGCTAAACC
* * *
27358727 TTTTGCAGCGTTTTTATCATAAACGTCGTTAATGCTAAACC
1 TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
27358768 TTTTGC
1 TTTTGC
27358774 GGCATTTTCC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 109 0.99
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (41 bp):
TTTTGCTGCGTTTTTATCATAAACGCCGCTAATGCTAAACC
Found at i:27359277 original size:33 final size:33
Alignment explanation
Indices: 27359213--27359278 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
27359203 TACGTTTTCG
* *
27359213 AGTGACTAATTTGTCACTTTCGTAAATTTTAATT
1 AGTGACTAAATTGTAACTTTCG-AAATTTTAATT
27359247 AGTGACTAAATTGTAACCTTTC-AAATTTTAAT
1 AGTGACTAAATTGTAA-CTTTCGAAATTTTAAT
27359279 GAATGATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.34
34 14 0.48
35 5 0.17
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (33 bp):
AGTGACTAAATTGTAACTTTCGAAATTTTAATT
Found at i:27366514 original size:22 final size:23
Alignment explanation
Indices: 27366489--27366537 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
27366479 ATGTTTTTAC
27366489 TTTTATTCTAT-TTTAAGAC-TATT
1 TTTTATT-TATCTTTAAG-CTTATT
*
27366512 TTTTATTTTTCTTTAAGCTTATT
1 TTTTATTTATCTTTAAGCTTATT
27366535 TTT
1 TTT
27366538 ATTAGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTATTTATCTTTAAGCTTATT
Found at i:27371055 original size:16 final size:17
Alignment explanation
Indices: 27371019--27371056 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27371009 AAGGTAAAAT
27371019 AATTTTTTTACCTTTTC
1 AATTTTTTTACCTTTTC
*
27371036 -ATTTTTTTA-TTTTTC
1 AATTTTTTTACCTTTTC
27371051 AATTTT
1 AATTTT
27371057 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTTTTACCTTTTC
Found at i:27371517 original size:43 final size:42
Alignment explanation
Indices: 27371396--27371582 Score: 164
Period size: 43 Copynumber: 4.4 Consensus size: 42
27371386 TTTAGAAAAA
* * * *
27371396 AAAAACACCGCTAAAGACCAGAACCTTTAGCGGCACTTTTCCT
1 AAAAACGCCGCTAAAAACCAG-ACCTTTAGCGGCGCTTTTCTT
* * *
27371439 AAAAATGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTCTT
1 AAAAACGCCGCTAAAAACCA-GACCTTTAGCGGCGCTTTTCTT
* *
27371482 AAAAACGCCGCTAAAAACCATGACATTTAGTGGCGCATTTT-TT
1 AAAAACGCCGCTAAAAACCA-GACCTTTAGCGGCGC-TTTTCTT
* * * * * * *
27371525 CAAGACGTCACTATATAA-CAGACCTTTAGCGACG-TTTTTTT
1 AAAAACGCCGCTA-AAAACCAGACCTTTAGCGGCGCTTTTCTT
27371566 AAAAACGCCGCTAAAAA
1 AAAAACGCCGCTAAAAA
27371583 ATATAAACTT
Statistics
Matches: 118, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
40 7 0.06
41 11 0.09
42 11 0.09
43 81 0.69
44 8 0.07
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAAACCAGACCTTTAGCGGCGCTTTTCTT
Found at i:27375669 original size:7 final size:7
Alignment explanation
Indices: 27375659--27375714 Score: 112
Period size: 7 Copynumber: 8.0 Consensus size: 7
27375649 TAAAATATTA
27375659 AATTTTT
1 AATTTTT
27375666 AATTTTT
1 AATTTTT
27375673 AATTTTT
1 AATTTTT
27375680 AATTTTT
1 AATTTTT
27375687 AATTTTT
1 AATTTTT
27375694 AATTTTT
1 AATTTTT
27375701 AATTTTT
1 AATTTTT
27375708 AATTTTT
1 AATTTTT
27375715 TTAAAGATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:27375733 original size:9 final size:8
Alignment explanation
Indices: 27375656--27375740 Score: 83
Period size: 7 Copynumber: 10.9 Consensus size: 8
27375646 AACTAAAATA
27375656 TTAAATTT
1 TTAAATTT
27375664 TT-AATTT
1 TTAAATTT
27375671 TT-AATTT
1 TTAAATTT
27375678 TT-AATTT
1 TTAAATTT
27375685 TT-AATTT
1 TTAAATTT
27375692 TT-AATTT
1 TTAAATTT
27375699 TT-AATTT
1 TTAAATTT
*
27375706 TTAATTTTT
1 TTAA-ATTT
27375715 TTAAAGATTT
1 TT-AA-ATTT
27375725 TTATAATTT
1 TTA-AATTT
