Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 36 of 182
Found at i:11671999 original size:45 final size:45
Alignment explanation
Indices: 11671926--11672013 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
11671916 GCATGATACT
11671926 ATTAAATTAGTGATTTTGCTTGTAGCCTTATACTCTTGGCCTACA
1 ATTAAATTAGTGATTTTGCTTGTAGCCTTATACTCTTGGCCTACA
* * *
11671971 ATTAGATTGGTGATTTTTCTTGTAGCCTTATACTCTTGGCCTA
1 ATTAAATTAGTGATTTTGCTTGTAGCCTTATACTCTTGGCCTA
11672014 TCTTCCAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (45 bp):
ATTAAATTAGTGATTTTGCTTGTAGCCTTATACTCTTGGCCTACA
Found at i:11674821 original size:24 final size:24
Alignment explanation
Indices: 11674794--11674839 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11674784 ATAAGTAACT
* * *
11674794 TTGTAAAAGATTTAGTAATTTACA
1 TTGTAAAAAATTCAATAATTTACA
11674818 TTGTAAAAAATTCAATAATTTA
1 TTGTAAAAAATTCAATAATTTA
11674840 TTGAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (24 bp):
TTGTAAAAAATTCAATAATTTACA
Found at i:11676412 original size:42 final size:38
Alignment explanation
Indices: 11676366--11676452 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 38
11676356 TAATTAAAAT
11676366 TTTTAAAATTTAAA-AAGTTTAACAAAATATATAAAAAATATA
1 TTTTAAAATTTAAATAA-TTT-A-AAAA-AT-TAAAAAATATA
*
11676408 TTTTAAAATTTAAATTTATTTAAAAAATTAAAAAATATA
1 TTTTAAAATTTAAA-TAATTTAAAAAATTAAAAAATATA
11676447 TTTTAA
1 TTTTAA
11676453 TTTTTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
39 17 0.40
40 2 0.05
41 4 0.10
42 15 0.36
43 3 0.07
44 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (38 bp):
TTTTAAAATTTAAATAATTTAAAAAATTAAAAAATATA
Found at i:11676427 original size:18 final size:18
Alignment explanation
Indices: 11676401--11676439 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11676391 AATATATAAA
* *
11676401 AAATATATTTTAAAATTT
1 AAATATATTTAAAAAATT
*
11676419 AAATTTATTTAAAAAATT
1 AAATATATTTAAAAAATT
11676437 AAA
1 AAA
11676440 AAATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATTTAAAAAATT
Found at i:11679599 original size:16 final size:16
Alignment explanation
Indices: 11679578--11679617 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11679568 CTTTAATCCT
*
11679578 TTTATTTACTT-ATTTA
1 TTTATTCACTTGA-TTA
11679594 TTTATTCACTTGATTA
1 TTTATTCACTTGATTA
11679610 TTTATTCA
1 TTTATTCA
11679618 TTATTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTATTCACTTGATTA
Found at i:11679686 original size:27 final size:27
Alignment explanation
Indices: 11679587--11679679 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 27
11679577 TTTTATTTAC
*
11679587 TTATTTATTTATTCAC-T-TGATT-AT
1 TTATTTATTTATTCACATATCATTCAT
* *
11679611 TTATTCA-TTATTCTTTACAT-TTATTCAT
1 TTATTTATTTATTC---ACATATCATTCAT
* *
11679639 TTATTTGTTTATTCACATATCATTCCT
1 TTATTTATTTATTCACATATCATTCAT
11679666 TTATTTATTT-TTCA
1 TTATTTATTTATTCA
11679680 TCTTATCCCG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
23 6 0.11
24 6 0.11
26 10 0.18
27 20 0.36
28 7 0.13
29 6 0.11
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATTTATTTATTCACATATCATTCAT
Found at i:11679869 original size:86 final size:86
Alignment explanation
Indices: 11679763--11679949 Score: 374
Period size: 86 Copynumber: 2.2 Consensus size: 86
11679753 GCCTTTATTA
11679763 TTATTATTATTATTATCATCTATTCATCTATTTATTACTCTATTTATGTATATATATTCAAAGAT
1 TTATTATTATTATTATCATCTATTCATCTATTTATTACTCTATTTATGTATATATATTCAAAGAT
11679828 TTAGATTATTATATATTGTTC
66 TTAGATTATTATATATTGTTC
11679849 TTATTATTATTATTATCATCTATTCATCTATTTATTACTCTATTTATGTATATATATTCAAAGAT
1 TTATTATTATTATTATCATCTATTCATCTATTTATTACTCTATTTATGTATATATATTCAAAGAT
11679914 TTAGATTATTATATATTGTTC
66 TTAGATTATTATATATTGTTC
11679935 TTATTATTATTATTA
1 TTATTATTATTATTA
11679950 CTATTATTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 101 1.00
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.56
Consensus pattern (86 bp):
TTATTATTATTATTATCATCTATTCATCTATTTATTACTCTATTTATGTATATATATTCAAAGAT
TTAGATTATTATATATTGTTC
Found at i:11685070 original size:48 final size:48
Alignment explanation
Indices: 11684998--11685093 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
11684988 TCTCTAAAGG
*
11684998 TTGAATAAGACGGGGATAACGAATAAAGTAGAATTAACCCTAAATCTT
1 TTGAATAAGACGGGGACAACGAATAAAGTAGAATTAACCCTAAATCTT
*
11685046 TTGAATAAGACGAGGG-CAATGAATAAAGTAGAATTAACCCTAAATCTT
1 TTGAATAAGACG-GGGACAACGAATAAAGTAGAATTAACCCTAAATCTT
11685094 CTTTGTCATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 42 0.93
49 3 0.07
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (48 bp):
TTGAATAAGACGGGGACAACGAATAAAGTAGAATTAACCCTAAATCTT
Found at i:11693676 original size:18 final size:18
Alignment explanation
Indices: 11693655--11693695 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11693645 CCTCATGTTA
11693655 TGCGAAC-CCCTTTGCAGG
1 TGCGAACGCCC-TTGCAGG
*
11693673 TGCGAACGCCCTTGCATG
1 TGCGAACGCCCTTGCAGG
11693691 TGCGA
1 TGCGA
11693696 GCCCTGTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.17, C:0.32, G:0.29, T:0.22
Consensus pattern (18 bp):
TGCGAACGCCCTTGCAGG
Found at i:11696059 original size:26 final size:26
Alignment explanation
Indices: 11696028--11696395 Score: 727
Period size: 26 Copynumber: 14.2 Consensus size: 26
11696018 TGAAATGCCC
*
11696028 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11696054 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696080 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696132 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696158 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696184 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696210 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696236 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696262 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696288 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696314 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696340 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696366 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11696392 ATCA
1 ATCA
11696396 ATTTGTACCA
Statistics
Matches: 341, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 341 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11696704 original size:28 final size:29
Alignment explanation
Indices: 11696661--11696732 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
11696651 GTTACAATAT
11696661 GTGTG-ACCCTACATGTACGAAC-CCTAG
1 GTGTGAACCCTACATGTACGAACTCCTAG
* *
11696688 GTGTGAACCCTATATGTGCGAACTCCTAG
1 GTGTGAACCCTACATGTACGAACTCCTAG
**
11696717 GTGCAAACCCTACATG
1 GTGTGAACCCTACATG
11696733 CGTGAACCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 5 0.13
28 15 0.39
29 18 0.47
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (29 bp):
GTGTGAACCCTACATGTACGAACTCCTAG
Found at i:11696739 original size:29 final size:28
Alignment explanation
Indices: 11696666--11696785 Score: 89
Period size: 29 Copynumber: 4.2 Consensus size: 28
11696656 AATATGTGTG
** **
11696666 ACCCTACATGTACGAACCCTAGGTGTGA
1 ACCCTACATGCGCGAACCCTAGGTGCAA
* *
11696694 ACCCTATATGTGCGAACTCCTAGGTGCAA
1 ACCCTACATGCGCGAAC-CCTAGGTGCAA
* *
11696723 ACCCTACATGCGTGAACCCATATGTGCAA
1 ACCCTACATGCGCGAACCC-TAGGTGCAA
* * * *
11696752 A-CATATATGTGCGAACCCTGTATGTGCAA
1 ACCCTACATGCGCGAACCC--TAGGTGCAA
11696781 ACCCT
1 ACCCT
11696786 GCTTATGTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 30 0.41
29 42 0.57
30 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (28 bp):
ACCCTACATGCGCGAACCCTAGGTGCAA
Found at i:11696777 original size:15 final size:15
Alignment explanation
Indices: 11696743--11696786 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
11696733 CGTGAACCCA
* *
11696743 TATGTGCAAA-CATA
1 TATGTGCAAACCCTG
*
11696757 TATGTGCGAACCCTG
1 TATGTGCAAACCCTG
11696772 TATGTGCAAACCCTG
1 TATGTGCAAACCCTG
11696787 CTTATGTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (15 bp):
TATGTGCAAACCCTG
Found at i:11700448 original size:132 final size:131
Alignment explanation
Indices: 11700230--11700521 Score: 293
Period size: 132 Copynumber: 2.2 Consensus size: 131
11700220 ACGGGAGATT
* * * * ** ** ** *
11700230 GCAACCCAGCATGATAGGGCACTACTCCCCGAATTTCCAAACATCGAGTATTTCCTTTGTTTTAA
1 GCAACCCAGCACGATAGGGCACGA-TTCCCAAATCACCAAACATCGAACATTTCCTTCATTTCAA
* ** ** *
11700295 AGAGTTTCTAGAAAACGTGAGTGAGGTTCCGAAGGAATC-TTCGATTGTTTTGAACAAATGAA-A
65 AGAGTTTCTAGAAAACATGAGTGAAATTCAAAAGGAA-CGTTCGATTATTTTGAACAAAT-AAGA
11700358 AACGC
128 AA-GC
*
11700363 GCAACCCAGCACGATAGGGCACGATTCTCAAATCACCAAACATCGAACATTTCCTTCATTTCAAA
1 GCAACCCAGCACGATAGGGCACGATTCCCAAATCACCAAACATCGAACATTTCCTTCATTTCAAA
* * *
11700428 GAGTTTTTAG-AAACAATGAGTGAAATTCAAAAGGGACGTTCGATTATTTTGAGCAAATAAGAAA
66 GAGTTTCTAGAAAAC-ATGAGTGAAATTCAAAAGGAACGTTCGATTATTTTGAACAAATAAGAAA
**
11700492 TT
130 GC
* *
11700494 GCAACCCAACACGTTAGGGCACGATTCC
1 GCAACCCAGCACGATAGGGCACGATTCC
11700522 ACGAATTGTC
Statistics
Matches: 130, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
131 32 0.25
132 76 0.58
133 22 0.17
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (131 bp):
GCAACCCAGCACGATAGGGCACGATTCCCAAATCACCAAACATCGAACATTTCCTTCATTTCAAA
GAGTTTCTAGAAAACATGAGTGAAATTCAAAAGGAACGTTCGATTATTTTGAACAAATAAGAAAG
C
Found at i:11714708 original size:26 final size:26
Alignment explanation
Indices: 11714679--11714760 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
11714669 TGGTACAAAT
*
11714679 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTTCA
*
11714705 TGATAATGGATTAGGTAAATG-CTCTA
1 TGATAATGGATTAGGTAAATGTTTC-A
* *
11714731 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTTCA
11714757 TGAT
1 TGAT
11714761 GGGCATTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.04
26 46 0.94
27 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTTCA
Found at i:11717098 original size:179 final size:179
Alignment explanation
Indices: 11716798--11717157 Score: 702
Period size: 179 Copynumber: 2.0 Consensus size: 179
11716788 TCCACGCAGG
*
11716798 TAATCCCCAACCATAGTTGGCTTGGAGCTGTGAGGGAATTCAGAGTGGCCACCCGTTCTGAAAGT
1 TAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGGAATTCAGAGTGGCCACCCGTTCTGAAAGT
11716863 TTGATTTTATTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTTTTGGGTTTTTAAATGT
66 TTGATTTTATTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTTTTGGGTTTTTAAATGT
11716928 AATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
131 AATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
*
