Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 90 of 427
Found at i:23602240 original size:7 final size:7
Alignment explanation
Indices: 23602228--23602255 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23602218 ATTATAATAT
23602228 GTCACAA
1 GTCACAA
23602235 GTCACAA
1 GTCACAA
23602242 GTCACAA
1 GTCACAA
23602249 GTCACAA
1 GTCACAA
23602256 CCTAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (7 bp):
GTCACAA
Found at i:23603326 original size:27 final size:27
Alignment explanation
Indices: 23603296--23603356 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
23603286 CAAGGACTCG
* * *
23603296 AACTTCCCTAACAACCAATACTTTCCA
1 AACTTCCCCAACAACCAAAACTTCCCA
*
23603323 AACTTCCCCAACAACCAAAACTTCCCT
1 AACTTCCCCAACAACCAAAACTTCCCA
23603350 AACTTCC
1 AACTTCC
23603357 AGAACTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (27 bp):
AACTTCCCCAACAACCAAAACTTCCCA
Found at i:23612952 original size:14 final size:14
Alignment explanation
Indices: 23612933--23612959 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23612923 AACCGTCCAA
23612933 TTCATTCATACCAT
1 TTCATTCATACCAT
23612947 TTCATTCATACCA
1 TTCATTCATACCA
23612960 CTCTTACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (14 bp):
TTCATTCATACCAT
Found at i:23616803 original size:3 final size:3
Alignment explanation
Indices: 23616795--23616828 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23616785 ATATGATTTT
23616795 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23616829 GTGTTTCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23619708 original size:17 final size:18
Alignment explanation
Indices: 23619674--23619743 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
23619664 TTTTTTAATG
23619674 AATTTTTAAATATTTTTT
1 AATTTTTAAATATTTTTT
*
23619692 AATTTTT-AATTTATTTTT
1 AATTTTTAAATAT-TTTTT
* *
23619710 ATTTTTTAAATATTTTAT
1 AATTTTTAAATATTTTTT
*
23619728 AAATTTTAAATCATTT
1 AATTTTTAAAT-ATTT
23619744 ATTGACTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.09
18 31 0.72
19 8 0.19
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTAAATATTTTTT
Found at i:23619792 original size:14 final size:14
Alignment explanation
Indices: 23619773--23619800 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23619763 CAAATAGTAT
23619773 CATGTCAGTATAAA
1 CATGTCAGTATAAA
23619787 CATGTCAGTATAAA
1 CATGTCAGTATAAA
23619801 GTATATGTGG
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:0.14, T:0.29
Consensus pattern (14 bp):
CATGTCAGTATAAA
Found at i:23622083 original size:19 final size:18
Alignment explanation
Indices: 23622047--23622085 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
23622037 AAATTCAAAA
23622047 AAATATATAAAAACATAT
1 AAATATATAAAAACATAT
23622065 AAATATTATCAAAAA-ATAT
1 AAATA-TAT-AAAAACATAT
23622084 AA
1 AA
23622086 TAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATATATAAAAACATAT
Found at i:23622586 original size:33 final size:33
Alignment explanation
Indices: 23622544--23622608 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 33
23622534 TAATATTAGT
23622544 ATAAAATTTA-AATTTATTAT-TATATTTTTTTG
1 ATAAAATTTAGAATTT-TTATATATATTTTTTTG
*
23622576 ATAAATATTTATGTATTTTTATATATATTTTTT
1 ATAAA-ATTTA-GAATTTTTATATATATTTTTT
23622609 AATTTTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 5 0.18
33 5 0.18
34 4 0.14
35 14 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (33 bp):
ATAAAATTTAGAATTTTTATATATATTTTTTTG
Found at i:23634934 original size:26 final size:26
Alignment explanation
Indices: 23634895--23634947 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23634885 ATGCCAAGAA
*
23634895 TGAGCCTGATGGATCAATGGCTAAGC
1 TGAGCCTGAAGGATCAATGGCTAAGC
23634921 TGAGCCTGAAGGATCAATGGCTAAGC
1 TGAGCCTGAAGGATCAATGGCTAAGC
23634947 T
1 T
23634948 TCTGTATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (26 bp):
TGAGCCTGAAGGATCAATGGCTAAGC
Found at i:23635823 original size:63 final size:63
Alignment explanation
Indices: 23635754--23635895 Score: 155
Period size: 61 Copynumber: 2.3 Consensus size: 63
23635744 ATCCAGGCCA
* * * * * * * *
23635754 TATGACTTATAATTTGCTCTTAAGGATCACACGAGCCAGAGATAC-GGTCGTGTGTCTAGGTCG
1 TATGACTTACAATTTGCACTAAAGGACCACACGAGCCAGAGACACAAG-CGTGTGTCCAAGTCG
* *
23635817 TATGACTCACAGTTT--ACTAAAGGACCACACGAGCCAGAGACACAAGCGTGTGTCCAAGTCG
1 TATGACTTACAATTTGCACTAAAGGACCACACGAGCCAGAGACACAAGCGTGTGTCCAAGTCG
*
23635878 TGTGACTTACAATTTGCA
1 TATGACTTACAATTTGCA
23635896 ATATAGTACT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
61 49 0.78
62 1 0.02
63 13 0.21
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (63 bp):
TATGACTTACAATTTGCACTAAAGGACCACACGAGCCAGAGACACAAGCGTGTGTCCAAGTCG
Found at i:23642679 original size:22 final size:22
Alignment explanation
Indices: 23642639--23642698 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
23642629 CTTTAGCCAT
*
23642639 TTTTATTTTTATTGCAATT-TAA
1 TTTT-TTTTTATTTCAATTATAA
*
23642661 TTTTGTTTTTATTTTAATTACTAA
1 TTTT-TTTTTATTTCAATTA-TAA
23642685 TTTTTCTTTTATTT
1 TTTTT-TTTTATTT
23642699 ATTTTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 16 0.50
23 1 0.03
24 15 0.47
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTATTTCAATTATAA
Found at i:23654230 original size:29 final size:28
Alignment explanation
Indices: 23654185--23654240 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
23654175 TCATTTTCGC
* *
23654185 TTATATCAATTGTCAAAAACGTTATTTAA
1 TTATATCAATTG-CCAAAACATTATTTAA
23654214 TTATAT-AATTTGCCAAAACATTATTTA
1 TTATATCAA-TTGCCAAAACATTATTTA
23654241 CAATAGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (28 bp):
TTATATCAATTGCCAAAACATTATTTAA
Found at i:23655152 original size:17 final size:18
Alignment explanation
Indices: 23655120--23655154 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23655110 GGGCTTACAT
23655120 GCTCGTGTGAGCCCACAC
1 GCTCGTGTGAGCCCACAC
23655138 GCTCGTGTG-GCCCACAC
1 GCTCGTGTGAGCCCACAC
23655155 ACCCAGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
GCTCGTGTGAGCCCACAC
Found at i:23655591 original size:22 final size:23
Alignment explanation
Indices: 23655550--23655592 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23655540 TACCCCAACA
*
23655550 ACAATTCAAAACAAGCGTTCATC
1 ACAATTCAAAACAAGAGTTCATC
*
23655573 ACAA-TCAAAACACGAGTTCA
1 ACAATTCAAAACAAGAGTTCA
23655593 ACATCAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.26, G:0.09, T:0.19
Consensus pattern (23 bp):
ACAATTCAAAACAAGAGTTCATC
Found at i:23660534 original size:24 final size:24
Alignment explanation
Indices: 23660502--23660553 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
23660492 CCAAGGAGAA
23660502 AGAGGAATTACTCCAAGTATTAAG
1 AGAGGAATTACTCCAAGTATTAAG
23660526 AGAGGAATTACTCCAAGTATTAAG
1 AGAGGAATTACTCCAAGTATTAAG
23660550 AGAG
1 AGAG
23660554 CATAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (24 bp):
AGAGGAATTACTCCAAGTATTAAG
Found at i:23667760 original size:47 final size:47
Alignment explanation
Indices: 23667709--23668137 Score: 671
Period size: 47 Copynumber: 9.1 Consensus size: 47
23667699 TTAGGATTTT
*
23667709 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
23667756 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
23667803 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
23667850 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
23667901 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
23667948 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAAT-GTCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
23667994 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
23668041 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
23668088 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
23668135 ATG
1 ATG
23668138 CGAAACATGT
Statistics
Matches: 355, Mismatches: 22, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
46 44 0.12
47 266 0.75
49 2 0.01
51 43 0.12
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:23667796 original size:25 final size:25
Alignment explanation
Indices: 23667721--23667796 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
23667711 GTGATGGATG
23667721 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * * *
23667746 CG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
23667768 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
23667793 TGAA
1 TGAA
23667797 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 8 0.22
