Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 110 of 185
Found at i:34532781 original size:265 final size:265
Alignment explanation
Indices: 34532453--34533021 Score: 924
Period size: 265 Copynumber: 2.1 Consensus size: 265
34532443 GCTGGGGTCA
* * * *
34532453 TCGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAACTTTTAACCTGCTCCGCTGCAAC
* *
34532518 CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
66 CCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
*
34532583 TTTTTAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
131 TTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
* * * * *
34532648 GTGCAGGAAGGCAAGATCTACTATTTTTTAACTTGCTCCGCTACTACCGAGGGAAGCAAGGTTGG
196 GTGCAGGAAGACAAGATATACTATTTTTTAACCTGCTCCGCTACAACCCAGGGAAGCAAGGTTGG
34532713 TGTCC
261 TGTCC
34532718 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAACTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAACTTTTAACCTGCTCCGCTGCAAC
*
34532783 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
66 CCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
* * * *
34532848 TTTTTAACCTGCTCCGCTGTAACCCAGGGAGGCAATGCTAGTGTCTTTGATCTGCTTCGTTGTCG
131 TTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
* * *
34532913 GTGCATGAAGACAAGATATGCTATTTTTTAACCTGCTCTGCTACAACCCAGGGAAGCAAGGTTGG
196 GTGCAGGAAGACAAGATATACTATTTTTTAACCTGCTCCGCTACAACCCAGGGAAGCAAGGTTGG
*
34532978 TGTCT
261 TGTCC
*
34532983 TCGATCTACTTCGCTGT-GTGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCG-GTGCAGGAAGGCAAGATCTG
34533022 TTATCTTCAC
Statistics
Matches: 281, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
264 1 0.00
265 280 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.28
Consensus pattern (265 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCAACTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
TTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
GTGCAGGAAGACAAGATATACTATTTTTTAACCTGCTCCGCTACAACCCAGGGAAGCAAGGTTGG
TGTCC
Found at i:34534112 original size:19 final size:20
Alignment explanation
Indices: 34534076--34534120 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
34534066 CTCCATTTTC
34534076 TTTTTTCTTTTCACTCTT-T
1 TTTTTTCTTTTCACTCTTAT
*
34534095 TTTTTTCTTTTTC-TTCTTAT
1 TTTTTTC-TTTTCACTCTTAT
34534115 TTTTTT
1 TTTTTT
34534121 TATATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCTTTTCACTCTTAT
Found at i:34535121 original size:25 final size:26
Alignment explanation
Indices: 34535070--34535130 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
34535060 AAGAAAATCC
* **
34535070 AAAAGAATGAAAGAATAATTCTTTCA
1 AAAAGAATGAAAAAATAATTCGCTCA
*
34535096 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTCGCTCA
34535121 AAAATGAATG
1 AAAA-GAATG
34535131 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTCGCTCA
Found at i:34539392 original size:19 final size:19
Alignment explanation
Indices: 34539368--34539420 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
34539358 AATCATATCT
34539368 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
34539387 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
34539406 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
34539421 ACTTGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34540736 original size:74 final size:72
Alignment explanation
Indices: 34540607--34540754 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 72
34540597 ATTCTTTCTA
34540607 CTCTGTTCTGATGCAAACTTGCGAAAAAACTGTGTTGCGATCTCCATTCTTCAACCAATTAGCTT
1 CTCTGTTCTGATGCAAACTTGCGAAAAAACTGTGTTGCGATCTCCATTCTTCAACCAATTAGCTT
34540672 TAGCTCT
66 TAGCTCT
*
34540679 CTCTGTTCTGATGCAAACTTGCGAAAGAACTTTGTGTTGCGATCTCCATTCTTCAACCAATTAGC
1 CTCTGTTCTGATGCAAACTTGCGAAAAAAC--TGTGTTGCGATCTCCATTCTTCAACCAATTAGC
34540744 TTTAGCTCT
64 TTTAGCTCT
34540753 CT
1 CT
34540755 GTTCCCTATA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 29 0.40
74 44 0.60
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (72 bp):
CTCTGTTCTGATGCAAACTTGCGAAAAAACTGTGTTGCGATCTCCATTCTTCAACCAATTAGCTT
TAGCTCT
Found at i:34540753 original size:72 final size:71
Alignment explanation
Indices: 34540607--34540758 Score: 261
Period size: 72 Copynumber: 2.1 Consensus size: 71
34540597 ATTCTTTCTA
34540607 CTCTGTTCTGATGCAAACTTGCGAAAAAACTGTGTTGCGATCTCCATTCTTCAACCAATTAGCTT
1 CTCTGTTCTGATGCAAACTTGCGAAAAAACTGTGTTGCGATCTCCATTCTTCAACCAATTAGCTT
34540672 TAGCTCT
66 TAGC-CT
*
34540679 CTCTGTTCTGATGCAAACTTGCGAAAGAACTTTGTGTTGCGATCTCCATTCTTCAACCAATTAGC
1 CTCTGTTCTGATGCAAACTTGCGAAAAAAC--TGTGTTGCGATCTCCATTCTTCAACCAATTAGC
34540744 TTTAG-CT
64 TTTAGCCT
34540751 CTCTGTTC
1 CTCTGTTC
34540759 CCTATAAAGC
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
72 39 0.51
74 38 0.49
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (71 bp):
CTCTGTTCTGATGCAAACTTGCGAAAAAACTGTGTTGCGATCTCCATTCTTCAACCAATTAGCTT
TAGCCT
Found at i:34543502 original size:3 final size:3
Alignment explanation
Indices: 34543494--34543518 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34543484 GCTACACAAA
34543494 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
34543519 CATCATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:34559172 original size:23 final size:23
Alignment explanation
Indices: 34559123--34559172 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
34559113 AAGGTTGTTG
* * *
34559123 TTTTTTTTATCTTTTTTTTCGTC
1 TTTTTTTTATCTTTATTTTCCTA
34559146 TTTTATTTTAT-TTTATTTTCCTA
1 TTTT-TTTTATCTTTATTTTCCTA
34559169 TTTT
1 TTTT
34559173 CGAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTTTTATCTTTATTTTCCTA
Found at i:34559764 original size:15 final size:16
Alignment explanation
Indices: 34559744--34559778 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
34559734 TATAGTATTA
*
34559744 TTATTATTAT-CTTTT
1 TTATTATTATACTTAT
34559759 TTATTATTATACTTAT
1 TTATTATTATACTTAT
34559775 TTAT
1 TTAT
34559779 ATATATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTATACTTAT
Found at i:34566456 original size:50 final size:51
Alignment explanation
Indices: 34566376--34567007 Score: 312
Period size: 50 Copynumber: 12.6 Consensus size: 51
34566366 GCAATTAAAA
* * ** * ** *
34566376 AGATTGAAGCCACAATGGTAAATCTTACTTCTCTTGCGA-TGCAGTAGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAGCGAGTGCAGTAGAAC
* * * ** * * *
34566426 AGATTGAAGCTACAACAGCGAATCTCACTTCCC-CGATATTGCAATTA-AAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAGCGAGTGC-AGTAGAAC
* * * *
34566476 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGTG-GTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAGCGAGTGCAGTAGAAC
*
34566526 AGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGC-AGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAAGCGAGTGCAGTAGAAC
** ** * * * *
34566577 AGATTGAAGCTACAACGGTAAATCTCGCTTTCC-GGC-ATTGCAATTA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAGCGAGTGC-AGTAGAAC
* * *
34566625 AGATTGAAGCCACAACGGC-AGATTTTACTTTCCCAAGC-AGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGA-ATCTTAC-TTCCCAAGCGAGTGCAGTAGAAC
** ** * * * *
34566676 AGATTGAAGCTACAACGGTAAATCTCGCTTTCC-GGC-ATTGCAATTA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAGCGAGTGC-AGTAGAAC
* * *
34566724 AGATTGAAGCCACAACGGC-AGATTTTACTTTCCCAAGC-AGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGA-ATCTTAC-TTCCCAAGCGAGTGCAGTAGAAC
*** * * *
34566775 AGATTGAAGCTACAACGGCGAATCTCGTTTCCC-CGAC-ATTGCAATTA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAG-CGAGTGC-AGTAGAAC
* * * *
34566824 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAGGCG-GTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAAGCGAGTGCAGTAGAAC
* ** * * *
34566875 AGATTGAAGCTACAATGGCGAATCTCGCTTCCC-CGAC-ATTGCAATTA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAG-CGAGTGC-AGTAGAAC
* * * * * * * *
34566924 AGATTGAGGCCACAACGACGAATCTTACTTTTCC-TGATG-GTGTAGTAGAAT
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAAG-CGAGTGCAGTAGAAC
* *
34566975 AGATTGAAGCTACGACGACGAATCTTACTTCCC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC
34567008 CGACATTGCA
Statistics
Matches: 441, Mismatches: 107, Indels: 68
0.72 0.17 0.11
Matches are distributed among these distances:
47 2 0.00
48 42 0.10
49 84 0.19
50 169 0.38
51 142 0.32
52 2 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (51 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCAAGCGAGTGCAGTAGAAC
Found at i:34566580 original size:51 final size:51
Alignment explanation
Indices: 34566415--34567033 Score: 412
Period size: 51 Copynumber: 12.4 Consensus size: 51
34566405 TCTCTTGCGA
* * * * * * * *
34566415 TGCAGTAGAATAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGA-TAT
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
* ** * * * **
34566465 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGTGG
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
34566515 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
** ** * *
34566566 TGCAGTGGAACAGATTGAAGCTACAACGGTAAATCTCGCTTT-CC-GGCAT
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
* * * * *
34566615 TGCAAT-TAAAAGATTGAAGCCACAACGGC-AGATTTTACTTTCCCAAGCAG
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGA-ATCTTACTTTCCCAAGCAG
** ** * *
34566665 TGCAGTGGAACAGATTGAAGCTACAACGGTAAATCTCGCTTT-CC-GGCAT
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
* * * * *
34566714 TGCAAT-TAAAAGATTGAAGCCACAACGGC-AGATTTTACTTTCCCAAGCAG
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGA-ATCTTACTTTCCCAAGCAG
* *
34566764 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATC-T-CGTTTCCC-CGACAT
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTAC-TTTCCCAAG-CAG
* * * * * * *
34566814 TGCAAT-TAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCCAGGCGG
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
* ** * * *
34566864 TGCAGTGGAACAGATTGAAGCTACAATGGCGAATCTCGCTTCCCCGA-CAT
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
* * * * * * * *
34566914 TGCAAT-TAAAAGATTGAGGCCACAACGACGAATCTTACTTTTCC-TG-ATGG
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCA--G
* * * * * * * *
34566964 TGTAGTAGAATAGATTGAAGCTACGACGACGAATCTTACTTCCCCGA-CAT
1 TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
**
34567014 TGCAGTTAAACAGATTGAAG
1 TGCAGTGGAACAGATTGAAG
34567034 AAGCCAATCC
Statistics
Matches: 433, Mismatches: 112, Indels: 48
0.73 0.19 0.08
Matches are distributed among these distances:
47 2 0.00
48 53 0.12
49 78 0.18
50 140 0.32
51 157 0.36