27375734 TTAAATT
1 TTAAATT
27375741 AACATATAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
7 42 0.60
8 7 0.10
9 13 0.19
10 8 0.11
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (8 bp):
TTAAATTT
Found at i:27375916 original size:28 final size:27
Alignment explanation
Indices: 27375885--27375957 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
27375875 AATTTTATTT
* *
27375885 TTATATTTTAGGGTTTGTGATTTATGGG
1 TTATATTTTAGGGTTTGGGATTTAT-GA
*
27375913 TTATAGTTTAGGGTTTGGGATTTATGA
1 TTATATTTTAGGGTTTGGGATTTATGA
27375940 TCTATATTTTACGGGTTT
1 T-TATATTTTA-GGGTTT
27375958 AAAAGTTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 2 0.05
28 31 0.79
29 6 0.15
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (27 bp):
TTATATTTTAGGGTTTGGGATTTATGA
Found at i:27376882 original size:41 final size:40
Alignment explanation
Indices: 27376758--27376885 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
27376748 AATAGTTTAG
* * * *
27376758 ATCTATAGTGGCGTTTTTAAAAAAGCGCCGCCAAAACTCA
1 ATCTATTGCGGCGTTTTTAAAAAAGCGCCGCTAATACTCA
* ** * * * *
27376798 AGCTATTGCGGCGTTTTCCACAAAGCGCCGCTATTGCTTA
1 ATCTATTGCGGCGTTTTTAAAAAAGCGCCGCTAATACTCA
* *
27376838 ATCTTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATACTCA
1 ATCTATT-GCGGCGTTTTTAAAAAAGCGCCGCTAATACTCA
27376879 ATCTATT
1 ATCTATT
27376886 CGATTTTTAG
Statistics
Matches: 67, Mismatches: 20, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
40 34 0.51
41 33 0.49
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (40 bp):
ATCTATTGCGGCGTTTTTAAAAAAGCGCCGCTAATACTCA
Found at i:27379737 original size:3 final size:3
Alignment explanation
Indices: 27379729--27379756 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27379719 GCTTTGCGTG
27379729 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27379757 AAGTACAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27382121 original size:3 final size:3
Alignment explanation
Indices: 27382113--27382145 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27382103 GAAAGAGCAC
27382113 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27382146 GCAAATTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27384017 original size:30 final size:31
Alignment explanation
Indices: 27383981--27384038 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
27383971 AAAAATCAAG
* *
27383981 AAAATTAACATCAGAAAC-AAAATCCATTAA
1 AAAATTAACATAACAAACAAAAATCCATTAA
27384011 AAAATTAACATAACAAACAAAAATCCAT
1 AAAATTAACATAACAAACAAAAATCCAT
27384039 CAATCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.19
Consensus pattern (31 bp):
AAAATTAACATAACAAACAAAAATCCATTAA
Found at i:27384605 original size:17 final size:18
Alignment explanation
Indices: 27384565--27384609 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
27384555 TAGGGTTTGG
*
27384565 AAAGAGAATAGAAGAATA
1 AAAGAAAATAGAAGAATA
*
27384583 AGAAGAAAATA-AATAATA
1 A-AAGAAAATAGAAGAATA
27384601 AAAGAAAAT
1 AAAGAAAAT
27384610 GGAAACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (18 bp):
AAAGAAAATAGAAGAATA
Found at i:27384666 original size:20 final size:18
Alignment explanation
Indices: 27384630--27384683 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
27384620 ACAGGAAATG
27384630 AAAGGG-AAAGAATAAAAGA
1 AAAGGGAAAAGAA-AAAA-A
*
27384649 AGAGGGAAAAGAAAAAAA
1 AAAGGGAAAAGAAAAAAA
*
27384667 AAAGTGAAATAGAAAAA
1 AAAGGGAAA-AGAAAAA
27384684 TAAAGTCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.27
19 16 0.53
20 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (18 bp):
AAAGGGAAAAGAAAAAAA