25 12 0.33
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:23667905 original size:24 final size:24
Alignment explanation
Indices: 23667877--23667952 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
23667867 CCGTATATAT
23667877 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
23667901 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
23667924 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
23667948 ATGTG
1 ATGTG
23667953 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:23668177 original size:46 final size:46
Alignment explanation
Indices: 23668111--23668201 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
23668101 GAACATGAAT
* *
23668111 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACATGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
23668157 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
23668202 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:23668424 original size:37 final size:37
Alignment explanation
Indices: 23668347--23668527 Score: 303
Period size: 37 Copynumber: 4.9 Consensus size: 37
23668337 GGAAATATAT
*
23668347 TCCGGGTAAGACCCGATGACTACGTGT-GAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23668383 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
23668420 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23668457 TCC-GGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
23668493 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
23668528 CGTCTGAGCT
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
36 62 0.45
37 75 0.55
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:23668434 original size:73 final size:73
Alignment explanation
Indices: 23668347--23668526 Score: 317
Period size: 73 Copynumber: 2.5 Consensus size: 73
23668337 GGAAATATAT
23668347 TCCGGGTAAGACCCGATGACTACGTGT-GAGATTATGTCCGGGTAAGACCCGATGACTACGTGTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC-GGTAAGACCCGATGACTACGTGTG
23668411 GAGATTTTG
65 GAGATTTTG
23668420 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGTAAGACCCGATGACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGTAAGACCCGATGACTACGTGTGG
23668485 AGATTTTG
66 AGATTTTG
* * *
23668493 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
23668527 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
73 91 0.88
74 12 0.12
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (73 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGTAAGACCCGATGACTACGTGTGG
AGATTTTG
Found at i:23669849 original size:40 final size:40
Alignment explanation
Indices: 23669794--23670105 Score: 552
Period size: 40 Copynumber: 7.8 Consensus size: 40
23669784 GAGAATTGAG
*
23669794 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
23669834 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
23669874 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
23669914 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
23669954 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
23669994 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
23670034 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
23670074 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCA
23670106 ACATGCTGGT
Statistics
Matches: 263, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 263 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:23674054 original size:47 final size:47
Alignment explanation
Indices: 23674003--23674485 Score: 714
Period size: 47 Copynumber: 10.1 Consensus size: 47
23673993 TTAGGATTTT
*
23674003 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
23674050 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
23674097 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
23674144 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
23674195 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
23674242 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
23674295 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
23674342 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGTATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
23674389 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
23674436 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
23674483 ATG
1 ATG
23674486 CGAAACGTGT
Statistics
Matches: 400, Mismatches: 26, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 311 0.78
48 1 0.00
49 2 0.00
51 43 0.11
52 1 0.00
53 42 0.10
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:23674199 original size:24 final size:24
Alignment explanation
Indices: 23674171--23674246 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
23674161 CCGTATATAT
23674171 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
23674195 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
23674218 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
23674242 ATGTG
1 ATGTG
23674247 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:23674322 original size:23 final size:23
Alignment explanation
Indices: 23674295--23674369 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
23674285 CGAATGGCCA
23674295 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
23674318 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
23674342 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
23674365 ATGTG
1 ATGTG
23674370 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:23674525 original size:46 final size:46
Alignment explanation
Indices: 23674459--23674549 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
23674449 GAACATGAAT
* * *
23674459 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
23674505 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
23674550 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:23674564 original size:292 final size:291
Alignment explanation
Indices: 23674003--23674534 Score: 828
Period size: 292 Copynumber: 1.8 Consensus size: 291
23673993 TTAGGATTTT
*
23674003 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * *
23674068 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
*
23674133 CCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATG
131 CCGAATGGCCAATGTGATGAATGTGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATG
* * * *
23674198 TGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
196 CGA-GAACGTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGT
23674263 ATATATATATGCGTGATAAGGCCGAATGGCCA
260 ATATATATATGCGTGATAAGGCCGAATGGCCA
23674295 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
23674360 TGCGTATGTGTGATAAGGCCGTATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
* *
23674425 CCGAATGGCCAATGTGATGAATGTGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCTAATG
131 CCGAATGGCCAATGTGATGAATGTGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATG
* *
23674486 CGA-AACGTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
196 CGAGAACGTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
23674535 GATATGTATG
Statistics
Matches: 221, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
286 5 0.02
287 20 0.09
288 22 0.10
289 11 0.05
290 9 0.04
291 1 0.00
292 153 0.69
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (291 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATG
CGAGAACGTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGTA
TATATATATGCGTGATAAGGCCGAATGGCCA
Found at i:23674877 original size:37 final size:37
Alignment explanation
Indices: 23674695--23674877 Score: 321
Period size: 37 Copynumber: 4.9 Consensus size: 37
23674685 GGAAATATAT
*
23674695 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23674732 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
23674769 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23674806 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
23674843 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
23674878 CGTCTGAGCT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 140 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:23678062 original size:46 final size:44
Alignment explanation
Indices: 23678004--23678119 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
23677994 GCAAATTTAC
* * * * *
23678004 TGTGTATCCATAGCCGAAGGCAGATTCCATCTATGGGATATTTTTT
1 TGTGCATCCATAGCCAAAGGCAGATTCCATCTA--CGAGATGTTTT
*
23678050 TGTGCATCCATAGCCAAAGGCAAATTCCATCTACGAGATGTTTT