52 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (51 bp):
TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAG
Found at i:34566884 original size:100 final size:100
Alignment explanation
Indices: 34566526--34567033 Score: 659
Period size: 100 Copynumber: 5.1 Consensus size: 100
34566516 GCAGTGGAAC
* *
34566526 AGATTGAAGCTACAACGGCGAATCTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
** *
34566591 ACGGTAAATCTCGCTTT--CCGGCATTGCAATTAAA
66 ACGGCGAATCTCG-TTTCCCCGACATTGCAATTAAA
* *
34566625 AGATTGAAGCCACAACGGCAGATTTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
** *
34566690 ACGGTAAATCTCGCTTT--CCGGCATTGCAATTAAA
66 ACGGCGAATCTCG-TTTCCCCGACATTGCAATTAAA
* *
34566724 AGATTGAAGCCACAACGGCAGATTTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
34566789 ACGGCGAATCTCGTTTCCCCGACATTGCAATTAAA
66 ACGGCGAATCTCGTTTCCCCGACATTGCAATTAAA
* *
34566824 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
* *
34566889 ATGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
66 ACGGCGAATCTCGTTTCCCCGACATTGCAATTAAA
* * * * * * * *
34566924 AGATTGAGGCCACAACGACGAATCTTACTTTTCC-TG-ATGGTGTAGTAGAATAGATTGAAGCTA
1 AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCA--GTGCAGTGGAACAGATTGAAGCTA
* * *** *
34566987 CGACGACGAATCTTACTTCCCCGACATTGCAGTTAAA
64 CAACGGCGAATCTCGTTTCCCCGACATTGCAATTAAA
34567024 CAGATTGAAG
1 -AGATTGAAG
34567034 AAGCCAATCC
Statistics
Matches: 375, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
98 3 0.01
99 172 0.46
100 192 0.51
101 8 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCAGTGCAGTGGAACAGATTGAAGCTACA
ACGGCGAATCTCGTTTCCCCGACATTGCAATTAAA
Found at i:34567225 original size:41 final size:41
Alignment explanation
Indices: 34567051--34567235 Score: 120
Period size: 41 Copynumber: 4.4 Consensus size: 41
34567041 TCCTATCTCT
34567051 CTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCC
1 CTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCC
* * * * * * *
34567092 CTAAAGTTGCAGTGGGGCAGGTTGAACATACCAATCC-TATCTCC
1 CTGAAGTTGCAGT--AG-A-GTAGATCATATCAAACCTTATCCCC
* * * * ** * * * * * *
34567136 CTGAAGATGTAATGGAGCGGATTAAAATCACCGATCTTATCTCT
1 CTGAAGTTGCAGTAGAGTAGA-TCATATCA--AACCTTATCCCC
*
34567180 CTGAAGTTGTAGTAGAGTAGATCATATCAAACCTTATCCCC
1 CTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCC
34567221 CTGAAGTTGCAGTAG
1 CTGAAGTTGCAGTAG
34567236 GGCAGGTTGA
Statistics
Matches: 103, Mismatches: 33, Indels: 16
0.68 0.22 0.11
Matches are distributed among these distances:
40 3 0.03
41 39 0.38
42 2 0.02
43 8 0.08
44 38 0.37
45 13 0.13
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (41 bp):
CTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCC
Found at i:34567270 original size:44 final size:44
Alignment explanation
Indices: 34567090--34567270 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 44
34567080 AACCTTATCC
* * *
34567090 CCCTAAAGTTGCAGTGGGGCAGGTTGAACATACCAATCCTATCT
1 CCCTGAAGTTGCAGTAGGGCAGGTTGAACATACCAATCCTATAT
* * * * * * *
34567134 CCCTGAAGATGTAAT-GGAGC-GGATT-AAAATCACCGATCTTATCT
1 CCCTGAAGTTGCAGTAGG-GCAGG-TTGAACAT-ACCAATCCTATAT
* * * * * *
34567178 CTCTGAAGTTGTAGTA--G-A-GTAGATCATATCAAACCT-TAT
1 CCCTGAAGTTGCAGTAGGGCAGGTTGAACATACCAATCCTATAT
34567217 CCCCCTGAAGTTGCAGTAGGGCAGGTTGAACATACCAATCCTATAT
1 --CCCTGAAGTTGCAGTAGGGCAGGTTGAACATACCAATCCTATAT
34567263 CCCTGAAG
1 CCCTGAAG
34567271 ATACAGTGGA
Statistics
Matches: 100, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
39 2 0.02
40 6 0.06
41 18 0.18
42 1 0.01
43 9 0.09
44 47 0.47
45 14 0.14
46 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTAGGGCAGGTTGAACATACCAATCCTATAT
Found at i:34567332 original size:129 final size:129
Alignment explanation
Indices: 34567044--34567325 Score: 483
Period size: 129 Copynumber: 2.2 Consensus size: 129
34567034 AAGCCAATCC
*
34567044 TATCTCTCTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCCCTAAAGTTGCAGTGGGG
1 TATCTCTCTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCCCTAAAGTTGCAGTAGGG
* **
34567109 CAGGTTGAACATACCAATCCTATCTCCCTGAAGATGTAATGGAGCGGATTAAAATCACCGATCT
66 CAGGTTGAACATACCAATCCTATATCCCTGAAGATACAATGGAGCGGATTAAAATCACCGATCT
* *
34567173 TATCTCTCTGAAGTTGTAGTAGAGTAGATCATATCAAACCTTATCCCCCTGAAGTTGCAGTAGGG
1 TATCTCTCTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCCCTAAAGTTGCAGTAGGG
* * *
34567238 CAGGTTGAACATACCAATCCTATATCCCTGAAGATACAGTGGAGTGGATTAAAATCATCGATCT
66 CAGGTTGAACATACCAATCCTATATCCCTGAAGATACAATGGAGCGGATTAAAATCACCGATCT
34567302 TATCTCTCTGAAGTTGCAGTAGAG
1 TATCTCTCTGAAGTTGCAGTAGAG
34567326 CGGATCACAC
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 143 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (129 bp):
TATCTCTCTGAAGTTGCAGTAGAGTAGATCATATCAAACCTTATCCCCCTAAAGTTGCAGTAGGG
CAGGTTGAACATACCAATCCTATATCCCTGAAGATACAATGGAGCGGATTAAAATCACCGATCT
Found at i:34568968 original size:68 final size:68
Alignment explanation
Indices: 34568843--34568969 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 68
34568833 ACTTACACTG
* * **
34568843 TTTTATTTTATAATATACATACTTATATATTTTATCTTTATGTAATATATATGTATACACATGCG
1 TTTTATTTTATAATATACATACTTATATAGTTTATCTTTATATAATATATACATATACACATGCG
34568908 AAT
66 AAT
34568911 TTTTA-TTTATATATATACATAC-T-TAT-GTTTATGCTTTATAATATATATATACATATACA
1 TTTTATTTTATA-ATATACATACTTATATAGTTTAT-CTTTAT-ATA-ATATATACATATACA
34568970 TATATACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
65 5 0.10
66 9 0.18
67 9 0.18
68 28 0.55
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (68 bp):
TTTTATTTTATAATATACATACTTATATAGTTTATCTTTATATAATATATACATATACACATGCG
AAT
Found at i:34568986 original size:20 final size:20
Alignment explanation
Indices: 34568963--34569005 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
34568953 ATATATATAC
*
34568963 ATATACATATATACTTATTT
1 ATATACATATATACATATTT
* *
34568983 ATATATATATGTACATATTT
1 ATATACATATATACATATTT
34569003 ATA
1 ATA
34569006 CTTTTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATACATATATACATATTT
Found at i:34575073 original size:46 final size:46
Alignment explanation
Indices: 34575006--34575143 Score: 240
Period size: 46 Copynumber: 3.0 Consensus size: 46
34574996 AATGCTATAG
* * *
34575006 CTCAGTATGGTTTCCTTCACTGAAATACCATACCTATTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
34575052 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
*
34575098 CTTAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
1 CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
34575144 TTTGTCATGG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
CTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
Found at i:34580960 original size:7 final size:7
Alignment explanation
Indices: 34580948--34580973 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34580938 AAGAAAGAGA
34580948 GATGAGG
1 GATGAGG
34580955 GATGAGG
1 GATGAGG
34580962 GATGAGG
1 GATGAGG
34580969 GATGA
1 GATGA
34580974 ATTGAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:34581756 original size:15 final size:15
Alignment explanation
Indices: 34581736--34581776 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34581726 TCTAAAAAGT
34581736 TTATTATAAATTTAA
1 TTATTATAAATTTAA
34581751 TTATTAT--ATTTAA
1 TTATTATAAATTTAA
34581764 TT-TTATATAATTT
1 TTATTATA-AATTT
34581777 GAAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
15 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATAAATTTAA
Found at i:34581789 original size:25 final size:26
Alignment explanation
Indices: 34581760--34581808 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
34581750 ATTATTATAT
* *
34581760 TTAAT-TTTATATAATTTGAAAAATA
1 TTAATATTTATACAATTTAAAAAATA
*
34581785 TTAATATTTTTACAATTTAAAAAA
1 TTAATATTTATACAATTTAAAAAA
34581809 AATATCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAATATTTATACAATTTAAAAAATA
Found at i:34585527 original size:27 final size:28
Alignment explanation
Indices: 34585475--34585532 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
34585465 CATTTAATTA
*
34585475 ATTTTTAAATTTAAAAATTATAAAAACT
1 ATTTTTAAATTTAAAAATCATAAAAACT
* *
34585503 ATTTTTAAA-TTAAAAATCATTAAAATT
1 ATTTTTAAATTTAAAAATCATAAAAACT
34585530 ATT
1 ATT
34585533 AAAAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTTTAAATTTAAAAATCATAAAAACT
Found at i:34587617 original size:66 final size:65
Alignment explanation
Indices: 34587540--34587670 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 65
34587530 AAAATACTTA
34587540 GATCATAAAAGAAAATAAGGTATAATGACTTATTTCATCCTCTAACTTTACAAAAAAAAAAATCA
1 GATCATAAAAGAAAATAAGGTATAATGACTTATTTCATCCTCTAACTTTAC-AAAAAAAAAATCA
34587605 T
65 T
34587606 GATCATAAAAGAAAATAAGGTATAATGACTTATTTCATCCTCTAACTTTACAAAAAAAAAATCAT
1 GATCATAAAAGAAAATAAGGTATAATGACTTATTTCATCCTCTAACTTTACAAAAAAAAAATCAT
34587671 TTTAGCCCTC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
65 14 0.22
66 51 0.78
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.29
Consensus pattern (65 bp):
GATCATAAAAGAAAATAAGGTATAATGACTTATTTCATCCTCTAACTTTACAAAAAAAAAATCAT
Found at i:34597877 original size:23 final size:23
Alignment explanation
Indices: 34597843--34597890 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34597833 ACCACACGGC
*
34597843 CATGTGGACCACACAATTTGGGT
1 CATGTGGACCACACAAGTTGGGT
* *
34597866 CATGTGGGCCACATAAGTTGGGT
1 CATGTGGACCACACAAGTTGGGT
34597889 CA
1 CA
34597891 GTTAGGCCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (23 bp):
CATGTGGACCACACAAGTTGGGT
Found at i:34601806 original size:24 final size:24
Alignment explanation
Indices: 34601756--34601807 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
34601746 TTTTTAGAAG
* *
34601756 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* *
34601780 ATTTAGCATTTATTAGCATGATTT
1 ATTTAGCATTTATTAGCATAATAT
34601804 ATTT
1 ATTT
34601808 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:34604276 original size:20 final size:19
Alignment explanation
Indices: 34604242--34604299 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
34604232 AATTAGTTTA
*
34604242 TTAATTAATTATAATTAAC
1 TTAATTAACTATAATTAAC
34604261 TTAATTAACCTATAATTAAC
1 TTAATTAA-CTATAATTAAC
*
34604281 TAAACTTAAGCT-TAATTAA
1 TTAA-TTAA-CTATAATTAA
34604300 TACTTCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.24
20 20 0.59
21 6 0.18
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (19 bp):
TTAATTAACTATAATTAAC
Found at i:34607285 original size:21 final size:20
Alignment explanation
Indices: 34607261--34607302 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
34607251 AGAAAGGGAG