Found at i:27388022 original size:14 final size:14
Alignment explanation
Indices: 27388003--27388030 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27387993 TAAAATTAAA
27388003 CATAATTTATACAT
1 CATAATTTATACAT
27388017 CATAATTTATACAT
1 CATAATTTATACAT
27388031 AACATAATAT
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:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
CATAATTTATACAT
Found at i:27419386 original size:13 final size:13
Alignment explanation
Indices: 27419368--27419392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27419358 ACAACAATTT
27419368 TTGTTGCTAGCAA
1 TTGTTGCTAGCAA
27419381 TTGTTGCTAGCA
1 TTGTTGCTAGCA
27419393 GAGTTTGTTT
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (13 bp):
TTGTTGCTAGCAA
Found at i:27443104 original size:34 final size:34
Alignment explanation
Indices: 27443061--27443128 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
27443051 GCATTTTTGA
* *
27443061 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTAT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTAT
*
27443094 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTAT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTAT
27443129 TCAATTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTAT
Found at i:27446955 original size:17 final size:17
Alignment explanation
Indices: 27446933--27446968 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27446923 AGAAAATGAG
27446933 TTAGAAAATTCATTAGC
1 TTAGAAAATTCATTAGC
27446950 TTAGAAAATTCATTAGC
1 TTAGAAAATTCATTAGC
27446967 TT
1 TT
27446969 CCCTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (17 bp):
TTAGAAAATTCATTAGC
Found at i:27458068 original size:25 final size:25
Alignment explanation
Indices: 27458040--27458087 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
27458030 GGGTTTGTTT
27458040 GTGAAATTATTAAGGACTTTAATCA
1 GTGAAATTATTAAGGACTTTAATCA
*
27458065 GTGAAATTATTAGGGACTTTAAT
1 GTGAAATTATTAAGGACTTTAAT
27458088 AAGGACTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGAAATTATTAAGGACTTTAATCA
Found at i:27459999 original size:29 final size:30
Alignment explanation
Indices: 27459935--27460001 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
27459925 TTGATGCAAT
*
27459935 TATATATATAAAACTTTTATTGTGCTTAAA
1 TATATATATAAAACTTTTATTGTGATTAAA
* *
27459965 TATATA-ATAAAACTTTTTATTTTGATTTAA
1 TATATATATAAAAC-TTTTATTGTGATTAAA
27459995 T-TATATA
1 TATATATA
27460002 CATTTAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TATATATATAAAACTTTTATTGTGATTAAA
Found at i:27460879 original size:18 final size:19
Alignment explanation
Indices: 27460834--27460879 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
27460824 TCTCATTTTT
*
27460834 AAAAAAAATTTGATTAAATG
1 AAAAAAAATTT-ATTAAAAG
*
27460854 AAATAAAATTT-TTAAAAG
1 AAAAAAAATTTATTAAAAG
27460872 AAAAAAAA
1 AAAAAAAA
27460880 ACAATGATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.57
20 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAAAAATTTATTAAAAG
Found at i:27461797 original size:12 final size:12
Alignment explanation
Indices: 27461778--27461814 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
27461768 TAAAATATAT
27461778 AATGTATAATAA
1 AATGTATAATAA
*
27461790 AATTTATAAATAA
1 AATGTAT-AATAA
27461803 AATGTATAATAA
1 AATGTATAATAA
27461815 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:27461803 original size:13 final size:13
Alignment explanation
Indices: 27461778--27461811 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27461768 TAAAATATAT
27461778 AATGTAT-AATAA
1 AATGTATAAATAA
*
27461790 AATTTATAAATAA