1 TGTGCATCCATAGCCAAAGGCAGATTCCATCTACGAGATGTTTT
* *
23678094 TGTGCATCCACAGGCAAAGGCAGATT
1 TGTGCATCCATAGCCAAAGGCAGATT
23678120 TTATCTGCGG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 31 0.51
46 30 0.49
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
TGTGCATCCATAGCCAAAGGCAGATTCCATCTACGAGATGTTTT
Found at i:23678160 original size:45 final size:45
Alignment explanation
Indices: 23678093--23678239 Score: 145
Period size: 45 Copynumber: 3.3 Consensus size: 45
23678083 CGAGATGTTT
* * * * **
23678093 TTGTGCATCCACAGGCAAAGGCAGATTTTATCTGCG-GGGTATTTG
1 TTGTGTATCCACAGCCAGAGGCAGATTTTATCTGAGAGACT-TTTG
* * *
23678138 TTGTGTTTTCACATCCAGAGGCAGATTTTATCTGAGAGACTTTTG
1 TTGTGTATCCACAGCCAGAGGCAGATTTTATCTGAGAGACTTTTG
* * * *
23678183 TTGTGTATCCACAGCCAGAGGCAAATTCTATCTGTGA-AATTTTG
1 TTGTGTATCCACAGCCAGAGGCAGATTTTATCTGAGAGACTTTTG
*
23678227 TTGTGTGTCCACA
1 TTGTGTATCCACA
23678240 ACCACTAGCA
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 18 0.21
45 64 0.76
46 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (45 bp):
TTGTGTATCCACAGCCAGAGGCAGATTTTATCTGAGAGACTTTTG
Found at i:23678238 original size:44 final size:45
Alignment explanation
Indices: 23678004--23678239 Score: 144
Period size: 45 Copynumber: 5.3 Consensus size: 45
23677994 GCAAATTTAC
* * * * *
23678004 TGTGTATCCATAGCC-GAAGGCAGATTCCATCT-ATGGGATATTTTTT
1 TGTGTATCCACAGCCAG-AGGCAAATTCTATCTGA-GAGA-ATTTTGT
* * * *
23678050 TGTGCATCCATAGCCAAAGGCAAATTCCATCT-ACGAG-ATGTTT-T
1 TGTGTATCCACAGCCAGAGGCAAATTCTATCTGA-GAGAAT-TTTGT
* * * * * * **
23678094 TGTGCATCCACAGGCAAAGGCAGATTTTATCTGCG-GGGTATTTGT
1 TGTGTATCCACAGCCAGAGGCAAATTCTATCTGAGAGAAT-TTTGT
* * * * * *
23678139 TGTGTTTTCACATCCAGAGGCAGATTTTATCTGAGAGACTTTTGT
1 TGTGTATCCACAGCCAGAGGCAAATTCTATCTGAGAGAATTTTGT
*
23678184 TGTGTATCCACAGCCAGAGGCAAATTCTATCTGTGA-AATTTTGT
1 TGTGTATCCACAGCCAGAGGCAAATTCTATCTGAGAGAATTTTGT
*
23678228 TGTGTGTCCACA
1 TGTGTATCCACA
23678240 ACCACTAGCA
Statistics
Matches: 154, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 53 0.34
45 67 0.44
46 33 0.21
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (45 bp):
TGTGTATCCACAGCCAGAGGCAAATTCTATCTGAGAGAATTTTGT
Found at i:23678661 original size:33 final size:33
Alignment explanation
Indices: 23678624--23678688 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
23678614 TGCAAAAGAG
23678624 TCAAAATTAAGAGTTTTTATGAAGTAATTTGAA
1 TCAAAATTAAGAGTTTTTATGAAGTAATTTGAA
23678657 TCAAAATTAAGAGTTTTTATGAAGTAATTTGA
1 TCAAAATTAAGAGTTTTTATGAAGTAATTTGA
23678689 CCAAATGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (33 bp):
TCAAAATTAAGAGTTTTTATGAAGTAATTTGAA
Found at i:23680072 original size:2 final size:2
Alignment explanation
Indices: 23680065--23680095 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23680055 CATCCACACG
23680065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23680096 CATTCTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23680413 original size:26 final size:26
Alignment explanation
Indices: 23680373--23680424 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
23680363 GCCTGCGGGT
23680373 CTTTAAGCCCAGATAACATTCCAGCA
1 CTTTAAGCCCAGATAACATTCCAGCA
* *
23680399 CTTTAAGCCCGGATAACATTCTAGCA
1 CTTTAAGCCCAGATAACATTCCAGCA
23680425 TATAGCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (26 bp):
CTTTAAGCCCAGATAACATTCCAGCA
Found at i:23690101 original size:19 final size:20
Alignment explanation
Indices: 23690071--23690110 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
23690061 GGGGTAGGAT
23690071 TCTGTATATCTGAAATTGAA
1 TCTGTATATCTGAAATTGAA
*
23690091 TCTGT-TATCTGAATTTGAA
1 TCTGTATATCTGAAATTGAA
23690110 T
1 T
23690111 TTGTCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TCTGTATATCTGAAATTGAA
Found at i:23699057 original size:2 final size:2
Alignment explanation
Indices: 23699052--23699084 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23699042 TCATAAGCAT
23699052 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23699085 GCTGAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23700451 original size:2 final size:2
Alignment explanation
Indices: 23700444--23700468 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23700434 TAAATTTCAA
23700444 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
23700469 AAGTTAAAAA
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:23700635 original size:30 final size:32
Alignment explanation
Indices: 23700571--23700636 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
23700561 AAAAAATAAC
* *
23700571 AATTCAACTCTTTTTAAAAAGGTTAATAATCA
1 AATTCAACTCTTTTTAAAAAGATTAAGAATCA
*
23700603 AATTCAACTC-TTTTAAAAA-ATTAAGGATCA
1 AATTCAACTCTTTTTAAAAAGATTAAGAATCA
23700633 AATT
1 AATT
23700637 AATAAAAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 12 0.39
31 9 0.29
32 10 0.32
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (32 bp):
AATTCAACTCTTTTTAAAAAGATTAAGAATCA
Found at i:23700945 original size:16 final size:16
Alignment explanation
Indices: 23700924--23700979 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
23700914 TAGAGTAGAA
23700924 AGAAAATTAGAAAGAT
1 AGAAAATTAGAAAGAT
*
23700940 AGAAAATT-GAAGCGAT
1 AGAAAATTAGAA-AGAT
* *
23700956 GGAAAAAATAGAAAGAT
1 AG-AAAATTAGAAAGAT
*
23700973 GGAAAAT
1 AGAAAAT
23700980 ATGATGATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 3 0.09
16 16 0.50
17 10 0.31
18 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.23, T:0.16
Consensus pattern (16 bp):
AGAAAATTAGAAAGAT
Found at i:23706110 original size:17 final size:17
Alignment explanation
Indices: 23706090--23706132 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23706080 ATCGATTAAT
* *
23706090 TTAATTCATTAATTGAA
1 TTAATTAATTAACTGAA
23706107 TTAATTAATTAACTGAAA
1 TTAATTAATTAACTG-AA
23706125 TT-ATTAAT
1 TTAATTAAT
23706133 AATATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (17 bp):
TTAATTAATTAACTGAA
Found at i:23706173 original size:26 final size:26
Alignment explanation
Indices: 23706134--23706184 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23706124 ATTATTAATA
* *
23706134 ATATATTTACAAGCTTAACATATATT
1 ATATATGTACAAGCTCAACATATATT
* *
23706160 ATATATGTATAAGCTCAATATATAT
1 ATATATGTACAAGCTCAACATATAT
23706185 ATTAACCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (26 bp):
ATATATGTACAAGCTCAACATATATT
Found at i:23706796 original size:41 final size:38
Alignment explanation
Indices: 23706748--23706824 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 38
23706738 TTAAAAATAT
*
23706748 TTATATTAAAAAACACTATCATAAATATAATAAATATTTTA
1 TTATATT-AAAAACAC-A-AATAAATATAATAAATATTTTA
* *
23706789 TTATATTAAAAGCACAAATAAATATAATAATTATTT
1 TTATATTAAAAACACAAATAAATATAATAAATATTT
23706825 AACATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 18 0.55
39 1 0.03
40 7 0.21
41 7 0.21
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.39
Consensus pattern (38 bp):
TTATATTAAAAACACAAATAAATATAATAAATATTTTA
Found at i:23706841 original size:29 final size:30
Alignment explanation
Indices: 23706809--23706865 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
23706799 AGCACAAATA
23706809 AATATAAT-AATTATT-TAACATATATAATT
1 AATATAATGAATTATTATAACATA-ATAATT
*
23706838 AATATAATGAATTTTTATAACATAATAA
1 AATATAATGAATTATTATAACATAATAA
23706866 ATTCGGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (30 bp):
AATATAATGAATTATTATAACATAATAATT
Found at i:23707479 original size:13 final size:13
Alignment explanation
Indices: 23707452--23707481 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
23707442 ATTTAATTCG
23707452 TTTATAATTAATT
1 TTTATAATTAATT
23707465 TTTA-AATTAATT
1 TTTATAATTAATT
23707477 TTTAT
1 TTTAT
23707482 TTTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATAATTAATT
Found at i:23709214 original size:17 final size:17
Alignment explanation
Indices: 23709160--23709221 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 17
23709150 TGAAAGGTGA
23709160 GAAGTAAAAGTTTAGGG
1 GAAGTAAAAGTTTAGGG
* *
23709177 AGAAAATAAAAAGTTTTGGG
1 -G-AAGT-AAAAGTTTAGGG
23709197 GAA-TAAAAGTTTGAGGG
1 GAAGTAAAAGTTT-AGGG
23709214 GAAGTAAA
1 GAAGTAAA
23709222 TAGGGGGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 8 0.22
17 7 0.19
18 7 0.19
19 4 0.11
20 11 0.30
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.23
Consensus pattern (17 bp):
GAAGTAAAAGTTTAGGG
Found at i:23709585 original size:9 final size:9