34607261 CTGTGAGACAGTGAGAGTTAC
1 CTGTGAGACAGTGAGA-TTAC
* *
34607282 CTGTGAGGCTGTGAGATTAC
1 CTGTGAGACAGTGAGATTAC
34607302 C
1 C
34607303 CCAAGAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (20 bp):
CTGTGAGACAGTGAGATTAC
Found at i:34609899 original size:32 final size:32
Alignment explanation
Indices: 34609856--34609924 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
34609846 TTATTTTAAA
*
34609856 ATTCATTATCTCCTAATCTAGCAGTTTAAAAT
1 ATTCATCATCTCCTAATCTAGCAGTTTAAAAT
* *
34609888 ATTCATCATCTCCTAATTTAGCAGTTTGAAAT
1 ATTCATCATCTCCTAATCTAGCAGTTTAAAAT
34609920 ATTCA
1 ATTCA
34609925 AGGAAAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (32 bp):
ATTCATCATCTCCTAATCTAGCAGTTTAAAAT
Found at i:34610238 original size:28 final size:28
Alignment explanation
Indices: 34610205--34610294 Score: 144
Period size: 28 Copynumber: 3.1 Consensus size: 28
34610195 GTAGCAGTAT
*
34610205 AGTGTGGGCCTTAGCCTATTACAGTAAC
1 AGTGTGGGCCTTAGCCTAATACAGTAAC
*
34610233 AGTGTGTGGACCTTAGCCCAATACAGTAAC
1 AGTGTG-GG-CCTTAGCCTAATACAGTAAC
34610263 AGTGTGGGCCTTAGCCTAATACAGTAAC
1 AGTGTGGGCCTTAGCCTAATACAGTAAC
34610291 AGTG
1 AGTG
34610295 CAATGCAGTA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 29 0.51
29 4 0.07
30 24 0.42
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCTAATACAGTAAC
Found at i:34610843 original size:27 final size:27
Alignment explanation
Indices: 34610662--34611489 Score: 648
Period size: 27 Copynumber: 30.9 Consensus size: 27
34610652 TATAAAAGTT
*
34610662 ATTTTACCCTATGAGGGTATTTTAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* * *
34610689 ATTTTACCCTTTCAGGGTATTTTAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* *
34610716 ATTTTACCCT-TCAAGGGTATTT-TGATC
1 ATTTTACCCTAT-GAGGGTATTTCAG-TC
*
34610743 ATTTTACCCT-TCGAGGGTATTT-AATC
1 ATTTTACCCTAT-GAGGGTATTTCAGTC
* *
34610769 ATTTTACCCT-TCAGGGGTATTTTAGTC
1 ATTTTACCCTATGA-GGGTATTTCAGTC
34610796 ATTTTACCCTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
34610823 ATTTTACCCT-TCGAGGGTATTTC-GATC
1 ATTTTACCCTAT-GAGGGTATTTCAG-TC
* ** *
34610850 ATTTTACCCTTTG-GCAATATTTTAGTC
1 ATTTTACCCTATGAG-GGTATTTCAGTC
34610877 ATTTTACCCTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
*
34610904 ATTTTACCCT-TCGAGGGTATTTC-GATT
1 ATTTTACCCTAT-GAGGGTATTTCAG-TC
* *
34610931 ATTTTACCCTTTTG-GGGTATTTTAGTC
1 ATTTTACCC-TATGAGGGTATTTCAGTC
* * *
34610958 ATTTTATCGT-TCGGGGGTATTTC-GATC
1 ATTTTACCCTAT-GAGGGTATTTCAG-TC
34610985 ATTTTACCCT-TCGAGGGTATTTC-GATC
1 ATTTTACCCTAT-GAGGGTATTTCAG-TC
* ** *
34611012 ATTTTACCCTTTG-GCAATATTTTAGTC
1 ATTTTACCCTATGAG-GGTATTTCAGTC
34611039 ATTTTACCCTATGAGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* * *
34611066 ATTTTA-CCTTTCACGAGTATTTC-GATC
1 ATTTTACCCTATGA-GGGTATTTCAG-TC
* * * *
34611093 ATTTTACCCTGTGGGGGGAATTC-GATC
1 ATTTTACCCTATGAGGGTATTTCAG-TC
* ** * * *
34611120 ATTTTACTCGGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* * *
34611147 ATTTTACCCTGTGTGGG-AATTCAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* * *
34611173 ATTTTACCCTATGGGGGTATTTTAGTT
1 ATTTTACCCTATGAGGGTATTTCAGTC
* *
34611200 ATTTTACCCTATGGGGGTATTCCAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* * *
34611227 ATTTTACCCCATGAGGGTATTTCACTT
1 ATTTTACCCTATGAGGGTATTTCAGTC
* *
34611254 ATTTTATCCTATGGGGGTATTTCAGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
*
34611281 ATTTTACCCTAT-AGGGTTATTTCGGTC
1 ATTTTACCCTATGAGGG-TATTTCAGTC
* ** *
34611308 ATATTATTCTAT-AGGGGTATTTTAGTC
1 ATTTTACCCTATGA-GGGTATTTCAGTC
* * ** *
34611335 ATTCTACCCTATGGGGGTATTTTGGCC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* * * *
34611362 ATTCTACCCTATGGGGGTATTTCGGCC
1 ATTTTACCCTATGAGGGTATTTCAGTC
*
34611389 ATTCTACCCTAT-AGGGGTATTTCAGTC
1 ATTTTACCCTATGA-GGGTATTTCAGTC
* *
34611416 ATTCTACCC--TGAGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTCAGTC
* *
34611441 ATTTTATCCTATGGGGGTATTTC-GATC
1 ATTTTACCCTATGAGGGTATTTCAG-TC
*
34611468 A-TTTACCCTATGAGGATATTTC
1 ATTTTACCCTATGAGGGTATTTC
34611490 GATGCAGATA
Statistics
Matches: 671, Mismatches: 94, Indels: 73
0.80 0.11 0.09
Matches are distributed among these distances:
25 22 0.03
26 84 0.13
27 545 0.81
28 19 0.03
29 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCAGTC
Found at i:34614747 original size:11 final size:11
Alignment explanation
Indices: 34614731--34614756 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34614721 CGTGTGTCAC
34614731 ACACGGCCAAG
1 ACACGGCCAAG
34614742 ACACGGCCAAG
1 ACACGGCCAAG
34614753 ACAC
1 ACAC
34614757 ACGCCCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.38, G:0.23, T:0.00
Consensus pattern (11 bp):
ACACGGCCAAG
Found at i:34619239 original size:21 final size:21
Alignment explanation
Indices: 34619205--34619254 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
34619195 TTTATTTCTA
34619205 TTAATTTAGTTATTTTCTATTT
1 TTAATTTAGTTATTTT-TATTT
* *
34619227 TTATTTTAG-TATTTTTGTTT
1 TTAATTTAGTTATTTTTATTT
34619247 TTAATTTA
1 TTAATTTA
34619255 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 11 0.44
21 6 0.24
22 8 0.32
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (21 bp):
TTAATTTAGTTATTTTTATTT
Found at i:34622243 original size:25 final size:25
Alignment explanation
Indices: 34622215--34622373 Score: 71
Period size: 25 Copynumber: 6.3 Consensus size: 25
34622205 GAAGCTCCAA
34622215 AGAGCTATTAATCGGGAAGCTCATGAG
1 AGAGCTATTAATCGGGAAGCTCAT--G
* *
34622242 AGAGCCTTTTTATC-GGAATGCTCCA-G
1 AGAG-CTATTAATCGGGAA-GCT-CATG
* * *
34622268 AAAGCCATTAATCTGGAAGCTCAT-
1 AGAGCTATTAATCGGGAAGCTCATG
* *
34622292 ACGAGCCA-TACA-CGGGAAGCTCAAG
1 A-GAGCTATTA-ATCGGGAAGCTCATG
* **
34622317 AGAG-TCATTAATCAGGAAGCTTGTG
1 AGAGCT-ATTAATCGGGAAGCTCATG
* * *
34622342 AGAGCCATATAA-CGGGATGCTCATA
1 AGAGCTAT-TAATCGGGAAGCTCATG
34622367 AGAGCTA
1 AGAGCTA
34622374 AATAATGGGA
Statistics
Matches: 98, Mismatches: 21, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
24 20 0.20
25 47 0.48
26 11 0.11
27 8 0.08
28 10 0.10
29 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
AGAGCTATTAATCGGGAAGCTCATG
Found at i:34622757 original size:21 final size:21
Alignment explanation
Indices: 34622720--34622763 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34622710 AATGAATTTA
* *
34622720 ACTCAATTTAATGCAATTCAT
1 ACTCAATTCAATGCAATACAT
34622741 ACTCAATTCAACT-CAATACAT
1 ACTCAATTCAA-TGCAATACAT
34622762 AC
1 AC
34622764 CTTTGGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (21 bp):
ACTCAATTCAATGCAATACAT
Found at i:34623199 original size:22 final size:21
Alignment explanation
Indices: 34623171--34623217 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
34623161 TCTAGAAACC
34623171 TTTAATTTCAATTT-GTTTTAGT
1 TTTAATTTC-ATTTGGTTTTA-T
34623193 TTTAATTTCATTTGGTTTTAT
1 TTTAATTTCATTTGGTTTTAT
34623214 TTTA
1 TTTA
34623218 TTATTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTAATTTCATTTGGTTTTAT
Found at i:34629123 original size:23 final size:25
Alignment explanation
Indices: 34629059--34629142 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
34629049 TTAATGTTCA
*
34629059 GGAATGCTCATGTGAG-CATATAAATG
1 GGAA-GCTCATGTGAGTCATAT-AACG
* *
34629085 GGTAGCTC-TTTCGAGT-A-ATAACG
1 GGAAGCTCATGT-GAGTCATATAACG
* *
34629108 GGAGGCTCATGTGAGTCATGTAACG
1 GGAAGCTCATGTGAGTCATATAACG
34629133 GGAAGCTCAT
1 GGAAGCTCAT
34629143 AAGAGCCAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
23 13 0.29
24 7 0.16
25 22 0.49
26 3 0.07
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (25 bp):
GGAAGCTCATGTGAGTCATATAACG
Found at i:34629301 original size:24 final size:25
Alignment explanation
Indices: 34629250--34629315 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
34629240 TCCAAAAAGC
**
34629250 CATTAATCTAGAAGCTCATAAGAGT
1 CATTAATCGGGAAGCTCATAAGAGT
*
34629275 CA-TACA-CGGGAAGCTCA-AGAGATT
1 CATTA-ATCGGGAAGCTCATA-AGAGT
34629299 CATTAATCGGGAAGCTC
1 CATTAATCGGGAAGCTC
34629316 GTGAGAGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 15 0.44
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (25 bp):
CATTAATCGGGAAGCTCATAAGAGT
Found at i:34629334 original size:25 final size:24
Alignment explanation
Indices: 34629280--34629335 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
34629270 AGAGTCATAC
**
34629280 ACGGGAAGCTCAAGAGATTCATTA
1 ACGGGAAGCTCAAGAGAGCCATTA
**
34629304 ATCGGGAAGCTCGTGAGAGCCATATA
1 A-CGGGAAGCTCAAGAGAGCCAT-TA
34629330 ACGGGA
1 ACGGGA
34629336 TTGTCATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.85
26 3 0.12
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (24 bp):
ACGGGAAGCTCAAGAGAGCCATTA
Found at i:34630801 original size:16 final size:16
Alignment explanation
Indices: 34630792--34630823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34630782 AAATTTATAT
34630792 ATAAAAAAATTAAAAA
1 ATAAAAAAATTAAAAA
34630808 ATAAAAAAA-TAAAAA
1 ATAAAAAAATTAAAAA
34630823 A
1 A
34630824 GTGAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
ATAAAAAAATTAAAAA
Found at i:34630940 original size:5 final size:5
Alignment explanation
Indices: 34630930--34630961 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
34630920 ATACAAAAGT
34630930 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
34630962 TCAAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:34634468 original size:21 final size:21
Alignment explanation
Indices: 34634443--34634483 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34634433 ATCCATGAAA
34634443 TTTTCCATACAACACAATTGT
1 TTTTCCATACAACACAATTGT
*
34634464 TTTTCCATACAATACAATTG
1 TTTTCCATACAACACAATTG
34634484 AGGTAACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTTCCATACAACACAATTGT
Found at i:34635537 original size:20 final size:20
Alignment explanation
Indices: 34635512--34635549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34635502 ACTTTGTATT
34635512 TTATTATTATATTGGTTTGA
1 TTATTATTATATTGGTTTGA
* *
34635532 TTATTATTGTATTTGTTT
1 TTATTATTATATTGGTTT
34635550 TTGCTCACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (20 bp):
TTATTATTATATTGGTTTGA
Found at i:34635945 original size:50 final size:50
Alignment explanation
Indices: 34635839--34635938 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
34635829 AGATGAGGCT
* * ***
34635839 ACAAATCATATATCCTTGAAGTTGCAGTGGATTGGATTGAAACTAGAACA
1 ACAAATCATATATCCTTCAAGTTGCAATGGACAAGATTGAAACTAGAACA
* *
34635889 ACAAATCATATCTCCTTCAAGTTGCAATGGAGCAAGA-TGAAACTATAACA
1 ACAAATCATATATCCTTCAAGTTGCAATGGA-CAAGATTGAAACTAGAACA
