Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 108 of 153
Found at i:33670561 original size:100 final size:100
Alignment explanation
Indices: 33670447--33670675 Score: 239
Period size: 100 Copynumber: 2.2 Consensus size: 100
33670437 CAATGTCATA
* * * *
33670447 TCCCAAATATGGTCTTGCATGGGAG-TTCTCATATCGGTGCCCA-TGCCATCTC-CTAGACATGG
1 TCCCAAACATGGTCTTACATGGG-GCCTCTCATATCGGTGCCAACT-CCATCTCTC-AGACATGG
*
33670509 TCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCGTG
63 TCTTACAGGGGACATCTCATCTCGGTGCCAACGCCGTG
* * *
33670547 TCCCAAACATGGTCTTACATGGGGCCTCTCATCTCGGTGCCAACTCCATGTCTCAGAGATGGTCT
1 TCCCAAACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACTCCATCTCTCAGACATGGTCT
* * * *
33670612 TACATGGGACATCTCATAATCTCAATGATGCCAATGCCATG
66 TACAGGGGACATCTC---ATCTC---GGTGCCAACGCCGTG
*
33670653 TCCCAGACATGGTCTTACATGGG
1 TCCCAAACATGGTCTTACATGGG
33670676 ATCTATTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
99 1 0.01
100 65 0.61
101 2 0.02
103 5 0.05
106 34 0.32
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
TCCCAAACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACTCCATCTCTCAGACATGGTCT
TACAGGGGACATCTCATCTCGGTGCCAACGCCGTG
Found at i:33674089 original size:50 final size:49
Alignment explanation
Indices: 33674009--33674125 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 49
33673999 AGATCCCATA
* * * *
33674009 TAAGACCATTTCTGGGACATGGCGTTGGCACCAAGATGAGAGGC-CCCCCG
1 TAAGACCATTT-TGGGACATGGCATGGGCACCAAGATGAGA-ACTCCCACG
* * *
33674059 TAAGACCATGTTTGGGACATGGCATGGGCACCTATATGAGAACTCCCATG
1 TAAGACCAT-TTTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
33674109 TAAGACCATATTTGGGA
1 TAAGACCAT-TTTGGGA
33674126 TATGACATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 54 0.95
51 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (49 bp):
TAAGACCATTTTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
Found at i:33674745 original size:31 final size:31
Alignment explanation
Indices: 33674710--33674772 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
33674700 ATATGTAAAT
*
33674710 ATTTGATGATGAATAGTTATTAAAATGGCTA
1 ATTTGATGATGAATAGTTATTAAAATGACTA
33674741 ATTTGATGATGAATAGTTATTAAAATGACTA
1 ATTTGATGATGAATAGTTATTAAAATGACTA
33674772 A
1 A
33674773 GTATGAAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (31 bp):
ATTTGATGATGAATAGTTATTAAAATGACTA
Found at i:33677499 original size:26 final size:28
Alignment explanation
Indices: 33677435--33677491 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
33677425 AATAAACACC
*
33677435 AAAAAAATATTTTAAAAATAAAAAACAT
1 AAAAAAGTATTTTAAAAATAAAAAACAT
33677463 AAAAAAGTATTTT-AAAATAAAAAA-AT
1 AAAAAAGTATTTTAAAAATAAAAAACAT
33677489 AAA
1 AAA
33677492 TATTTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 5 0.18
27 11 0.39
28 12 0.43
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAGTATTTTAAAAATAAAAAACAT
Found at i:33682103 original size:12 final size:12
Alignment explanation
Indices: 33682086--33682110 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33682076 TAATTTTTTG
33682086 TGATTAGTTGGT
1 TGATTAGTTGGT
33682098 TGATTAGTTGGT
1 TGATTAGTTGGT
33682110 T
1 T
33682111 AGACTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (12 bp):
TGATTAGTTGGT
Found at i:33690055 original size:15 final size:15
Alignment explanation
Indices: 33690035--33690066 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
33690025 GCTATTAAAT
33690035 AAAAATAAAAATTTA
1 AAAAATAAAAATTTA
33690050 AAAAATAAAAATTTA
1 AAAAATAAAAATTTA
33690065 AA
1 AA
33690067 TTTAAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAATAAAAATTTA
Found at i:33690057 original size:21 final size:21
Alignment explanation
Indices: 33690031--33690072 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33690021 ATGTGCTATT
33690031 AAATAAAAATAAAAATTTAAA
1 AAATAAAAATAAAAATTTAAA
**
33690052 AAATAAAAATTTAAATTTAAA
1 AAATAAAAATAAAAATTTAAA
33690073 TAGATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAAAATAAAAATTTAAA
Found at i:33694669 original size:89 final size:85
Alignment explanation
Indices: 33694491--33694693 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 85
33694481 TTAAATGGTA
* *** * * *
33694491 GGAATAAATCCTGAAACAGATTTTATTCAATTTAATTTCTCGTTTTGGAAATAAAATAAAAAGGG
1 GGAATAAA-CCCGAAACAGATTTTATTCAATTTAAAAACTAGTTTTGGAAATAAAATAAAAACGA
*
33694556 AATAAAATTCGTTGAACAACG
65 AATAAAATTCATTGAACAACG
* *
33694577 GGAATAAACCCGAAACAGATTTTATTCTAATTTAAAAACTTATTTTTGGAAATAAAAATCAAAAT
1 GGAATAAACCCGAAACAGATTTTATTC-AATTTAAAAAC-TAGTTTTGGAAAT-AAAAT-AAAAA
**
33694642 CGAAATAAAA-TCTATTGAACAGTG
62 CGAAATAAAATTC-ATTGAACAACG
*
33694666 GGAATAAACCCGAAACAAATTTTATTCA
1 GGAATAAACCCGAAACAGATTTTATTCA
33694694 CCCTTTTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 18 0.18
86 16 0.16
87 11 0.11
88 8 0.08
89 46 0.46
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (85 bp):
GGAATAAACCCGAAACAGATTTTATTCAATTTAAAAACTAGTTTTGGAAATAAAATAAAAACGAA
ATAAAATTCATTGAACAACG
Found at i:33701317 original size:14 final size:12
Alignment explanation
Indices: 33701290--33701324 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
33701280 AATTTTTATT
33701290 TTTATTTTACAA
1 TTTATTTTACAA
33701302 TTTATTCTTACTAA
1 TTTATT-TTAC-AA
33701316 TTTATTTTA
1 TTTATTTTA
33701325 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 7 0.33
14 8 0.38
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATTTTACAA
Found at i:33705802 original size:9 final size:9
Alignment explanation
Indices: 33705788--33705859 Score: 83
Period size: 9 Copynumber: 7.9 Consensus size: 9
33705778 GTGCAATCTA
33705788 AAGAGGAGG
1 AAGAGGAGG
*
33705797 AAGAGGAAG
1 AAGAGGAGG
33705806 AAGAAGGAGG
1 AAG-AGGAGG
33705816 AAGAGGAGG
1 AAGAGGAGG
* *
33705825 AGGAGTAGG
1 AAGAGGAGG
*
33705834 ATGAGGAGG
1 AAGAGGAGG
33705843 -AGAGGGAGG
1 AAGA-GGAGG
33705852 AAGAGGAG
1 AAGAGGAG
33705860 AGATTGAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.04
9 40 0.75
10 11 0.21
ACGTcount: A:0.43, C:0.00, G:0.54, T:0.03
Consensus pattern (9 bp):
AAGAGGAGG
Found at i:33705816 original size:3 final size:3
Alignment explanation
Indices: 33705790--33705859 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
33705780 GCAATCTAAA
* * * * * *
33705790 GAG GAG GAA GAG GAAG AAG AAG GAG GAA GAG GAG GAG GAG TAG GAT
1 GAG GAG GAG GAG G-AG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
*
33705836 GAG GAG GA- GAGG GAG GAA GAG GAG
1 GAG GAG GAG GA-G GAG GAG GAG GAG
33705860 AGATTGAAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.88
4 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.56, T:0.03
Consensus pattern (3 bp):
GAG
Found at i:33710797 original size:101 final size:101
Alignment explanation
Indices: 33710675--33710861 Score: 288
Period size: 101 Copynumber: 1.8 Consensus size: 101
33710665 AAAGTGATGG
* *
33710675 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAAAT-T-ATAGGTCGCATGTGTAGT
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCG-AATGTAAT-GGTCACATGTGTAGC
*
33710738 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
64 ACTATGTGCAAGCTACTATGTGTACCGGATAGTTTCGA
* *
33710776 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGCA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAAT-GTAATGGTCACATGTGTAGCA
33710841 CTATGTGCAAGCTACTATGTG
65 CTATGTGCAAGCTACTATGTG
33710862 AACTAAACAT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 39 0.50
102 35 0.45
103 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAATGTAATGGTCACATGTGTAGCAC
TATGTGCAAGCTACTATGTGTACCGGATAGTTTCGA
Found at i:33710805 original size:51 final size:50
Alignment explanation
Indices: 33710672--33710857 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
33710662 GTGAAAGTGA
* *
33710672 TGGTCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACC-GA-AATT
1 TGGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGTT
* * *
33710720 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTT
1 -T-GGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGTT
* * * * *
33710772 TCGATCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATGGTAA
1 T-GGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGT-T
** *
33710824 TGGTCACATGTGTAGCACTATGTGCAAGCTACTA
1 TGGTCACATGTGTAATACTATGTGCAGGCTACTA
33710858 TGTGAACTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 37 0.32
51 72 0.63
52 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGTT
Found at i:33710932 original size:45 final size:45
Alignment explanation
Indices: 33710868--33710954 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
33710858 TGTGAACTAA
* *
33710868 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
33710913 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
33710955 TGAGTATCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:33719403 original size:3 final size:3
Alignment explanation