Alignment explanation
Indices: 23709571--23709616 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
23709561 TATAGTTTGA
23709571 TATTCGAAT
1 TATTCGAAT
23709580 TATTCGAAT
1 TATTCGAAT
*
23709589 TATTCGAGT
1 TATTCGAAT
*
23709598 TATTCGAGT
1 TATTCGAAT
23709607 TATTCGAAT
1 TATTCGAAT
23709616 T
1 T
23709617 TGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23709683 original size:9 final size:9
Alignment explanation
Indices: 23709669--23709701 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
23709659 ATTCGAGTTG
23709669 ACTCGAATA
1 ACTCGAATA
23709678 ACTCGAATA
1 ACTCGAATA
23709687 ACTCGAATA
1 ACTCGAATA
23709696 ACTCGA
1 ACTCGA
23709702 TTCGTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.21
Consensus pattern (9 bp):
ACTCGAATA
Found at i:23735653 original size:23 final size:23
Alignment explanation
Indices: 23735624--23735669 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23735614 TTTCTTGGAA
23735624 ATATATACAGGTATGTATGTTTT
1 ATATATACAGGTATGTATGTTTT
23735647 ATATATACAGGTATGTATGTTTT
1 ATATATACAGGTATGTATGTTTT
23735670 CTTTTTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (23 bp):
ATATATACAGGTATGTATGTTTT
Found at i:23748829 original size:18 final size:18
Alignment explanation
Indices: 23748803--23748859 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
23748793 CAATCCCAAC
*
23748803 TACTATATACGTGAATAG
1 TACTGTATACGTGAATAG
* *
23748821 TACTGTATACATAAATAG
1 TACTGTATACGTGAATAG
* *
23748839 TGCTGTATTCGTGAATAG
1 TACTGTATACGTGAATAG
23748857 TAC
1 TAC
23748860 CATAAATGGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:23749439 original size:11 final size:11
Alignment explanation
Indices: 23749397--23749450 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
23749387 TTGACCTTTC
23749397 CAAGGTAT-GG
1 CAAGGTATGGG
*
23749407 -ATAGGTATGAG
1 CA-AGGTATGGG
*
23749418 AAAGGTATGGG
1 CAAGGTATGGG
23749429 CAAGGTATGGG
1 CAAGGTATGGG
*
23749440 CAAGGAATGGG
1 CAAGGTATGGG
23749451 TATATTCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 1 0.03
10 6 0.16
11 29 0.78
12 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.43, T:0.19
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:23760596 original size:47 final size:47
Alignment explanation
Indices: 23760543--23760714 Score: 161
Period size: 47 Copynumber: 3.7 Consensus size: 47
23760533 ACAAAACTTA
23760543 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
* * * * *
23760590 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-ACTCATC-TCTAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTA-TCATCATCGAG
* * * * * *
23760636 ACTGATGCCATGTCCTAAACATGGTCTTACACTGGTTATCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTATCATCATCGAG
* * * *
23760684 GCTGATGCATATCCCAGACACGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
23760715 AGCCCTCGTC
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
46 19 0.19
47 59 0.58
48 21 0.21
49 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
Found at i:23760657 original size:94 final size:94
Alignment explanation
Indices: 23760544--23760766 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 94
23760534 CAAAACTTAG
* * *
23760544 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCTAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAAT-GAGGCCGATGCATATCCCAG
* *
23760607 ACATGTCTTACACTAGCACTCATCTCTACA
65 ACACGTCTTACACTAGCACTCATCTCAACA
* * * * *
23760637 CTGATGCCATGTCCTAAACATGGTCTTACACTGGTTATCATAATGTGGCTGATGCATATCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAATGAGGCCGATGCATATCCCAGA
* * *
23760702 CACGTCTTACACTAGCCCTCGTCTCAATA
66 CACGTCTTACACTAGCACTCATCTCAACA
* * *
23760731 CCGATGCCATGTCCCAGACATGGTTTTATACTGGCT
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
23760767 CTCACATAAC
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
93 5 0.05
94 84 0.77
95 20 0.18
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATAATGAGGCCGATGCATATCCCAGA
CACGTCTTACACTAGCACTCATCTCAACA
Found at i:23770067 original size:39 final size:40
Alignment explanation
Indices: 23769980--23770126 Score: 278
Period size: 40 Copynumber: 3.7 Consensus size: 40
23769970 AACCAGTACA
23769980 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
23770020 AATGCCTTCGGGACTTAACCCGGTTATAATAA-CCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
*
23770059 AATGCCTTCGGGACTTAACCCGGTTATAGTAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
23770099 AATGCCTTCGGGACTTAACCCGGTTATA
1 AATGCCTTCGGGACTTAACCCGGTTATA
23770127 TTTTTTTCCA
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
39 38 0.36
40 67 0.64
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
Found at i:23770079 original size:79 final size:79
Alignment explanation
Indices: 23769980--23770126 Score: 285
Period size: 79 Copynumber: 1.9 Consensus size: 79
23769970 AACCAGTACA
23769980 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTT
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTT
23770045 ATAATAACCGCACG
66 ATAATAACCGCACG
*
23770059 AATGCCTTCGGGACTTAACCCGGTTATAGTAACCCGCACGAATGCCTTCGGGACTTAACCCGGTT
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTT
23770124 ATA
66 ATA
23770127 TTTTTTTCCA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTT
ATAATAACCGCACG
Found at i:23777944 original size:40 final size:40
Alignment explanation
Indices: 23777890--23778047 Score: 280
Period size: 40 Copynumber: 4.0 Consensus size: 40
23777880 CGGATGTAAC
* *
23777890 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
23777930 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
23777970 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAGT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
23778010 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
23778048 TTTTTTTCCA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:23783425 original size:12 final size:12
Alignment explanation
Indices: 23783408--23783437 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23783398 GTTGTTGGGA
23783408 ATGTCGGCATTG
1 ATGTCGGCATTG
23783420 ATGTCGGCATTG
1 ATGTCGGCATTG
*
23783432 GTGTCG
1 ATGTCG
23783438 TGACCGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.17, G:0.37, T:0.33
Consensus pattern (12 bp):
ATGTCGGCATTG
Found at i:23790969 original size:26 final size:26
Alignment explanation
Indices: 23790934--23790985 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23790924 TAAAAGAGAA
23790934 GAAAAAGATTTTCCTACTTGTCTTTT
1 GAAAAAGATTTTCCTACTTGTCTTTT
23790960 GAAAAAGATTTTCCTACTTGTCTTTT
1 GAAAAAGATTTTCCTACTTGTCTTTT
23790986 ACTCGAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
GAAAAAGATTTTCCTACTTGTCTTTT
Found at i:23792792 original size:16 final size:17
Alignment explanation
Indices: 23792773--23792805 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23792763 TTTTCAAACA
23792773 TAACATT-CAATCTGAT
1 TAACATTACAATCTGAT
*
23792789 TAACATTACAATTTGAT
1 TAACATTACAATCTGAT
23792806 CCATAATACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
TAACATTACAATCTGAT
Found at i:23793670 original size:21 final size:21
Alignment explanation
Indices: 23793644--23793687 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23793634 ATTAACCTTG
23793644 CTTTTTAAATTAAATTTTGTA
1 CTTTTTAAATTAAATTTTGTA
23793665 CTTTTTAAATTAAATTTTGTA
1 CTTTTTAAATTAAATTTTGTA
23793686 CT
1 CT
23793688 AGTCTACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
CTTTTTAAATTAAATTTTGTA
Found at i:23796379 original size:12 final size:12
Alignment explanation
Indices: 23796362--23796389 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23796352 TGCAAAATAG
23796362 GTTTTTAGCGGC
1 GTTTTTAGCGGC
23796374 GTTTTTAGCGGC
1 GTTTTTAGCGGC
23796386 GTTT
1 GTTT
23796390 GAATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:23796484 original size:41 final size:41
Alignment explanation
Indices: 23796418--23796540 Score: 171
Period size: 41 Copynumber: 3.0 Consensus size: 41
23796408 AAAATCGAAT
* * *
23796418 AGAT-TGAGTATTAGTGGCGTTTTTAAGAAAGCGCCGCTGA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
*
23796458 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGTCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
23796499 AGATCTGAGCATTAGCGGCGCTTTCTTAA-AAA-CGCCGCTAA
1 AGATCTGAGCATTAGCGGCG-TTT-TTAAGAAAGCGCCGCTAA
23796540 A
1 A
23796541 AGATTAAGCA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
40 4 0.05