34635939 CTAAATCTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 40 0.95
51 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (50 bp):
ACAAATCATATATCCTTCAAGTTGCAATGGACAAGATTGAAACTAGAACA
Found at i:34636481 original size:17 final size:17
Alignment explanation
Indices: 34636461--34636504 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
34636451 GATAAAAAGA
* *
34636461 AAAACAGAAGAAATAGC
1 AAAAGAGAAGAAATAAC
34636478 AAAAGAGAAAGAAATAAC
1 AAAAGAG-AAGAAATAAC
34636496 AAAAGAGAA
1 AAAAGAGAA
34636505 AATAAAAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.70, C:0.07, G:0.18, T:0.05
Consensus pattern (17 bp):
AAAAGAGAAGAAATAAC
Found at i:34636481 original size:23 final size:24
Alignment explanation
Indices: 34636429--34636483 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 24
34636419 GCAAATGCCT
34636429 GCAAAAGAAAAAAACAAAAGAAGATA
1 GCAAAAG--AAAAACAAAAGAAGATA
*
34636455 --AAAAGAAAAACAGAAGAA-ATA
1 GCAAAAGAAAAACAAAAGAAGATA
34636476 GCAAAAGA
1 GCAAAAGA
34636484 GAAAGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 12 0.46
23 6 0.23
24 5 0.19
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (24 bp):
GCAAAAGAAAAACAAAAGAAGATA
Found at i:34636489 original size:18 final size:18
Alignment explanation
Indices: 34636468--34636505 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
34636458 AGAAAAACAG
*
34636468 AAGAAATAGCAAAAGAGA
1 AAGAAATAACAAAAGAGA
34636486 AAGAAATAACAAAAGAGA
1 AAGAAATAACAAAAGAGA
34636504 AA
1 AA
34636506 ATAAAAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGAAATAACAAAAGAGA
Found at i:34641542 original size:19 final size:19
Alignment explanation
Indices: 34641506--34641552 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
34641496 TTTTTGCTTT
34641506 CATTTCATTCATCAGCATTA
1 CATTTCA-TCATCAGCATTA
34641526 CATTTCATCAT-ATGCATTA
1 CATTTCATCATCA-GCATTA
*
34641545 AATTTCAT
1 CATTTCAT
34641553 AAAAAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.68
20 7 0.28
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (19 bp):
CATTTCATCATCAGCATTA
Found at i:34645878 original size:33 final size:33
Alignment explanation
Indices: 34645732--34645917 Score: 110
Period size: 33 Copynumber: 5.6 Consensus size: 33
34645722 CATTGTCACG
* * ***
34645732 ACCCAGCCATGATCTTACATTTGTAGTGCCATA
1 ACCCAGCTATGGTCTTACATTCAAAGTGCCATA
* *
34645765 ACCCAGTTATGGTCTTATCA-TCACAA-TGTCATA
1 ACCCAGCTATGGTCTTA-CATTCA-AAGTGCCATA
* * * * * * *
34645798 GCCCAGCTATGGTTTTACTTATAAATACTGTCATG
1 ACCCAGCTATGGTCTTACAT-TCAA-AGTGCCATA
* * *
34645833 ATCCAACCATGGTCTTACATTCAAAGTGCCATA
1 ACCCAGCTATGGTCTTACATTCAAAGTGCCATA
* * *
34645866 ACCCAGTTATGGTCTTTCATT-AAAATGCCA-A
1 ACCCAGCTATGGTCTTACATTCAAAGTGCCATA
*
34645897 AGCCCAACTATGGTCTTACAT
1 A-CCCAGCTATGGTCTTACAT
34645918 ATAAACAATG
Statistics
Matches: 114, Mismatches: 32, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
31 2 0.02
32 25 0.22
33 58 0.51
34 9 0.08
35 20 0.18
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (33 bp):
ACCCAGCTATGGTCTTACATTCAAAGTGCCATA
Found at i:34645909 original size:32 final size:32
Alignment explanation
Indices: 34645758--34645949 Score: 107
Period size: 33 Copynumber: 5.8 Consensus size: 32
34645748 ACATTTGTAG
** * *
34645758 TGCCATAACCCAGTTATGGTCTTATCATCACAA
1 TGCCATAACCCAACTATGGTCTTA-CATTAAAA
* * * * *
34645791 TGTCATAGCCCAGCTATGGTTTTACTTATAAATA
1 TGCCATAACCCAACTATGGTCTTACAT-TAAA-A
* * * * *
34645825 CTGTCATGATCCAACCATGGTCTTACATTCAAAG
1 -TGCCATAACCCAACTATGGTCTTACATT-AAAA
** *
34645859 TGCCATAACCCAGTTATGGTCTTTCATTAAAA
1 TGCCATAACCCAACTATGGTCTTACATTAAAA
34645891 TGCCA-AAGCCCAACTATGGTCTTACATATAAACAA
1 TGCCATAA-CCCAACTATGGTCTTACAT-T-AA-AA
*** *
34645926 TGCCATGGTCCAACCATGGTCTTA
1 TGCCATAACCCAACTATGGTCTTA
34645950 TCCGTCAATT
Statistics
Matches: 120, Mismatches: 30, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
31 2 0.02
32 26 0.22
33 44 0.37
34 4 0.03
35 44 0.37
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (32 bp):
TGCCATAACCCAACTATGGTCTTACATTAAAA
Found at i:34645948 original size:100 final size:101
Alignment explanation
Indices: 34645738--34645949 Score: 282
Period size: 100 Copynumber: 2.1 Consensus size: 101
34645728 CACGACCCAG
* *** * * *
34645738 CCATGATCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCACAATGTCATAGCCCA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCAAAGCCCA
* * * * * *
34645803 GCTATGGTTTTACTTATAAATACTGTCATGATCCAA
66 ACTATGGTCTTACATATAAACAATGCCATGATCCAA
*
34645839 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTT-TCATTAAAATGCCAAAGCCCA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCAAAGCCCA
*
34645903 ACTATGGTCTTACATATAAACAATGCCATGGTCCAA
66 ACTATGGTCTTACATATAAACAATGCCATGATCCAA
34645939 CCATGGTCTTA
1 CCATGGTCTTA
34645950 TCCGTCAATT
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 57 0.59
101 39 0.41
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (101 bp):
CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCAAAGCCCA
ACTATGGTCTTACATATAAACAATGCCATGATCCAA
Found at i:34646055 original size:19 final size:20
Alignment explanation
Indices: 34646023--34646063 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
34646013 CATTCATTTC
34646023 AATTTTATATTTTAATAATA
1 AATTTTATATTTTAATAATA
34646043 AATTTTA-ATTTTAATAATA
1 AATTTTATATTTTAATAATA
34646062 AA
1 AA
34646064 AATACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTATATTTTAATAATA
Found at i:34654688 original size:94 final size:92
Alignment explanation
Indices: 34654556--34654750 Score: 241
Period size: 92 Copynumber: 2.1 Consensus size: 92
34654546 ATTAGTGAAA
* * ** *
34654556 CTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAATC-ACCATAGCGAATCTTATC
1 CTACAAATCCTACACCCCTAAAGTTACAGTGGGACAGATTG-AATCTA-C-TAGCGAATCTTATC
*
34654620 -TCTCTAAAGTTGCAGTGGAGCAGATTTAAG
63 TTC-CTAAAGTTGCAGTGGAGCAGATTAAAG
* *
34654650 CTACAGATCCTACACCCCTAAAGTTACAGTGGGACAGATTGAATCTACTAGTGAATCTTATCTTC
1 CTACAAATCCTACACCCCTAAAGTTACAGTGGGACAGATTGAATCTACTAGCGAATCTTATCTTC
* * *
34654715 CTGAATTTGCAGTGGAGCTGATTAAAG
66 CTAAAGTTGCAGTGGAGCAGATTAAAG
34654742 CTACAAATC
1 CTACAAATC
34654751 TTATCTCCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
92 44 0.51
93 7 0.08
94 36 0.41
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (92 bp):
CTACAAATCCTACACCCCTAAAGTTACAGTGGGACAGATTGAATCTACTAGCGAATCTTATCTTC
CTAAAGTTGCAGTGGAGCAGATTAAAG
Found at i:34654752 original size:44 final size:44
Alignment explanation
Indices: 34654611--34655496 Score: 635
Period size: 44 Copynumber: 19.6 Consensus size: 44
34654601 CACCATAGCG
* * * *
34654611 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTTAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * ** *
34654655 GATCCTA-CACCCCTAAAGTTACAGTGG-GACAGATTGAATCTACTA
1 AATCTTATC-TCCCTGAAGTTGTAGTGGAG-CAGATTGAAGCTAC-A
* * * * *
34654700 GTGAATCTTATCTTCCTGAATTTGCAGTGGAGCTGATTAAAGCTACA
1 ---AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
34654747 AATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
34654791 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGCTACG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* *
34654835 AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTGAAGCTACG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * *
34654879 AATCTCATCTCCCTGAAGTTGCAGTAGAGTAGATTGAATCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * *
34654923 AATCTTATCTCTCTAAATTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
34654967 AATCCTATAC-CCATGAAGTTGTAGTAGGTTG--GATTG-AGTCTACCATA
1 AATCTTAT-CTCCCTGAAGTTGTAGT-GG-AGCAGATTGAAG-CTA-C--A
* ** *
34655014 GCGAATCTTATCTCCTTGAAGTTACAGTGGAACAGATTGAAGCTACA
1 ---AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
34655061 AATCTTATCTCCCTGAAGTTGCAATGTAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * * * *
34655105 AATAC-CATATCCTTAAAGTTGTAGTGG-GTCTGATTGAATCTACCATA
1 AAT-CTTATCTCCCTGAAGTTGTAGTGGAG-CAGATTGAAGCTA-C--A
* * * *
34655152 GTGAATCTTATCTCCCAGAAGTTGCAGTGGAACAGATTTAAGCTACA
1 ---AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * *
34655199 AGTCTTATCTCACTGAAGTTGTAGTGGAGCAGATCGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * *
34655243 AATATTATCTCCCTAAAGTTGTAGTGAAGCAGATTTAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * *
34655287 AGTCTTATCTCACTGAAGTTGTAGTGGAACAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
* * * ** * *
34655331 AGTCTTATCTCCTTGAATTTGTAGTGGAATAAGA-TGAAGCTCCT
1 AATCTTATCTCCCTGAAGTTGTAGTGG-AGCAGATTGAAGCTACA
* * * * * * *
34655375 AATCCTATGC-CCCTAAAGTTGCAGTGGTGTAGAATGAAGTTACAGTCGCA
1 AATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAGATTGAAG---C--T-ACA
*
34655425 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGA-TGAGGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTGAAGCTACA
* * * *
34655469 AACCCTATAT-CCTAGAAGTTGCAGTGGA
1 AATCTTATCTCCCT-GAAGTTGTAGTGGA
34655497 TTGGATTAAA
Statistics
Matches: 666, Mismatches: 132, Indels: 88
0.75 0.15 0.10
Matches are distributed among these distances:
43 11 0.02
44 506 0.76
45 13 0.02
46 1 0.00
47 7 0.01
48 29 0.04
49 10 0.02
50 84 0.13
51 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
Found at i:34655065 original size:138 final size:137
Alignment explanation
Indices: 34654551--34655496 Score: 590
Period size: 138 Copynumber: 7.0 Consensus size: 137
34654541 AACAGATTAG
* * **
34654551 TGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAATC-ACCATAGCGAATC
1 TGAAGCTACAAATCCTATACCCATGAAGTTGTAGT-GGTTGGATTG-AATCTACCATAGCGAATC
* * * * * * * * *
34654615 TTATCTCTCTAAAGTTGCAGTGGAGCAGATTTAAGCTACAGATCCTA-CACCCCTAAAGTTACAG
64 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATC-TCCCTGAAGTTGCAG
34654679 TGG-GACAGAT
128 TGGAG-CAGAT
* * * * * *
34654689 TGAATCTACTAGTGAATCTTAT-CTTCC-TGAATTTGCAGTGG-AGCTGATT-AA---AGC-TA-
1 TGAAGCTAC-A---AATCCTATAC--CCATGAAGTTGTAGTGGTTG--GATTGAATCTACCATAG
* * ** * *
34654745 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
58 CGAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGT
* * *
34654810 TGTAGTAGAGTAGAT
123 TGCAGTGGAGCAGAT
* * * * * * ** *
34654825 TGAAGCTACGAATCTTAT-CTCCCTGAAGTTGTAGTGG-AGCA-T-ATTGAAGC-TA-CGAATCT
1 TGAAGCTACAAATCCTATAC-CCATGAAGTTGTAGTGGTTGGATTGAATCTACCATAGCGAATCT
* * ** * * * *
34654884 CATCTCCCTGAAGTTGCAGTAGAGTAGATTGAATCTACAAATCTTATCTCTCTAAATTTGCAGTG
65 TATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTG
34654949 GAGCAGAT
130 GAGCAGAT
*
34654957 TGAAGCTACAAATCCTATACCCATGAAGTTGTAGTAGGTTGGATTGAGTCTACCATAGCGAATCT