1 AATGTATAAATAA
27461803 AATGTATAA
1 AATGTATAA
27461812 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:27464155 original size:23 final size:23
Alignment explanation
Indices: 27464129--27464204 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
27464119 ATAAGTGCCA
27464129 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27464152 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27464175 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27464198 CACTGAT
1 CACTGAT
27464205 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27464304 original size:8 final size:8
Alignment explanation
Indices: 27464291--27464319 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27464281 ACCCGGGACT
27464291 CACTGTAA
1 CACTGTAA
27464299 CACTGTAA
1 CACTGTAA
27464307 CACTGTAA
1 CACTGTAA
27464315 CACTG
1 CACTG
27464320 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:27464450 original size:18 final size:17
Alignment explanation
Indices: 27464424--27464462 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27464414 ATTTTCCTTC
27464424 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
27464441 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
27464459 CACA
1 CACA
27464463 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:27471491 original size:23 final size:23
Alignment explanation
Indices: 27471465--27471540 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
27471455 ATAAGTGCCA
27471465 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27471488 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27471511 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27471534 CACTGAT
1 CACTGAT
27471541 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27471639 original size:8 final size:8
Alignment explanation
Indices: 27471626--27471654 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27471616 ACCCGGGACT
27471626 CACTGTAA
1 CACTGTAA
27471634 CACTGTAA
1 CACTGTAA
27471642 CACTGTAA
1 CACTGTAA
27471650 CACTG
1 CACTG
27471655 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:27471785 original size:18 final size:17
Alignment explanation
Indices: 27471759--27471797 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27471749 ATTTTCCTTC
27471759 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
27471776 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
27471794 CACA
1 CACA
27471798 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:27480274 original size:97 final size:97
Alignment explanation
Indices: 27480098--27480291 Score: 352
Period size: 97 Copynumber: 2.0 Consensus size: 97
27480088 ACCTTGCCTT
27480098 GCTTCTCTAACCTCTCTACGATTTCTGCGAGTTGTCTTTTCAATCTCACTGTAAAAAAACTAATG
1 GCTTCTCTAACCTCTCTACGATTTCTGCGAGTTGTCTTTTCAATCTCACTGTAAAAAAACTAATG
** *
27480163 GTTTTAACGGGTTGCCTCTAGTCATAAACCAA
66 GTTCAAACGAGTTGCCTCTAGTCATAAACCAA
*
27480195 GCTTCTCTAACCTCTTTACGATTTCTGCGAGTTGTCTTTTCAATCTCACTGTAAAAAAACTAATG
1 GCTTCTCTAACCTCTCTACGATTTCTGCGAGTTGTCTTTTCAATCTCACTGTAAAAAAACTAATG
27480260 GTTCAAACGAGTTGCCTCTAGTCATAAACCAA
66 GTTCAAACGAGTTGCCTCTAGTCATAAACCAA
27480292 AAGAACCTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (97 bp):
GCTTCTCTAACCTCTCTACGATTTCTGCGAGTTGTCTTTTCAATCTCACTGTAAAAAAACTAATG
GTTCAAACGAGTTGCCTCTAGTCATAAACCAA
Found at i:27483606 original size:19 final size:20
Alignment explanation
Indices: 27483584--27483621 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27483574 ATTCATATCT
*
27483584 TTATTATTGAAAT-TAAAAC
1 TTATTATTAAAATATAAAAC
*
27483603 TTATTGTTAAAATATAAAA
1 TTATTATTAAAATATAAAA