Indices: 33719395--33719427 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
33719385 GGAATCATTG
*
33719395 ACA ACA ACA ACA ACA ACA ACA ACA AGA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
33719428 GCAGCAGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.30, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:33726899 original size:16 final size:15
Alignment explanation
Indices: 33726878--33726907 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
33726868 TTTTGTACTA
33726878 TTTTAATATTAAATAT
1 TTTTAAT-TTAAATAT
33726894 TTTTAATTTAAATA
1 TTTTAATTTAAATA
33726908 AAATTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAATTTAAATAT
Found at i:33727182 original size:33 final size:33
Alignment explanation
Indices: 33727135--33727198 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
33727125 TATGGAGATC
* *
33727135 ATTCTTGAGCAATTTAGATGTATTTTCTTTATT
1 ATTCTCGAGAAATTTAGATGTATTTTCTTTATT
33727168 ATTCTCGAGAAATTTAGATGTATTTTCTTTA
1 ATTCTCGAGAAATTTAGATGTATTTTCTTTA
33727199 CTTTTGACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (33 bp):
ATTCTCGAGAAATTTAGATGTATTTTCTTTATT
Found at i:33740907 original size:42 final size:42
Alignment explanation
Indices: 33740841--33740922 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
33740831 GGCCAAAGAA
*
33740841 TAGGGAAAAAGCCTCATGTGATCTACTACGTTTCGAAAACCT
1 TAGGGAAAAAGCCTCATGTGATCTACTACGCTTCGAAAACCT
* * *
33740883 TAGGGAAAGAA-CCTGATGTTATCTACTATGCTTCGAAAAC
1 TAGGGAAA-AAGCCTCATGTGATCTACTACGCTTCGAAAAC
33740923 TCTGGATGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
TAGGGAAAAAGCCTCATGTGATCTACTACGCTTCGAAAACCT
Found at i:33742885 original size:19 final size:19
Alignment explanation
Indices: 33742858--33742910 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
33742848 AATATTTTCA
*
33742858 TTTTCCTATTATTA-TTTAT
1 TTTTACTATT-TTATTTTAT
33742877 TTTTACTATTTTATTTTAT
1 TTTTACTATTTTATTTTAT
*
33742896 TTTCA-T-TTTTATTTT
1 TTTTACTATTTTATTTT
33742911 TGCAGGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 18 0.58
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTACTATTTTATTTTAT
Found at i:33742890 original size:18 final size:20
Alignment explanation
Indices: 33742858--33742898 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
33742848 AATATTTTCA
*
33742858 TTTTCCTATTATTA-TTTAT
1 TTTTACTATTATTATTTTAT
33742877 TTTTACTATT-TTATTTTAT
1 TTTTACTATTATTATTTTAT
33742896 TTT
1 TTT
33742899 CATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTACTATTATTATTTTAT
Found at i:33746016 original size:3 final size:3
Alignment explanation
Indices: 33746008--33746040 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33745998 AAAATTTTGG
33746008 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33746041 TTGAGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33749616 original size:15 final size:15
Alignment explanation
Indices: 33749596--33749630 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33749586 TAATTTGCGT
33749596 ATTTTAATTTAATTA
1 ATTTTAATTTAATTA
**
33749611 ATTTTAATTTCTTTA
1 ATTTTAATTTAATTA
33749626 ATTTT
1 ATTTT
33749631 TTATTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTAATTTAATTA
Found at i:33761831 original size:20 final size:20
Alignment explanation
Indices: 33761808--33761855 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33761798 ATCAAAAGCA
33761808 TCGATACCCGTAACAAAGTT
1 TCGATACCCGTAACAAAGTT
** * *
33761828 TCGATACCTTTCATAAAGTT
1 TCGATACCCGTAACAAAGTT
33761848 TCGATACC
1 TCGATACC
33761856 TTATCCTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
TCGATACCCGTAACAAAGTT
Found at i:33773574 original size:59 final size:59
Alignment explanation
Indices: 33773482--33773597 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
33773472 TGGAGCTTGG
* *
33773482 TCAACTCCTGTTGTAATTGTGTTGTATCTTTTTGAAATCTGGTGGTGACACCACTACCA
1 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTACCA
*
33773541 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAGATCTGGTGATGACACCACTAC
1 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTAC
33773598 TATCCATGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.39
Consensus pattern (59 bp):
TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTACCA
Found at i:33775267 original size:35 final size:35
Alignment explanation
Indices: 33775190--33775269 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
33775180 ACGATTATCG
* *
33775190 ATAGGTCCTTTAGGGTGACACCATGTAAACGGTAT
1 ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
* * *
33775225 ATAGGTCCTTCAGGGTGACACCGTGTAAATAGTTT
1 ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
*
33775260 ATGGGTCCTT
1 ATAGGTCCTT
33775270 TGAGGCTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
Found at i:33776432 original size:78 final size:77
Alignment explanation
Indices: 33776186--33776459 Score: 281
Period size: 78 Copynumber: 3.6 Consensus size: 77
33776176 AAAAATCCTG
* * * * * * *
33776186 TTTCAGTATTTTATTCCTGTCGTTTAACATGATTTATTTGATTTCTGTTTCAAACAGAAAATCAA
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
33776251 TTGAACACTGCTA
66 TTGAACACT-CTA
* * * * * *
33776264 TTTCAGGATTTTACTCTTGTCGTTTAATAGGATTTGTTT-A--TTT-TTTCAAATATAGACTCAA
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
33776325 TTGAACACTCCTA
66 TTGAACACT-CTA
* *
33776338 TTTTAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTTAAATAGGAAACT-A
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATA-GAAACTCA
*
33776402 ATTGAACAAT-TA
65 ATTGAACACTCTA
** * *
33776414 TGTTCAGGATTTTTATTCCTGCCACTCAACAGGATTTGTTCGATTT
1 T-TTCAGGA-TTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTT
33776460 CCACAATTCT
Statistics
Matches: 163, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
74 60 0.37
75 3 0.02
76 3 0.02
77 10 0.06
78 83 0.51
79 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (77 bp):
TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
TTGAACACTCTA
Found at i:33786314 original size:16 final size:16
Alignment explanation
Indices: 33786293--33786323 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33786283 ACTAGCTTTG
*
33786293 GCTTTTGATCTTTGTT
1 GCTTTTGATCCTTGTT
33786309 GCTTTTGATCCTTGT
1 GCTTTTGATCCTTGT
33786324 GACTCATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.16, G:0.19, T:0.58
Consensus pattern (16 bp):
GCTTTTGATCCTTGTT
Found at i:33793691 original size:18 final size:18
Alignment explanation
Indices: 33793668--33793761 Score: 60
Period size: 17 Copynumber: 5.5 Consensus size: 18
33793658 TTACAAGAAA
33793668 AATATTAAATTAAAATTT
1 AATATTAAATTAAAATTT
*
33793686 AATATTAAGA-TAATATCTTT
1 AATATTAA-ATTAA-A-ATTT
*
33793706 AATAGTAAATTAAAA---
1 AATATTAAATTAAAATTT
* *
33793721 AATATT--ATTAAGA-TA
1 AATATTAAATTAAAATTT
*
33793736 AATATTAAATT-TAATTT
1 AATATTAAATTAAAATTT
33793753 AATATTAAA
1 AATATTAAA
33793762 ACTAATAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
13 6 0.10
15 11 0.19
16 1 0.02
17 13 0.22
18 11 0.19
19 4 0.07
20 13 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATTAAATTAAAATTT
Found at i:33793768 original size:68 final size:72
Alignment explanation
Indices: 33793629--33793768 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 72
33793619 AACTTAATTA
*
33793629 CTTTAATATTAAATTAATAAAATATTTATTTACAAGAAAAATATTAAATTAAAATTTAATATTAA
1 CTTTAATAGTAAATTAATAAAATATTTATTTA-AAGAAAAATATTAAATTAAAATTTAATATTAA
*
33793694 GATAATAT
65 AATAATAT
* *
33793702 CTTTAATAGTAAATTAA-AAAATA-TTA-TT-AAGATAAATATTAAATT-TAATTTAATATTAAA
1 CTTTAATAGTAAATTAATAAAATATTTATTTAAAGAAAAATATTAAATTAAAATTTAATATTAAA
33793762 ACTAATA
66 A-TAATA
33793769 AAATAATATT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
67 14 0.23
68 21 0.34
70 2 0.03
71 3 0.05
72 6 0.10
73 16 0.26
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (72 bp):
CTTTAATAGTAAATTAATAAAATATTTATTTAAAGAAAAATATTAAATTAAAATTTAATATTAAA
ATAATAT
Found at i:33799664 original size:102 final size:103
Alignment explanation
Indices: 33799464--33799670 Score: 344
Period size: 102 Copynumber: 2.0 Consensus size: 103
33799454 TCTTAGGTGG
*
33799464 AGATGGTAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
1 AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
*
33799529 TATCACATCCATTCCCATATATAACTCAAAACATGCAT
66 CATCACATCCATTCCCATATATAACTCAAAACATGCAT
* * *
33799567 AGATGATAGTCCATGGTCTATTTTCTAAGAACCATAACCTTGG-AAAAAAATAACAATTATATAA
1 AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
* *
33799631 CATCGCATCCATTTCCATATATAACTCAAAACATGCAT
66 CATCACATCCATTCCCATATATAACTCAAAACATGCAT
33799669 AG
1 AG
33799671 TATCTAAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 57 0.59
103 40 0.41
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (103 bp):
AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
CATCACATCCATTCCCATATATAACTCAAAACATGCAT