1 TGAAGCTACAAATCCTATACCCATGAAGTTGTAGT-GGTTGGATTGAATCTACCATAGCGAATCT
* * *
34655022 TATCTCCTTGAAGTTACAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAATG
65 TATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTG
*
34655087 TAGCAGAT
130 GAGCAGAT
* * * *
34655095 TGAAGCTACAAATACC-ATATCCTTAAAGTTGTAGTGGGTCT-GATTGAATCTACCATAGTGAAT
1 TGAAGCTACAAAT-CCTATACCCATGAAGTTGTAGT-GGT-TGGATTGAATCTACCATAGCGAAT
* * * * *
34655158 CTTATCTCCCAGAAGTTGCAGTGGAACAGATTTAAGCTACAAGTCTTATCTCACTGAAGTTGTAG
63 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAG
34655223 TGGAGCAGAT
128 TGGAGCAGAT
* ** * * ** * *
34655233 CGAAGCTACAAATATTAT-CTCCCTAAAGTTGTAGTGAAG-CAGATTTAAGCTA-CA-A--G--T
1 TGAAGCTACAAATCCTATAC-CCATGAAGTTGTAGTG--GTTGGATTGAATCTACCATAGCGAAT
* * * * * * *
34655290 CTTATCTCACTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTCTTATCTCCTTGAATTTGTAG
63 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAG
**
34655355 TGGAATAAGA-
128 TGG-AGCAGAT
* * * * * * * * * *
34655365 TGAAGCTCCTAATCCTATGCCCCTAAAGTTGCAGTGGTGTAGAATGAAGT-TA-CAGTCGCAAAT
1 TGAAGCTACAAATCCTATACCCATGAAGTTGTAGTGGT-TGGATTGAA-TCTACCA-TAGCGAAT
* * * * * *
34655428 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGA-TGAGGCTACAAACCCTATAT-CCTAGAAGTTGC
63 CTTATCTCCCTGAAGTTGCAGTGGAAC-AGATTGAAGCTACAAATCTTATCTCCCT-GAAGTTGC
34655491 AGTGGA
126 AGTGGA
34655497 TTGGATTAAA
Statistics
Matches: 650, Mismatches: 117, Indels: 83
0.76 0.14 0.10
Matches are distributed among these distances:
129 2 0.00
130 2 0.00
131 3 0.00
132 225 0.35
133 8 0.01
134 3 0.00
135 1 0.00
136 74 0.11
137 12 0.02
138 284 0.44
139 8 0.01
140 2 0.00
141 3 0.00
142 21 0.03
143 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (137 bp):
TGAAGCTACAAATCCTATACCCATGAAGTTGTAGTGGTTGGATTGAATCTACCATAGCGAATCTT
ATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAGAT
Found at i:34656114 original size:18 final size:18
Alignment explanation
Indices: 34656091--34656128 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
34656081 AGCAGAACAG
34656091 AAGAAATAGCAAAAGAGA
1 AAGAAATAGCAAAAGAGA
*
34656109 AAGAAATAGGAAAAGAGA
1 AAGAAATAGCAAAAGAGA
34656127 AA
1 AA
34656129 ATAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.05
Consensus pattern (18 bp):
AAGAAATAGCAAAAGAGA
Found at i:34660735 original size:16 final size:16
Alignment explanation
Indices: 34660714--34660752 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34660704 TACAGACATT
*
34660714 TTCATATCATTAAACA
1 TTCATATCAGTAAACA
*
34660730 TTCATATCAGTAATCA
1 TTCATATCAGTAAACA
*
34660746 ATCATAT
1 TTCATAT
34660753 ACAATCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (16 bp):
TTCATATCAGTAAACA
Found at i:34662327 original size:27 final size:25
Alignment explanation
Indices: 34662297--34662346 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
34662287 GGAGAGCCAC
34662297 TAATCAAGAAGCTCACGAAAGAGCCTT
1 TAATCAAGAAGCTC-C-AAAGAGCCTT
*
34662324 TAATCAGGAAGCTCCAAAGAGCC
1 TAATCAAGAAGCTCCAAAGAGCC
34662347 ATATATCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 1 0.05
27 13 0.59
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
TAATCAAGAAGCTCCAAAGAGCCTT
Found at i:34662511 original size:24 final size:25
Alignment explanation
Indices: 34662454--34662518 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
34662444 TAAGAACCGT
34662454 ATAACGGGAAGCTCATGAAAGCCAA
1 ATAACGGGAAGCTCATGAAAGCCAA
** * * *
34662479 ATATTGGGATGCTCATGAGAG-CTA
1 ATAACGGGAAGCTCATGAAAGCCAA
*
34662503 ATAACGGGACGCTCAT
1 ATAACGGGAAGCTCAT
34662519 TCGAGCTGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 15 0.47
25 17 0.53
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.20
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGAAAGCCAA
Found at i:34662856 original size:10 final size:11
Alignment explanation
Indices: 34662832--34662860 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
34662822 GAATTTAACA
34662832 TCAATTCATAT
1 TCAATTCATAT
34662843 TCAATTCA-AT
1 TCAATTCATAT
34662853 TCAATTCA
1 TCAATTCA
34662861 CATCTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAATTCATAT
Found at i:34669434 original size:8 final size:8
Alignment explanation
Indices: 34669423--34669454 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
34669413 TTAATAATAA
34669423 TATTACAT
1 TATTACAT
34669431 TATTACAT
1 TATTACAT
34669439 TATTACAT
1 TATTACAT
34669447 TAATTACA
1 T-ATTACA
34669455 CTTACCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (8 bp):
TATTACAT
Found at i:34669827 original size:19 final size:19
Alignment explanation
Indices: 34669800--34669837 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34669790 AAAGCGTATA
34669800 CTAGAACACGAAGTGCATC
1 CTAGAACACGAAGTGCATC
*
34669819 CTAGCACACGAAGTGCATC
1 CTAGAACACGAAGTGCATC
34669838 TTGGCGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
CTAGAACACGAAGTGCATC
Found at i:34671330 original size:21 final size:20
Alignment explanation
Indices: 34671295--34671344 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
34671285 ATCCATATTT
*
34671295 ATCAAATCAAAATTCATAAA
1 ATCAAATCAAAATTCACAAA
*
34671315 ATCAAATTAAATATTCACAAA
1 ATCAAATCAAA-ATTCACAAA
34671336 ATCTAAATC
1 ATC-AAATC
34671345 CACATTATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.40
21 11 0.44
22 4 0.16
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (20 bp):
ATCAAATCAAAATTCACAAA
Found at i:34677319 original size:18 final size:18
Alignment explanation
Indices: 34677272--34677311 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
34677262 AACACTCTCC
34677272 TTTCCTTTCTCTACAATA
1 TTTCCTTTCTCTACAATA
34677290 TTTCCTTTCTCTACAATA
1 TTTCCTTTCTCTACAATA
34677308 TTTC
1 TTTC
34677312 TTATCTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTCCTTTCTCTACAATA
Found at i:34678330 original size:82 final size:82
Alignment explanation
Indices: 34678193--34678544 Score: 640
Period size: 82 Copynumber: 4.3 Consensus size: 82
34678183 AGGATGTTAC
34678193 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
1 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
34678258 AGATGAAGAAAATATCG
66 AGATGAAGAAAATATCG
34678275 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
1 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
34678340 AGATGAAGAAAATATCG
66 AGATGAAGAAAATATCG
34678357 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
1 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
34678422 AGATGAAGAAAATATCG
66 AGATGAAGAAAATATCG
* *
34678439 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTATGGTATAATGACAGAAGACTTC
1 ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
* *
34678504 --A-G-AGAAAGTGTCG
66 AGATGAAGAAAATATCG
34678517 ATTAATATTAGGTATTGAACTAATTATC
1 ATTAATATTAGGTATTGAACTAATTATC
34678545 GCTTAGATCC
Statistics
Matches: 266, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
78 37 0.14
79 1 0.00
80 1 0.00
82 227 0.85
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (82 bp):
ATTAATATTAGGTATTGAACTAATTATCTGTCAACCTAGTCTACGGTATAATGACAAAAGACTTC
AGATGAAGAAAATATCG
Found at i:34679572 original size:13 final size:13
Alignment explanation
Indices: 34679521--34679573 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
34679511 TATACCAAAC
*
34679521 TTTTCAAAAGCAC
1 TTTTCAAAAGCAT
* **
34679534 TTCTCAAAAATAT
1 TTTTCAAAAGCAT
* *
34679547 TTTTCCACAGCAT
1 TTTTCAAAAGCAT
34679560 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
34679573 T
1 T
34679574 ATCAAACTAG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:34679984 original size:31 final size:29
Alignment explanation
Indices: 34679949--34680074 Score: 83
Period size: 31 Copynumber: 4.1 Consensus size: 29
34679939 TGAAACTTTT
34679949 AAAATATTTGGAGACTTAATAAAAATTTACA
1 AAAAT-TTTGGAGACTTAATAAAAATTT-CA
* * *
34679980 AAAATTTTGGAAGAGCATAATTAAAATCTTTA
1 AAAATTTTGG-AGA-CTTAATAAAAAT-TTCA
* * *
34680012 AAAATTTTGAAAGGCTTAATAAAAATTTTCT
1 AAAATTTTG-GAGACTTAATAAAAA-TTTCA
* ** *
34680043 AAAAGTTT-GAGGGTTAATTAAAATTTTCA
1 AAAATTTTGGAGACTTAA-TAAAAATTTCA
34680072 AAA
1 AAA
34680075 GTATCGTAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
29 14 0.19
30 10 0.13
31 26 0.35
32 23 0.31
33 2 0.03
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (29 bp):
AAAATTTTGGAGACTTAATAAAAATTTCA
Found at i:34680015 original size:32 final size:32
Alignment explanation
Indices: 34679965--34680046 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
34679955 TTTGGAGACT
*
34679965 TAATAAAAAT-TTAC-AAAAATTTTGGAAGAGCA
1 TAATAAAAATCTT-CTAAAAATTTTGAAAG-GCA
* *
34679997 TAATTAAAATCTT-TAAAAATTTTGAAAGGCT
1 TAATAAAAATCTTCTAAAAATTTTGAAAGGCA
*
34680028 TAATAAAAATTTTCTAAAA
1 TAATAAAAATCTTCTAAAA
34680047 GTTTGAGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
31 13 0.31
32 27 0.64
33 2 0.05
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (32 bp):
TAATAAAAATCTTCTAAAAATTTTGAAAGGCA
Found at i:34682037 original size:12 final size:12
Alignment explanation
Indices: 34682022--34682072 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
34682012 AGAAAAGTGC
34682022 AAAGAAAAACTA
1 AAAGAAAAACTA
*
34682034 AAAGAAAACCTA
1 AAAGAAAAACTA
34682046 AAAGAAACTAACTA
1 AAAGAAA--AACTA
**
34682060 AAACTAAAACTA
1 AAAGAAAAACTA
34682072 A
1 A
34682073 GCCTAAGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 24 0.73
14 9 0.27
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAGAAAAACTA
Found at i:34692062 original size:11 final size:11
Alignment explanation
Indices: 34692046--34692071 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34692036 CCTCTCTATT
34692046 TTTTATTTTTC
1 TTTTATTTTTC
34692057 TTTTATTTTTC
1 TTTTATTTTTC
34692068 TTTT
1 TTTT
34692072 TTCTTTTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:34692065 original size:18 final size:18
Alignment explanation
Indices: 34692042--34692078 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34692032 TTGGCCTCTC
34692042 TATTTTT-TATTTTTCTTT
1 TATTTTTCT-TTTTTCTTT
34692060 TATTTTTCTTTTTTCTTT
1 TATTTTTCTTTTTTCTTT
34692078 T
1 T
34692079 CGTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (18 bp):
TATTTTTCTTTTTTCTTT
Found at i:34698007 original size:7 final size:7
Alignment explanation
Indices: 34697997--34698030 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
34697987 AAAAAAAGGG
34697997 ATGAAAA
1 ATGAAAA
34698004 ATGAAAA
1 ATGAAAA
34698011 ATG-AAA
1 ATGAAAA
*
34698017 TTGAAAA
1 ATGAAAA
34698024 ATGAAAA
1 ATGAAAA
34698031 GTAATGACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (7 bp):