11716977 TAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGT
1 TAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGGAATTCAGAGTGGCCACCCGTTCTGAAAGT
11717042 TTGATTTTATTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTTTTGGGTTTTTAAATGT
66 TTGATTTTATTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTTTTGGGTTTTTAAATGT
11717107 AATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
131 AATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
11717156 TA
1 TA
11717158 GGTATTATTT
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (179 bp):
TAATCCCCAACCATAGTGGGCTTGGAGCTGTGAGGGAATTCAGAGTGGCCACCCGTTCTGAAAGT
TTGATTTTATTCTGGTGAACTGGACATCCTTTTATTTACGTTTGAAGTTTTGGGTTTTTAAATGT
AATAAGGCCGCTTAATTATTTTTGATGGTTTTAATATGTATTACTAAGA
Found at i:11723290 original size:18 final size:18
Alignment explanation
Indices: 11723267--11723303 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11723257 CGACTAAAAG
11723267 GAGGGGAATTATGGTTTT
1 GAGGGGAATTATGGTTTT
11723285 GAGGGGAATTATGGTTTT
1 GAGGGGAATTATGGTTTT
11723303 G
1 G
11723304 TTTCAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (18 bp):
GAGGGGAATTATGGTTTT
Found at i:11723719 original size:23 final size:24
Alignment explanation
Indices: 11723690--11723749 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
11723680 GTCCACTTGG
11723690 TTTTATTTTTATTTCAATTGA-GT
1 TTTTATTTTTATTTCAATTGATGT
* *
11723713 TTTTATTATTATTTCAATTTATGT
1 TTTTATTTTTATTTCAATTGATGT
11723737 TTTTATTCTTTAT
1 TTTTATT-TTTAT
11723750 GATTCTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 19 0.59
24 9 0.28
25 4 0.12
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTTATTTTTATTTCAATTGATGT
Found at i:11731731 original size:22 final size:21
Alignment explanation
Indices: 11731713--11731754 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
11731703 AAATTTATGT
11731713 TTTTATTCATTTTTATTTAAGA
1 TTTTATT-ATTTTTATTTAAGA
*
11731735 TTTTATTATTTATTTTTTAA
1 TTTTATTATTT-TTATTTAA
11731755 AATTATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATTATTTTTATTTAAGA
Found at i:11731904 original size:33 final size:31
Alignment explanation
Indices: 11731851--11731945 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 31
11731841 GTAAAATTTC
11731851 TATTTTAAAATTT-TCATTATACATGTATT-T
1 TATTTTAAAATTTATCATTATACAT-TATTAT
*
11731881 TTTTTTCAAAATTTATACATTATACATTATATAT
1 TATTTT-AAAATTTAT-CATTATACATTAT-TAT
11731915 TATTTTAAAATTTAT-ATTATACATTATTAT
1 TATTTTAAAATTTATCATTATACATTATTAT
11731945 T
1 T
11731946 TATATATTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
30 9 0.16
31 19 0.33
32 4 0.07
33 20 0.34
34 6 0.10
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (31 bp):
TATTTTAAAATTTATCATTATACATTATTAT
Found at i:11739405 original size:89 final size:89
Alignment explanation
Indices: 11739281--11739596 Score: 235
Period size: 89 Copynumber: 3.4 Consensus size: 89
11739271 TCATCATGGT
* ** * *
11739281 GAATCTTATCTCCCTAAAGTGGCCGTGGAGTAGATTGAAGCCATAAGTCTTATCTCCCTGAAGTT
1 GAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCATAAGTCTTATCTCTCTGAAGTT
* *
11739346 GCAGTGGAGCAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAAC
* * * *
11739370 GAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTATAAATAAAACAGATCTTATCTC
1 GAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGC----CAT---A-AG-TCTTATCTC
* * * *
11739435 TCTTAAGTTGTAGTAGAGCAGAGTGAAGATAAC
57 TCTGAAGTTGCAGTAGAGCAGACTAAAGATAAC
* * **
11739468 -ATGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCA-TCCTTATCTCTCTGAAG
1 GA-ATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCATAAGT-CTTATCTCTCTGAAG
* *
11739531 TTGCAATAGAGCAGGA-TAAAAATACAC
64 TTGCAGTAGAGCA-GACTAAAGATA-AC
* * * * * *
11739558 AAACCTTATC-CCCTGGAAGTTGCAGTGGAGTAGGTTGAA
1 GAATCTTATCTCCCT-AAAGTTGTAGTGGAGCAGATTGAA
11739597 ATTACCAAAT
Statistics
Matches: 179, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
88 1 0.01
89 69 0.39
90 32 0.18
91 1 0.01
93 2 0.01
94 1 0.01
96 1 0.01
97 3 0.02
98 69 0.39
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (89 bp):
GAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCATAAGTCTTATCTCTCTGAAGTT
GCAGTAGAGCAGACTAAAGATAAC
Found at i:11739502 original size:98 final size:98
Alignment explanation
Indices: 11739328--11739508 Score: 238
Period size: 98 Copynumber: 1.8 Consensus size: 98
11739318 AAGCCATAAG
* * *
11739328 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATAACGAATCTTATCTCCCTAAAGTTGT
11739393 AGTGGAACAGATTAAAGCTATAAATAAAACAGA
66 AGTGGAACAGATTAAAGCTATAAATAAAACAGA
* * * * * * *
11739426 TCTTATCTCTCTTAAGTTGTAGTAGAGCAGAGTGAAGATAAC-ATGTCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATAACGA-ATCTTATCTCCCTAAAGTTG
* *
11739490 TAGTGGAGCAGATTGAAGC
65 TAGTGGAACAGATTAAAGC
11739509 CACCATCCTT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
97 1 0.01
98 69 0.99
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATAACGAATCTTATCTCCCTAAAGTTGT
AGTGGAACAGATTAAAGCTATAAATAAAACAGA
Found at i:11739543 original size:44 final size:45
Alignment explanation
Indices: 11739427--11739544 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 45
11739417 TAAAACAGAT
* * *
11739427 CTTATCTCTCTTAAGTTGTAGTAGAGCAGAGTGAAGATAACATGT
1 CTTATCTCTCTGAAGTTGTAGTAGAGCAGAGTGAAGACAACATGC
* * * * *
11739472 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAT-C
1 CTTATCTCTCTGAAGTTGTAGTAGAGCAGAGTGAAGACAACATGC
* *
11739516 CTTATCTCTCTGAAGTTGCAATAGAGCAG
1 CTTATCTCTCTGAAGTTGTAGTAGAGCAG
11739545 GATAAAAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 25 0.41
45 36 0.59
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTGAAGTTGTAGTAGAGCAGAGTGAAGACAACATGC
Found at i:11742534 original size:23 final size:24
Alignment explanation
Indices: 11742505--11742564 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
11742495 GTCCACTTGG
11742505 TTTTATTTTTATTTCAATTGA-GT
1 TTTTATTTTTATTTCAATTGATGT
* *
11742528 TTTTATTATTATTTCAATTTATGT
1 TTTTATTTTTATTTCAATTGATGT
11742552 TTTTATTCTTTAT
1 TTTTATT-TTTAT
11742565 GATTCTTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 19 0.59
24 9 0.28
25 4 0.12
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTTATTTTTATTTCAATTGATGT
Found at i:11743085 original size:13 final size:13
Alignment explanation
Indices: 11743048--11743087 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
11743038 TTAGATGGAC
11743048 ATATATTATTTCAT
1 ATATATTATTT-AT
* *
11743062 AGATCTTATTTAT
1 ATATATTATTTAT
11743075 ATATATTATTTAT
1 ATATATTATTTAT
11743088 TTTGAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (13 bp):
ATATATTATTTAT
Found at i:11750674 original size:24 final size:23
Alignment explanation
Indices: 11750638--11750683 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
11750628 CATTTTGAGT
11750638 AAATATTCTTTTATTCTTTCCAA
1 AAATATTCTTTTATTCTTTCCAA
*
11750661 AAATAATTGTTTTATTCTTTCCA
1 AAAT-ATTCTTTTATTCTTTCCA
11750684 TTGGAGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.30, C:0.15, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATATTCTTTTATTCTTTCCAA
Found at i:11752770 original size:72 final size:72
Alignment explanation
Indices: 11752685--11752829 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
11752675 AGGACTCCAC
* * * * *
11752685 GCAGCCATAGAATGTAGGATCAATGCATTAGAAGTATATGAAGATTTCGCATTAGTGATCTACCA
1 GCAGCCATAGAATGCAGGATCAAGGCATTACAAGTATATGAAGATTCCCCATTAGTGATCTACCA
11752750 ACTTAAA
66 ACTTAAA
* * *
11752757 GCAGCCATAGAATGCAGGATCAAGGCGTTACAAGTATATGGAGATTCCCCGTTAGTGATCTACCA
1 GCAGCCATAGAATGCAGGATCAAGGCATTACAAGTATATGAAGATTCCCCATTAGTGATCTACCA
*
11752822 GCTTAAA
66 ACTTAAA
11752829 G
1 G
11752830 GTGAATGGGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (72 bp):
GCAGCCATAGAATGCAGGATCAAGGCATTACAAGTATATGAAGATTCCCCATTAGTGATCTACCA
ACTTAAA
Found at i:11753226 original size:60 final size:60
Alignment explanation
Indices: 11753130--11753248 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
11753120 AATCCTGATC
11753130 AGGCAACTAAGAATGATAAAAGGACGTTGAAAAGGCTAGCCTATGATTATGTCTTAGATG
1 AGGCAACTAAGAATGATAAAAGGACGTTGAAAAGGCTAGCCTATGATTATGTCTTAGATG
* * ** *
11753190 AGGCAACTGAGAATTATAAAAGGACGTTGAGCAGGCTAGCCTGTGATTATGTCTTAGAT
1 AGGCAACTAAGAATGATAAAAGGACGTTGAAAAGGCTAGCCTATGATTATGTCTTAGAT
11753249 AGGGAGATCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (60 bp):
AGGCAACTAAGAATGATAAAAGGACGTTGAAAAGGCTAGCCTATGATTATGTCTTAGATG
Found at i:11757563 original size:21 final size:22
Alignment explanation
Indices: 11757528--11757577 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
11757518 TGTCCACTTG
*
11757528 GTTTTCTTTTTATTTCAATTGA-
1 GTTTT-TTTTAATTTCAATTGAT
*
11757550 GTTTTTTTTAATTTCAATTTAT
1 GTTTTTTTTAATTTCAATTGAT
11757572 GTTTTT
1 GTTTTT
11757578 ATTCTTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.68
Consensus pattern (22 bp):
GTTTTTTTTAATTTCAATTGAT
Found at i:11757903 original size:28 final size:28
Alignment explanation
Indices: 11757870--11757938 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
11757860 TCTTATGTAA
*
11757870 ATATATTTGTTTAAATTTATTTACATAT
1 ATATATTTGTTTAAATCTATTTACATAT
* * **
11757898 ATATATCTTCTTTTGAATCTATTTATGTAT
1 ATATAT-TT-GTTTAAATCTATTTACATAT
11757928 ATA-ATTTGTTT
1 ATATATTTGTTT
11757939 CTTTAAAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.09
28 8 0.24
29 4 0.12
30 18 0.55
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (28 bp):
ATATATTTGTTTAAATCTATTTACATAT
Found at i:11758070 original size:23 final size:22
Alignment explanation
Indices: 11758044--11758087 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
11758034 TCATTTCATG
11758044 TATATTATTTATTTAGATGGACA
1 TATATTATTTATTTAGA-GGACA
11758067 TATATTATTTATTTAGAGGAC
1 TATATTATTTATTTAGAGGAC
11758088 GTTACAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
TATATTATTTATTTAGAGGACA
Found at i:11760776 original size:22 final size:21
Alignment explanation
Indices: 11760746--11760811 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
11760736 TACAAATTAA
11760746 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
11760768 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
11760789 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
11760808 ATCT
1 ATCT
11760812 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:11760798 original size:19 final size:19
Alignment explanation
Indices: 11760763--11760860 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
11760753 AGATTACAAG
11760763 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