Found at i:33800268 original size:38 final size:36
Alignment explanation
Indices: 33800226--33800302 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 36
33800216 ACTTAATCAC
*
33800226 TTTAATATTAAATTAATA-AAATACTATTAAGATAAGTA
1 TTTAAT-TTAAATTAATATAAA-ACTATTAAAATAA-TA
*
33800264 TTTAATTTAATTTAATATTAAAACTATTAAAATAATA
1 TTTAATTTAAATTAATA-TAAAACTATTAAAATAATA
33800301 TT
1 TT
33800303 ATTTCTGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 14 0.40
38 18 0.51
39 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTAATTTAAATTAATATAAAACTATTAAAATAATA
Found at i:33804069 original size:24 final size:26
Alignment explanation
Indices: 33804019--33804065 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33804009 AGTGTTCATC
33804019 TCTTTTTTACTTATTATGTATTGTGT
1 TCTTTTTTACTTATTATGTATTGTGT
33804045 TCTTTTTT-C-TATTAT-TATTGT
1 TCTTTTTTACTTATTATGTATTGT
33804066 TGTTAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 1 0.05
26 8 0.38
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (26 bp):
TCTTTTTTACTTATTATGTATTGTGT
Found at i:33808658 original size:16 final size:16
Alignment explanation
Indices: 33808628--33808700 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
33808618 ACATTTGGTT
*
33808628 GAGTTG-AATGAAATA
1 GAGTTGTAATGGAATA
*
33808643 GGGTTGTAATGGAATA
1 GAGTTGTAATGGAATA
* **
33808659 GAGATGTAACAGAATA
1 GAGTTGTAATGGAATA
* *
33808675 CAATTGTAATGGAATA
1 GAGTTGTAATGGAATA
33808691 GAGTTGTAAT
1 GAGTTGTAAT
33808701 TAGTAATTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
15 5 0.11
16 39 0.89
ACGTcount: A:0.41, C:0.03, G:0.27, T:0.29
Consensus pattern (16 bp):
GAGTTGTAATGGAATA
Found at i:33819642 original size:11 final size:11
Alignment explanation
Indices: 33819626--33819658 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33819616 TATATATGTA
33819626 AATATAATAAT
1 AATATAATAAT
33819637 AATATAATAAT
1 AATATAATAAT
*
33819648 AACA-AATAAT
1 AATATAATAAT
33819658 A
1 A
33819659 CAATAACAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:33821091 original size:50 final size:50
Alignment explanation
Indices: 33820922--33821093 Score: 150
Period size: 50 Copynumber: 3.5 Consensus size: 50
33820912 CAGGGAAGTA
* * * * *
33820922 AGATCTGCCGCTGTGGCCTCAATCTTTTTAATTGCGCTGTCGGAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
* ** * * * * * ***
33820972 AGATCTGCCGTTGTGACTTCAATC-TGCTACACTGCACCG-CTAGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTTTTTA-ATTGCGCTGTCGAAGAAACC
* *
33821021 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
*
33821071 AGATCCACCGTTGTGACTTCAAT
1 AGATCCGCCGTTGTGACTTCAAT
33821094 ATGCTCCACT
Statistics
Matches: 89, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
49 34 0.38
50 55 0.62
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
Found at i:33821243 original size:50 final size:50
Alignment explanation
Indices: 33820972--33821445 Score: 217
Period size: 50 Copynumber: 9.5 Consensus size: 50
33820962 CGGAGAAACC
* * *
33820972 AGATCTGCCGTTGTGACTTCAATCTGCTACACTGCACCGCTA-GGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* * ** * * * * * * * *
33821021 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTG-TCGAAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAG-GGAAGCA
* * * * * *
33821071 AGATCCACCGTTGTGACTTCAATATGCTCCACTACACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
**** * ** * * * * * * *
33821121 AGATCTATTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCTG-TCGGGGAAACC
1 AGATCCGCCGTTGTGACTTC---AATCTGCTTCACTGCACCGCT-AGGGAAGCA
* *
33821173 AGATTCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* * * * * * * * * *
33821223 AGATCTGCTGTTGTGGCTTCAAACT-TTTAAATTGCACTG-TCGGGGAAACCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTT-CACTGCACCGCT-AGGG-AAGCA
* * * * *
33821274 A-ATCCGCCGTTGTGACTTCAATCTGCTCCACTGTATCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* ** * * * * * *
33821323 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-TCGAGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAG-GGAAGCA
* * *
33821373 AGATCCGCTGTTGTGACTTCAATCTGCTCCACTGCACAGCTAGGGAAGCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* *
33821423 AGATCTGCCGTTGTGGCTTCAAT
1 AGATCCGCCGTTGTGACTTCAAT
33821446 ATTTTTAATT
Statistics
Matches: 287, Mismatches: 121, Indels: 33
0.65 0.27 0.07
Matches are distributed among these distances:
48 1 0.00
49 40 0.14
50 208 0.72
51 9 0.03
52 26 0.09
53 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
Found at i:33821297 original size:100 final size:100
Alignment explanation
Indices: 33820898--33821456 Score: 755
Period size: 100 Copynumber: 5.6 Consensus size: 100
33820888 CTCAAGTCCA
* * *
33820898 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGCTGTGGCCTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
* *
33820963 GGAGAAACCAGATCTGCCGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
33820998 CTACACTGCACCGCTA-GGAAGTAAGAT-TCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
1 CTCCACTGCACCGCCAGGGAAGTAAGATCT-GCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGT
** * *
33821061 CGAAGAAACCAGATCCACCGTTGTGACTTCAATATG
65 CGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *** *
33821097 CTCCACTACACCGCCAGGGAAGTAAGATCTATTGTTGTGGCTTCAAAAATTTTTTAATTGCGCTG
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTC--AAACTTTTTAATTGCGCTG
*
33821162 TCGGGGAAACCAGATTCGCCGTTGTGACTTCAATCTG
64 TCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * * *
33821199 CTTCACTGCACCGCTAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCACTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
*
33821264 GGGGAAACCAAATCCGCCGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * * *
33821299 CTCCACTGTATCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
* *
33821364 GAGGAAACCAGATCCGCTGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
33821399 CTCCACTGCACAGCTAGGGAAGCAAGATCTGCCGTTGTGGCTTCAATA-TTTTTAATTG
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAA-ACTTTTTAATTG
33821457 AAATGCCAAA
Statistics
Matches: 404, Mismatches: 49, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
98 1 0.00
99 88 0.22
100 226 0.56
101 1 0.00
102 88 0.22
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (100 bp):
CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
Found at i:33822877 original size:15 final size:14
Alignment explanation
Indices: 33822859--33822908 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
33822849 TTAGCCTCTC
33822859 CATTTTTATTTTTT
1 CATTTTTATTTTTT
33822873 CCATTTTTCA-TTTTT
1 -CATTTTT-ATTTTTT
33822888 CATTTTT-TTATTTT
1 CATTTTTATT-TTTT
33822902 CATTTTT
1 CATTTTT
33822909 TCACATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.03
14 18 0.56
15 12 0.38
16 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTTATTTTTT
Found at i:33822879 original size:8 final size:7
Alignment explanation
Indices: 33822859--33822908 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
33822849 TTAGCCTCTC
33822859 CATTTTT
1 CATTTTT
33822866 -ATTTTTT
1 CA-TTTTT
33822873 CCATTTTT
1 -CATTTTT
33822881 CATTTTT
1 CATTTTT
33822888 CATTTTT
1 CATTTTT
*
33822895 -TTATTTT
1 CAT-TTTT
33822902 CATTTTT
1 CATTTTT
33822909 TCACATCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 2 0.06
7 27 0.75
8 6 0.17
9 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
CATTTTT
Found at i:33829534 original size:11 final size:11
Alignment explanation
Indices: 33829518--33829543 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33829508 TATATATGTA
33829518 AATATAATAAT
1 AATATAATAAT
33829529 AATATAATAAT
1 AATATAATAAT
33829540 AATA
1 AATA
33829544 ACAAATAATA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAATAAT
Found at i:33829823 original size:25 final size:25
Alignment explanation
Indices: 33829786--33829847 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
33829776 TAATTTAAAA
* *
33829786 GCACTATAGAAGGAAGGGACCAATT
1 GCACTGTAAAAGGAAGGGACCAATT
33829811 GCACTGTAAAAGGAAGGGACCAATT
1 GCACTGTAAAAGGAAGGGACCAATT
33829836 GCACTGTAAAAG
1 GCACTGTAAAAG
33829848 CACTGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.16
Consensus pattern (25 bp):
GCACTGTAAAAGGAAGGGACCAATT
Found at i:33860565 original size:35 final size:35
Alignment explanation
Indices: 33860499--33860693 Score: 223
Period size: 35 Copynumber: 5.6 Consensus size: 35
33860489 GTATAAAGAT
* * *
33860499 GGAGAGATTCCCTACAA-GAAATGATGTGTGAATA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* *
33860533 AGAGAGATTCCCTGCAACAAAATGATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33860568 GGATAGATTCCCTGCAA-GAAATGATGTGTGAATA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33860602 GGAGAGATTCCCTACAACAAAATAATGCATGAATA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33860637 GCAGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33860672 GGAAATATTCCCTGCAAGAAAA