27483622 TTGAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTATTATTAAAATATAAAAC
Found at i:27491941 original size:26 final size:26
Alignment explanation
Indices: 27491912--27492035 Score: 76
Period size: 26 Copynumber: 4.8 Consensus size: 26
27491902 AAATGGAGCA
*
27491912 AAATAATATGTAAAACAATTTGAAGT
1 AAATAATATGTAAAACAATTTGAAAT
** *
27491938 AAATAGCA--TAAAACAATTTACAAAT
1 AAATAATATGTAAAACAATTT-GAAAT
* * * *
27491963 AAGTAGTATGTAAAATAATTT-AGAAC
1 AAATAATATGTAAAACAATTTGA-AAT
** *
27491989 AAATAATATACAAAGCAATTT-ATAAT
1 AAATAATATGTAAAACAATTTGA-AAT
* *
27492015 AAATAATTTGTAAGACAATTT
1 AAATAATATGTAAAACAATTT
27492036 AAAGTAACAT
Statistics
Matches: 73, Mismatches: 21, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
24 11 0.15
25 10 0.14
26 42 0.58
27 10 0.14
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATAATATGTAAAACAATTTGAAAT
Found at i:27492297 original size:26 final size:26
Alignment explanation
Indices: 27492257--27492342 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 26
27492247 CAGTTTAATC
27492257 AAATAATATAGAAAACAATTTAAAAT
1 AAATAATATAGAAAACAATTTAAAAT
** * *
27492283 AAATAATATCTAAAATAATTTGAAAT
1 AAATAATATAGAAAACAATTTAAAAT
* * * **
27492309 AAA-AA-ATAAAAAATAGTTTACTAT
1 AAATAATATAGAAAACAATTTAAAAT
27492333 AAATAATATA
1 AAATAATATA
27492343 AATAAAATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
24 16 0.33
25 4 0.08
26 28 0.58
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (26 bp):
AAATAATATAGAAAACAATTTAAAAT
Found at i:27492558 original size:18 final size:18
Alignment explanation
Indices: 27492530--27492587 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
27492520 ATATAATCAC
**
27492530 AATAA-AATAATAGCCAT
1 AATAATAATAATAGAAAT
27492547 AATAATAATAATAGAAAT
1 AATAATAATAATAGAAAT
*
27492565 AATAGTAATAATA-AAAT
1 AATAATAATAATAGAAAT
27492582 AATAAT
1 AATAAT
27492588 GGTATTAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAATAATAATAGAAAT
Found at i:27492603 original size:3 final size:3
Alignment explanation
Indices: 27492545--27492587 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
27492535 AATAATAGCC
*
27492545 ATA ATA ATA ATA ATA GA-A ATA ATA GTA ATA ATA A-A ATA ATA AT
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27492588 GGTATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 31 0.89
4 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:27501320 original size:16 final size:18
Alignment explanation
Indices: 27501285--27501323 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
27501275 ACATAAATTC
27501285 AAATAACAAAACACCTAA
1 AAATAACAAAACACCTAA
27501303 AAATAAC-AAACA-CTAA
1 AAATAACAAAACACCTAA
27501319 AAATA
1 AAATA
27501324 GCAGTCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 5 0.24
18 7 0.33
ACGTcount: A:0.69, C:0.18, G:0.00, T:0.13
Consensus pattern (18 bp):
AAATAACAAAACACCTAA
Found at i:27517177 original size:16 final size:16
Alignment explanation
Indices: 27517140--27517182 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
27517130 TAACCCAAAT
27517140 TAAATTAGATTAAAACTA
1 TAAATTA-A-TAAAACTA
*
27517158 -AAATTAATAATACTA
1 TAAATTAATAAAACTA
27517173 TAAATTAATA
1 TAAATTAATA
27517183 TTCATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 10 0.43
17 6 0.26
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAATTAATAAAACTA
Found at i:27517756 original size:6 final size:6
Alignment explanation
Indices: 27517733--27517808 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
27517723 CTTTATCCAG
* * * *
27517733 TTTTAT GTTTTA- -TTTAT TTTTAT TTTTAT TTCTAG TTGTAC TTTTAT