11760784 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
11760803 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
11760820 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
*
11760839 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
11760858 ATC
1 ATC
11760861 CTTAAATATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:11760870 original size:36 final size:36
Alignment explanation
Indices: 11760763--11760857 Score: 145
Period size: 36 Copynumber: 2.5 Consensus size: 36
11760753 AGATTACAAG
*
11760763 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG--TATCATATCTAATATTGCAT
11760803 ATCATATCTAAGATTGTATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAATATTGCAT
11760839 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGTAT
11760858 ATCCTTAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
36 38 0.70
38 7 0.13
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (36 bp):
ATCATATCTAAGATTGTATCATATCTAATATTGCAT
Found at i:11779109 original size:26 final size:26
Alignment explanation
Indices: 11779080--11779187 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11779070 TGGTACAAAT
*
11779080 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11779106 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11779132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11779158 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11779184 TGAT
1 TGAT
11779188 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11782447 original size:44 final size:45
Alignment explanation
Indices: 11782388--11782499 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
11782378 TATCTCCCAA
* * *
11782388 AAGTGGCAGTGGAGCAGATTGAAGCCA-TAAGTCTTATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGACAGTAACTCTTATTTCCCTG
* * * * * *
11782432 AAGTTGCAGCGGAGCAGACTAAAGATAGTGACTCTTGTTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGACAGTAACTCTTATTTCCCTG
* *
11782477 AAGTTGCAGTGGAACATATTGAA
1 AAGTTGCAGTGGAGCAGATTGAA
11782500 ACTATAAATA
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 21 0.40
45 32 0.60
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGATTGAAGACAGTAACTCTTATTTCCCTG
Found at i:11782586 original size:45 final size:45
Alignment explanation
Indices: 11782510--11782597 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
11782500 ACTATAAATA
** * *
11782510 AACAGATCTTATCTTTCTGAAAATGCTGTGGAGCAGATTGAAGAT
1 AACAGATCTTATCTCCCTGAAAATGCAGTGGAGCAGATCGAAGAT
* ** *
11782555 AACAGGTCTTATCTCCCTGAAGCTGCAGTGGAGTAGATCGAAG
1 AACAGATCTTATCTCCCTGAAAATGCAGTGGAGCAGATCGAAG
11782598 TCACCATCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (45 bp):
AACAGATCTTATCTCCCTGAAAATGCAGTGGAGCAGATCGAAGAT
Found at i:11782822 original size:44 final size:44
Alignment explanation
Indices: 11782774--11782860 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
11782764 GAATAAATTG
* *
11782774 AAGCTACAAGTCTAATCTCACTGAGGTTGCAGTGGAGCAGATTA
1 AAGCTACAAGTCTAATCTCACTGAAGTTACAGTGGAGCAGATTA
** * ** *
11782818 AAGCTATGAGTCTAGTCTTTCTGAAGTTACAGTGGAGTAGATT
1 AAGCTACAAGTCTAATCTCACTGAAGTTACAGTGGAGCAGATT
11782861 GACGCAATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
AAGCTACAAGTCTAATCTCACTGAAGTTACAGTGGAGCAGATTA
Found at i:11789352 original size:123 final size:123
Alignment explanation
Indices: 11789133--11789379 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
11789123 AGGGTGGGGA
11789133 ATTATGGTTTTGTTTCAATGGTTTAAAGAAACTGGTAGATTGCCATTAAAATGTTTCTTTTAATT
1 ATTATGGTTTTGTTTCAATGGTTTAAAGAAACTGGTAGATTGCCATTAAAATGTTTCTTTTAATT
11789198 TTGGGTGATAAATAAAACGGCGCCGTTTAAGGGGGAGGCGGGATCTGCGTGTCAACCC
66 TTGGGTGATAAATAAAACGGCGCCGTTTAAGGGGGAGGCGGGATCTGCGTGTCAACCC
11789256 ATTATGGTTTTGTTTCAATGGTTTAAAGAAACTGGTAGATTGCCATTAAAATGTTTCTTTTAATT
1 ATTATGGTTTTGTTTCAATGGTTTAAAGAAACTGGTAGATTGCCATTAAAATGTTTCTTTTAATT
11789321 TTGGGTGATAAATAAAACGGCGCCGTTTAAGGGGGAGGCGGGATCTGCGTGTCAACCC
66 TTGGGTGATAAATAAAACGGCGCCGTTTAAGGGGGAGGCGGGATCTGCGTGTCAACCC
11789379 A
1 A
11789380 CTCCATTGCC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (123 bp):
ATTATGGTTTTGTTTCAATGGTTTAAAGAAACTGGTAGATTGCCATTAAAATGTTTCTTTTAATT
TTGGGTGATAAATAAAACGGCGCCGTTTAAGGGGGAGGCGGGATCTGCGTGTCAACCC
Found at i:11789694 original size:21 final size:22
Alignment explanation
Indices: 11789659--11789708 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11789649 TGTCCACTTG
* *
11789659 GTTTTATTTTTATTTTAATTGA-
1 GTTTT-TTTTAATTTCAATTGAT
*
11789681 GTTTTTTTTAATTTCAATTTAT
1 GTTTTTTTTAATTTCAATTGAT
11789703 GTTTTT
1 GTTTTT
11789709 ATTCTTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (22 bp):
GTTTTTTTTAATTTCAATTGAT
Found at i:11790200 original size:23 final size:22
Alignment explanation
Indices: 11790174--11790217 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
11790164 TCATTTCATG
11790174 TATATTATTTATTTAGATGGACA
1 TATATTATTTATTTAGA-GGACA
11790197 TATATTATTTATTTAGAGGAC
1 TATATTATTTATTTAGAGGAC
11790218 GTTACAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
TATATTATTTATTTAGAGGACA
Found at i:11792079 original size:36 final size:34
Alignment explanation
Indices: 11792039--11792148 Score: 84
Period size: 36 Copynumber: 3.2 Consensus size: 34
11792029 GTAAACAAAT
11792039 ACATTTGATTACTAAGGATTAAAAGAAACATGATAA
1 ACATTTGATTACTAA-GATTAAAAGAAACATGA-AA
** * * *
11792075 ACATTTTTTTATTAAG-TAAAAAGTAAACA--AAT
1 ACATTTGATTACTAAGATTAAAAG-AAACATGAAA
*
11792107 ACATTTGATCACTAACGATTAAACA-AAACATGACAA
1 ACATTTGATTACTAA-GATTAAA-AGAAACATGA-AA
11792143 ACATTT
1 ACATTT
11792149 TTTAAAGTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
32 12 0.21
33 7 0.12
34 10 0.18
35 8 0.14
36 19 0.34
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (34 bp):
ACATTTGATTACTAAGATTAAAAGAAACATGAAA
Found at i:11796788 original size:39 final size:39
Alignment explanation
Indices: 11796734--11796810 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
11796724 AGAGCTGGAT
* *
11796734 GAATTTGAACCAGACAAGCTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
11796773 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
11796811 TGACACCTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:11808932 original size:254 final size:254
Alignment explanation
Indices: 11808481--11808948 Score: 670
Period size: 254 Copynumber: 1.8 Consensus size: 254
11808471 GTGAATATTG
* *
11808481 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAGGATACAAAATTTCAAATCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAAGACACAAAATTTCAAATCT
* * *
11808546 TCGATATCAAAATCATCTCATAATTCCCAGAATTTATGCATTGAAAATTTAAAAAGGATATTTGG
66 TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTTGG
* * * * * *
11808611 TCGTTCGGTCAAACGATAAATCTAAACCTAGCACGTAGGGCACAATTTCTCGAAATTTCCGAACA
131 TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
*
11808676 CGAAATATTGCCTTGTTTTAAAAAGTCTTGAATAAAAATGTAATAGTATGAAACGATTA
196 CGAAATATTACCTTGTTTTAAAAAGTCTTGAATAAAAATGTAATAGTATGAAACGATTA
* * * * * * *
11808735 AGATTCTTTTGTTTCGAAGAAATAAAATATCACATTCGGCACGTAAGACACGATATTTC-AATCC
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAAGACACAAAATTTCAAAT-C
** * ** *
11808799 TTCGATACCAAAATCATCTCATAATTTTC-GAAACTCGTGTTTTGAAATTTTAAAAAGGATATTT
65 TTCGATACCAAAATCATCTCATAATTCCCAG-AACTCATGCATTGAAAATTTAAAAAGGATATTT
*
11808863 GGTTGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAA
129 GGTCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAA
11808928 CACGAAATATTACCTTGTTTT
194 CACGAAATATTACCTTGTTTT
11808949 GAATAAAACA
Statistics
Matches: 186, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
253 4 0.02
254 182 0.98
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (254 bp):
AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAGCACGTAAGACACAAAATTTCAAATCT
TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTTGG
TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACA
CGAAATATTACCTTGTTTTAAAAAGTCTTGAATAAAAATGTAATAGTATGAAACGATTA
Found at i:11811735 original size:18 final size:20
Alignment explanation
Indices: 11811690--11811740 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
11811680 TGACAATTTA
11811690 ATTAAAAATAAAGATTAAAT
1 ATTAAAAATAAAGATTAAAT
*
11811710 -TGACAAAA-AAAGA-TAAAT
1 ATTA-AAAATAAAGATTAAAT
11811728 ATTAAAAACTAAA
1 ATTAAAAA-TAAA
11811741 TTTGCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (20 bp):
ATTAAAAATAAAGATTAAAT
Found at i:11816486 original size:40 final size:40
Alignment explanation
Indices: 11816431--11816506 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
11816421 ACATACCATG
* *
11816431 TGGGGATAAAATCGACCCACCCATCCCTGCACACCAAATA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAATA
*
11816471 TGGGGATAAAATCGACCCATCCAACCCTACACACCA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCA
11816507 TAAAGTACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCAAATA
Found at i:11816753 original size:34 final size:35
Alignment explanation
Indices: 11816710--11816782 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
11816700 AAAAAATATC
* * *
11816710 AGTCGTACAACCACCGTCAAGTCAGTTAAA-TCAT
1 AGTCATACAACCACAGTCAAATCAGTTAAATTCAT
* *
11816744 AGTCATACAATCATAGTCAAATCAGTTAAATTCAT
1 AGTCATACAACCACAGTCAAATCAGTTAAATTCAT
11816779 AGTC
1 AGTC
11816783 CAAGTTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (35 bp):
AGTCATACAACCACAGTCAAATCAGTTAAATTCAT
Found at i:11816856 original size:27 final size:27
Alignment explanation
Indices: 11816826--11816892 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
11816816 TCATTTATCC
11816826 CTACAGCGGTATTTC-GATAATTTTACA
1 CTACAG-GGTATTTCTGATAATTTTACA
* * *
11816853 CTACAAAGGTA-TTCTGGTAATTTTGCA
1 CTAC-AGGGTATTTCTGATAATTTTACA
11816880 CTACAAGGGTATT
1 CTAC-AGGGTATT
11816893 ACAGTCATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 3 0.09
27 28 0.85
28 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (27 bp):
CTACAGGGTATTTCTGATAATTTTACA
Found at i:11818776 original size:10 final size:10
Alignment explanation
Indices: 11818761--11818786 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11818751 GAGCATCAAT
11818761 TAAACACAAC
1 TAAACACAAC
11818771 TAAACACAAC
1 TAAACACAAC
11818781 TAAACA
1 TAAACA
11818787 TCATATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (10 bp):
TAAACACAAC
Found at i:11821059 original size:26 final size:26
Alignment explanation
Indices: 11821026--11821102 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
11821016 GCCCTCCAAA