1 GGAGAGATTCCCTGCAACAAAA
33860694 GACAAGTGAA
Statistics
Matches: 135, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
34 44 0.33
35 91 0.67
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (35 bp):
GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
Found at i:33860614 original size:69 final size:69
Alignment explanation
Indices: 33860501--33860693 Score: 242
Period size: 69 Copynumber: 2.8 Consensus size: 69
33860491 ATAAAGATGG
* * * *
33860501 AGAGATTCCCTACAAGAAATGATGTGTGAATAAGAGAGATTCCCTGCAACAAAATGATGCGTGAA
1 AGAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAATAATGCATGAA
*
33860566 CAGG
66 CAGC
* *
33860570 ATAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTACAACAAAATAATGCATGAA
1 AGAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAATAATGCATGAA
*
33860635 TAGC
66 CAGC
* * * * * * *
33860639 AGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 AGAGATTCCCTGCAA-GAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAA
33860694 GACAAGTGAA
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
69 75 0.71
70 31 0.29
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (69 bp):
AGAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAATAATGCATGAA
CAGC
Found at i:33860682 original size:104 final size:103
Alignment explanation
Indices: 33860499--33860692 Score: 300
Period size: 104 Copynumber: 1.9 Consensus size: 103
33860489 GTATAAAGAT
* * ** *
33860499 GGAGAGATTCCCTACAAGAAATGATGTGTGAATAAGAGAGATTCCCTGCAACAAAATGATGCGTG
1 GGAGAGATTCCCTACAAAAAATAATGCATGAATAAGAGAGATTCCCTGCAACAAAATAATGCGTG
*
33860564 AACAGGATAGATTCCCTGCAAGAAATGATGTGTGAATA
66 AACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAATA
33860602 GGAGAGATTCCCTACAACAAAATAATGCATGAAT-AGCAGAGATTCCCTGCAACAAAATAATGCG
1 GGAGAGATTCCCTACAA-AAAATAATGCATGAATAAG-AGAGATTCCCTGCAACAAAATAATGCG
*
33860666 TGAACAGGAAATATTCCCTGCAAGAAA
64 TGAACAGGAAAGATTCCCTGCAAGAAA
33860693 AGACAAGTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 19 0.23
104 63 0.77
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (103 bp):
GGAGAGATTCCCTACAAAAAATAATGCATGAATAAGAGAGATTCCCTGCAACAAAATAATGCGTG
AACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAATA
Found at i:33860922 original size:10 final size:10
Alignment explanation
Indices: 33860890--33860929 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
33860880 TTCTCCAAAG
33860890 AGTTTCTCAA
1 AGTTTCTCAA
* *
33860900 AATTT-TTAA
1 AGTTTCTCAA
33860909 AGTTTCTCAA
1 AGTTTCTCAA
33860919 AGTTTCTCAA
1 AGTTTCTCAA
33860929 A
1 A
33860930 ATTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (10 bp):
AGTTTCTCAA
Found at i:33860957 original size:22 final size:21
Alignment explanation
Indices: 33860929--33860971 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
33860919 AGTTTCTCAA
33860929 AATTTTTAAGTTTACAAAATTT
1 AATTTTTAAGTTT-CAAAATTT
*
33860951 AATTTTTAAGTTTCTAAATTT
1 AATTTTTAAGTTTCAAAATTT
33860972 TCAAATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTTTTAAGTTTCAAAATTT
Found at i:33861030 original size:27 final size:27
Alignment explanation
Indices: 33860992--33861043 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
33860982 TTTTCAAACC
33860992 GATCCTCAGATCCTCGGGACTTACTAA
1 GATCCTCAGATCCTCGGGACTTACTAA
33861019 GATCCTCAGATCCTCGGGACTTACT
1 GATCCTCAGATCCTCGGGACTTACT
33861044 GGTATCAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (27 bp):
GATCCTCAGATCCTCGGGACTTACTAA
Found at i:33865232 original size:21 final size:23
Alignment explanation
Indices: 33865190--33865232 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
33865180 TAATTAATTA
*
33865190 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
33865213 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
33865233 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:33873941 original size:42 final size:42
Alignment explanation
Indices: 33873847--33873962 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
33873837 CAACACGGTT
* *
33873847 GTGTGTCACAAGTCAGAGAGTTACACGGCCTGCGACACGACA
1 GTGTGTCCCAACTCAGAGAGTTACACGGCCTGCGACACGACA
* * * *
33873889 ATGTGACCCAACTCAGTGAGTTACACGAG-CTGGGACACGATC-
1 GTGTGTCCCAACTCAGAGAGTTACACG-GCCTGCGACACGA-CA
* *
33873931 GTGTGTCCCAACATCA-AAAGTTACATGGCCTG
1 GTGTGTCCCAAC-TCAGAGAGTTACACGGCCTG
33873963 AGGCATTCCA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 53 0.90
43 5 0.08
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (42 bp):
GTGTGTCCCAACTCAGAGAGTTACACGGCCTGCGACACGACA
Found at i:33875527 original size:42 final size:42
Alignment explanation
Indices: 33875417--33875529 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
33875407 CCTAGCACAT
* * * *
33875417 GGCCTGCAACACGGTTGTGTGTCACAAGTCAGAGAGTTACAC
1 GGCCTGCGACACGGCTGTGTGTCCCAACTCAGAGAGTTACAC
* ** * *
33875459 GGCCTGCGACATGGCAATGTGACCCAACTCAGTGAGTTACAC
1 GGCCTGCGACACGGCTGTGTGTCCCAACTCAGAGAGTTACAC
33875501 GAG-CTAG-GACACGGCTGTGTGTCCCAACT
1 G-GCCT-GCGACACGGCTGTGTGTCCCAACT
33875530 TCAAAACTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (42 bp):
GGCCTGCGACACGGCTGTGTGTCCCAACTCAGAGAGTTACAC
Found at i:33895120 original size:37 final size:37
Alignment explanation
Indices: 33895042--33895120 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
33895032 GTGCCGAGGC
* * *
33895042 GTGTTATCGGTTGGATTAGCTCTCATAAGCGTTTGGC
1 GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
* * * *
33895079 GTGTTATTAGTTGGATTAGCTCTTATGAGTGTTTAGA
1 GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
33895116 GTGTT
1 GTGTT
33895121 TTGATTGGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (37 bp):
GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
Found at i:33911186 original size:120 final size:120
Alignment explanation
Indices: 33910973--33911212 Score: 367
Period size: 120 Copynumber: 2.0 Consensus size: 120
33910963 ATAATAAATT
* *
33910973 GAGTACTGAATACCCTATTAATTGTTTCGATAGAGTCAGATAAAGTTGGCATGACATAGGATAGG
1 GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCAGATAAAGTTAGCATGACATAGGATAGG
* * *
33911038 AAGAGTTCGGGATTACTTCAAATACGAGTCAATGAGGCACTAGGTGCCAAATTGC
66 AAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
* * *
33911093 GAGTAATGAATACCCTATTAATTGTTTCGGTAGAGTC-GAATATAA-TTAGCATGCCATAGGATT
1 GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCAG-ATA-AAGTTAGCATGACATAGGATA
*
33911156 GGAAGAGTTCAGGATTACTTCGAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
64 GGAAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
33911213 TTCAGTTATA
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
119 1 0.01
120 106 0.97
121 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (120 bp):
GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCAGATAAAGTTAGCATGACATAGGATAGG
AAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
Found at i:33914058 original size:31 final size:31
Alignment explanation
Indices: 33913972--33914059 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
33913962 ACTTTATTTG
**
33913972 TTATGTGTTTAC-TGTCCTAATGGACTATCTA
1 TTATGTGTTTACAT-TCCTAACAGACTATCTA
* *
33914003 TTTTGTGTTTACCA-TCCCAACAGACTATCTA
1 TTATGTGTTTA-CATTCCTAACAGACTATCTA
*
33914034 TTATGTGTTTACATTCCTAGCAGACT
1 TTATGTGTTTACATTCCTAACAGACT
33914060 TTCTCTGTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.04
31 44 0.94
32 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (31 bp):
TTATGTGTTTACATTCCTAACAGACTATCTA
Found at i:33923680 original size:23 final size:23
Alignment explanation
Indices: 33923590--33923681 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
33923580 GAGCCATGAT
*
33923590 CGGTAAGCTCATTCCAAGCTGATAAA
1 CGGTAAGCTCA-TACAAGCTG--AAA
* * *
33923616 CGATAAGCTC-TATCGAGCTAAAA
1 CGGTAAGCTCATA-CAAGCTGAAA
* * *
33923639 CAGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-CATACAAGCTGAAA
33923662 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACAAGCTG
33923682 TGGTGAGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
22 3 0.06
23 31 0.60
24 2 0.04
25 7 0.13
26 9 0.17
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCATACAAGCTGAAA
Found at i:33924729 original size:21 final size:20
Alignment explanation
Indices: 33924687--33924729 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
33924677 TTCTACTTAG
* * *
33924687 TTGGTTTATTAGTTCCTTTT
1 TTGGTATATTAGTCCCTATT
33924707 TTGGTATATTTAGTCCCTATT
1 TTGGTATA-TTAGTCCCTATT
33924728 TT
1 TT
33924730 ATTTGTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (20 bp):
TTGGTATATTAGTCCCTATT
Found at i:33925924 original size:24 final size:23
Alignment explanation
Indices: 33925897--33925941 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
33925887 TTTTCTCTTA
33925897 TCATTCAGT-AACCTCTCATTTCTC
1 TCATTCA-TAAACCTC-CATTTCTC
33925921 TCATTCATAAACCTCCATTTC
1 TCATTCATAAACCTCCATTTC
