Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 203 of 276
Found at i:67435650 original size:272 final size:272
Alignment explanation
Indices: 67435164--67435707 Score: 1088
Period size: 272 Copynumber: 2.0 Consensus size: 272
67435154 CTATAAATGA
67435164 CAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGA
1 CAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGA
67435229 TCGAAGCCTTTCTGACATTTCTCCGTCCATTCGAACTTAGCATCCTTTTGAAGTAGCTTCGTCAT
66 TCGAAGCCTTTCTGACATTTCTCCGTCCATTCGAACTTAGCATCCTTTTGAAGTAGCTTCGTCAT
67435294 TGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGACGAGTCCCAAAAAGC
131 TGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGACGAGTCCCAAAAAGC
67435359 TCTGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCA
196 TCTGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCA
67435424 ACTCGAATACCC
261 ACTCGAATACCC
67435436 CAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGA
1 CAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGA
67435501 TCGAAGCCTTTCTGACATTTCTCCGTCCATTCGAACTTAGCATCCTTTTGAAGTAGCTTCGTCAT
66 TCGAAGCCTTTCTGACATTTCTCCGTCCATTCGAACTTAGCATCCTTTTGAAGTAGCTTCGTCAT
67435566 TGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGACGAGTCCCAAAAAGC
131 TGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGACGAGTCCCAAAAAGC
67435631 TCTGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCA
196 TCTGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCA
67435696 ACTCGAATACCC
261 ACTCGAATACCC
67435708 GATGCGGATA
Statistics
Matches: 272, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 272 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (272 bp):
CAAACTCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGA
TCGAAGCCTTTCTGACATTTCTCCGTCCATTCGAACTTAGCATCCTTTTGAAGTAGCTTCGTCAT
TGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAATAACCGACGAGTCCCAAAAAGC
TCTGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCA
ACTCGAATACCC
Found at i:67443286 original size:6 final size:6
Alignment explanation
Indices: 67443275--67443307 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
67443265 TCCTCTTATC
*
67443275 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
67443308 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:67443313 original size:18 final size:18
Alignment explanation
Indices: 67443275--67443314 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67443265 TCCTCTTATC
* **
67443275 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
67443293 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
67443311 TTTT
1 TTTT
67443315 ATTATTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:67443724 original size:6 final size:6
Alignment explanation
Indices: 67443713--67443739 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
67443703 GTGTGGGGGG
67443713 TGAACA TGAACA TGAACA TGAACA TGA
1 TGAACA TGAACA TGAACA TGAACA TGA
67443740 TGGCCTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAACA
Found at i:67447941 original size:30 final size:30
Alignment explanation
Indices: 67447907--67447968 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
67447897 TCCTTAACTC
67447907 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
67447937 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
67447967 AA
1 AA
67447969 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:67460770 original size:28 final size:28
Alignment explanation
Indices: 67460705--67460855 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
67460695 GAGATTGGCG
* * * *
67460705 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
67460734 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
67460762 CTAAGTGTGCGAATTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
67460790 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
67460818 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
67460845 CTGAGTGTGCG
1 CTAAGTGTGCG
67460856 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:67461586 original size:76 final size:76
Alignment explanation
Indices: 67461499--67461651 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
67461489 TTAGCCATGC
*
67461499 GAAAATGGCATGAATGTTCGGTTGGGTTTGGTTTCATATCGTTAGGTCGTAAATCTTGATAATTC
1 GAAAATGGCATGAATGTTCGGTTGGGTTTGGTTTCATAACGTTAGGTCGTAAATCTTGATAATTC
67461564 GACCTTTTTAT
66 GACCTTTTTAT
67461575 GAAAATGGCATGAATGTTCGGTTGGGTTTGGTTTCATAACGTTAGGTCGTAAATCTTGATAATTC
1 GAAAATGGCATGAATGTTCGGTTGGGTTTGGTTTCATAACGTTAGGTCGTAAATCTTGATAATTC
67461640 GACCTTTTTAT
66 GACCTTTTTAT
67461651 G
1 G
67461652 CCATATGTCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (76 bp):