ATGAAAA
Found at i:34698021 original size:13 final size:13
Alignment explanation
Indices: 34698005--34698029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34697995 GGATGAAAAA
34698005 TGAAAAATGAAAT
1 TGAAAAATGAAAT
34698018 TGAAAAATGAAA
1 TGAAAAATGAAA
34698030 AGTAATGACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
TGAAAAATGAAAT
Found at i:34698301 original size:15 final size:15
Alignment explanation
Indices: 34698281--34698313 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
34698271 TCTTTTGATA
34698281 TCTGGGGCACCCGAT
1 TCTGGGGCACCCGAT
34698296 TCTGGGGCACCCGAT
1 TCTGGGGCACCCGAT
34698311 TCT
1 TCT
34698314 CATATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (15 bp):
TCTGGGGCACCCGAT
Found at i:34699475 original size:128 final size:128
Alignment explanation
Indices: 34699244--34699835 Score: 941
Period size: 128 Copynumber: 4.6 Consensus size: 128
34699234 GTGAATATTC
34699244 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
*
34699309 AGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAATTTG
66 AGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTG
* * * * *
34699372 CATATCTTGTCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAATCTTATCTTCAAATGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
*
34699437 AGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGTAGTGGAATAGGTTGGAAATTG
66 AGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTG
* *
34699500 CAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATGTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * * * *
34699565 AGGAAGCAGATCTAAGCCACAAGTCATATGTCCCTAACCAGTAGTGGAATAGGTTGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTG
* * *
34699628 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT---CAAGT
* * * *
34699693 GTAGGGAAACAGATTTAAGCCGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGCTGGAAATT
63 GTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATT
34699758 G
128 G
* *
34699759 CAGATCTTGTCTCCCTAAGCAGTTGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
*
34699824 AGGAACCAGATT
66 AGGAAGCAGATT
34699836 GAAGTCGATA
Statistics
Matches: 422, Mismatches: 39, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
128 308 0.73
131 114 0.27
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (128 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTG
Found at i:34700045 original size:44 final size:43
Alignment explanation
Indices: 34699830--34700136 Score: 219
Period size: 44 Copynumber: 7.1 Consensus size: 43
34699820 TGTAAGGAAC
* *
34699830 CAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGTAGTGGAG
1 CAGATTGAAGT-GATAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * * *
34699874 CGGATTAAAGTAATAGATCTTATCTCTCTAAAGTTGCAGTAGAG
1 CAGATTGAAGTGATA-ATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * * * * *
34699918 TGGATCGCAGCAGGT--T-TTATCCCCCTGAAGCTGCAGTGGGG
1 CAGATTGAAG-TGATAATCTTATCTCCCTGAAGTTGCAGTGGAG
* *
34699959 CAGATTGAAGATGACAAATCTTATCTCCCTGAGGTTGCAGTGGAG
1 CAGATTGAAG-TGA-TAATCTTATCTCCCTGAAGTTGCAGTGGAG
* *
34700004 CAGATTGAAGTTGATAATCCTATCTCCCTGAAGTTGTAGTGGAG
1 CAGATTGAAG-TGATAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * **
34700048 CAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGCAGAG
1 CAGATTGAAGTGATA-ATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * * *
34700092 TGGATCGCA-TCA-AGTCTTATCTCCCTGAGGTTGCAGTGGAG
1 CAGATTGAAGTGATAATCTTATCTCCCTGAAGTTGCAGTGGAG
34700133 CAGA
1 CAGA
34700137 CTGAGAAAAT
Statistics
Matches: 198, Mismatches: 58, Indels: 17
0.73 0.21 0.06
Matches are distributed among these distances:
41 51 0.26
42 2 0.01
43 9 0.05
44 101 0.51
45 35 0.18
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CAGATTGAAGTGATAATCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:34700991 original size:23 final size:26
Alignment explanation
Indices: 34700956--34701008 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
34700946 TTTCTAAACT
*
34700956 TATACATGCA-TT-TTTATATAGTATA
1 TATACAT-CATTTCTTTATATAATATA
34700981 TATACAT-ATTTCTTTATATAATATA
1 TATACATCATTTCTTTATATAATATA
34701006 TAT
1 TAT
34701009 GTGTTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 2 0.08
25 22 0.88
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (26 bp):
TATACATCATTTCTTTATATAATATA
Found at i:34701338 original size:28 final size:26
Alignment explanation
Indices: 34701291--34701352 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
34701281 TACGTACATA
*
34701291 TATATATACCTATATACATACATTTTTT
1 TATATATACATATATACAT--ATTTTTT
* * *
34701319 TGTATATACATATTTTCATATTTTTT
1 TATATATACATATATACATATTTTTT
34701345 TATATATA
1 TATATATA
34701353 TATTTAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 14 0.48
28 15 0.52
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.55
Consensus pattern (26 bp):
TATATATACATATATACATATTTTTT
Found at i:34701365 original size:24 final size:25
Alignment explanation
Indices: 34701314--34701361 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
34701304 ATACATACAT
*
34701314 TTTTTTGTATATACATATTTTCATA
1 TTTTTTGTATATACATATTTTAATA
*
34701339 TTTTTT-TATATATATA-TTTAATA
1 TTTTTTGTATATACATATTTTAATA
34701362 ATTTACATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTGTATATACATATTTTAATA
Found at i:34702700 original size:13 final size:13
Alignment explanation
Indices: 34702682--34702707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34702672 AAGGAGATTT
34702682 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
34702695 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
34702708 AAATTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:34702777 original size:19 final size:20
Alignment explanation
Indices: 34702740--34702779 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34702730 TCTTTTCGCA
* *
34702740 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
34702760 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
34702779 T
1 T
34702780 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:34705581 original size:14 final size:13
Alignment explanation
Indices: 34705562--34705602 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
34705552 AGTGATGTGA
34705562 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
34705576 AAAATGAAAAATG
1 AAAATGAAAAATG
*
34705589 AAAAGGTAAAAATG
1 AAAATG-AAAAATG
34705603 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:34705582 original size:6 final size:7
Alignment explanation
Indices: 34705559--34705592 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
34705549 AGAAGTGATG
34705559 TGAAAAA
1 TGAAAAA
34705566 TGAAAAGA
1 TGAAAA-A
34705574 TG-AAAA
1 TGAAAAA
34705580 TGAAAAA
1 TGAAAAA
34705587 TGAAAA
1 TGAAAA
34705593 GGTAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 19 0.76
8 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:34705583 original size:21 final size:21
Alignment explanation
Indices: 34705559--34705602 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
34705549 AGAAGTGATG
*
34705559 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAAGATAAAAA
*
34705580 TGAAAAATGAAAAGGTAAAAA
1 TGAAAAATGAAAAGATAAAAA
34705601 TG
1 TG
34705603 GAGAGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAGATAAAAA
Found at i:34706835 original size:88 final size:86
Alignment explanation
Indices: 34706672--34706841 Score: 232
Period size: 86 Copynumber: 2.0 Consensus size: 86
34706662 ATCAGTGAAA
* * *
34706672 ATAGTAGATCTTGTCTTCCTGCATCGACAACAAAGCAGATCAAAATAAAGCCTTACCTCCCTCAG
1 ATAGCAGATCTTGCCTTCCTGCATCAACAACAAAGCAGATCAAAATAAAGCCTTACCTCCCTCAG
34706737 TTGTAGTGGAGCAGGTTAAAG
66 TTGTAGTGGAGCAGGTTAAAG
* * * * * *
34706758 ATAGCAGATCTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAGATACTAGCCTTACCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCAACAACAAAGCAGATC-AAAATA-AAGCCTTACCTCCCTC
*
34706823 GGTTGTAGTGGAGCAGGTT
64 AGTTGTAGTGGAGCAGGTT
34706842 GATGGCAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 34 0.47
87 5 0.07
88 33 0.46
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (86 bp):
ATAGCAGATCTTGCCTTCCTGCATCAACAACAAAGCAGATCAAAATAAAGCCTTACCTCCCTCAG
TTGTAGTGGAGCAGGTTAAAG
Found at i:34706947 original size:44 final size:44
Alignment explanation
Indices: 34706898--34707214 Score: 166
Period size: 44 Copynumber: 7.2 Consensus size: 44
34706888 CCAGTAATTC
*
34706898 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * * ** **** *
34706942 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
34706986 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* *
34707030 TATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * * * ** * *
34707074 TATCTCCCTAAGCAGTAGTGGAGCAGA-TCAAGGATGGCGGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAA-GATTACAGATCT
* * * * *
34707118 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * *
34707162 TATCCCCCTGGGCAGCAGTAGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
34707206 TATCTCCCT
1 TATCTCCCT
34707215 AAGCAGTAGA
Statistics
Matches: 187, Mismatches: 68, Indels: 36
0.64 0.23 0.12
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 41 0.22
44 102 0.55
45 27 0.14
46 5 0.03
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:34706994 original size:132 final size:132
Alignment explanation
Indices: 34706849--34707380 Score: 911
Period size: 132 Copynumber: 4.0 Consensus size: 132
34706839 GTTGATGGCA
*
34706849 GATTTTACCTCCCTAAGCTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
*
34706914 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
66 AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
34706979 TG
131 TG
*
34706981 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
*
34707046 AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGG
66 AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
*
34707111 CG
131 TG
* *
34707113 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAGC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
** *
34707178 AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGAAGAGCAGATCAAATATGG
66 AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
34707243 TG
131 TG
* * * *
34707245 GATTTTACCTCCCTAAGGTTACAGTAGAGTACATTGAAGCCAATAATTCTATCTCACTGGGTAGC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * *
34707310 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
66 AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
34707375 TG
131 TG
34707377 GATT
1 GATT