11821026 AAAAAACCTAACCCCCCAAAAAAAAG
1 AAAAAACCTAACCCCCCAAAAAAAAG
*
11821052 AAAAAACCTAACCCCCCCCAAAAAAAG
1 AAAAAACCTAA-CCCCCCAAAAAAAAG
11821079 -AAAAACCTAACCCCCCAAAAAAAA
1 AAAAAACCTAACCCCCCAAAAAAAA
11821103 CCAAGAAACC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
25 13 0.27
26 21 0.44
27 14 0.29
ACGTcount: A:0.60, C:0.34, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAACCTAACCCCCCAAAAAAAAG
Found at i:11833921 original size:74 final size:74
Alignment explanation
Indices: 11833819--11834607 Score: 1069
Period size: 74 Copynumber: 10.7 Consensus size: 74
11833809 TGATGTTTTT
*
11833819 ATTTCTG-TTTCAAAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 ATTTCTGTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
11833883 AGGTAATTTCA
64 AGGTAATTTCA
* * * *
11833894 ATTTCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
11833959 GTAATTTCA
66 GTAATTTCA
* * * *
11833968 ATTTCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
11834033 GTAATTTCA
66 GTAATTTCA
* * **
11834042 ATTTCTGTTTTC--AAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
11834105 GTAATTTCA
66 GTAATTTCA
* * ** * *
11834114 ATTTCTGTTTTC--AAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
11834177 GTATTTTTA
66 GTAATTTCA
* *
11834186 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
11834251 GGTAATTTCA
65 GGTAATTTCA
** * *
11834261 ATTTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
11834325 GGTATTTTTA
65 GGTAATTTCA
* *
11834335 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
11834400 GGTAATTTCA
65 GGTAATTTCA
*
11834410 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTA-GACATGC
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C-AGGACACGC
* **
11834472 TAAGGTTTTTTCA
62 TGAGGTAATTTCA
* *
11834485 ATTTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
1 A-TTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
11834550 AGGTAATTTCA
64 AGGTAATTTCA
11834561 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
11834608 TTCAAATCAC
Statistics
Matches: 642, Mismatches: 56, Indels: 35
0.88 0.08 0.05
Matches are distributed among these distances:
72 198 0.31
73 5 0.01
74 217 0.34
75 153 0.24
76 27 0.04
77 5 0.01
78 1 0.00
79 36 0.06
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTCA
Found at i:11834338 original size:149 final size:146
Alignment explanation
Indices: 11833833--11834612 Score: 1080
Period size: 149 Copynumber: 5.3 Consensus size: 146
11833823 CTGTTTCAAA
* * * *
11833833 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTT
* * * * *
11833898 CTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAA
66 TTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
*
11833963 TTTCAATTTCTGTTGTCA
131 TTTCAATTTCTGTT-T-T
* ** * * *
11833981 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTT
* * * **
11834046 CTGTTTTC--AAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAA
66 TTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
11834109 TTTCAATTTCTGTTTT
131 TTTCAATTTCTGTTTT
* * * ** *
11834125 CAAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTT
*
11834190 TTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
66 TTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
11834255 ATTTCAATTTCTGTTGTT
130 ATTTCAATTTCTGTT-TT
** *
11834273 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATT
*
11834338 TTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
65 TTTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
11834403 AATTTCAATTTCTGTTTT
129 AATTTCAATTTCTGTTTT
* * * *
11834421 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTAGACATGCTAAGGT-TTTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGTATTTTT-A
*
11834485 ATTTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
62 A-TTTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
11834550 AGGTAATTTCAATTTCTGTTTT
125 AGGTAATTTCAATTTCTGTTTT
* *
11834572 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
11834613 ATCACACATG
Statistics
Matches: 576, Mismatches: 45, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
144 56 0.10
145 5 0.01
146 62 0.11
147 98 0.17
148 75 0.13
149 147 0.26
150 15 0.03
151 117 0.20
152 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (146 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTT
TTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTCAATTTCTGTTTT
Found at i:11835495 original size:26 final size:24
Alignment explanation
Indices: 11835462--11835534 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 24
11835452 TAAGCCCTCC
*
11835462 AAAAAAAAAACCTAACCCCCCCGGA
1 AAAAAAAAAACCTAACCCCCCC-CA
11835487 AAAAGAAAAAACCTAACCCCTCCCCAA
1 AAAA-AAAAAACCTAACCCC-CCCC-A
11835514 AAAAAGAAAAACCTAACCCCC
1 AAAAA-AAAAACCTAACCCCC
11835535 AAAAAAAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 4 0.09
26 17 0.40
27 22 0.51
ACGTcount: A:0.53, C:0.36, G:0.05, T:0.05
Consensus pattern (24 bp):
AAAAAAAAAACCTAACCCCCCCCA
Found at i:11835516 original size:27 final size:25
Alignment explanation
Indices: 11835462--11835534 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 25
11835452 TAAGCCCTCC
*
11835462 AAAAAAAAAACCTAACCCCCCCGGAA
1 AAAAAAAAAACCTAACCCCCCC-CAA
*
11835488 AAAGAAAAAACCTAACCCCTCCCCAA
1 AAAAAAAAAACCTAACCCC-CCCCAA
11835514 AAAAAGAAAAACCTAACCCCC
1 AAAAA-AAAAACCTAACCCCC
11835535 AAAAAAAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 25 0.60
27 17 0.40
ACGTcount: A:0.53, C:0.36, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAAAAAACCTAACCCCCCCCAA
Found at i:11835542 original size:27 final size:28
Alignment explanation
Indices: 11835486--11835543 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
11835476 ACCCCCCCGG
***
11835486 AAAAAGAAAAAACCTAACCCCTCCCCAA
1 AAAAAGAAAAAACCTAACCCCTCAAAAA
11835514 AAAAAG-AAAAACCTAACCCC-CAAAAA
1 AAAAAGAAAAAACCTAACCCCTCAAAAA
11835540 AAAA
1 AAAA
11835544 CCAAGAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 7 0.26
27 14 0.52
28 6 0.22
ACGTcount: A:0.62, C:0.29, G:0.03, T:0.05
Consensus pattern (28 bp):
AAAAAGAAAAAACCTAACCCCTCAAAAA
Found at i:11836333 original size:21 final size:23
Alignment explanation
Indices: 11836307--11836349 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11836297 ATACTTCTTG
*
11836307 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
11836328 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
11836350 CCGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:11836689 original size:16 final size:15
Alignment explanation
Indices: 11836665--11836699 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
11836655 TAATTATTAT
11836665 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
11836681 TATTTTAATATTTTA
1 TATTCTAATATTTTA
11836696 TATT
1 TATT
11836700 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:11848666 original size:74 final size:74
Alignment explanation
Indices: 11848564--11849279 Score: 1032
Period size: 74 Copynumber: 9.7 Consensus size: 74
11848554 TGATGTTTTT
*
11848564 ATTTCTG-TTTCAAAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 ATTTCTGTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
11848628 AGGTAATTTCA
64 AGGTAATTTCA
* * * *
11848639 ATTTCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
11848704 GTAATTTCA
66 GTAATTTCA
* * *
11848713 ATTTCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
11848778 GTAATTTCA
66 GTAATTTCA
* * ** * *
11848787 ATTTCTGTTTTC--AAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
11848850 GTATTTTTA
66 GTAATTTCA
* *
11848859 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
11848924 GGTAATTTCA
65 GGTAATTTCA
**
11848934 ATTTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
11848998 GGTAATTTCA
65 GGTAATTTCA
* *
11849008 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
11849073 GGTAATTTCA
65 GGTAATTTCA
** * * *
11849083 ATTTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAA
1 ATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
**
11849147 GGTTTTTTCA
65 GGTAATTTCA
* *
11849157 ATTTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
1 A-TTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
11849222 AGGTAATTTCA
64 AGGTAATTTCA
11849233 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
11849280 TTCAAATCAC
Statistics
Matches: 576, Mismatches: 54, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
72 92 0.16
73 4 0.01
74 272 0.47
75 148 0.26
76 60 0.10
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTCA
Found at i:11848979 original size:221 final size:220
Alignment explanation
Indices: 11848579--11849284 Score: 1045
Period size: 221 Copynumber: 3.2 Consensus size: 220
11848569 TGTTTCAAAA
*
11848579 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
* * * *
11848644 TGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTAAT
66 TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* *
11848709 TTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGC
131 TTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
11848774 TGAGGTAATTTCAATTTCTGTTTTC
196 TGAGGTAATTTCAATTTCTGTTTTC
* * * ** * * * *
11848799 AAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
11848864 TGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
66 TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
** *
11848929 TTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
130 TTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
*
11848994 CTGAGGTAATTTCAATTTTTGTCTTTC
195 CTGAGGTAATTTCAATTTCTGT-TTTC
*
11849021 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
** * * *
11849086 TCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGT
64 TCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
** * *
11849150 TTTTTCAATTTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
128 AATTTCAA-TTTCTGTTGTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
11849215 CACGCTGAGGTAATTTCAATTTCTGTTTTC
191 CACGCTGAGGTAATTTCAATTTCTGTTTTC
* *
11849245 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAA
1 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAA
11849285 ATCACACATG
Statistics
Matches: 431, Mismatches: 48, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
220 58 0.13
221 137 0.32
222 41 0.10
223 56 0.13
224 73 0.17
225 66 0.15
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (220 bp):
AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
TTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTAATTTCAATTTCTGTTTTC
Found at i:11849019 original size:149 final size:149
Alignment explanation
Indices: 11848577--11849284 Score: 1102
Period size: 149 Copynumber: 4.8 Consensus size: 149
11848567 TCTGTTTCAA
11848577 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * ** ** *
11848642 TCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGAGACGCTGAGGTA
66 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
* *
11848707 ATTTCAATTTCTGT-TGTC
131 ATTTCAATTTTTGTCTTTC
* * *
11848725 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * *
11848790 TCTGTT-TT-CAAAATTCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
* *
11848853 TTTTTAATTTTTGTCTTTC
131 ATTTCAATTTTTGTCTTTC
11848872 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
11848937 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
66 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
11849002 ATTTCAATTTTTGTCTTTC
131 ATTTCAATTTTTGTCTTTC
11849021 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * *
11849086 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTT
66 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
* *
11849151 TTTTCAATTTTTTGTTTTTC
131 ATTTCAA-TTTTTGTCTTTC
* *
11849171 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* ** *
11849236 TCTGTT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAA
66 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
11849285 ATCACACATG
Statistics
Matches: 516, Mismatches: 40, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
146 56 0.11
147 72 0.14
148 107 0.21
149 201 0.39
150 80 0.16
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (149 bp):
AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
ATTTCAATTTTTGTCTTTC
Found at i:11860422 original size:21 final size:21
Alignment explanation
Indices: 11860398--11860448 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11860388 TAATATGTTA
* **
11860398 TATGCTTAGTATGATTTGTAT
1 TATGCTAAGTATGATCCGTAT
*
11860419 TATGATAAGTATGATCCGTAT
1 TATGCTAAGTATGATCCGTAT
11860440 TATGCTAAG
1 TATGCTAAG
11860449 CATGGTTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (21 bp):
TATGCTAAGTATGATCCGTAT
Found at i:11862450 original size:32 final size:32
Alignment explanation
Indices: 11862414--11862514 Score: 100
Period size: 33 Copynumber: 3.1 Consensus size: 32
11862404 TTATCTCTCT
11862414 CAAAATGGTCCTCAAAACTAGGGCACTAAAAA
1 CAAAATGGTCCTCAAAACTAGGGCACTAAAAA
*
11862446 CAAAATTGGAT-CTCATAACTAGGGCACT-AAAA
1 CAAAA-TGG-TCCTCAAAACTAGGGCACTAAAAA
* * * *
11862478 CGTAAATAGACCTCAAAACTAGGTC-CTACAAAA
1 C-AAAATGGTCCTCAAAACTAGGGCACTA-AAAA
11862511 CAAA
1 CAAA
11862515 CTAGATCTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
31 2 0.04
32 26 0.46
33 27 0.48
34 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.18
Consensus pattern (32 bp):
CAAAATGGTCCTCAAAACTAGGGCACTAAAAA
Found at i:11862543 original size:64 final size:65
Alignment explanation
Indices: 11862423--11862564 Score: 180
Period size: 64 Copynumber: 2.2 Consensus size: 65
11862413 TCAAAATGGT
* * * *
11862423 CCTCAAAACTAGGGCACTAAAAACAAAATTGGATCTCATAACTAGGGCACTAAAACGTAAATAGA
1 CCTCAAAACTAGGGCACTAAAAACAAAACTAGATCTCACAACTAGGCCACTAAAACGTAAATAGA
* * * * *
11862488 CCTCAAAACTAGGTC-CTACAAAAC-AAACTAGATCTTACAACTAGTCCACTAAAACGTAATTGG
1 CCTCAAAACTAGGGCACTA-AAAACAAAACTAGATCTCACAACTAGGCCACTAAAACGTAAATAG
11862551 A
65 A
11862552 CCTCAAAACTAGG
1 CCTCAAAACTAGG
11862565 ATATTGAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 48 0.72
65 19 0.28
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (65 bp):
CCTCAAAACTAGGGCACTAAAAACAAAACTAGATCTCACAACTAGGCCACTAAAACGTAAATAGA
Found at i:11862562 original size:32 final size:32
Alignment explanation
Indices: 11862423--11862564 Score: 110
Period size: 32 Copynumber: 4.4 Consensus size: 32
11862413 TCAAAATGGT
* * *
11862423 CCTCAAAACTAGGGCACTAAAAACAAAATTGGA
1 CCTCAAAACTAGGCCACT-AAAACGAAATTAGA
* * *
11862456 TCTCATAACTAGGGCACTAAAACGTAAA-TAGA
1 CCTCAAAACTAGGCCACTAAAACG-AAATTAGA
*
11862488 CCTCAAAACTAGGTCCTAC-AAAAC-AAACTAGA
1 CCTCAAAACTAGG-CC-ACTAAAACGAAATTAGA
* * * * * *
11862520 TCTTACAACTAGTCCACTAAAACGTAATTGGA
1 CCTCAAAACTAGGCCACTAAAACGAAATTAGA
11862552 CCTCAAAACTAGG
1 CCTCAAAACTAGG
11862565 ATATTGAACT
Statistics
Matches: 85, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
30 2 0.02
31 10 0.12
32 46 0.54
33 25 0.29
34 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (32 bp):
CCTCAAAACTAGGCCACTAAAACGAAATTAGA
Found at i:11866360 original size:16 final size:16
Alignment explanation
Indices: 11866339--11866371 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11866329 AAACCTTATG
11866339 TTTACTCTAAGCCTAA
1 TTTACTCTAAGCCTAA
11866355 TTTACTCTAAGCCTAA
1 TTTACTCTAAGCCTAA
11866371 T
1 T
11866372 AAAAGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTACTCTAAGCCTAA
Found at i:11873184 original size:15 final size:16
Alignment explanation
Indices: 11873142--11873184 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
11873132 ATACAAACAG
* *
11873142 AACAACAAAAAATTTT
1 AACAATAAAACATTTT
*
11873158 AACAATACAACATTTT
1 AACAATAAAACATTTT
11873174 AA-AATAAAACA
1 AACAATAAAACA
11873185 CATTCGATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (16 bp):
AACAATAAAACATTTT
Found at i:11885051 original size:34 final size:31
Alignment explanation
Indices: 11885006--11885067 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 31
11884996 ATAATATTGT
*
11885006 TAAATATTTAAATTAATTAATAATATTATAAAAA
1 TAAATAATTAAATT-A-TAATAA-ATTATAAAAA
11885040 TAAATAATTAAATTATAATAAATTATAA
1 TAAATAATTAAATTATAATAAATTATAA
11885068 GGATTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 6 0.22
33 1 0.04
34 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAATAATTAAATTATAATAAATTATAAAAA
Found at i:11886999 original size:17 final size:18
Alignment explanation
Indices: 11886961--11887002 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11886951 TTAACTTTTA
*
11886961 ACTTTTG-CTCAAAAATG
1 ACTTTTGACTCAAAAATC
*
11886978 TCTTTTGACTCAAAAA-C
1 ACTTTTGACTCAAAAATC
11886995 ACTTTTGA
1 ACTTTTGA
11887003 AAAACAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (18 bp):
ACTTTTGACTCAAAAATC
Found at i:11888567 original size:23 final size:24
Alignment explanation
Indices: 11888528--11888573 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
11888518 TTAAAAGATA
*
11888528 TATATATAGATATATA-TAAAATG
1 TATACATAGATATATATTAAAATG
11888551 TATACATA-ATATAATATTAAAAT
1 TATACATAGATAT-ATATTAAAAT
11888574 ATTTACATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (24 bp):
TATACATAGATATATATTAAAATG
Found at i:11890593 original size:23 final size:24
Alignment explanation
Indices: 11890554--11890599 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
11890544 TTAAAAGATA
*
11890554 TATATATAGATATATA-TAAAATG
1 TATACATAGATATATATTAAAATG
11890577 TATACATA-ATATAATATTAAAAT
1 TATACATAGATAT-ATATTAAAAT
11890600 ATTTACATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (24 bp):
TATACATAGATATATATTAAAATG
Found at i:11890707 original size:39 final size:39
Alignment explanation
Indices: 11890659--11890739 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
11890649 GCAAAAAAGC
*
11890659 TAATCCCACTCCCCCATGCTACTTTGTTTTATTATTAAT
1 TAATCCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
*
11890698 TAATTCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
1 TAATCCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
11890737 TAA
1 TAA
11890740 AATCATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.05, T:0.43
Consensus pattern (39 bp):
TAATCCCACTCCCCCATGCCACTTTGTTTTATTATTAAT
Found at i:11892177 original size:44 final size:44
Alignment explanation
Indices: 11892101--11893446 Score: 1773
Period size: 44 Copynumber: 31.1 Consensus size: 44
11892091 AGGAACACCG
* *
11892101 ATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGATACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
11892145 ATATGCTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
11892189 ATTTGTTATCTTCGATCTACTTTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
11892233 ATCTTTTATCTTCGATCTACTCTCCGCCACTACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* **
11892277 ATCTGTTATCTTCGATCTGCT-TCCGTCGCTACAGAGACGCGGA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
11892320 ATCTGCAATCTTCGATCTGCTCTCAGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
11892364 ATCTGTTATCTTCGATCTGCTCTCAGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
11892408 ATCTGTTATCCTT-GATCTGCTCTCCGCCGCTACAAAGACGCCAA
1 ATCTGTTAT-CTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
11892452 ATCTATTATCTTCGATCTACTCTCCGCCGCTACAAAGAGGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11892496 ATCTGTTATCTTCAATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
11892540 ATCTATTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11892584 ATC----ATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11892624 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11892668 ATCTGTTATCTTCGATCTGCTTTCCGCCGCTACAGAAACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
11892712 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
11892756 ATCTATTATCTTCGATCTGCTCTCCGTCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** *
11892800 ATCTGTTATCTTCGATCTGCTCTCTGCCATTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11892844 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
11892884 ATC----ATCTTCGATCTACTCTCCGCCGCTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11892924 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
11892968 TTCTATTATCTTCGATCTACTCTCCGTCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
11893012 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
11893056 ATATATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
11893100 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGGCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
11893144 ATCTGTTATATTTGATCTGCTCTCTGCCGCTACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
11893188 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
11893232 ATC----ATCTTCCATCTGCTCTCCGCTGCTACAGAAATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * **
11893272 ATC----ATCTTCAATCTACTCTCCGCTGCTACAGAAATACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
11893312 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
**
11893356 ATCTGTTATCTTCGATCTGCTCTATGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