33925942 CCCCTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.40
Consensus pattern (23 bp):
TCATTCATAAACCTCCATTTCTC
Found at i:33927524 original size:171 final size:171
Alignment explanation
Indices: 33927238--33927578 Score: 583
Period size: 171 Copynumber: 2.0 Consensus size: 171
33927228 ATAAAGCCGC
*
33927238 TAATGCTCAAAATCCAATCGTTATTGCCGATGATAGGGATCGACCCATAAGACAGCATGTCGTGC
1 TAATGCTCAAAATCCAATCGTTATTGCCGATGATAGGGATCAACCCATAAGACAGCATGTCGTGC
* * * *
33927303 CAGTTTTTAACAAACTACATCTGAGAATTAGGAGACTAGAGATCGAGGCACTACAGTTTGAATTA
66 CACTTTTTAACAAACTAAATCTGAGAATTAGGAGAATAAAGATCGAGGCACTACAGTTTGAATTA
33927368 AAGCCTGTGATGTTTCAGATGCTTAAAACAATAGGCCAATA
131 AAGCCTGTGATGTTTCAGATGCTTAAAACAATAGGCCAATA
* *
33927409 TAATGCTCAAAATCCAATCGTTATTGTCGATGATAGGGATCAACCCATAAGACAGTATGTCGTGC
1 TAATGCTCAAAATCCAATCGTTATTGCCGATGATAGGGATCAACCCATAAGACAGCATGTCGTGC
* * *
33927474 CACTTTTTAACAAACTAAATTTGAGAATTAGGAGAATAAAGATTGAGGCACTGCAGTTTGAATTA
66 CACTTTTTAACAAACTAAATCTGAGAATTAGGAGAATAAAGATCGAGGCACTACAGTTTGAATTA
*
33927539 AAGCCTGTGATGTTTCAGATGCTTCAAACAATAGGCCAAT
131 AAGCCTGTGATGTTTCAGATGCTTAAAACAATAGGCCAAT
33927579 TCAGTGGAAT
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 159 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (171 bp):
TAATGCTCAAAATCCAATCGTTATTGCCGATGATAGGGATCAACCCATAAGACAGCATGTCGTGC
CACTTTTTAACAAACTAAATCTGAGAATTAGGAGAATAAAGATCGAGGCACTACAGTTTGAATTA
AAGCCTGTGATGTTTCAGATGCTTAAAACAATAGGCCAATA
Found at i:33939120 original size:4 final size:4
Alignment explanation
Indices: 33939111--33939137 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33939101 ATTGCTAATA
33939111 GATT GATT GATT GATT GATT GATT GAT
1 GATT GATT GATT GATT GATT GATT GAT
33939138 AATAGCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GATT
Found at i:33940976 original size:5 final size:5
Alignment explanation
Indices: 33940961--33941000 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
33940951 GGAGAAAAAT
*
33940961 ACCCA ATCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA
33941001 GAGCTAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.40, C:0.57, G:0.00, T:0.03
Consensus pattern (5 bp):
ACCCA
Found at i:33941976 original size:38 final size:40
Alignment explanation
Indices: 33941912--33941996 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 40
33941902 AAATTATTTG
* *
33941912 TATTAAAAACACTACCATAAATATAATAAATTTTTTATTA
1 TATTAAAAACACTACAATAAATATAATAAATATTTTATTA
*
33941952 TATTAAAAACA-TA-AATAAATATAATAAATATTTTATTG
1 TATTAAAAACACTACAATAAATATAATAAATATTTTATTA
33941990 TATTAAA
1 TATTAAA
33941997 TATAATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 29 0.69
39 2 0.05
40 11 0.26
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (40 bp):
TATTAAAAACACTACAATAAATATAATAAATATTTTATTA
Found at i:33946026 original size:12 final size:12
Alignment explanation
Indices: 33946009--33946034 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33945999 GTAAGAAATG
33946009 ATTCATTTGAAA
1 ATTCATTTGAAA
33946021 ATTCATTTGAAA
1 ATTCATTTGAAA
33946033 AT
1 AT
33946035 GAAAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTCATTTGAAA
Found at i:33952166 original size:17 final size:17
Alignment explanation
Indices: 33952140--33952172 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33952130 AATTATGTGC
33952140 ATATAATAAATTTAAAA
1 ATATAATAAATTTAAAA
*
33952157 ATATACTAAATTTAAA
1 ATATAATAAATTTAAA
33952173 CTGTACGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATAAATTTAAAA
Found at i:33963679 original size:23 final size:22
Alignment explanation
Indices: 33963627--33963679 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33963617 TCCACGTCTT
*
33963627 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
33963649 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
33963672 TTTCTTTT
1 TTTCTTTT
33963680 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:33966032 original size:22 final size:23
Alignment explanation
Indices: 33966007--33966066 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
33965997 TGGACTGAAT
33966007 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
33966029 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
33966051 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
33966067 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:33966034 original size:4 final size:4
Alignment explanation
Indices: 33966016--33966049 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33966006 TATAAAAATT
33966016 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
33966050 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:33973775 original size:12 final size:12
Alignment explanation
Indices: 33973741--33973772 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
33973731 TAGAGCTTCG
33973741 AAAGCTCAATTT
1 AAAGCTCAATTT
33973753 AAAGCTCAATTT
1 AAAGCTCAATTT
33973765 -AAGCTCAA
1 AAAGCTCAA
33973773 ATTGAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (12 bp):
AAAGCTCAATTT
Found at i:33981109 original size:26 final size:26
Alignment explanation
Indices: 33981080--33981134 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
33981070 AACACACCAA
*
33981080 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGATGCCAGTAACAG
33981106 TATCGCAGCAAAGATGCCAGTAACAG
1 TATCGCAGCAAAGATGCCAGTAACAG
33981132 TAT
1 TAT
33981135 ACTTCCTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGATGCCAGTAACAG
Found at i:33981317 original size:27 final size:27
Alignment explanation
Indices: 33981298--33981520 Score: 290
Period size: 27 Copynumber: 8.3 Consensus size: 27
33981288 GGGTATAACA
33981298 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
33981325 ACCATTTTACCCTATGGGGGTATCTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
33981352 ATCATTTTACCCTATGGGGGTA--TCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
33981377 CAGTCATTTTATCCTATGAGGGTATTTCG
1 -A-TCATTTTACCCTATGGGGGTATTTCG
*
33981406 GTCATTTTACCCTATGGGGGTATTTC-
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
33981432 AGTCATTTTACCTTATTGGGGTATTTCG
1 A-TCATTTTACCCTATGGGGGTATTTCG
* * *
33981460 GTCATTTTACCCTATAGGGGTATCTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
**
33981487 ATCATTTTACCCTATAAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
33981514 ATCATTT
1 ATCATTT
33981521 ATTGACCTCT
Statistics
Matches: 172, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.02
26 1 0.01
27 165 0.96
29 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTCG
Found at i:33983699 original size:16 final size:18
Alignment explanation
Indices: 33983678--33983716 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
33983668 TTATTGTGTA
*
33983678 TAAAATAAA-ATAT-TCT
1 TAAAATAAATAAATGTCT
33983694 TAAAATAAATAAATGTCT
1 TAAAATAAATAAATGTCT
33983712 TAAAA
1 TAAAA
33983717 GTAATACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAAATAAATAAATGTCT
Found at i:33989473 original size:19 final size:19
Alignment explanation
Indices: 33989446--33989482 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33989436 TGTATTGTGT
*
33989446 TGCTGTTAAATTAAATTAG
1 TGCTATTAAATTAAATTAG
*
33989465 TGCTATTAAATTACATTA
1 TGCTATTAAATTAAATTA
33989483 TGTTGGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (19 bp):
TGCTATTAAATTAAATTAG
Found at i:33989512 original size:19 final size:20
Alignment explanation
Indices: 33989469--33989505 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
33989459 AATTAGTGCT
33989469 ATTAAATTACATTATGTTGG
1 ATTAAATTACATTATGTTGG
33989489 ATT-AATTACATTATGTT
1 ATTAAATTACATTATGTT
33989506 TTCTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (20 bp):
ATTAAATTACATTATGTTGG
Found at i:33994512 original size:25 final size:25
Alignment explanation
Indices: 33994484--33994572 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
33994474 TAACCCACAT
33994484 CTCGTATGAGCATATCGATTTACAA
1 CTCGTATGAGCATATCGATTTACAA
* * * *
33994509 CTCGTAAGAGCATACCAATTTACAG
1 CTCGTATGAGCATATCGATTTACAA
* *
33994534 CTCG-AGTGAGCATATAGATTCACAA
1 CTCGTA-TGAGCATATCGATTTACAA
33994559 CTCGTATGAGCATA
1 CTCGTATGAGCATA
33994573 CATGTACAGG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 50 0.96
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (25 bp):
CTCGTATGAGCATATCGATTTACAA
Found at i:33999328 original size:13 final size:13
Alignment explanation
Indices: 33999310--33999334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33999300 TTCGTTAGTT
33999310 TTTATTTATTTTA
1 TTTATTTATTTTA
33999323 TTTATTTATTTT
1 TTTATTTATTTT
33999335 GATTAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:33999591 original size:20 final size:21
Alignment explanation
Indices: 33999557--33999605 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
33999547 ACTTCTTCTT
* *
33999557 TTTTCTTATTTTTAT-TTTTA
1 TTTTCTTATTATTATATTTCA
*
33999577 TTTTCTTCTTATTATATTTCA