34707381 NNNNNNNNNN
Statistics
Matches: 377, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 377 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
AGTAGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
TG
Found at i:34719347 original size:3 final size:3
Alignment explanation
Indices: 34719339--34719372 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
34719329 TGTAATTAGC
*
34719339 TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
34719373 CCAACTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:34722619 original size:27 final size:27
Alignment explanation
Indices: 34722580--34722833 Score: 223
Period size: 27 Copynumber: 9.4 Consensus size: 27
34722570 GATTCGTAGA
** *
34722580 AAAATGA-TCGAAATACCCTTTATGGAT
1 AAAATGACT-GAAATACCCTCGATGGGT
* *
34722607 AAAATAACTGAAATACCCTTGATGGGT
1 AAAATGACTGAAATACCCTCGATGGGT
* * *
34722634 AAAATGACCGAAATACCCCCCGAAGGGT
1 AAAATGACTGAAATA-CCCTCGATGGGT
* *
34722662 AAAATTA-TCGAAATACCCTCGATTGGT
1 AAAATGACT-GAAATACCCTCGATGGGT
* *
34722689 AAAAAGATCT-AAATACCCTCGATGGAT
1 AAAATGA-CTGAAATACCCTCGATGGGT
* *
34722716 AAAATGACCGAAATACCCTTGATGGGT
1 AAAATGACTGAAATACCCTCGATGGGT
* *
34722743 AAAATGACCGAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGATGGGT
*
34722770 AAAATGA-TCGAAATACCC-CTGAAGGGT
1 AAAATGACT-GAAATACCCTC-GATGGGT
* * *
34722797 AAAATAATTGAAATACCC-CCATAGGGT
1 AAAATGACTGAAATACCCTCGAT-GGGT
34722824 AAAATGACTG
1 AAAATGACTG
34722834 TTATACCCCT
Statistics
Matches: 188, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
26 3 0.02
27 161 0.86
28 23 0.12
29 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (27 bp):
AAAATGACTGAAATACCCTCGATGGGT
Found at i:34722801 original size:54 final size:54
Alignment explanation
Indices: 34722580--34722830 Score: 256
Period size: 54 Copynumber: 4.6 Consensus size: 54
34722570 GATTCGTAGA
** * * * *
34722580 AAAATGATCGAAATACCCTTTATGGATAAAAT-AACTGAAATACCCTTGATGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCCTGATGGGT
* * * *
34722634 AAAATGACCGAAATACCCCCCGAAGGGTAAAATTATCGAAATA-CCCTCGATTGGT
1 AAAATGATCGAAATA-CCCTCGAAGGGTAAAATGATCGAAATACCCCT-GATGGGT
* * * * * *
34722689 AAAAAGATCTAAATACCCTCGATGGATAAAATGACCGAAATACCCTTGATGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCTGATGGGT
* *
34722743 AAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCTGAAGGGT
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCTGATGGGT
* * *
34722797 AAAATAATTGAAATACCC-CCATAGGGTAAAATGA
1 AAAATGATCGAAATACCCTCGA-AGGGTAAAATGA
34722831 CTGTTATACC
Statistics
Matches: 161, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.01
54 118 0.73
55 39 0.24
56 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (54 bp):
AAAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCTGATGGGT
Found at i:34722810 original size:81 final size:80
Alignment explanation
Indices: 34722580--34722831 Score: 256
Period size: 81 Copynumber: 3.1 Consensus size: 80
34722570 GATTCGTAGA
* ** * * *
34722580 AAAATGATCGAAATACCCTTTATGGATAAAAT-AACTGAAATACCCTTGATGGGTAAAATGACCG
1 AAAATGACCGAAATACCCTCGATGGGTAAAATGATC-GAAATACCCCTGATGGGTAAAATGACCG
*
34722644 AAATACCCCCCGAAGGGT
65 AAATA--CCCCGATGGGT
* * * * * *
34722662 AAAATTATCGAAATACCCTCGATTGGTAAAAAGATCTAAATA-CCCTCGATGGATAAAATGACCG
1 AAAATGACCGAAATACCCTCGATGGGTAAAATGATCGAAATACCCCT-GATGGGTAAAATGACCG
*
34722726 AAATACCCTTGATGGGT
65 AAATACCC-CGATGGGT
* * * **
34722743 AAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCTGAAGGGTAAAATAATTGA
1 AAAATGACCGAAATACCCTCGATGGGTAAAATGATCGAAATACCCCTGATGGGTAAAATGACCGA
*
34722808 AATACCCCCATAGGGT
66 AATACCCCGAT-GGGT
34722824 AAAATGAC
1 AAAATGAC
34722832 TGTTATACCC
Statistics
Matches: 140, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
80 5 0.04
81 77 0.55
82 56 0.40
83 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (80 bp):
AAAATGACCGAAATACCCTCGATGGGTAAAATGATCGAAATACCCCTGATGGGTAAAATGACCGA
AATACCCCGATGGGT
Found at i:34723201 original size:28 final size:28
Alignment explanation
Indices: 34723161--34723271 Score: 141
Period size: 28 Copynumber: 4.0 Consensus size: 28
34723151 ACTGCATTGT
* * *
34723161 ACTGTTTCTGTATTGGGCTAATGCCTAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* *
34723189 ACTGTTACTGTATTGGGATAAGGCCCAT
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
34723217 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* * *
34723245 ACTGTTGCTGTATAGGGCTCAGGCCCA
1 ACTGTTACTGTATTGGGCTAAGGCCCA
34723272 AGCTGCTACT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:34724062 original size:17 final size:18
Alignment explanation
Indices: 34724042--34724077 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34724032 CTAAATTAGA
*
34724042 GAAAACT-GAGACTGTAG
1 GAAAACTAGAAACTGTAG
34724059 GAAAACTAGAAACTGTAG
1 GAAAACTAGAAACTGTAG
34724077 G
1 G
34724078 GAGACTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (18 bp):
GAAAACTAGAAACTGTAG
Found at i:34729377 original size:27 final size:27
Alignment explanation
Indices: 34729279--34729596 Score: 284
Period size: 27 Copynumber: 11.8 Consensus size: 27
34729269 TTGCGATTCG
** *
34729279 TGGG-AAAATGACCAAAATACCCTCAA
1 TGGGTAAAATGACTGAAATACCCTCGA
**
34729305 TAAGTAAAATGA-TCGAAATACCCTTCGA
1 TGGGTAAAATGACT-GAAATACCC-TCGA
* * * * *
34729333 AGGGTAAAATGACCGAAATAACTTTGA
1 TGGGTAAAATGACTGAAATACCCTCGA
* * *
34729360 TGGGTAAAAAGACTGAAATACCTTTGA
1 TGGGTAAAATGACTGAAATACCCTCGA
* *
34729387 TGGATAAAATGATTGAAATACCCTCGA
1 TGGGTAAAATGACTGAAATACCCTCGA
34729414 TGGGTAAAATGACTGAAATACCCTCGA
1 TGGGTAAAATGACTGAAATACCCTCGA
* * * ** *
34729441 TAGGTAAAAAGA-TCAAAATACATTTGA
1 TGGGTAAAATGACT-GAAATACCCTCGA
* *
34729468 TGGATAAAATGACTGAAATACCCCCGA
1 TGGGTAAAATGACTGAAATACCCTCGA
*
34729495 TGGGTAAAATGACTGAAATACCCTCAA
1 TGGGTAAAATGACTGAAATACCCTCGA
* *
34729522 AGGGTAAAATGACTGAAATACCCCCGA
1 TGGGTAAAATGACTGAAATACCCTCGA
* * *
34729549 AGGGTAAAATGA-TCGAAATACCCCCAA
1 TGGGTAAAATGACT-GAAATACCCTCGA
* * *
34729576 AGGGTAAAATAACCGAAATAC
1 TGGGTAAAATGACTGAAATAC
34729597 GTTCATAGGG
Statistics
Matches: 238, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 214 0.90
28 20 0.08
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (27 bp):
TGGGTAAAATGACTGAAATACCCTCGA
Found at i:34729612 original size:81 final size:81
Alignment explanation
Indices: 34729309--34729611 Score: 326
Period size: 81 Copynumber: 3.7 Consensus size: 81
34729299 CCTCAATAAG
* ** *
34729309 TAAAATGATCGAAATACCCTTCGAAGGGTAAAATGACCGAAATAACTTTGAT-GGGTAAAAAGAC
1 TAAAATGATCGAAATACCC-CCGAAGGGTAAAATGACCGAAAT-ACCCTCATAGGGTAAAAAGAC
34729373 TGAAATACCTTTGATGGA
64 TGAAATACCTTTGATGGA
* * * *
34729391 TAAAATGATTGAAATACCCTCGATGGGTAAAATGACTGAAATACCCTCGATA-GGTAAAAAGA-T
1 TAAAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTC-ATAGGGTAAAAAGACT
* *
34729454 CAAAATACATTTGATGGA
65 -GAAATACCTTTGATGGA
* * * *
34729472 TAAAATGA-CTGAAATACCCCCGATGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGACT
1 TAAAATGATC-GAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAAAGACT
*** * *
34729536 GAAATACCCCCGAAGGG
65 GAAATACCTTTGATGGA
* * **
34729553 TAAAATGATCGAAATACCCCCAAAGGGTAAAATAACCGAAATACGTTCATAGGGTAAAA
1 TAAAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAA
34729612 TAACTGTTAT
Statistics
Matches: 188, Mismatches: 26, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
80 6 0.03
81 162 0.86
82 20 0.11
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.21
Consensus pattern (81 bp):
TAAAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAAAGACTG
AAATACCTTTGATGGA
Found at i:34734933 original size:43 final size:43
Alignment explanation
Indices: 34734853--34734952 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
34734843 AATTTATCCA
* *
34734853 ATGATGTATTGTGTGTGTTAGTATAATTACTCCGGCTTGTCC-G
1 ATGATGTACTGTGTGTGTCAGTATAATTACTCCGGCTTG-CCTG
** **
34734896 ATGATGTACTGTGTGTGTCAGTATAATTGTTTTGGCTTGCCTG
1 ATGATGTACTGTGTGTGTCAGTATAATTACTCCGGCTTGCCTG
*
34734939 ATGATGCACTGTGT
1 ATGATGTACTGTGT
34734953 ATGCCAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 2 0.04
43 47 0.96
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.42
Consensus pattern (43 bp):
ATGATGTACTGTGTGTGTCAGTATAATTACTCCGGCTTGCCTG
Found at i:34736633 original size:8 final size:8
Alignment explanation
Indices: 34736601--34736642 Score: 66
Period size: 9 Copynumber: 5.0 Consensus size: 8
34736591 AATAAATAAG
34736601 TATTATAT
1 TATTATAT
34736609 TAATTATAT
1 T-ATTATAT
34736618 TAATTATAT
1 T-ATTATAT
34736627 TATTATAT
1 TATTATAT
34736635 TATTATAT
1 TATTATAT
34736643 ATAAAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 16 0.48
9 17 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:34736676 original size:19 final size:19
Alignment explanation
Indices: 34736652--34736690 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34736642 TATAAAAAAC
34736652 AAAAGA-AATAAAAGATAGA
1 AAAAGAGAATAAAA-ATAGA
*
34736671 AAAAGAGAATAGAAATAGA
1 AAAAGAGAATAAAAATAGA
34736690 A
1 A
34736691 TAACAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (19 bp):
AAAAGAGAATAAAAATAGA
Found at i:34737736 original size:41 final size:40
Alignment explanation
Indices: 34737659--34737757 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 40
34737649 TTGATGGTAC
* * * * *
34737659 ATTGATTGGAAAGTGGAAAAATGTATTGGTATTGAATTGTAT
1 ATTGATTAGAAAGT-GAAAAATGAATTGGAAATGAATTGT-G
* *
34737701 ATTGATTAGAAAGTGAAAAGTGAATTTGAAATGAATTGTG
1 ATTGATTAGAAAGTGAAAAATGAATTGGAAATGAATTGTG
* *
34737741 ATTGAATCGAAAGTGAA
1 ATTGATTAGAAAGTGAA
34737758 TTTGAAATAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
40 15 0.31
41 20 0.42
42 13 0.27
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.33
Consensus pattern (40 bp):
ATTGATTAGAAAGTGAAAAATGAATTGGAAATGAATTGTG
Found at i:34743187 original size:28 final size:28
Alignment explanation
Indices: 34743156--34743228 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
34743146 TATTTGTATA
* * *
34743156 AAAACTAAATTAATTTTTTTAACAATAG
1 AAAACTAATTTAAATTATTTAACAATAG
34743184 AAAACTAATTTAAATTATTTAACAATAG
1 AAAACTAATTTAAATTATTTAACAATAG
34743212 AAAACTAATTTAAATTA
1 AAAACTAATTTAAATTA
34743229 AAGGTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAACTAATTTAAATTATTTAACAATAG
Found at i:34743677 original size:31 final size:31
Alignment explanation
Indices: 34743642--34743704 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
34743632 AACAACATAG
34743642 TAACTTAAATAAAAACTTTGGAATAATTCAA
1 TAACTTAAATAAAAACTTTGGAATAATTCAA
* *
34743673 TAACTTAAATAAAAACTTTTGAATAGTTCAA