11893400 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTATAGATACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
11893444 ATC
1 ATC
11893447 ATCTTGGATT
Statistics
Matches: 1165, Mismatches: 122, Indels: 30
0.88 0.09 0.02
Matches are distributed among these distances:
40 185 0.16
43 40 0.03
44 937 0.80
45 3 0.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:11893771 original size:61 final size:64
Alignment explanation
Indices: 11893653--11893775 Score: 191
Period size: 61 Copynumber: 2.0 Consensus size: 64
11893643 TCATGTATCC
11893653 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
11893717 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
11893776 AATGGTTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.36
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:11901532 original size:39 final size:39
Alignment explanation
Indices: 11901489--11901567 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
11901479 AAAAAAGCTG
*
11901489 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
*
11901528 ATCCCACTCCCCCATGCCACTTTTTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
11901567 A
1 A
11901568 AACCATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:11904664 original size:30 final size:30
Alignment explanation
Indices: 11904628--11904696 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
11904618 CTAGCCTTTG
*
11904628 CCACCACCAACTCCACTAACCACACTTGCT
1 CCACCACCAACTCCAATAACCACACTTGCT
*
11904658 CCACCACCAACTCCAATAGCCACACTTGCT
1 CCACCACCAACTCCAATAACCACACTTGCT
11904688 CCACCACCA
1 CCACCACCA
11904697 CTTGTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.30, C:0.51, G:0.04, T:0.14
Consensus pattern (30 bp):
CCACCACCAACTCCAATAACCACACTTGCT
Found at i:11905116 original size:23 final size:25
Alignment explanation
Indices: 11905023--11905154 Score: 100
Period size: 23 Copynumber: 5.6 Consensus size: 25
11905013 CTTTTTTTGT
* *
11905023 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCATTAATACTA
* *
11905046 TATTATGTATATATTC-TT-TTAATA
1 TATTATGTATATA-TCATTAATACTA
* * *
11905070 TATTAGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCATTAATACTA
*
11905093 TATTACGTATATAT-ATT-ATACTA
1 TATTATGTATATATCATTAATACTA
* *
11905116 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCATTAATACTA
*
11905141 TATTATTTATATAT
1 TATTATGTATATAT
11905155 TTTTTTTTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
22 3 0.03
23 37 0.43
24 24 0.28
25 22 0.26
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATCATTAATACTA
Found at i:11905226 original size:25 final size:24
Alignment explanation
Indices: 11905176--11905238 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
11905166 CATGTTATCT
*
11905176 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
11905202 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
11905227 TACATATTTTTT
1 TATGTATTTTTT
11905239 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:11905276 original size:79 final size:78
Alignment explanation
Indices: 11905102--11905276 Score: 192
Period size: 79 Copynumber: 2.2 Consensus size: 78
11905092 ATATTACGTA
* * * *
11905102 TATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATTTTTTTTTAAAC
1 TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTTAAAC
*
11905167 ATGTTATCTTATG
66 ATGTTATCATATG
* * * * *
11905180 TATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATA-TTTTTTTTATA
1 TATATATTAT-ACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTTA-A
* *
11905244 TCTATTTTATACATATG
64 AC-ATGTTAT-CATATG
11905261 TATATATTATA-TATAT
1 TATATATTATACTATAT
11905277 CTTAACATTA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
78 18 0.22
79 41 0.51
80 7 0.09
81 14 0.17
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (78 bp):
TATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTTTAAAC
ATGTTATCATATG
Found at i:11905328 original size:25 final size:24
Alignment explanation
Indices: 11905300--11905355 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
11905290 GTTATATTTT
*
11905300 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
11905325 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
11905348 CACTATTA
1 CACTATTA
11905356 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:11906624 original size:21 final size:21
Alignment explanation
Indices: 11906595--11906636 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11906585 AATCTGCTGG
11906595 TTCAAGTACCTTTACTGTAGA
1 TTCAAGTACCTTTACTGTAGA
* *
11906616 TTCAGGTACCTTTACTTTAGA
1 TTCAAGTACCTTTACTGTAGA
11906637 ACCAAACTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (21 bp):
TTCAAGTACCTTTACTGTAGA
Found at i:11915931 original size:50 final size:51
Alignment explanation
Indices: 11915750--11915942 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 51
11915740 ATCTTGTATT
* * *
11915750 TATTCGGCCACATAGGTATGTACATATGTGACGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * *
11915800 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * * *
11915850 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * *
11915900 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGA
11915943 TTCTCTATAA
Statistics
Matches: 106, Mismatches: 30, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
49 4 0.04
50 94 0.89
51 8 0.08
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
Found at i:11919698 original size:13 final size:13
Alignment explanation
Indices: 11919654--11919698 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
11919644 CGCCGAGGTA
11919654 TTTTTAATTTCTG
1 TTTTTAATTTCTG
11919667 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
11919681 CTTTTAATTTCTG
1 TTTTTAATTTCTG
11919694 TTTTT
1 TTTTT
11919699 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:11919763 original size:100 final size:102
Alignment explanation
Indices: 11919566--11919774 Score: 323
Period size: 100 Copynumber: 2.1 Consensus size: 102
11919556 CGCTGAGGTA
*
11919566 TTTTCAATTTCCGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
1 TTTTCAATTTCCGTCTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
* *
11919631 GAGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTGT
66 GAGCCTCAGGGCACGCCGAGGTATTTTCAATTTCTGT
* * * *
11919668 TTTTCAATTTCTG-CTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTCCGTCTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
**
11919731 GAGCCTCAGGGCACGTTGAGGTATTTTCAATTTCTGT
66 GAGCCTCAGGGCACGCCGAGGTATTTTCAATTTCTGT
11919768 TTTTCAA
1 TTTTCAA
11919775 AAAAATCAAC
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 82 0.84
101 4 0.04
102 12 0.12
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (102 bp):
TTTTCAATTTCCGTCTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
GAGCCTCAGGGCACGCCGAGGTATTTTCAATTTCTGT
Found at i:11919825 original size:73 final size:74
Alignment explanation
Indices: 11919682--11919994 Score: 397
Period size: 73 Copynumber: 4.3 Consensus size: 74
11919672 CAATTTCTGC
* *
11919682 TTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-AGCA
*
11919744 CGTTGAGGTA
65 CGCTGAGGTA
*
11919754 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG-AC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGCAC
11919818 GCTGAGGTA
66 GCTGAGGTA
* * * * *
11919827 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG-CA
*
11919890 CGTTGAGGTA
65 CGCTGAGGTA
* * * *
11919900 TTTTCAATTTCCGTCTTTCAAAAAAAATCAGCTCATATTGCGAAAGGTGAGTTGAACCTCAAG-A
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGCA
*
11919964 CGCTGAGGTG
65 CGCTGAGGTA
* *
11919974 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
11919995 TTTCTGTGTT
Statistics
Matches: 207, Mismatches: 26, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
71 38 0.18
72 4 0.02
73 66 0.32
74 25 0.12
75 37 0.18
76 37 0.18
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGCAC
GCTGAGGTA
Found at i:11920232 original size:99 final size:99
Alignment explanation
Indices: 11920063--11920309 Score: 401
Period size: 99 Copynumber: 2.5 Consensus size: 99
11920053 GCTGAGGTAA
*
11920063 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCACAC
1 TTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCACAC
11920128 GCCGAGGTATTTTCAATTGATTTTTA-T-TTTTT
66 GCCGAGGTATTTTCAATTGATTTTTATTATTTTT
11920160 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCAC
1 TTTCAATTTATGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCAC
11920225 ACGCCGAGGTATTTTCAATTGATTTTTATTTTTATTTTT
64 ACGCCGAGGTATTTTCAATTGATTTTTA---TTATTTTT
*
11920264 TTTCAATTTATGCTTTG-CAAAAATCAACTCATATTACGAGAGGTGA
1 TTTCAATTTATG-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGA
11920310 CATACCAAGG
Statistics
Matches: 140, Mismatches: 2, Indels: 11
0.92 0.01 0.07
Matches are distributed among these distances:
97 17 0.12
99 73 0.52
102 27 0.19
103 1 0.01
104 18 0.13
105 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (99 bp):
TTTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGATCACAC
GCCGAGGTATTTTCAATTGATTTTTATTATTTTT
Found at i:11921145 original size:30 final size:30
Alignment explanation
Indices: 11921109--11921237 Score: 204
Period size: 30 Copynumber: 4.3 Consensus size: 30
11921099 CTAGCCTTTG
11921109 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
11921139 CCACCACTAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
11921169 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * * *
11921199 CCACCACCTAGTCCATTAGGCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
11921229 CCACCACCA
1 CCACCACCA
11921238 CTTGTACCTA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.26, C:0.48, G:0.08, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:11922841 original size:12 final size:12
Alignment explanation
Indices: 11922824--11922848 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11922814 TCAAATTATA
11922824 TTTTCTTCTTCT
1 TTTTCTTCTTCT
11922836 TTTTCTTCTTCT
1 TTTTCTTCTTCT
11922848 T
1 T
11922849 CTTAACTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTCTTCT
Found at i:11930385 original size:22 final size:25
Alignment explanation
Indices: 11930336--11930392 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
11930326 GGATATATCT
*
11930336 TTTATTTAATATGAATATAATTATA
1 TTTATTTAATATGAATATAATTAAA
*
11930361 TTTATTTAATATTAATATTAAATTTAAA
1 TTTATTTAATATGAATA-T-AA-TTAAA
11930389 TTTA
1 TTTA
11930393 AATTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 16 0.59
26 1 0.04