GAAAATGGCATGAATGTTCGGTTGGGTTTGGTTTCATAACGTTAGGTCGTAAATCTTGATAATTC
GACCTTTTTAT
Found at i:67482554 original size:16 final size:17
Alignment explanation
Indices: 67482533--67482566 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
67482523 TTACCATGCA
67482533 TATAACAT-TTAAATAT
1 TATAACATATTAAATAT
67482549 TATAACATAATTAAATAT
1 TATAACAT-ATTAAATAT
67482567 AAATTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAACATATTAAATAT
Found at i:67483294 original size:20 final size:20
Alignment explanation
Indices: 67483221--67483294 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
67483211 TTTAAGAGCC
* *
67483221 ACACGCCAGCGTGGGTTGGG
1 ACACGCCCGCGTGGCTTGGG
*
67483241 ACACGCTCGCGTGGCTTGGG
1 ACACGCCCGCGTGGCTTGGG
*
67483261 ACACTCCCGCGTGGCTTGGG
1 ACACGCCCGCGTGGCTTGGG
*
67483281 ACACGCCCGTGTGG
1 ACACGCCCGCGTGG
67483295 TCAAGCCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.12, C:0.31, G:0.39, T:0.18
Consensus pattern (20 bp):
ACACGCCCGCGTGGCTTGGG
Found at i:67484587 original size:42 final size:42
Alignment explanation
Indices: 67484434--67484588 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
67484424 TACTACACCA
* * * *
67484434 ATGCCATATCCTAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * * * *
67484476 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
67484519 ATTCCATATCCCAGACACGGTCTTACACGAAGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCAT-ATCG
*
67484561 ATGCCATATCCCAGATATGGTTTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
67484589 ATAGCCTTGG
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 56 0.62
43 35 0.38
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:67487786 original size:24 final size:24
Alignment explanation
Indices: 67487754--67487838 Score: 170
Period size: 24 Copynumber: 3.5 Consensus size: 24
67487744 ATCATCGAGA
67487754 ATCCTTTGACAAAATGTTGGTAAT
1 ATCCTTTGACAAAATGTTGGTAAT
67487778 ATCCTTTGACAAAATGTTGGTAAT
1 ATCCTTTGACAAAATGTTGGTAAT
67487802 ATCCTTTGACAAAATGTTGGTAAT
1 ATCCTTTGACAAAATGTTGGTAAT
67487826 ATCCTTTGACAAA
1 ATCCTTTGACAAA
67487839 CATAAGAATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (24 bp):
ATCCTTTGACAAAATGTTGGTAAT
Found at i:67490845 original size:42 final size:42
Alignment explanation
Indices: 67490734--67490881 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
67490724 TACACCAATT
* * ** *
67490734 TCATATCCTAGATATGGTCTTACATGGGATCTCGTATCGATG
1 TCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* * * ** *
67490776 CTAATAACCTAGCCATGGTTTTACACGAAATCTCATATCGATG
1 -TCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
*
67490819 TCATATCCCAGATATGGTCTTACACGAAGTCTCATAAT-GATG
1 TCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCGATG
*
67490861 CCATATCCCAGATATGGTCTT
1 TCATATCCCAGATATGGTCTT
67490882 GCATATAGCC
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 52 0.60
43 35 0.40
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
TCATATCCCAGATATGGTCTTACACGAAATCTCATATCGATG
Found at i:67505311 original size:19 final size:20
Alignment explanation
Indices: 67505243--67505319 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
67505233 CACTCTCAAT
*
67505243 CATATAAACAGTAATTCATT
1 CATATAAACAGTAATTCATC
*
67505263 CA-AT-AACAGTAACTCATC
1 CATATAAACAGTAATTCATC
* *
67505281 CATTTAAACAGTACTTCATC
1 CATATAAACAGTAATTCATC
67505301 CATAT-AACAGTAATTCATC
1 CATATAAACAGTAATTCATC
67505320 TGTGTAACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.29
19 16 0.33
20 18 0.38
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (20 bp):
CATATAAACAGTAATTCATC
Found at i:67505586 original size:24 final size:23
Alignment explanation
Indices: 67505512--67505566 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
67505502 AAGCTCTATT
67505512 GAGCTGAAACGGTAAGCTCTGAC
1 GAGCTGAAACGGTAAGCTCTGAC
67505535 GAGCTGAAACGGTAAGCTCTGAC
1 GAGCTGAAACGGTAAGCTCTGAC
67505558 GAGCTGAAA
1 GAGCTGAAA
67505567 ACAGTAAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (23 bp):
GAGCTGAAACGGTAAGCTCTGAC
Found at i:67510694 original size:27 final size:26
Alignment explanation
Indices: 67510625--67510709 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
67510615 CTGCCAGAAC
* *
67510625 CAGTAAATGTGGCAAAGCCACCAGTAT
1 CAGT-AATGTGGCATAGCCACCAGTAA
*
67510652 CAGTAATTGTGGCATAGCCACTAGTAA
1 CAGTAA-TGTGGCATAGCCACCAGTAA
* **
67510679 CAGTGAATGTGACATAATCACCAGT-A
1 CAGT-AATGTGGCATAGCCACCAGTAA
67510705 CAGTA
1 CAGTA
67510710 CTTCCTCCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 39 0.80
28 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (26 bp):
CAGTAATGTGGCATAGCCACCAGTAA
Found at i:67510983 original size:27 final size:27
Alignment explanation