1 TTTTCTTATTATTATATTTCA
33999598 TATTTCTT
1 T-TTTCTT
33999606 GTCGTAGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 5 0.21
22 6 0.25
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTTATTATTATATTTCA
Found at i:34005712 original size:12 final size:12
Alignment explanation
Indices: 34005695--34005724 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34005685 CCCCACACGC
*
34005695 CCATGTGCTAGG
1 CCATGTGCTAGA
34005707 CCATGTGCTAGA
1 CCATGTGCTAGA
34005719 CCATGT
1 CCATGT
34005725 AACTAACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (12 bp):
CCATGTGCTAGA
Found at i:34007556 original size:18 final size:18
Alignment explanation
Indices: 34007533--34007571 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
34007523 ACCTTCCCAA
*
34007533 TAACATTCACTAATACCT
1 TAACATCCACTAATACCT
34007551 TAACATCCACTAATACCT
1 TAACATCCACTAATACCT
34007569 TAA
1 TAA
34007572 GTCCATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (18 bp):
TAACATCCACTAATACCT
Found at i:34011130 original size:27 final size:26
Alignment explanation
Indices: 34011092--34011167 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
34011082 TTTGGATAAA
*
34011092 AATTAACCGAATTACCCAAATTAACCG
1 AATT-ACCGAATTAACCAAATTAACCG
* *
34011119 AATTACCTGAATTAACCGAATTAATCG
1 AATTACC-GAATTAACCAAATTAACCG
*
34011146 AATTACCCGAATTAACCGAATT
1 AATTA-CCGAATTAACCAAATT
34011168 GAATCACTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 39 0.89
28 2 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.26
Consensus pattern (26 bp):
AATTACCGAATTAACCAAATTAACCG
Found at i:34011148 original size:18 final size:18
Alignment explanation
Indices: 34011092--34011167 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
34011082 TTTGGATAAA
* *
34011092 AATTAACCGAATTACCCA
1 AATTAACCGAATTAACCG
34011110 AATTAACCGAATT-ACCTG
1 AATTAACCGAATTAACC-G
*
34011128 AATTAACCGAATTAATCG
1 AATTAACCGAATTAACCG
*
34011146 AATTACCCGAATTAACCG
1 AATTAACCGAATTAACCG
34011164 AATT
1 AATT
34011168 GAATCACTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
17 2 0.04
18 47 0.92
19 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.26
Consensus pattern (18 bp):
AATTAACCGAATTAACCG
Found at i:34012249 original size:26 final size:26
Alignment explanation
Indices: 34012220--34012270 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
34012210 CCCCAATACT
34012220 TATCATACTTCTCTTTCATCTTGATC
1 TATCATACTTCTCTTTCATCTTGATC
*
34012246 TATCATACTTCTCTTTCATGTTGAT
1 TATCATACTTCTCTTTCATCTTGAT
34012271 GGTCATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.51
Consensus pattern (26 bp):
TATCATACTTCTCTTTCATCTTGATC
Found at i:34012264 original size:13 final size:13
Alignment explanation
Indices: 34012222--34012264 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
34012212 CCAATACTTA
34012222 TCATACTTCTCTT
1 TCATACTTCTCTT
* *
34012235 TCAT-CTTGATCTA
1 TCATACTT-CTCTT
34012248 TCATACTTCTCTT
1 TCATACTTCTCTT
34012261 TCAT
1 TCAT
34012265 GTTGATGGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (13 bp):
TCATACTTCTCTT
Found at i:34014035 original size:56 final size:55
Alignment explanation
Indices: 34013966--34014244 Score: 244
Period size: 56 Copynumber: 5.0 Consensus size: 55
34013956 ATAGCATAAT
* * * * * * *
34013966 AATGCTTACTTTGAGACACTGAAGCAACACTTTAATTTAATTTAGTACAACAT-AA
1 AATGCTCAATTTGAAACACTAAAACAGCACTTTAATTCAATTTAG-ACAACATGAA
* * * *
34014021 TAATACTCAATTTGAAACA-TTAAACAGCAGC-TTAATTTAATTTAAGACAGCATGAA
1 -AATGCTCAATTTGAAACACTAAAACAGCA-CTTTAATTCAATTT-AGACAACATGAA
* *
34014077 AATGCTCAATTT-AATACACTAAAATAGCAACTTTAATTCAATTTATGACAGCATGAA
1 AATGCTCAATTTGAA-ACACTAAAACAGC-ACTTTAATTCAATTTA-GACAACATGAA
* * *
34014134 AATGCTTAATTTGAAACACTAAAACAGCAGC-TTAATTCAATTTAAGATAATATGAA
1 AATGCTCAATTTGAAACACTAAAACAGCA-CTTTAATTCAATTT-AGACAACATGAA
* * * *
34014190 AATGCTCAATTTGAGACACTCAAACAACAACTTTAATTCAATTTATGACAGCATG
1 AATGCTCAATTTGAAACACTAAAACAGC-ACTTTAATTCAATTTA-GACAACATG
34014245 CAAACAGTAA
Statistics
Matches: 185, Mismatches: 24, Indels: 27
0.78 0.10 0.11
Matches are distributed among these distances:
54 2 0.01
55 39 0.21
56 75 0.41
57 67 0.36
58 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (55 bp):
AATGCTCAATTTGAAACACTAAAACAGCACTTTAATTCAATTTAGACAACATGAA
Found at i:34014120 original size:57 final size:57
Alignment explanation
Indices: 34013994--34014244 Score: 280
Period size: 57 Copynumber: 4.5 Consensus size: 57
34013984 CTGAAGCAAC
* * * *
34013994 ACTTTAATTTAATTT-AGTACAACAT-AATAATACTCAATTTGAAACA-TTAAACAGCA
1 ACTTTAATTCAATTTAAG-ACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAGCA
* * *
34014050 GC-TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTT-AATACACTAAAATAGCA
1 ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAA-ACACTAAAACAGCA
* *
34014106 ACTTTAATTCAATTTATGACAGCATGAAAATGCTTAATTTGAAACACTAAAACAGCA
1 ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
* * ** * * *
34014163 GC-TTAATTCAATTTAAGATAATATGAAAATGCTCAATTTGAGACACTCAAACAACA
1 ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
*
34014219 ACTTTAATTCAATTTATGACAGCATG
1 ACTTTAATTCAATTTAAGACAGCATG
34014245 CAAACAGTAA
Statistics
Matches: 164, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
54 2 0.01
55 32 0.20
56 61 0.37
57 67 0.41
58 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (57 bp):
ACTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAGCA
Found at i:34014189 original size:113 final size:113
Alignment explanation
Indices: 34013979--34014244 Score: 342
Period size: 113 Copynumber: 2.4 Consensus size: 113
34013969 GCTTACTTTG
* * * *
34013979 AGACACTGAAGCAAC-ACTTTAATTTAATTTA-GTACAACAT-AATAATACTCAATTTGAAACAT
1 AGACACTAAAACAACAACTTTAATTCAATTTATG-ACAGCATGAATAATACTCAATTTGAAACAT
* * *
34014041 TAAACAGCAGCTTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTA
65 AAAACAGCAGCTTAATTCAATTTAAGACAACATGAAAATGCTCAATTTA
* * * * *
34014090 ATACACTAAAATAGCAACTTTAATTCAATTTATGACAGCATGAA-AATGCTTAATTTGAAACACT
1 AGACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTCAATTTGAAACA-T
* * *
34014154 AAAACAGCAGCTTAATTCAATTTAAGATAATATGAAAATGCTCAATTTG
65 AAAACAGCAGCTTAATTCAATTTAAGACAACATGAAAATGCTCAATTTA
*
34014203 AGACACTCAAACAACAACTTTAATTCAATTTATGACAGCATG
1 AGACACTAAAACAACAACTTTAATTCAATTTATGACAGCATG
34014245 CAAACAGTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
111 10 0.08
112 37 0.28
113 85 0.64
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (113 bp):
AGACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTCAATTTGAAACATA
AAACAGCAGCTTAATTCAATTTAAGACAACATGAAAATGCTCAATTTA
Found at i:34024988 original size:43 final size:44
Alignment explanation
Indices: 34024881--34024998 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 44
34024871 CTCGTACAAC
* *** *
34024881 GCCAACGTCCTAGACGTGGTCTTACA-TGTAATCACTAATCGAT
1 GCCAACATCCTAGACGTGGTCTTACACAAAAATCACAAATCGAT
* *
34024924 GCC-ACTATCCCAAACAG-GGTCTTACACAAAAAT-ACAAATCGAT
1 GCCAAC-ATCCTAGAC-GTGGTCTTACACAAAAATCACAAATCGAT
*
34024967 GCCAACATCCTAGACGTGGTCTTACACGAAAA
1 GCCAACATCCTAGACGTGGTCTTACACAAAAA
34024999 CACTTATCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
42 3 0.05
43 51 0.85
44 6 0.10
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (44 bp):
GCCAACATCCTAGACGTGGTCTTACACAAAAATCACAAATCGAT
Found at i:34026394 original size:27 final size:27
Alignment explanation
Indices: 34026363--34026609 Score: 293
Period size: 27 Copynumber: 9.1 Consensus size: 27
34026353 AAAGGTTGTT
* *
34026363 AAATTACCAAAATACCTTTGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* *
34026390 AAATTACCGAAATACCCTCAAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* *** *
34026417 AATTTATTGAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
34026444 AAATTACCAAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
34026471 AAATTACCAAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
34026498 AAATTACCAAAATACCCTCGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
34026525 AAATTATCAAAATACCCTC-AATGGGTA
1 AAATTACCAAAATACCCTCGAA-GGGTA
* *
34026552 AAATTACTAAAATA-CCTCCGATGGGTA
1 AAATTACCAAAATACCCT-CGAAGGGTA
* * *
34026579 AAATTATCGAAATACCC-CTATAGGGTA
1 AAATTACCAAAATACCCTCGA-AGGGTA
34026606 AAAT
1 AAAT
34026610 GACCGTTATA
Statistics
Matches: 192, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
26 7 0.04
27 182 0.95
28 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGAAGGGTA
Found at i:34026498 original size:81 final size:81
Alignment explanation
Indices: 34026363--34026609 Score: 327
Period size: 81 Copynumber: 3.0 Consensus size: 81
34026353 AAAGGTTGTT
* * * * * * * *
34026363 AAATTACCAAAATACCTTTGAAGGGTAAAATTACCGAAATACCCTCAAAGGGTAAATTTATTGAA
1 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTATCGAA
34026428 ATACCCTCGATGGGTA
66 ATACCCTCGATGGGTA
* *
34026444 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTATCGAA
*
34026509 ATACCCTCGAAGGGTA
66 ATACCCTCGATGGGTA
* * *
34026525 AAATTATCAAAATACCCTCAATGGGTAAAATTACTAAAATA-CCTCCGATGGGTAAAATTATCGA
1 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCT-CGATGGGTAAAATTATCGA
*
34026589 AATACCC-CTATAGGGTA
65 AATACCCTCGAT-GGGTA
34026606 AAAT
1 AAAT
34026610 GACCGTTATA
Statistics
Matches: 146, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 5 0.03
81 141 0.97
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATGGGTAAAATTATCGAA
ATACCCTCGATGGGTA
Found at i:34031771 original size:5 final size:5
Alignment explanation
Indices: 34031761--34031786 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34031751 TGAGTATTCG
34031761 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
34031787 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:34032620 original size:9 final size:9
Alignment explanation
Indices: 34032603--34032633 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34032593 TCGAGTTGAT
34032603 TCGAATAAC
1 TCGAATAAC
*
34032612 TCGATTAAC
1 TCGAATAAC
34032621 TCGAATAAC
1 TCGAATAAC
34032630 TCGA
1 TCGA
34032634 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:34041083 original size:14 final size:14
Alignment explanation
Indices: 34041064--34041098 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
34041054 CTGGGATGGT
34041064 TTTTATTTATCTTA
1 TTTTATTTATCTTA
34041078 TTTTATTTATCTTA
1 TTTTATTTATCTTA
34041092 TTTTATT
1 TTTTATT
34041099 GTTTGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTATCTTA
Found at i:34043454 original size:18 final size:18
Alignment explanation
Indices: 34043431--34043470 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34043421 AATTTTTTAA
34043431 AATTGTAACTTAAAT-TCT
1 AATTGT-ACTTAAATGTCT
*
34043449 AATTGTTCTTAAATGTCT
1 AATTGTACTTAAATGTCT
34043467 AATT
1 AATT
34043471 ATCACAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (18 bp):
AATTGTACTTAAATGTCT
Found at i:34043699 original size:44 final size:44
Alignment explanation
Indices: 34043645--34043728 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
34043635 ATAAAATAAA
* *
34043645 AGTTGCGATAACTATACATTTAAAAATAATTATAATTTAATATC
1 AGTTGCGATAACTACACATTTAAAAATAATTAGAATTTAATATC
* *
34043689 AGTTGTGATAATTACACATTTAAAAATAATTAGAATTTAA
1 AGTTGCGATAACTACACATTTAAAAATAATTAGAATTTAA
34043729 ATTACAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.38
Consensus pattern (44 bp):
AGTTGCGATAACTACACATTTAAAAATAATTAGAATTTAATATC
Found at i:34043728 original size:17 final size:18
Alignment explanation
Indices: 34043696--34043729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34043686 ATCAGTTGTG
34043696 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
34043714 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
34043730 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:34054377 original size:25 final size:23
Alignment explanation
Indices: 34054342--34054427 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 23
34054332 ATATATACAA
34054342 AATATATAAATGTTTTCAAAAAATAT
1 AATA-ATAAAT-TTTT-AAAAAATAT
* *
34054368 AATAATAAATTTATAAAATATAT
1 AATAATAAATTTTTAAAAAATAT
*
34054391 AAAAATAAATATTTTTAAAAAATAT
1 AATAAT-AA-ATTTTTAAAAAATAT
34054416 AATAATAAATTT
1 AATAATAAATTT
34054428 AAATTTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
23 17 0.33
24 7 0.13
25 24 0.46
26 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (23 bp):
AATAATAAATTTTTAAAAAATAT
Found at i:34054411 original size:48 final size:52
Alignment explanation
Indices: 34054325--34054430 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 52
34054315 TTTAAAAATT
34054325 TTTAAAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
1 TTTAAAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
*
34054377 TTTATAAAATATATA-AAAATA-A-ATAT-TTTT-AAAAAATATAATAATAAA
1 TTTA-AAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
34054425 TTTAAA
1 TTTAAA
34054431 TTTTATATTG
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
47 2 0.04
48 22 0.42
49 4 0.08
50 3 0.06
51 1 0.02
52 10 0.19
53 10 0.19
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (52 bp):
TTTAAAAATATATACAAAATATATAAATGTTTTCAAAAAATATAATAATAAA
Found at i:34056958 original size:27 final size:24
Alignment explanation
Indices: 34056915--34056967 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
34056905 CAAGTTTGAG
*
34056915 TTTATAAAGTTTGTTTGTAATTATT
1 TTTATAAACTTTGTTTGT-ATTATT
*
34056940 TTTATATAACTTTGTTTTGTTTTATT
1 TTTATA-AACTTTG-TTTGTATTATT
34056966 TT
1 TT
34056968 ATTTTGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 13 0.54
27 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTATAAACTTTGTTTGTATTATT
Found at i:34060604 original size:21 final size:21
Alignment explanation
Indices: 34060579--34060621 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
34060569 ACATGAACCA
34060579 AATTTAA-TGTTAAGTGTGAAC
1 AATTTAATTGTT-AGTGTGAAC
34060600 AATTTAATTGTTAGTGTGAAC
1 AATTTAATTGTTAGTGTGAAC
34060621 A
1 A
34060622 CATCTAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
AATTTAATTGTTAGTGTGAAC
Found at i:34062055 original size:20 final size:22
Alignment explanation
Indices: 34062027--34062066 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
34062017 TGGAAAATTA
34062027 TTTTAAGAA-TA-AATTCTATT
1 TTTTAAGAATTACAATTCTATT
*
34062047 TTTTGAGAATTACAATTCTA
1 TTTTAAGAATTACAATTCTA
34062067 CCGGTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTTAAGAATTACAATTCTATT
Found at i:34062701 original size:36 final size:36
Alignment explanation
Indices: 34062661--34062731 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
34062651 ATCAAGGGCT
*
34062661 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
34062697 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
34062732 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:34062702 original size:19 final size:19
Alignment explanation
Indices: 34062678--34062731 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
34062668 AAAGTTGTAT
34062678 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
34062697 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
34062714 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
34062732 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:34062719 original size:17 final size:17
Alignment explanation
Indices: 34062660--34062723 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
34062650 CATCAAGGGC
* *
34062660 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
34062677 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
34062696 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
34062713 TACAATTAGAA
1 TACAATTAGAA
34062724 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:34071920 original size:21 final size:22
Alignment explanation
Indices: 34071878--34071919 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34071868 TAGTATACAC
*
34071878 TGGTTGAACCAAGTTAAAAAAT
1 TGGTTGAACCAAGCTAAAAAAT
*
34071900 TGGTTGAACCGAGCTAAAAA
1 TGGTTGAACCAAGCTAAAAA
34071920 TCAATTGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (22 bp):
TGGTTGAACCAAGCTAAAAAAT
Found at i:34081703 original size:15 final size:15
Alignment explanation
Indices: 34081683--34081750 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
34081673 ATACTACAAA
34081683 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
34081698 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
34081715 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
34081732 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
34081745 ATATTT
1 ATATTT
34081751 TCAATAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.25
15 12 0.27
16 1 0.02
17 7 0.16
18 1 0.02
19 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:34081794 original size:15 final size:16
Alignment explanation
Indices: 34081774--34081804 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34081764 AATAATATCA
34081774 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
34081789 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
34081805 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:34081865 original size:22 final size:22
Alignment explanation
Indices: 34081831--34081872 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34081821 ATTAAATAAC
34081831 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
34081853 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
34081873 TATATGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:34081884 original size:19 final size:16
Alignment explanation
Indices: 34081851--34081885 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34081841 AATAAATTAT
34081851 ATTTATTATATTAATA
1 ATTTATTATATTAATA
*
34081867 ATTTATTATATGAATA
1 ATTTATTATATTAATA
34081883 ATT
1 ATT
34081886 ATAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTATTATATTAATA
Found at i:34081957 original size:10 final size:9
Alignment explanation
Indices: 34081928--34081953 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34081918 TAAAAAATAT
34081928 AATATTTTA
1 AATATTTTA
34081937 AATATTTTA
1 AATATTTTA
34081946 AATATTTT
1 AATATTTT
34081954 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:34090749 original size:22 final size:20
Alignment explanation
Indices: 34090706--34090760 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
34090696 GGGGCGTGGC
*
34090706 AAATACATATAAAAATTCTTAA
1 AAAT-CATA-AAAAAATCTTAA
*
34090728 AAACTTATAAAAAAATCATTAA
1 AAA-TCATAAAAAAATC-TTAA
34090750 AAATCATAAAA
1 AAATCATAAAA
34090761 TATTATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 14 0.50
22 13 0.46
23 1 0.04
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATCATAAAAAAATCTTAA
Found at i:34090836 original size:9 final size:9
Alignment explanation
Indices: 34090824--34090964 Score: 140
Period size: 10 Copynumber: 14.6 Consensus size: 9
34090814 AAATCATAAA
34090824 AAAAATTAT
1 AAAAATTAT
34090833 AAAAACTTAT
1 AAAAA-TTAT
*
34090843 AAAGATTAT
1 AAAAATTAT
34090852 AAAAATTTAT
1 AAAAA-TTAT
*
34090862 AAAATATATTT
1 AAAA-AT-TAT
34090873 AAAATATTAT
1 AAAA-ATTAT
34090883 AAAAACTTAT
1 AAAAA-TTAT
34090893 AAAAATTCAT
1 AAAAATT-AT
34090903 AAAAATTAT
1 AAAAATTAT
34090912 AACAAATTAT
1 AA-AAATTAT
34090922 AAAAAAATTAT
1 --AAAAATTAT
*
34090933 AAAAAATAT
1 AAAAATTAT
34090942 -AAAATTATT
1 AAAAATTA-T
*
34090951 AAAACTTAT
1 AAAAATTAT
34090960 AAAAA
1 AAAAA
34090965 AATTCATATA
Statistics
Matches: 113, Mismatches: 8, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.05
9 34 0.30
10 54 0.48
11 17 0.15
12 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:34090882 original size:50 final size:47
Alignment explanation
Indices: 34090808--34090964 Score: 174
Period size: 50 Copynumber: 3.2 Consensus size: 47
34090798 TGAGATAAAC
*
34090808 TTATAAAAATCATAAAAAAAATTATAAAAACTTATAAAGATTATAAAAA
1 TTATAAAAATTAT-AAAAAAATTATAAAAACTTATAAA-ATTATAAAAA
* *
34090857 TT-TATAAAATATATTTAAAATATTATAAAAACTTATAAAAATTCATAAAAA
1 TTATA-AAAAT-TA-TAAAAAAATTATAAAAACTTAT-AAAATT-ATAAAAA
* *
34090908 TTATAACAAATTATAAAAAAATTATAAAAA-ATATAAAATTATTAAAAC
1 TTATAA-AAATTATAAAAAAATTATAAAAACTTATAAAATTA-TAAAAA
34090956 TTATAAAAA
1 TTATAAAAA
34090965 AATTCATATA
Statistics
Matches: 93, Mismatches: 7, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
47 4 0.04
48 19 0.20
49 10 0.11
50 38 0.41
51 16 0.17
52 6 0.06
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (47 bp):
TTATAAAAATTATAAAAAAATTATAAAAACTTATAAAATTATAAAAA
Found at i:34091505 original size:10 final size:10
Alignment explanation
Indices: 34091492--34091517 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34091482 AATTTAAATA
34091492 TTTTTATAAG
1 TTTTTATAAG
34091502 TTTTTATAAG
1 TTTTTATAAG
34091512 TTTTTA
1 TTTTTA
34091518 AGAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:34091507 original size:20 final size:19
Alignment explanation
Indices: 34091484--34091643 Score: 80
Period size: 20 Copynumber: 8.2 Consensus size: 19
34091474 TTTATATCAA
34091484 TTTAAATATTTTTATAAGTT
1 TTTAAATATTTTTATAA-TT
* *
34091504 TTTATAAGT-TTTTAAGAATT
1 TTTA-AA-TATTTTTATAATT
* * *
34091524 TTT-ATTTTTTTTATAAAAT
1 TTTAAATATTTTTAT-AATT
34091543 TTTAAATATGTTTTATTAATT
1 TTTAAATAT-TTTTA-TAATT
* *
34091564 TTATAAAAATTATTATAATT
1 TT-TAAATATTTTTATAATT
*
34091584 TATT--ATATTTTTATAA-G
1 T-TTAAATATTTTTATAATT
* *
34091601 TTTATATCAATTTTA-AATT
1 TTTAAAT-ATTTTTATAATT
* *
34091620 TTTAAATAAATTTTATAAAT
1 TTTAAAT-ATTTTTATAATT
34091640 TTTA
1 TTTA
34091644 TAATTTTAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 28
0.69 0.12 0.18
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 20 0.19
19 25 0.23
20 26 0.24
21 24 0.22
22 8 0.07
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTAAATATTTTTATAATT
Found at i:34091518 original size:30 final size:29
Alignment explanation
Indices: 34091484--34091599 Score: 87
Period size: 30 Copynumber: 3.9 Consensus size: 29
34091474 TTTATATCAA
**
34091484 TTTAAATATTTTTATAAGTTTTTATAAGTT
1 TTTAAATATTTTTAT-AGTTTTTATAAAAT
**
34091514 TTTAAGA-ATTTTTATTTTTTTTATAAAAT
1 TTTAA-ATATTTTTATAGTTTTTATAAAAT
*
34091543 TTTAAATATGTTTTATTA-ATTTTATAAAAAT
1 TTTAAATAT-TTTTA-TAGTTTTTAT-AAAAT
*
34091574 TATTATAAT-TTATTATA-TTTTTATAA
1 T-TTA-AATATTTTTATAGTTTTTATAA
34091600 GTTTATATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
28 1 0.01
29 19 0.27
30 32 0.45
31 12 0.17
32 4 0.06
33 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTAAATATTTTTATAGTTTTTATAAAAT
Found at i:34091545 original size:29 final size:30
Alignment explanation
Indices: 34091484--34091571 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
34091474 TTTATATCAA
* **
34091484 TTTAAATAT-TTTTATAAGTTTTTATAAGTT
1 TTTAAATATGTTTTATTA-TTTTTATAAAAT
*
34091514 TTTAAGA-AT-TTTTATTTTTTTTATAAAAT
1 TTTAA-ATATGTTTTATTATTTTTATAAAAT
*
34091543 TTTAAATATGTTTTATTAATTTTATAAAA
1 TTTAAATATGTTTTATTATTTTTATAAAA
34091572 ATTATTATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 17 0.35
30 30 0.61
31 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTAAATATGTTTTATTATTTTTATAAAAT
Found at i:34091651 original size:28 final size:28
Alignment explanation
Indices: 34091553--34091652 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 28
34091543 TTTAAATATG
*
34091553 TTTTATTAATTTTATAA-AAATTATTATAAT
1 TTTTA-TAATTTTA-AATAAATT-TTATAAA
* * *
34091583 TTATTAT-ATTTT-TATAAGTTTATATCAA
1 TT-TTATAATTTTAAATAAATTT-TATAAA
34091611 TTTTA-AATTTTTAAATAAATTTTATAAA
1 TTTTATAA-TTTTAAATAAATTTTATAAA
34091639 TTTTATAATTTTAA
1 TTTTATAATTTTAA
34091653 TGTTTTGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
27 6 0.11
28 30 0.54
29 14 0.25
30 3 0.05
31 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTATAATTTTAAATAAATTTTATAAA
Found at i:34101863 original size:10 final size:10
Alignment explanation
Indices: 34101848--34101878 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
34101838 AAAGACATGG
34101848 TTGCCAATGT
1 TTGCCAATGT
34101858 TTGCCAATGT
1 TTGCCAATGT
34101868 TTGCCAATGT
1 TTGCCAATGT
34101878 T
1 T
34101879 ACTACCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (10 bp):
TTGCCAATGT
Found at i:34107121 original size:12 final size:14
Alignment explanation
Indices: 34107090--34107125 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34107080 ATGATATAAA
34107090 ATAAAAATAATTTC
1 ATAAAAATAATTTC
34107104 ATAAAAA-AATTT-
1 ATAAAAATAATTTC
34107116 AT-AAAATAAT
1 ATAAAAATAAT
34107126 ATGAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.19
12 5 0.24
13 5 0.24
14 7 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAAATAATTTC
Found at i:34109096 original size:32 final size:31
Alignment explanation
Indices: 34109051--34109146 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
34109041 CTTAGATAAT
34109051 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
34109082 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
34109114 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
34109145 TT
1 TT
34109147 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:34109722 original size:10 final size:9
Alignment explanation
Indices: 34109702--34109780 Score: 67
Period size: 8 Copynumber: 8.7 Consensus size: 9
34109692 TAAAAAACCA
*
34109702 AAAAAAAGC
1 AAAAAAGGC
34109711 AAAAAAGCGC
1 AAAAAAG-GC
34109721 AAAAAAAGGC
1 -AAAAAAGGC
34109731 -AAAAA-GC
1 AAAAAAGGC
34109738 AAAAAAGCGC
1 AAAAAAG-GC
*
34109748 AAAAAAAAG-
1 -AAAAAAGGC
34109757 AAAAAA-GC
1 AAAAAAGGC
34109765 AAAAAAGCGC
1 AAAAAAG-GC
34109775 AAAAAA
1 AAAAAA
34109781 AAAGTTGCCT
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
7 3 0.05
8 22 0.37
9 6 0.10
10 15 0.25
11 13 0.22
ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAGGC
Found at i:34109734 original size:27 final size:27
Alignment explanation
Indices: 34109703--34109782 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 27
34109693 AAAAAACCAA
*
34109703 AAAAAAGCAAAAAAGCGCAAAAAAAGG
1 AAAAAAGCAAAAAAGCGCAAAAAAAAG
*
34109730 CAAAAAGCAAAAAAGCGCAAAAAAAAG
1 AAAAAAGCAAAAAAGCGCAAAAAAAAG
34109757 AAAAAAGCAAAAAAGCGCAAAAAAAA
1 AAAAAAGCAAAAAAGCGCAAAAAAAA
34109783 AGTTGCCTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.72, C:0.12, G:0.15, T:0.00
Consensus pattern (27 bp):
AAAAAAGCAAAAAAGCGCAAAAAAAAG
Found at i:34112862 original size:32 final size:31
Alignment explanation
Indices: 34112817--34112912 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
34112807 CTTAGATAAT
34112817 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
34112848 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
34112880 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
34112911 TT
1 TT
34112913 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Done.