27 2 0.07
28 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATTTAATATGAATATAATTAAA
Found at i:11934646 original size:38 final size:38
Alignment explanation
Indices: 11934597--11934671 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
11934587 AAAAGCAAAG
11934597 AAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTAA
1 AAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTAA
11934635 AAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
1 AAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTA
11934672 TCTTCCATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (38 bp):
AAAAAAATCTTGCAATTAGTTTAATTAATTAATTTTAA
Found at i:11940777 original size:26 final size:26
Alignment explanation
Indices: 11940730--11940800 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
11940720 TTAATATTTA
* *
11940730 TTTTATTTTATTTT-TATAATTG-GCC
1 TTTTA-TTTATTTTCTTTTATTGTGCC
11940755 TTTTTATTTATTTTCTTTTATTGTGCC
1 -TTTTATTTATTTTCTTTTATTGTGCC
*
11940782 TTTCATTTA--TTCTTTTATT
1 TTTTATTTATTTTCTTTTATT
11940801 TATTTGCTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.25
25 8 0.20
26 19 0.47
27 3 0.08
ACGTcount: A:0.15, C:0.10, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTATTTATTTTCTTTTATTGTGCC
Found at i:11943045 original size:16 final size:16
Alignment explanation
Indices: 11943024--11943064 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11943014 TTATTCATTC
11943024 AAATCATTTTAAATTT
1 AAATCATTTTAAATTT
*
11943040 AAATCATTTTAGATTT
1 AAATCATTTTAAATTT
*
11943056 GAAT-ATTTT
1 AAATCATTTT
11943065 CGAGTTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (16 bp):
AAATCATTTTAAATTT
Found at i:11943984 original size:30 final size:30
Alignment explanation
Indices: 11943944--11944015 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
11943934 TTAAAAATAA
* *
11943944 AAATTGCATTTTGACCCCTAGACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCACT
* *
11943974 AAATTTCATTTTGACCCTTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
11944004 AAATTTCATTTT
1 AAATTTCATTTT
11944016 AATCCTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.46
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCACT
Found at i:11944432 original size:18 final size:19
Alignment explanation
Indices: 11944411--11944452 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
11944401 ACAAAAAAAA
11944411 AAGAGAA-AAGAAGAGAAG
1 AAGAGAAGAAGAAGAGAAG
11944429 AAGA-AAGAAGAAGAGAAG
1 AAGAGAAGAAGAAGAGAAG
*
11944447 AGGAGA
1 AAGAGA
11944453 CGCCGGAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAGAGAAG
Found at i:11944906 original size:20 final size:17
Alignment explanation
Indices: 11944877--11944931 Score: 76
Period size: 17 Copynumber: 3.1 Consensus size: 17
11944867 AACCCAGCAG
11944877 AGAGAAAAAAAGAAAGAA
1 AGAGAAAAAAAGAAA-AA
11944895 AGAAGAAAAAAA-AGAAAA
1 AG-AGAAAAAAAGA-AAAA
11944913 AGAGAAAAAAAGAAAAA
1 AGAGAAAAAAAGAAAAA
11944930 AG
1 AG
11944932 GGGTTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 15 0.44
18 8 0.24
19 11 0.32
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAAAGAAAAA
Found at i:11944928 original size:16 final size:16
Alignment explanation
Indices: 11944877--11944929 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
11944867 AACCCAGCAG
11944877 AGAGAAAAAAAGAAAGAA
1 AGAGAAAAAAAG-AA-AA
11944895 AGAAGAAAAAAAAGAAAA
1 AG-AG-AAAAAAAGAAAA
11944913 AGAGAAAAAAAGAAAA
1 AGAGAAAAAAAGAAAA
11944929 A
1 A
11944930 AGGGGTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.39
17 2 0.06
18 6 0.18
19 4 0.12
20 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AGAGAAAAAAAGAAAA
Found at i:11945114 original size:5 final size:5
Alignment explanation
Indices: 11945106--11945135 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
11945096 TTAATTCAAT
11945106 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11945136 AATACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11945334 original size:21 final size:20
Alignment explanation
Indices: 11945302--11945343 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
11945292 TCGCGTTTCG
11945302 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
*
11945322 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
11945343 A
1 A
11945344 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:11945344 original size:19 final size:19
Alignment explanation
Indices: 11945302--11945343 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
11945292 TCGCGTTTCG
11945302 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTC-AAA
*
11945322 AAATTTCTCGTGTTTTCAAA
1 AAATTT-TCGTGTCTTCAAA
11945342 AA
1 AA
11945344 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTTCGTGTCTTCAAA
Found at i:11945477 original size:18 final size:18
Alignment explanation
Indices: 11945456--11945940 Score: 172
Period size: 17 Copynumber: 26.8 Consensus size: 18
11945446 AGAAAATTTT
11945456 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
11945474 TCGTGTTTTCAAAAAAATT-
1 TCGTGTTTTC--AAAAATTC
* * *
11945493 T-AT-TTTTCAAAATTTT
1 TCGTGTTTTCAAAAATTC
*
11945509 TCTTGTTTTCTAAAAATT-
1 TCGTGTTTTC-AAAAATTC
* * * *
11945527 TCCAT-ATTTCTAAAATTT
1 T-CGTGTTTTCAAAAATTC
* *
11945545 TCGTG-TCTAAAAAATT-
1 TCGTGTTTTCAAAAATTC
* * *
11945561 TCGTATTTTCAAAATTTTTT
1 TCGTGTTTTCAAAA--ATTC
** * *
11945581 TTTTTTTTTCAACAATTC
1 TCGTGTTTTCAAAAATTC
* *
11945599 TCGAG-TTTCACAAATTC
1 TCGTGTTTTCAAAAATTC
* *
11945616 TCGTGTTTT-AAAATTTT
1 TCGTGTTTTCAAAAATTC
** *
11945633 TTATGTTTTAAAAAATAAATTTC
1 TCGTGTTTT---CAA-AAA-TTC
*
11945656 TCGTG-TTTCAAAAAAATTG
1 TCGTGTTTTC--AAAAATTC
* *
11945675 TCATGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTC
* *
11945692 TCATG-TTTCTAAAATGT-
1 TCGTGTTTTCAAAAAT-TC
*
11945709 T--TGTATTTCAAAAAATCC
1 TCGTGT-TTTC-AAAAATTC
11945727 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
* *
11945745 TCATG-TTT-AAAAAATC
1 TCGTGTTTTCAAAAATTC
11945761 TTCGTGTTTTC-AAAATTC
1 -TCGTGTTTTCAAAAATTC
* *
11945779 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
11945796 TCATGTTTTCAAAAATTTC
1 TCGTGTTTTCAAAAA-TTC
* *
11945815 CCCTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
* * *
11945833 TCGTATTTT-GAAAATTT
1 TCGTGTTTTCAAAAATTC
*
11945850 TCTTGTTTTCAAAAAAAAAACTT-
1 TCGTGTTTTC-----AAAAA-TTC
*
11945873 TCGTGTTTT-ATAAA-TC
1 TCGTGTTTTCAAAAATTC
11945889 TCCGTGTTTTCAAAAAATTC
1 T-CGTGTTTTC-AAAAATTC
* *
11945909 TCGT-CTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
11945926 TCGTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
11945941 ATTGACCTTG
Statistics
Matches: 347, Mismatches: 70, Indels: 100
0.67 0.14 0.19
Matches are distributed among these distances:
15 9 0.03
16 20 0.06
17 132 0.38
18 86 0.25
19 43 0.12
20 29 0.08
21 4 0.01
22 5 0.01
23 17 0.05
24 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:11945502 original size:35 final size:35
Alignment explanation
Indices: 11945461--11945864 Score: 129
Period size: 35 Copynumber: 11.3 Consensus size: 35
11945451 ATTTTTCGTG
*
11945461 TTTTCAAAAATTCTCGTGTTTTCAAAAAAATTT-AT
1 TTTTCAAAAATTTTCGTGTTTTC-AAAAAATTTCAT
* * *
11945496 TTTTCAAAATTTTTCTTGTTTTCTAAAAATTTCCAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTT-CAT
* * * *
11945532 ATTTCTAAAATTTTCGTG-TCT-AAAAAATTTCGT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCAT
* ** * *
11945565 ATTTTCAAAATTTTTTTTTTTTTTTC-AACAATTCTCGA-
1 -TTTTCAAAA--ATTTTCGTGTTTTCAAAAAATT-TC-AT
* * * ** *
11945603 GTTTCACAAATTCTCGTGTTTT-AAAATTTTTTAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCAT
*
11945637 GTTTTAAAAAATAAATTTC-TCGTGTTTCAAAAAAATTGTCAT
1 -TTTTCAAAAAT---TTTCGT-GT-TTTC-AAAAAATT-TCAT
* * **
11945679 GTTTT-AAAAATTTTCATG-TTTC-TAAAATGTTTGT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAAAT-TTCAT
* **
11945713 ATTTCAAAAAATCCTCGTGTTTTC-AAAAATTCTCAT
1 TTTTC-AAAAATTTTCGTGTTTTCAAAAAATT-TCAT
* * *
11945749 GTTTAAAAAATCTTCGTGTTTTC--AAAA-TTCTAGT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTC-A-T
* * *
11945783 GTTTCAAAAATTTTCATGTTTTC-AAAAATTTCCCCT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTT--CAT
* * * * *
11945819 GTTTTCAAAAATTCTCGTATTTT-GAAAATTTTCTT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCAT
11945854 GTTTTCAAAAA
1 -TTTTCAAAAA
11945865 AAAAACTTTC
Statistics
Matches: 274, Mismatches: 61, Indels: 68
0.68 0.15 0.17
Matches are distributed among these distances:
32 2 0.01
33 8 0.03
34 56 0.20
35 88 0.32
36 42 0.15
37 41 0.15
38 13 0.05
39 4 0.01
41 12 0.04
42 8 0.03
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (35 bp):
TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCAT
Found at i:11945574 original size:17 final size:17
Alignment explanation
Indices: 11945454--11945574 Score: 52
Period size: 18 Copynumber: 6.9 Consensus size: 17
11945444 TCAGAAAATT
*
11945454 TTTCGTGTTTTCAAAAA
1 TTTCGTATTTTCAAAAA
*
11945471 TTCTCGTGTTTTCAAAAAA
1 TT-TCGTATTTTC-AAAAA
* *
11945490 ATT--TATTTTTCAAAATT
1 TTTCGTA-TTTTCAAAA-A
* *
11945507 TTTCTTGTTTTCTAAAAA
1 TTTCGTATTTTC-AAAAA
* *
11945525 TTTC-CATATTTCTAAAAT
1 TTTCGTAT-TTTC-AAAAA
* * *
11945543 TTTCGT-GTCTAAAAAA
1 TTTCGTATTTTCAAAAA
11945559 TTTCGTATTTTCAAAA
1 TTTCGTATTTTCAAAA
11945575 TTTTTTTTTT
Statistics
Matches: 77, Mismatches: 17, Indels: 20
0.68 0.15 0.18
Matches are distributed among these distances:
16 15 0.19
17 18 0.23
18 33 0.43
19 11 0.14
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (17 bp):
TTTCGTATTTTCAAAAA
Found at i:11945749 original size:70 final size:69
Alignment explanation
Indices: 11945667--11945831 Score: 172
Period size: 70 Copynumber: 2.3 Consensus size: 69
11945657 CGTGTTTCAA
* * *
11945667 AAAAATTGTCATGTTTTAAAAATTTTCATG-TTTCTAAAATGT-TTGTATTTCAAAAAATCCTCG
1 AAAAATTCTCATGTTTTAAAAATTTTCATGTTTTC-AAAAT-TCTAGTATTTC-AAAAATCCTCA
11945730 TGTTTTC
63 TGTTTTC
* * * * **
11945737 AAAAATTCTCATGTTTAAAAAATCTTCGTGTTTTCAAAATTCTAGTGTTTCAAAAATTTTCATGT
1 AAAAATTCTCATGTTTTAAAAATTTTCATGTTTTCAAAATTCTAGTATTTCAAAAATCCTCATGT
11945802 TTTC
66 TTTC
* *
11945806 AAAAATTTCCCCTGTTTTCAAAAATT
1 AAAAA-TTCTCATGTTTT-AAAAATT
11945832 CTCGTATTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
69 21 0.27
70 47 0.60
71 10 0.13
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (69 bp):
AAAAATTCTCATGTTTTAAAAATTTTCATGTTTTCAAAATTCTAGTATTTCAAAAATCCTCATGT
TTTC
Found at i:11945923 original size:17 final size:18
Alignment explanation
Indices: 11945891--11945940 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11945881 TATAAATCTC