Indices: 67510845--67510983 Score: 188
Period size: 27 Copynumber: 5.1 Consensus size: 27
67510835 GGGCATAATC
67510845 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
67510872 ATCATTTTATCCTACAAGAGCATTAAG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
67510899 GTCATTTTACCTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
67510926 GTTATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
67510953 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
67510980 GTCA
1 GTCA
67510984 GATAACGACC
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:67514040 original size:13 final size:13
Alignment explanation
Indices: 67514022--67514046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67514012 TGTAGGCCTT
67514022 AAAAATATATTAA
1 AAAAATATATTAA
67514035 AAAAATATATTA
1 AAAAATATATTA
67514047 CATCGAATTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATATATTAA
Found at i:67517255 original size:17 final size:17
Alignment explanation
Indices: 67517224--67517258 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
67517214 AACTATCATT
67517224 TTCTCTTTGCTAAGCTC
1 TTCTCTTTGCTAAGCTC
67517241 TTCTGCTTTGC-AAGCTC
1 TTCT-CTTTGCTAAGCTC
67517258 T
1 T
67517259 GCCTACTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.11, C:0.29, G:0.14, T:0.46
Consensus pattern (17 bp):
TTCTCTTTGCTAAGCTC
Found at i:67518228 original size:21 final size:21
Alignment explanation
Indices: 67518199--67518249 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
67518189 ACAGAGCATT
*
67518199 ACCAGACTTATAACACATATA
1 ACCATACTTATAACACATATA
67518220 ACCATACTTATAACACATATA
1 ACCATACTTATAACACATATA
67518241 ACCATACTT
1 ACCATACTT
67518250 TTCTTATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (21 bp):
ACCATACTTATAACACATATA
Found at i:67522603 original size:40 final size:40
Alignment explanation
Indices: 67522509--67522653 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
67522499 TACTCGAATG
*
67522509 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
67522550 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
67522590 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
67522630 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
67522654 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:67529112 original size:40 final size:40
Alignment explanation
Indices: 67529032--67529214 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
67529022 AATGATGTCT
* * * *
67529032 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
*
67529072 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
67529112 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
67529152 GGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
67529192 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
67529215 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:67529221 original size:80 final size:79
Alignment explanation
Indices: 67529083--67529237 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 79
67529073 GACTAAGATC
* **
67529083 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTA
67529147 AATCCGGGTTAAGTCT
65 AATCC-GGTTAAGTCT
*
67529163 CGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTA
1 CGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
*
67529227 TATCCGGTTAA
65 AATCCGGTTAA
67529238 ATTCTGAAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
79 8 0.12
80 58 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAGTCT
Found at i:67539820 original size:23 final size:23
Alignment explanation
Indices: 67539794--67539847 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
67539784 TGATGGACAA
* * *
67539794 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTACTAAGCTGAAACAG
* *
67539817 TAAGCTCTGCTAAGCTGAAATAG
1 TAAGCTCTACTAAGCTGAAACAG
67539840 TAAGCTCT
1 TAAGCTCT
67539848 TAGGGGCTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (23 bp):
TAAGCTCTACTAAGCTGAAACAG
Found at i:67543395 original size:25 final size:25
Alignment explanation
Indices: 67543385--67543608 Score: 232
Period size: 25 Copynumber: 8.7 Consensus size: 25
67543375 GTGACAGAAT
*
67543385 CAGAATCAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
*
67543410 CAGAATCAGAATCAGTATCAGGTAACAGAA
1 CAGAATCAGAATCAGAATCAGGT----G-A
* *
67543440 TCAGAATCAAAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGAATCAGGTGA
* *
67543466 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
* * *
67543491 CAAAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
* * *
67543516 CAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
** *
67543541 TGGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