1 TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
27517780 TTTTAT TGTTAT TATTT-T ATTTTAT TTTT
1 TTTTAT TTTTAT T-TTTAT -TTTTAT TTTT
27517809 CATACTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
4 4 0.07
6 43 0.77
7 9 0.16
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:27523847 original size:22 final size:22
Alignment explanation
Indices: 27523822--27523869 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
27523812 GATATAGTTA
* *
27523822 CAGAACATATCAAATACAGATG
1 CAGAACAAATCAAATACAAATG
*
27523844 CAGAACAAATCAGATACAAATG
1 CAGAACAAATCAAATACAAATG
27523866 CAGA
1 CAGA
27523870 TTCCTACCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (22 bp):
CAGAACAAATCAAATACAAATG
Found at i:27525483 original size:21 final size:21
Alignment explanation
Indices: 27525459--27525532 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
27525449 ACTCATATAA
27525459 GTTTCAGTTTAACCTTTTTGG
1 GTTTCAGTTTAACCTTTTTGG
* * *
27525480 GTTTCAG-TTCAGCTTTTTCGA
1 GTTTCAGTTTAACCTTTTT-GG
* *
27525501 GCTTCAGTTTAACCTTTATGG
1 GTTTCAGTTTAACCTTTTTGG
*
27525522 GTTTCCGTTTA
1 GTTTCAGTTTA
27525533 GCTCCTATGA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 9 0.22
21 24 0.59
22 8 0.20
ACGTcount: A:0.15, C:0.18, G:0.19, T:0.49
Consensus pattern (21 bp):
GTTTCAGTTTAACCTTTTTGG
Found at i:27525545 original size:42 final size:42
Alignment explanation
Indices: 27525461--27525575 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
27525451 TCATATAAGT
* * * * *
27525461 TTCAGTTTAACCTTTTTGGGTTTCAGTTCAGCTTTTTCGAGC
1 TTCAGTTTAACCTTTATGGGTTTCCGTTTAGCTCTATCGAGC
27525503 TTCAGTTTAACCTTTATGGGTTTCCGTTTAGCTCCTAT-GAGC
1 TTCAGTTTAACCTTTATGGGTTTCCGTTTAGCT-CTATCGAGC
* * * * *
27525545 TTCCGTTCAACC-ATAAGGGTTTCCATTTAGC
1 TTCAGTTTAACCTTTATGGGTTTCCGTTTAGC
27525576 ACTTATGTGC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 16 0.26
42 44 0.71
43 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TTCAGTTTAACCTTTATGGGTTTCCGTTTAGCTCTATCGAGC
Found at i:27526032 original size:2 final size:2
Alignment explanation
Indices: 27526027--27526053 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27526017 GACAAATATA
27526027 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
27526054 TTGTATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27527611 original size:47 final size:47
Alignment explanation
Indices: 27527502--27527612 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
27527492 CCGGGATAAG
* *
27527502 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
27527549 CACAAAATACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
27527596 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
27527613 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:27528376 original size:4 final size:4
Alignment explanation
Indices: 27528367--27528395 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
27528357 CCCTTTTCTA
27528367 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
27528396 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:27534849 original size:46 final size:47
Alignment explanation
Indices: 27534741--27534850 Score: 136
Period size: 46 Copynumber: 2.4 Consensus size: 47
27534731 CCGGGATAAG
* *
27534741 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
27534788 CACAAAGTACTTCATCGGAACAAAT-CGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
27534834 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
27534851 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 1 0.02
46 29 0.54
47 24 0.44
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Done.