1 TAACTTAAATAAAAACTTTGGAATAATTCAA
34743704 T
1 T
34743705 GACCGTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTGGAATAATTCAA
Found at i:34757053 original size:22 final size:22
Alignment explanation
Indices: 34757027--34757069 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34757017 CAATATCCAA
*
34757027 ATAATAATAAAACAGTAGCAAT
1 ATAATAACAAAACAGTAGCAAT
*
34757049 ATAATAACAAAATAGTAGCAA
1 ATAATAACAAAACAGTAGCAA
34757070 AATAGCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAACAGTAGCAAT
Found at i:34757079 original size:22 final size:22
Alignment explanation
Indices: 34757025--34757080 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
34757015 TACAATATCC
* *
34757025 AAATAATAATAAAACAGTAGCA
1 AAATAACAACAAAACAGTAGCA
* * *
34757047 ATATAATAACAAAATAGTAGCA
1 AAATAACAACAAAACAGTAGCA
*
34757069 AAATAGCAACAA
1 AAATAACAACAA
34757081 CAAATAACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.18
Consensus pattern (22 bp):
AAATAACAACAAAACAGTAGCA
Found at i:34763262 original size:3 final size:3
Alignment explanation
Indices: 34763254--34763282 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34763244 TATCTTTTCT
34763254 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34763283 TGACTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34763454 original size:32 final size:33
Alignment explanation
Indices: 34763403--34763465 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
34763393 CTCAACTATG
* *
34763403 CTTTTTTTTGTCACTCAACTAT-TTCATTTTAT
1 CTTTTTTTGGTCACTCAACTATATTAATTTTAT
34763435 CTTTTTTTGGTCAGC-CAACTATATTAATTTT
1 CTTTTTTTGGTCA-CTCAACTATATTAATTTT
34763466 TTGTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.56
Consensus pattern (33 bp):
CTTTTTTTGGTCACTCAACTATATTAATTTTAT
Found at i:34768238 original size:13 final size:14
Alignment explanation
Indices: 34768216--34768248 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
34768206 ATAATATGTA
*
34768216 AAAATATTATTTTT
1 AAAATATTATTATT
34768230 AAAAT-TTATTATT
1 AAAATATTATTATT
34768243 AAAATA
1 AAAATA
34768249 AAATTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATTATTATT
Found at i:34768282 original size:16 final size:16
Alignment explanation
Indices: 34768263--34768297 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34768253 TGAAATATTA
*
34768263 AATAATTTATTAAAAT
1 AATAAATTATTAAAAT
*
34768279 AATAAATTATTAATAT
1 AATAAATTATTAAAAT
34768295 AAT
1 AAT
34768298 TTATTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATTATTAAAAT
Found at i:34768303 original size:16 final size:15
Alignment explanation
Indices: 34768258--34768304 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
34768248 AAAATTGAAA
34768258 TATTAAATAATTTAT
1 TATTAAATAATTTAT
**
34768273 TA--AAATAATAAAT
1 TATTAAATAATTTAT
34768286 TATTAATATAATTTAT
1 TATTAA-ATAATTTAT
34768302 TAT
1 TAT
34768305 ATGACTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 11 0.44
15 4 0.16
16 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTAAATAATTTAT
Found at i:34768313 original size:29 final size:29
Alignment explanation
Indices: 34768257--34768328 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
34768247 TAAAATTGAA
34768257 ATATTAAATAATTTATTAAAATAATAAAT
1 ATATTAAATAATTTATTAAAATAATAAAT
* *
34768286 -TATTAATATAATTTATT-ATATGACTAAAT
1 ATATTAA-ATAATTTATTAAAAT-AATAAAT
34768315 ATATATAAATAATT
1 ATAT-TAAATAATT
34768329 AAATATGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 9 0.24
29 16 0.43
30 9 0.24
31 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTAAATAATTTATTAAAATAATAAAT
Found at i:34784014 original size:27 final size:27
Alignment explanation
Indices: 34783975--34784026 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
34783965 GTGCACATAT
34783975 TGGAGAAGATGGG-GTTCGGAAAATAAG
1 TGGAGAAGATGGGTGTT-GGAAAATAAG
34784002 TGGAGAATG-TGGGTGTTGGAAAATA
1 TGGAGAA-GATGGGTGTTGGAAAATA
34784027 TATCAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (27 bp):
TGGAGAAGATGGGTGTTGGAAAATAAG
Found at i:34785360 original size:3 final size:3
Alignment explanation
Indices: 34785352--34785508 Score: 314
Period size: 3 Copynumber: 52.3 Consensus size: 3
34785342 AATTTAAAGT
34785352 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
34785400 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
34785448 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
34785496 ACA ACA ACA ACA A
1 ACA ACA ACA ACA A
34785509 TAATAATAAT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 154 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:34785653 original size:23 final size:22
Alignment explanation
Indices: 34785606--34785654 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
34785596 GTAATCGCAT
34785606 TAAAATTACAACATTCAAAGGAC
1 TAAAATTACAACATTCAAA-GAC
*
34785629 TAAATTTACAATCAATTCAAA-AC
1 TAAAATTACAA-C-ATTCAAAGAC
34785652 TAA
1 TAA
34785655 GGACTAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 1 0.04
25 7 0.30
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (22 bp):
TAAAATTACAACATTCAAAGAC
Found at i:34787310 original size:182 final size:182
Alignment explanation
Indices: 34787003--34787368 Score: 696
Period size: 182 Copynumber: 2.0 Consensus size: 182
34786993 GTTCCCCCTT
*
34787003 AAATATCTTGGTAGTTGGTATTCCTCTTGGAATCAGCCCGAGAAAACGGGTAGTTTGGATCAAGG
1 AAATATCTTGGTAGTTGGTATTCCTCTTGAAATCAGCCCGAGAAAACGGGTAGTTTGGATCAAGG
*
34787068 CTGCAGACGATAAATTACTTGTTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
66 CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
34787133 GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
131 GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
34787185 AAATATCTTGGTAGTTGGTATTCCTCTTGAAATCAGCCCGAGAAAACGGGTAGTTTGGATCAAGG
1 AAATATCTTGGTAGTTGGTATTCCTCTTGAAATCAGCCCGAGAAAACGGGTAGTTTGGATCAAGG
34787250 CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
66 CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
* *
34787315 GCTACTCCTGTTAAAGCAGTTTGGAGGGATATCTGTTGGATGCCTCCAGCTC
131 GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
34787367 AA
1 AA
34787369 GGTTTTCTCA
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 180 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (182 bp):
AAATATCTTGGTAGTTGGTATTCCTCTTGAAATCAGCCCGAGAAAACGGGTAGTTTGGATCAAGG
CTGCAGACGATAAATTACTTGCTATGGAGTCAGCTTGGTGGGATTGCCCACTGCTTTGCTTCTCG
GCTACTCCTGTTAAAGCAGTTCGGAGGGATATCTGTTGGACGCCTCCAGCTC
Found at i:34789203 original size:57 final size:57
Alignment explanation
Indices: 34789082--34789255 Score: 226
Period size: 57 Copynumber: 3.0 Consensus size: 57
34789072 TAGCCCAATT
* * * * *
34789082 ATAAGCTTATAAAGGTAAAAAAACCAAAATAAAGGTCAAAATGTGCAGTTA-TTTTTGA
1 ATAAGCTTATAAAGGT-GAAAAA-CAAAATAAAGGTCAAAATTTGCAATCACATTTTGA
*
34789140 ATAAGCTTATAAAGGTGAAAAACAAAATAAAGG-CAAAATTTCGCAATCACATTTTGC
1 ATAAGCTTATAAAGGTGAAAAACAAAATAAAGGTCAAAATTT-GCAATCACATTTTGA
* * *
34789197 ATAAGCTTATAATGGTGAAAAACAAAATAAAGGTCAAATTTTGCAACCACATTTTGA
1 ATAAGCTTATAAAGGTGAAAAACAAAATAAAGGTCAAAATTTGCAATCACATTTTGA
34789254 AT
1 AT
34789256 TTTAAGGTTG
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
55 7 0.07
56 16 0.16
57 57 0.55
58 23 0.22
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.27
Consensus pattern (57 bp):
ATAAGCTTATAAAGGTGAAAAACAAAATAAAGGTCAAAATTTGCAATCACATTTTGA
Found at i:34791087 original size:18 final size:18
Alignment explanation
Indices: 34791064--34791100 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34791054 CTTGCCAGAA
34791064 AATGAATTATAAAAAATG
1 AATGAATTATAAAAAATG
*
34791082 AATGAATTATAGAAAATG
1 AATGAATTATAAAAAATG
34791100 A
1 A
34791101 CTTACTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (18 bp):
AATGAATTATAAAAAATG
Found at i:34791456 original size:16 final size:17
Alignment explanation
Indices: 34791419--34791460 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
34791409 TTATATTTAG
*
34791419 AAATTTAATAGAAGTAA
1 AAATATAATAGAAGTAA
*
34791436 AAATATAATAGTAGT-A
1 AAATATAATAGAAGTAA
34791452 AAATATAAT
1 AAATATAAT
34791461 TAGGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
AAATATAATAGAAGTAA
Found at i:34792624 original size:31 final size:31
Alignment explanation
Indices: 34792564--34792627 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
34792554 TTTTGGGATC
*
34792564 AAGTTTTAAGGAGATTTAGTAAAGTTTTTAA
1 AAGTTTTAAGGAGATTTAATAAAGTTTTTAA
*
34792595 AAGTTTT-AGGAG-TTTAATGAAATTGTTTTAA
1 AAGTTTTAAGGAGATTTAAT-AAAGT-TTTTAA
34792626 AA
1 AA
34792628 AAATGTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 9 0.31
31 15 0.52
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (31 bp):
AAGTTTTAAGGAGATTTAATAAAGTTTTTAA
Found at i:34793545 original size:3 final size:3
Alignment explanation
Indices: 34793537--34793804 Score: 536
Period size: 3 Copynumber: 89.3 Consensus size: 3
34793527 TAAATAAAGA
34793537 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34793585 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34793633 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34793681 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34793729 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34793777 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34793805 TAACCAATGT
Statistics
Matches: 265, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 265 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34795268 original size:22 final size:22
Alignment explanation
Indices: 34795234--34795277 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34795224 TTTGTTCAAC
34795234 TTTAACTTTTATTGAAAAACAT
1 TTTAACTTTTATTGAAAAACAT
**
34795256 TTTAA-TTTGTATTTCAAAACAT
1 TTTAACTTT-TATTGAAAAACAT
34795278 ATTATCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
TTTAACTTTTATTGAAAAACAT
Found at i:34796543 original size:6 final size:6
Alignment explanation
Indices: 34796532--34796556 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34796522 ATAAATTCTC
34796532 TTCATT TTCATT TTCATT TTCATT T
1 TTCATT TTCATT TTCATT TTCATT T
34796557 ATGGAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCATT
Found at i:34797903 original size:18 final size:18
Alignment explanation
Indices: 34797867--34797902 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
34797857 TAAAAATAAA
*
34797867 AAAATAAAAAAGTATTTT
1 AAAATAAAAAAATATTTT
34797885 AAAATAAAAAAAATATTT
1 AAAAT-AAAAAAATATTT
34797903 ATTATATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATAAAAAAATATTTT
Done.