41 61 0.81
42 6 0.08
43 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (41 bp):
AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
Found at i:23797382 original size:22 final size:22
Alignment explanation
Indices: 23797288--23797382 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 22
23797278 TAAACACCAC
23797288 ACCC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
* * *
23797309 CCCCTTAAGA-CTAAAAACGATAA
1 ACCCTTAA-ATCTCAAATC-ATAA
* * *
23797332 A-CCTT-AATCCCAACACCTTAA
1 ACCCTTAAATCTCAA-ATCATAA
23797353 ACCC-TAAATCTCAAATCATAA
1 ACCCTTAAATCTCAAATCATAA
23797374 ACCCTTAAA
1 ACCCTTAAA
23797383 ACTCCAACCT
Statistics
Matches: 55, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
20 1 0.02
21 21 0.38
22 28 0.51
23 5 0.09
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (22 bp):
ACCCTTAAATCTCAAATCATAA
Found at i:23797701 original size:7 final size:7
Alignment explanation
Indices: 23797689--23797738 Score: 91
Period size: 7 Copynumber: 7.0 Consensus size: 7
23797679 AAATCTTTAA
23797689 AAAAATT
1 AAAAATT
23797696 AAAAATT
1 AAAAATT
23797703 AAAAATT
1 AAAAATT
23797710 AAAAATT
1 AAAAATT
23797717 AAAAAATT
1 -AAAAATT
23797725 AAAAATT
1 AAAAATT
23797732 AAAAATT
1 AAAAATT
23797739 TAATATTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 35 0.83
8 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:23797714 original size:15 final size:15
Alignment explanation
Indices: 23797688--23797741 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
23797678 AAAATCTTTA
23797688 AAAAAATTAAAAATT
1 AAAAAATTAAAAATT
23797703 -AAAAATTAAAAATT
1 AAAAAATTAAAAATT
23797717 AAAAAATTAAAAATT
1 AAAAAATTAAAAATT
*
23797732 AAAAATTTAA
1 AAAAAATTAA
23797742 TATTTAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
14 14 0.38
15 23 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATTAAAAATT
Found at i:23797748 original size:22 final size:22
Alignment explanation
Indices: 23797690--23797738 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
23797680 AATCTTTAAA
23797690 AAAATTAAAAATT-AAAAATTA
1 AAAATTAAAAATTAAAAAATTA
23797711 AAAATTAAAAAATT-AAAAATTA
1 AAAATT-AAAAATTAAAAAATTA
23797733 AAAATT
1 AAAATT
23797739 TAATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAAATTAAAAAATTA
Found at i:23801933 original size:43 final size:43
Alignment explanation
Indices: 23801825--23802092 Score: 285
Period size: 43 Copynumber: 6.3 Consensus size: 43
23801815 GTTTATATTT
* * * *
23801825 TTTAGCGGCGTTTTTAA-AAAAGCGTCGCTAAAGGTC-TGTTA
1 TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * * *
23801866 TATAGTGGCATCTTGAAAAAAAGCGCCGCTAAATGTCATGGTC
1 TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
23801909 TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
* *
23801952 TTTAGCGGCATTTTTAAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
23801995 TTTAGCGGCGTTTTC-GGTAAAAGTGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTTCAAG-AAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
23802038 TTTAACGGCGTTTT-TA-AAAAGTGCCGCGAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
*
23802079 TTTAGTGGCGTTTT
1 TTTAGCGGCGTTTT
23802093 TAAGCGTTGC
Statistics
Matches: 194, Mismatches: 29, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 47 0.24
42 18 0.09
43 129 0.66
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTTCAAGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:23803211 original size:25 final size:25
Alignment explanation
Indices: 23803183--23803232 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23803173 GAAGAGAATG
23803183 GAAAATAAAGAAAA-AGAAAAGAAAA
1 GAAAATAAA-AAAACAGAAAAGAAAA
* *
23803208 GAAAGTAAAAAAACATAAAAGAAAA
1 GAAAATAAAAAAACAGAAAAGAAAA
23803233 AATTAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (25 bp):
GAAAATAAAAAAACAGAAAAGAAAA
Found at i:23803967 original size:29 final size:28
Alignment explanation
Indices: 23803906--23803982 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
23803896 CACCCTTCTC
* *
23803906 ATTTTTTTTACTTTTTTTTAACTTTTGT
1 ATTTTTTTTAATTTTTTTTAACTTTTAT
* *
23803934 CTTTTTCTTTAATTTTTTTTAAGTTTTAT
1 ATTTTT-TTTAATTTTTTTTAACTTTTAT
23803963 ATTTTTTCTT-ATTTTATTTT
1 ATTTTTT-TTAATTTT-TTTT
23803983 GTTTGTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 11 0.27
29 30 0.73
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (28 bp):
ATTTTTTTTAATTTTTTTTAACTTTTAT
Found at i:23804120 original size:21 final size:21
Alignment explanation
Indices: 23804087--23804131 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
23804077 TTTAAATATT
*
23804087 ATTTTTAAATTATTTTTT-AA
1 ATTTTGAAATTATTTTTTGAA
23804107 ATTTTGAATATTATTTTTTGAA
1 ATTTTGAA-ATTATTTTTTGAA
23804129 ATT
1 ATT
23804132 ATGTCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTTGAAATTATTTTTTGAA
Found at i:23804188 original size:7 final size:7
Alignment explanation
Indices: 23804176--23804208 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
23804166 TTAATTTTTC
23804176 TAAATTT
1 TAAATTT
23804183 TAAATTT
1 TAAATTT
23804190 TAAATTT
1 TAAATTT
23804197 TAAATTT
1 TAAATTT
23804204 TAAAT
1 TAAAT
23804209 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TAAATTT
Found at i:23804312 original size:22 final size:21
Alignment explanation
Indices: 23804245--23804313 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
23804235 AAAATGAAAT
* *
23804245 AATTTCAAAAACATATTTTTA
1 AATTTTAAAAATATATTTTTA
* * *
23804266 ATTTTTGAAATTAT-TTCTTATA
1 AATTTTAAAAATATATT-TT-TA
23804288 AATTTTAAAAATATATTTTTGA
1 AATTTTAAAAATATATTTTT-A
23804310 AATT
1 AATT
23804314 ATTTTTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
20 2 0.06
21 12 0.33
22 20 0.56
23 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (21 bp):
AATTTTAAAAATATATTTTTA
Found at i:23804318 original size:12 final size:12
Alignment explanation
Indices: 23804266--23804325 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
23804256 CATATTTTTA
*
23804266 ATTTTTGAAATT
1 ATTTTTAAAATT
*
23804278 ATTTCTTATAA--
1 ATTT-TTAAAATT
*
23804289 ATTTTAAAAATAT
1 ATTTTTAAAAT-T
*
23804302 ATTTTTGAAATT
1 ATTTTTAAAATT
23804314 ATTTTTAAAATT
1 ATTTTTAAAATT
23804326 TTAAATATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
12 16 0.43
13 13 0.35
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (12 bp):
ATTTTTAAAATT
Found at i:23804327 original size:21 final size:21
Alignment explanation
Indices: 23804311--23804372 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
23804301 TATTTTTGAA
23804311 ATTATTTTTAAAATTTTAAAT
1 ATTATTTTTAAAATTTTAAAT
*
23804332 ATTATTTTT-AAATGTTAAAT
1 ATTATTTTTAAAATTTTAAAT
*
23804352 A-TATATTTAATAATATTTAAA
1 ATTATTTTTAA-AAT-TTTAAA
23804373 CATTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 6 0.17
20 12 0.34
21 12 0.34
22 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATTTTTAAAATTTTAAAT
Found at i:23804371 original size:22 final size:22
Alignment explanation
Indices: 23804309--23804372 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 22
23804299 TATATTTTTG
*
23804309 AAAT-TATTTTTAA-AAT-TTT
1 AAATATATATTTAATAATATTT
*
23804328 AAATAT-TATTT-TTAA-ATGTT
1 AAATATATATTTAATAATAT-TT
23804348 AAATATATATTTAATAATATTT
1 AAATATATATTTAATAATATTT
23804370 AAA
1 AAA
23804373 CATTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
19 11 0.31
20 9 0.26
21 5 0.14
22 8 0.23
23 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATATATATTTAATAATATTT
Found at i:23804528 original size:23 final size:23
Alignment explanation
Indices: 23804497--23804582 Score: 63
Period size: 22 Copynumber: 3.8 Consensus size: 23
23804487 TTACTAACAA
23804497 AAAAT-AAATAAAATAAATAAAC
1 AAAATAAAATAAAATAAATAAAC
*
23804519 AAAATAAAATAAGAAAAATATAAAAC
1 AAAATAAAATAA-AATAA-AT-AAAC
** *
23804545 TTAA-AAAATAAAA-AAA-ATAC
1 AAAATAAAATAAAATAAATAAAC
* *
23804565 AAAAGAAAAAAAAATAAA
1 AAAATAAAATAAAATAAA
23804583 AAAAGTATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
20 5 0.10
21 8 0.16
22 9 0.18
23 8 0.16
24 6 0.12
25 9 0.18
26 6 0.12
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.15
Consensus pattern (23 bp):
AAAATAAAATAAAATAAATAAAC
Found at i:23804530 original size:14 final size:13
Alignment explanation
Indices: 23804497--23804583 Score: 56
Period size: 13 Copynumber: 6.3 Consensus size: 13
23804487 TTACTAACAA
23804497 AAAATAAATAAAAT
1 AAAATAAA-AAAAT
23804511 -AAATAAACAAAAT
1 AAAATAAA-AAAAT