*
11945891 CGTGTTTTCAAAAAATTCT
1 CGTGCTTTC-AAAAATTCT
*
11945910 CGT-CTTTCAAAAATTTT
1 CGTGCTTTCAAAAATTCT
*
11945927 CGTGTTTTCAAAAA
1 CGTGCTTTCAAAAA
11945941 ATTGACCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.41
18 13 0.48
19 3 0.11
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (18 bp):
CGTGCTTTCAAAAATTCT
Found at i:11946045 original size:22 final size:22
Alignment explanation
Indices: 11946003--11946044 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
11945993 ATAATTTATC
*
11946003 AAAATTTTTGTGTTTTCAAAAT
1 AAAATTTTTGTGTTTTAAAAAT
11946025 AAAA-TTTTGTGTTTTAAAAA
1 AAAATTTTTGTGTTTTAAAAA
11946045 AATTCTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
AAAATTTTTGTGTTTTAAAAAT
Found at i:11946062 original size:17 final size:18
Alignment explanation
Indices: 11946042--11946084 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11946032 TGTGTTTTAA
11946042 AAAAATTCTCATG-TTTC
1 AAAAATTCTCATGTTTTC
* * *
11946059 AAAAACTGTCGTGTTTTC
1 AAAAATTCTCATGTTTTC
11946077 AAAAATTC
1 AAAAATTC
11946085 CCGTGTTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (18 bp):
AAAAATTCTCATGTTTTC
Found at i:11946138 original size:18 final size:19
Alignment explanation
Indices: 11946106--11946159 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
11946096 AAATTTTGTG
11946106 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTCAAAAAA
11946125 TTTTCGTG-TTTC-AAAAA
1 TTTTCGTGTTTTCAAAAAA
*
11946142 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
11946160 TTATTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 12 0.38
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTTCGTGTTTTCAAAAAA
Found at i:11946142 original size:17 final size:18
Alignment explanation
Indices: 11946106--11946161 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
11946096 AAATTTTGTG
11946106 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
11946125 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
11946142 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
11946160 TT
1 TT
11946162 ATTATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 12 0.35
18 14 0.41
19 8 0.24
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:11946701 original size:45 final size:45
Alignment explanation
Indices: 11946647--11946739 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
11946637 ATTTTCAAAA
*
11946647 TTTCTTGTTCAAATTAACATTTAGTCGTGATCCTTAAATTTTTTG
1 TTTCTTGTTCAAATTAACATTTAGTCGCGATCCTTAAATTTTTTG
11946692 TTTCTTGTTCAAATTAACATTTAGTCGCGATCCTTAAATTTTTTG
1 TTTCTTGTTCAAATTAACATTTAGTCGCGATCCTTAAATTTTTTG
11946737 TTT
1 TTT
11946740 TCAAAAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.52
Consensus pattern (45 bp):
TTTCTTGTTCAAATTAACATTTAGTCGCGATCCTTAAATTTTTTG
Found at i:11950658 original size:43 final size:41
Alignment explanation
Indices: 11950604--11950723 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
11950594 AATTTAACGC
*
11950604 CTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGAA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCG-A
* * * * *
11950646 TCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCCAAGA-TGCGA
1 -CTTAACCCCCTAAGCAGTAG-GGTAACAGGT-CAAAATTGCGA
*
11950688 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTCAAAAT
11950724 ATAGCAGATC
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
40 5 0.08
41 23 0.38
42 1 0.02
43 26 0.43
44 6 0.10
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (41 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGA
Found at i:11951198 original size:207 final size:207
Alignment explanation
Indices: 11950843--11951558 Score: 1193
Period size: 207 Copynumber: 3.5 Consensus size: 207
11950833 CGACGGAGAG
* *
11950843 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
11950908 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
* *
11950973 CATAGCAGATTTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTAGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
11951038 GCTTACAAGGAA
196 GCTTACAAGGAA
* * *
11951050 CAAATCGAAGGCATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
11951115 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
11951180 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
11951245 GCTTACAAGGAA
196 GCTTACAAGGAA
* * * *
11951257 CAAATCAAAGACATGGCTGATTTGGCTTTCCCGTGTTTACGTTGAAGCAAGTCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
* * *
11951322 GCATCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCAACGGAGGACAGACA
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
* ** * * *
11951387 TATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGT
131 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
*
11951451 GCTTACAA-GAG
196 GCTTACAAGGAA
* *
11951462 CAAATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTG
1 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
* *
11951527 GCATCTCTGTATTGTCAGGGAACAAATTGAAG
66 GCATCTCTGTATTGTCAGAGAACAAATCGAAG
11951559 AAGCAGATTT
Statistics
Matches: 479, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
205 91 0.19
206 34 0.07
207 354 0.74
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (207 bp):
CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTG
GCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACA
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAA
Found at i:11951966 original size:17 final size:18
Alignment explanation
Indices: 11951953--11952077 Score: 100
Period size: 19 Copynumber: 6.9 Consensus size: 18
11951943 TAATCTTCAA
11951953 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
11951972 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
11951989 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
11952008 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
11952024 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
11952043 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
11952061 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
11952078 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.26
18 28 0.31
19 30 0.33
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:11952022 original size:35 final size:35
Alignment explanation
Indices: 11951960--11952077 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
11951950 CAATGATATG
*
11951960 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
11951996 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
11952031 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
11952068 CAATCTTAGA
1 CAATCTTAGA
11952078 AGATATGATT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.65
36 15 0.19
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:11957816 original size:15 final size:15
Alignment explanation
Indices: 11957796--11957851 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
11957786 CTTCTATTTC
11957796 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
11957811 AAAAAAAGAAAAG-A
1 AAAAAAAAAAAAGAA
* *
11957825 AAAAGAGAAAAAGAA
1 AAAAAAAAAAAAGAA
11957840 AAAAAAGAAAAA
1 AAAAAA-AAAAA
11957852 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.33
15 18 0.55
16 4 0.12
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:11957822 original size:23 final size:22
Alignment explanation
Indices: 11957796--11957851 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
11957786 CTTCTATTTC
11957796 AAAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAGAAAAAAAAA
* * *
11957818 GAAAAGAAAAAGAGAAAAAGAAA
1 -AAAAAAAAAAAAGAAAAAAAAA
*
11957841 AAAAAGAAAAA
1 AAAAAAAAAAA
11957852 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAGAAAAAAAAA
Found at i:11958200 original size:13 final size:14
Alignment explanation
Indices: 11958176--11958208 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11958166 TTTAATTTTC
11958176 AAAATTTCAAAAAA
1 AAAATTTCAAAAAA
*
11958190 AAAATTT-AAAATA
1 AAAATTTCAAAAAA
11958203 AAAATT
1 AAAATT
11958209 GCATTTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTTCAAAAAA
Found at i:11958244 original size:30 final size:30
Alignment explanation
Indices: 11958204--11958305 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
11958194 TTTAAAATAA
* *
11958204 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
11958234 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* **
11958264 AAATTTCACTTAAACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
11958294 AAATTTCATTTT
1 AAATTTCATTTT
11958306 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:11959194 original size:20 final size:17
Alignment explanation
Indices: 11959165--11959219 Score: 76
Period size: 17 Copynumber: 3.1 Consensus size: 17
11959155 AACCCAGCAG
11959165 AGAGAAAAAAAGAAAGAA
1 AGAGAAAAAAAGAAA-AA
11959183 AGAAGAAAAAAA-AGAAAA
1 AG-AGAAAAAAAGA-AAAA
11959201 AGAGAAAAAAAGAAAAA
1 AGAGAAAAAAAGAAAAA
11959218 AG
1 AG
11959220 GGGTTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 15 0.44
18 8 0.24
19 11 0.32
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAAAGAAAAA
Found at i:11959216 original size:16 final size:16
Alignment explanation
Indices: 11959165--11959217 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
11959155 AACCCAGCAG
11959165 AGAGAAAAAAAGAAAGAA
1 AGAGAAAAAAAG-AA-AA
11959183 AGAAGAAAAAAAAGAAAA
1 AG-AG-AAAAAAAGAAAA
11959201 AGAGAAAAAAAGAAAA
1 AGAGAAAAAAAGAAAA
11959217 A
1 A
11959218 AGGGGTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.39
17 2 0.06
18 6 0.18
19 4 0.12
20 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AGAGAAAAAAAGAAAA
Found at i:11959402 original size:5 final size:5
Alignment explanation
Indices: 11959394--11959423 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
11959384 TTAATTCAAT
11959394 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11959424 AATACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11959790 original size:35 final size:35
Alignment explanation
Indices: 11959749--11959838 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
11959739 ATTTTTCGTG
*
11959749 TTTTCAAAAATTCTCGTGTTTTCAAAAAAATTT-AT
1 TTTTCAAAAATTTTCGTGTTTTC-AAAAAATTTCAT
* * *
11959784 TTTTCAAAATTTTTCTTGTTTTCTAAAAATTTCCAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTT-CAT
* *
11959820 ATTTCTAAAATTTTCGTGT
1 TTTTCAAAAATTTTCGTGT
11959839 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
34 8 0.18
35 20 0.44
36 17 0.38
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (35 bp):
TTTTCAAAAATTTTCGTGTTTTCAAAAAATTTCAT
Done.