23804524 AAAATAAGAAAAATAT
1 AAAAT-A-AAAAA-AT
*
23804540 AAAACTTAAAAAAT
1 AAAA-TAAAAAAAT
23804554 AAAA-AAAATACAA-
1 AAAATAAAA-A-AAT
23804567 AAGAA-AAAAAAAT
1 AA-AATAAAAAAAT
23804580 AAAA
1 AAAA
23804584 AAAGTATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
12 7 0.11
13 18 0.30
14 18 0.30
15 9 0.15
16 8 0.13
17 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:23804544 original size:26 final size:25
Alignment explanation
Indices: 23804497--23804599 Score: 93
Period size: 25 Copynumber: 4.0 Consensus size: 25
23804487 TTACTAACAA
*
23804497 AAAATAAATAAAATAAATAAACAAAAT
1 AAAATAAA-AAAATATA-AAACAAAAT
**
23804524 AAAATAAGAAAAATATAAAACTTAA-
1 AAAATAA-AAAAATATAAAACAAAAT
* * *
23804549 AAAATAAAAAAAATACAAAAGAAAAA
1 AAAAT-AAAAAAATATAAAACAAAAT
23804575 AAAATAAAAAAAGTATAAAA-AAAAT
1 AAAATAAAAAAA-TATAAAACAAAAT
23804600 GAGAAGGGTG
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
25 29 0.46
26 19 0.30
27 14 0.22
28 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (25 bp):
AAAATAAAAAAATATAAAACAAAAT
Found at i:23804551 original size:51 final size:51
Alignment explanation
Indices: 23804495--23804594 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
23804485 AATTACTAAC
* *
23804495 AAAAAATAAATAAAATAAATAAACAAAATAAAATAAGAAAAA-TATAAAACTT
1 AAAAAATAAAAAAAATAAA-AAACAAAAAAAAATAA-AAAAAGTATAAAACTT
* *
23804547 AAAAAATAAAAAAAATACAAAAGAAAAAAAAATAAAAAAAGTATAAAA
1 AAAAAATAAAAAAAATAAAAAACAAAAAAAAATAAAAAAAGTATAAAA
23804595 AAAATGAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 5 0.12
51 21 0.49
52 17 0.40
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (51 bp):
AAAAAATAAAAAAAATAAAAAACAAAAAAAAATAAAAAAAGTATAAAACTT
Found at i:23804568 original size:9 final size:8
Alignment explanation
Indices: 23804495--23804596 Score: 73
Period size: 9 Copynumber: 11.8 Consensus size: 8
23804485 AATTACTAAC
23804495 AAAAAATA
1 AAAAAATA
23804503 AATAAAATA
1 AA-AAAATA
23804512 AATAAACA-A
1 AA-AAA-ATA
23804521 AATAAAATA
1 AA-AAAATA
23804530 AGAAAAATA
1 A-AAAAATA
* * *
23804539 TAAAACTT
1 AAAAAATA
23804547 AAAAAATAA
1 AAAAAAT-A
23804556 AAAAAATA
1 AAAAAATA
23804564 CAAAAGAA-A
1 -AAAA-AATA
23804573 AAAAAATA
1 AAAAAATA
23804581 AAAAAAGTA
1 AAAAAA-TA
23804590 TAAAAAA
1 -AAAAAA
23804597 AATGAGAAGG
Statistics
Matches: 78, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
7 2 0.03
8 25 0.32
9 41 0.53
10 10 0.13
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (8 bp):
AAAAAATA
Found at i:23815433 original size:53 final size:53
Alignment explanation
Indices: 23815353--23815458 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
23815343 CATAACATAA
*
23815353 ATTCTAAATTTTATTCAAAGAAAGTGTCGTTGAAAAACGGAGTGTACATTGTG
1 ATTCTAAATTTTATTCAAAAAAAGTGTCGTTGAAAAACGGAGTGTACATTGTG
*
23815406 ATTCTAAGTTTTATTCAAAAAAAGTGTCGTTGAAAAACGGAGTGTACATTGTG
1 ATTCTAAATTTTATTCAAAAAAAGTGTCGTTGAAAAACGGAGTGTACATTGTG
23815459 CATGCCTAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (53 bp):
ATTCTAAATTTTATTCAAAAAAAGTGTCGTTGAAAAACGGAGTGTACATTGTG
Found at i:23815706 original size:81 final size:83
Alignment explanation
Indices: 23815569--23815723 Score: 287
Period size: 81 Copynumber: 1.9 Consensus size: 83
23815559 ACACTAAATC
*
23815569 ATGAACTTGTACATTAAATGACCAAACACATAGACAAAGTGGGAGGTGCAAGCATTGAAACAAGG
1 ATGAACTTGTACATTAAATGACCAAACACATAGACAAAGTGGGAGGTGCAAGCATTGAAACAAGC
23815634 AGGATACAAAGGACTGAG
66 AGGATACAAAGGACTGAG
23815652 ATGAACTTGTACATTAAATGACC-AA-ACATAGACAAAGTGGGAGGTGCAAGCATTGAAACAAGC
1 ATGAACTTGTACATTAAATGACCAAACACATAGACAAAGTGGGAGGTGCAAGCATTGAAACAAGC
23815715 AGGATACAA
66 AGGATACAA
23815724 TGGTTCAAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
81 46 0.65
82 2 0.03
83 23 0.32
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (83 bp):
ATGAACTTGTACATTAAATGACCAAACACATAGACAAAGTGGGAGGTGCAAGCATTGAAACAAGC
AGGATACAAAGGACTGAG
Found at i:23817956 original size:30 final size:33
Alignment explanation
Indices: 23817887--23817967 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
23817877 ATTCCAAATT
* **
23817887 TATA-AAAATTTATAATTTAAAGAACATGAAAA
1 TATATAAAATTTATTATAAAAAGAACATGAAAA
23817919 TATATAAAATTTATTATAAAAAG-ACAT-AAAA
1 TATATAAAATTTATTATAAAAAGAACATGAAAA
23817950 -ATATAAAA-TTA-TATAAAA
1 TATATAAAATTTATTATAAAA
23817968 GCTTAAATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.16
29 3 0.07
30 8 0.18
31 4 0.09
32 8 0.18
33 15 0.33
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (33 bp):
TATATAAAATTTATTATAAAAAGAACATGAAAA
Found at i:23818629 original size:17 final size:17
Alignment explanation
Indices: 23818603--23818642 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
23818593 TTTTGATTGA
*
23818603 TTAT-TTTTTGAATGTT
1 TTATATTTTTGAATATT
23818619 TTATATTTTTGAATATT
1 TTATATTTTTGAATATT
23818636 TT-TATTT
1 TTATATTT
23818643 ACAAAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (17 bp):
TTATATTTTTGAATATT
Found at i:23821068 original size:27 final size:27
Alignment explanation
Indices: 23821007--23821066 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
23820997 AAAAGAAACA
* *
23821007 TAAACAATTCTAAAAAAAATAATTTTT
1 TAAAAAATTTTAAAAAAAATAATTTTT
* *
23821034 TTAAAAATTTTAAAAAGAAT-ATTTTT
1 TAAAAAATTTTAAAAAAAATAATTTTT
23821060 TAAAAAA
1 TAAAAAA
23821067 ATCATTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAAAATTTTAAAAAAAATAATTTTT
Found at i:23821984 original size:17 final size:18
Alignment explanation
Indices: 23821949--23821986 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
23821939 TTTTTCATTT
*
23821949 TTTTATAAAAATTCCAAAA
1 TTTTAAAAAAATT-CAAAA
23821968 TTTTAAAAAAATT-AAAA
1 TTTTAAAAAAATTCAAAA
23821985 TT
1 TT
23821987 AAAATTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAAAAATTCAAAA
Found at i:23825071 original size:2 final size:2
Alignment explanation
Indices: 23825064--23825096 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23825054 TGAAAGTCGA
23825064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23825097 TTTAAAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:23826264 original size:75 final size:75
Alignment explanation
Indices: 23826171--23826335 Score: 267
Period size: 75 Copynumber: 2.2 Consensus size: 75
23826161 GCAAGCTATA
*
23826171 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 TGCTGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
* *
23826236 CGCAGGCTTCG
65 CGCAGGCCTAG
*
23826247 TGCTGTAATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
1 TGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
23826312 GCAGGCCTAG
66 GCAGGCCTAG
*
23826322 TGCTGGTATTATAT
1 TGCT-GTAATATAT
23826336 TCAAGCCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
75 68 0.82
76 15 0.18
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (75 bp):
TGCTGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
GCAGGCCTAG
Found at i:23826328 original size:38 final size:38
Alignment explanation
Indices: 23826171--23826335 Score: 271
Period size: 38 Copynumber: 4.4 Consensus size: 38
23826161 GCAAGCTATA
23826171 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
23826209 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
23826247 TGCT-GTAATATATCCGGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* *
23826284 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
23826322 TGCTGGTATTATAT
1 TGCTGGTAATATAT
23826336 TCAAGCCTTC
Statistics
Matches: 120, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
37 36 0.30
38 82 0.68
39 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:23826387 original size:43 final size:43
Alignment explanation
Indices: 23826340--23826487 Score: 242
Period size: 43 Copynumber: 3.4 Consensus size: 43
23826330 TTATATTCAA
*
23826340 GCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTCGG
1 GCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTCGG
* *
23826383 GCCTTCGTGCCTAGTAGGCTTCGTGCCAATGATGTGTATTCGG
1 GCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTCGG
* *
23826426 GCTTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTCAG
1 GCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTCGG
*
23826469 GCCTTCGTGCTTAGCAGGC
1 GCCTTCGTGCCTAGCAGGC
23826488 GTAATGCCGG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 96 1.00
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.31
Consensus pattern (43 bp):
GCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTCGG
Found at i:23831484 original size:27 final size:27
Alignment explanation
Indices: 23831454--23831650 Score: 202
Period size: 27 Copynumber: 7.3 Consensus size: 27
23831444 TACTGAAATG
**
23831454 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
23831481 CCCTCGATTTATAG-ATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
23831507 CCATCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
23831534 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
23831561 CCCTCGATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
23831588 CCCAT-GATTTACAAAATTATCATTTTA
1 CCC-TCGATTTACAGAATTACCATTTTA
** * *
23831615 -CCTTTAGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
23831642 CCCTCGATT
1 CCCTCGATT
23831651 GTGAAATTAC
Statistics
Matches: 142, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 24 0.17
27 112 0.79
28 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:23831633 original size:81 final size:80
Alignment explanation
Indices: 23831468--23831650 Score: 233
Period size: 81 Copynumber: 2.3 Consensus size: 80
23831458 CGATTTGTAG
* * *
23831468 AATTACCATTTTACCCTCGATTTATAGATTACCGTTTCACCATCGATTTACAAAATTACCGTTTT
1 AATTACCATTTTACCCTCGATTTACAGATTACCATTTCACCATCGATTTACAAAATTACCATTTT
* *
23831533 ACCCTCAATTTATAG
66 ACCCTCAATTTACAA
* * *
23831548 AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCAT-GATTTACAAAATTATCATT
1 AATTACCATTTTACCCTCGATTTACAG-ATTACCATTTCA-CCATCGATTTACAAAATTACCATT
* * *
23831612 TTACCTTTAGTTTACAA
64 TTACCCTCAATTTACAA
*
23831629 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
23831651 GTGAAATTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
80 26 0.29
81 59 0.66
82 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAGATTACCATTTCACCATCGATTTACAAAATTACCATTTT
ACCCTCAATTTACAA
Found at i:23831712 original size:27 final size:27
Alignment explanation
Indices: 23831682--23831832 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
23831672 TGTAGGATAG
23831682 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
23831709 AATTACCAAAATACCCCTAGCTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * *
23831736 AATTACCGAAATACCATTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
23831763 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
23831790 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
23831817 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
23831833 TTGACTTTCT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.04
27 98 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:23831721 original size:54 final size:52
Alignment explanation
Indices: 23831649--23831832 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 52
23831639 TTACCCTCGA
* ** * *
23831649 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGT-TG-TAAAATTACCAAAATACCCCTAGT
* ** *
23831703 TTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCGAAATACCATTGGT
1 TTGTAAAATTACCAAAATACCCCT-G-TTGTAAAATTACCAAAATACCCCTAGT
* * *
23831757 TTGTGAAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCC-C--TGTTGTAAAATTACCAAAATACCCCTAGT
**
23831811 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
23831833 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
53 1 0.01
54 98 0.94
55 3 0.03
56 1 0.01
57 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (52 bp):
TTGTAAAATTACCAAAATACCCCTGTTGTAAAATTACCAAAATACCCCTAGT
Found at i:23831767 original size:81 final size:81
Alignment explanation
Indices: 23831682--23831831 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
23831672 TGTAGGATAG
* * ** *
23831682 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCGAA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAACTTACAAAATTACAGAA
23831746 ATACCATTGGTTTGTGA
65 ATACCATTGGTTTGTGA
* *
23831763 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAACTTACAAAATTACAGAAA
23831828 TACC
66 TACC
23831832 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAACTTACAAAATTACAGAAA
TACCATTGGTTTGTGA
Found at i:23831855 original size:29 final size:27
Alignment explanation
Indices: 23831810--23831895 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
23831800 ATACCCCTAA
* *
23831810 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
23831838 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCCTTGG
*
23831866 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCCTTGG
23831893 TTT
1 TTT
23831896 GTAAATTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 24 0.48
28 6 0.12
29 20 0.40
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:23832013 original size:27 final size:27
Alignment explanation
Indices: 23831950--23832013 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
23831940 CCCCTAATAA
*
23831950 GTAAAAAGACCGTAAAGCCCCTGTAGG
1 GTAAAATGACCGTAAAGCCCCTGTAGG
* * *
23831977 GTAAAGTGACCGTAATA-CCCTTGTATG
1 GTAAAATGACCGTAA-AGCCCCTGTAGG
23832004 GTAAAATGAC
1 GTAAAATGAC
23832014 GAATATGCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
GTAAAATGACCGTAAAGCCCCTGTAGG
Found at i:23832861 original size:25 final size:24
Alignment explanation
Indices: 23832823--23832892 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 24
23832813 AGGAAGTGCT
*
23832823 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
23832847 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTACC
23832872 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
23832893 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:23833098 original size:42 final size:42
Alignment explanation
Indices: 23833039--23833130 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
23833029 TAGTCTCCCC
* *
23833039 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
23833081 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
23833123 AAATGGGC
1 AAATGGGC
23833131 CTAAGAGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
Found at i:23833192 original size:31 final size:31
Alignment explanation
Indices: 23833154--23833237 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
23833144 CGTTTACAGT
23833154 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
23833185 AAAGGCTTCGGCCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23833216 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
23833238 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:23836031 original size:10 final size:10
Alignment explanation
Indices: 23836012--23836057 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
23836002 TGAAATTCTA
23836012 AAAGATAAAT
1 AAAGATAAAT
23836022 ATAA-ATAAAT
1 A-AAGATAAAT
23836032 AAAGATAAAT
1 AAAGATAAAT
*
23836042 AACGATAAAT
1 AAAGATAAAT
23836052 AAAGAT
1 AAAGAT
23836058 TGTATAAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23836108 original size:23 final size:23
Alignment explanation
Indices: 23836078--23836131 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
23836068 CAATTTTGGG
*
23836078 CCCAAAACCCCTAACCCAATTTA
1 CCCAAAACCCCTAACCCAATTGA
23836101 CCCAAAACCCCTAACCCAATTGA
1 CCCAAAACCCCTAACCCAATTGA
23836124 CCCAAAAC
1 CCCAAAAC
23836132 ACTAAACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.41, C:0.44, G:0.02, T:0.13
Consensus pattern (23 bp):
CCCAAAACCCCTAACCCAATTGA
Found at i:23837334 original size:3 final size:3
Alignment explanation
Indices: 23837288--23837316 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23837278 CTATTTTTCG
23837288 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23837317 ACGTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23837974 original size:16 final size:15
Alignment explanation
Indices: 23837949--23837988 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
23837939 CTTATTCTTC
* *
23837949 TTATTCTTATTTATTT
1 TTATTTTTATTT-TTA
23837965 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
23837980 TTATTTTTA
1 TTATTTTTA
23837989 CCTACTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:23842403 original size:4 final size:4
Alignment explanation
Indices: 23842396--23842435 Score: 53
Period size: 4 Copynumber: 9.2 Consensus size: 4
23842386 TTATATTAAT
23842396 TAAA TAAA GTAAA TAAAA TAAA TAAA TAAA TAAA TCAAA T
1 TAAA TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA T-AAA T
23842436 TATGAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 21 0.64
5 12 0.36
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:23842408 original size:9 final size:8
Alignment explanation
Indices: 23842396--23842435 Score: 53
Period size: 9 Copynumber: 4.6 Consensus size: 8
23842386 TTATATTAAT
23842396 TAAATAAA
1 TAAATAAA
23842404 GTAAATAAAA
1 -TAAAT-AAA
23842414 TAAATAAA
1 TAAATAAA
23842422 TAAATAAA
1 TAAATAAA
23842430 TCAAAT
1 T-AAAT
23842436 TATGAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.41
9 14 0.48
10 3 0.10
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (8 bp):
TAAATAAA
Found at i:23842412 original size:13 final size:12
Alignment explanation
Indices: 23842396--23842435 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
23842386 TTATATTAAT
23842396 TAAATAAAGTAAA
1 TAAATAAA-TAAA
23842409 TAAAATAAATAAA
1 T-AAATAAATAAA
23842422 TAAATAAATCAAA
1 TAAATAAAT-AAA
23842435 T
1 T
23842436 TATGAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.32
13 10 0.40
14 7 0.28
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (12 bp):
TAAATAAATAAA
Found at i:23844060 original size:2 final size:2
Alignment explanation
Indices: 23844055--23844091 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23844045 GTTTGTGTGA
23844055 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
23844092 AACAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23851106 original size:13 final size:13
Alignment explanation
Indices: 23851084--23851114 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23851074 ATAAAAACAT
23851084 AAAA-ATTTTAAA
1 AAAATATTTTAAA
23851096 AAAATATTTTAAA
1 AAAATATTTTAAA
23851109 AAAATA
1 AAAATA
23851115 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATTTTAAA
Found at i:23851764 original size:67 final size:67
Alignment explanation
Indices: 23851686--23851818 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
23851676 AAAATTCAGG
*
23851686 TTTTTAAATATAAAAATTCAATGTCATCTAAACTAGGCTAGATTGGTTGGATCAAGAAACGACTG
1 TTTTTAAATATAAAAATTCAATGTCATCTAAACTAGGCCAGATTGGTTGGATCAAGAAACGACTG
23851751 AT
66 AT
*
23851753 TTTTTAAATATAAAAATTCAATGTCATCTAAACTAGGCCAGATTGGTTGGATCAAGAACCGACTG
1 TTTTTAAATATAAAAATTCAATGTCATCTAAACTAGGCCAGATTGGTTGGATCAAGAAACGACTG
23851818 A
66 A
23851819 GATATTGGTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (67 bp):
TTTTTAAATATAAAAATTCAATGTCATCTAAACTAGGCCAGATTGGTTGGATCAAGAAACGACTG
AT
Found at i:23853577 original size:2 final size:2
Alignment explanation
Indices: 23853570--23853602 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23853560 GAGACTAGTC
23853570 AT AT AT AT 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 AT AT AT AT A
23853603 CATGTCATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23855626 original size:30 final size:30
Alignment explanation
Indices: 23855592--23855652 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23855582 TCCTTAAATC
23855592 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
23855622 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
23855652 A
1 A
23855653 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:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:23858005 original size:2 final size:2
Alignment explanation
Indices: 23857998--23858028 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23857988 GAGACTAGTC
23857998 AT AT AT 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 AT AT AT A
23858029 CATGTCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23872514 original size:43 final size:41
Alignment explanation
Indices: 23872466--23872629 Score: 148
Period size: 43 Copynumber: 3.9 Consensus size: 41
23872456 TTCCGATATG
*
23872466 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
* * **
23872507 TGAGATTTACGTGTAAGACCATGTTTGGGACATCGATATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATT
* * * * *
23872552 TGATTTTGTGTACGACCCTTTCTGGGACAATGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG--ATT
* * * *
23872595 TGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
23872630 GTGTACGAGT
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
41 1 0.01
42 23 0.24
43 40 0.42
44 27 0.28
45 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
Found at i:23872578 original size:42 final size:41
Alignment explanation
Indices: 23872466--23872580 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 41
23872456 TTCCGATATG
* * *
23872466 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGATT
1 TGATTTTGTGTAAGACCATTTCTGGGACATCGACATCGATT
* *
23872507 TGAGATTTACGTGTAAGACCATGTT-TGGGACATCGATATCGTATT
1 T--GATTT-TGTGTAAGACCAT-TTCTGGGACATCGACATCG-ATT
* *
23872552 TGATTTTGTGTACGACCCTTTCTGGGACA
1 TGATTTTGTGTAAGACCATTTCTGGGACA
23872581 ATGGCATCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
41 3 0.05
42 17 0.28
43 10 0.17
44 25 0.42
45 5 0.08
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (41 bp):
TGATTTTGTGTAAGACCATTTCTGGGACATCGACATCGATT
Found at i:23888611 original size:47 final size:47
Alignment explanation
Indices: 23888539--23888647 Score: 173
Period size: 47 Copynumber: 2.3 Consensus size: 47
23888529 ATGATATACA
* *
23888539 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
23888586 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
23888633 TATAAATGTGATAAG
1 TATATATGTGATAAG
23888648 TCCCGAAGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:23893218 original size:40 final size:40
Alignment explanation
Indices: 23893174--23893283 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
23893164 TTCACAATTT
* * *
23893174 GCACAAATACCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
23893214 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
23893254 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
23893284 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:23899793 original size:40 final size:40
Alignment explanation
Indices: 23899749--23899858 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
23899739 TTCACAATTT
* *
23899749 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
23899789 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
23899829 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
23899859 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:23907406 original size:29 final size:29
Alignment explanation
Indices: 23907373--23907532 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
23907363 GTGACGAGAT
23907373 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23907402 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23907431 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
23907460 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
23907489 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
23907518 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
23907533 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23915565 original size:29 final size:29
Alignment explanation
Indices: 23915532--23915691 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
23915522 GTGACGAGAT
23915532 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23915561 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23915590 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
23915619 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
23915648 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
23915677 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
23915692 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23917240 original size:132 final size:132
Alignment explanation
Indices: 23917003--23917259 Score: 505
Period size: 132 Copynumber: 1.9 Consensus size: 132
23916993 TTAAGGTGAC
23917003 AGTGACGCGGTTAGCTAGCCTGCCTGGAACAGAAATTAAATAATTCCAAGAGAGAAATAAGGGAA
1 AGTGACGCGGTTAGCTAGCCTGCCTGGAACAGAAATTAAATAATTCCAAGAGAGAAATAAGGGAA
23917068 GTAAGCCCGGTAACACCACGTGGTCAAATCCGATGACGGTCACGGGTTTGGGGTGTTACATTTAA
66 GTAAGCCCGGTAACACCACGTGGTCAAATCCGATGACGGTCACGGGTTTGGGGTGTTACATTTAA
23917133 TT
131 TT
23917135 AGTGACGCGGTTAGCTAGCCTGCCTGGAACAGAAATTAAATAATTCCAAGAGAGAAATAAGGGAA
1 AGTGACGCGGTTAGCTAGCCTGCCTGGAACAGAAATTAAATAATTCCAAGAGAGAAATAAGGGAA
*
23917200 GTAAGCCCGGTAACACCACGTGGTCAAATCCGGTGACGGTCACGGGTTTGGGGTGTTACA
66 GTAAGCCCGGTAACACCACGTGGTCAAATCCGATGACGGTCACGGGTTTGGGGTGTTACA
23917260 AACTGACATA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 124 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (132 bp):
AGTGACGCGGTTAGCTAGCCTGCCTGGAACAGAAATTAAATAATTCCAAGAGAGAAATAAGGGAA
GTAAGCCCGGTAACACCACGTGGTCAAATCCGATGACGGTCACGGGTTTGGGGTGTTACATTTAA
TT
Done.