* * *
67543566 CAGAATCAAAATCAGCATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
67543591 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
67543609 GTGAATGCAA
Statistics
Matches: 159, Mismatches: 34, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
25 135 0.85
26 1 0.01
27 1 0.01
29 1 0.01
30 1 0.01
31 20 0.13
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:67543402 original size:31 final size:31
Alignment explanation
Indices: 67543355--67543486 Score: 159
Period size: 31 Copynumber: 4.5 Consensus size: 31
67543345 AATCAAAATG
* *
67543355 AGAATCAAAATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
67543386 AGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
67543417 AGAATCAG--T----ATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
67543442 AGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
67543473 AGAATCAGTATCAG
1 AGAATCAGAATCAG
67543487 GTAACAAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
25 21 0.25
27 1 0.01
29 1 0.01
31 62 0.73
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:67543438 original size:56 final size:56
Alignment explanation
Indices: 67543355--67543608 Score: 316
Period size: 56 Copynumber: 4.8 Consensus size: 56
67543345 AATCAAAATG
* * * * * *
67543355 AGAATCAAAATTAGAATCAGGTGACAGAATCAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
*
67543411 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
*
67543467 AGAATCAGAATCAGTATCAGGTAAC---A--A-AATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
* *
67543517 AGAATTAGAATCAGTATCAGGT-----AAT-GGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
* *
67543567 AGAATCAAAATCAGCATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
67543609 GTGAATGCAA
Statistics
Matches: 173, Mismatches: 16, Indels: 18
0.84 0.08 0.09
Matches are distributed among these distances:
48 1 0.01
50 83 0.48
51 1 0.01
53 1 0.01
55 3 0.02
56 84 0.49
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (56 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:67543441 original size:50 final size:50
Alignment explanation
Indices: 67543385--67543608 Score: 286
Period size: 50 Copynumber: 4.4 Consensus size: 50
67543375 GTGACAGAAT
67543385 CAGAATCAGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAA
*
67543435 CAGAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATC---A--A-GTGACAGAATCAGAATCAGTATCAGGTAA
* * * * *
67543491 CAAAATCAGAATCAAAATTAGGTGACAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAA
** * * * *
67543541 TGGAATCAGAATCAGAATTAGGTGACAGAATCAAAATCAGCATCAGGTAA
1 CAGAATCAGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAA
67543591 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
67543609 GTGAATGCAA
Statistics
Matches: 154, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
50 105 0.68
53 2 0.01
55 1 0.01
56 46 0.30
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (50 bp):
CAGAATCAGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAA
Found at i:67544125 original size:27 final size:27
Alignment explanation
Indices: 67544095--67544165 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
67544085 GGGGCAAAAT
*
67544095 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCCACAAGGGTATCTC
* * * *
67544122 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCCACAAGGGTATCTC
67544149 GGTAATTCTACCCCACA
1 GGTAATTCTACCCCACA
67544166 TGGGGTGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (27 bp):
GGTAATTCTACCCCACAAGGGTATCTC
Found at i:67544182 original size:28 final size:27
Alignment explanation
Indices: 67544097--67544183 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
67544087 GGCAAAATGG
* * * **
67544097 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCCACAGGGGTATTTCAA
* ***
67544124 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCCACAGGGGTATTTCAA
*
67544151 TAATTCTACCCCACATGGGGTGTTTCAA
1 TAATTCTACCCCACA-GGGGTATTTCAA
67544179 TAATT
1 TAATT
67544184 TTGTAAATCG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
27 36 0.73
28 13 0.27
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCCACAGGGGTATTTCAA
Found at i:67546718 original size:27 final size:26
Alignment explanation
Indices: 67546660--67546829 Score: 103
Period size: 27 Copynumber: 6.3 Consensus size: 26
67546650 TTAGTTTACC
* * *
67546660 AAATTACTAAATTACCCCT-ACTTGTA
1 AAATTACCAAA-TACCCCTGATTTATA
*
67546686 AAATTACCAAAGTACCCCTGGTTTATA
1 AAATTACCAAA-TACCCCTGATTTATA
* * *
67546713 AAATTACCCAAATATCCTTGATTTGTA
1 AAATTA-CCAAATACCCCTGATTTATA
*
67546740 AAATTACCGAAATA-CCCTCAATTTGA-A
1 AAATTACC-AAATACCCCT-GATTT-ATA
* * * * *
67546767 AAATTACTAAAATACACTTGACTTGTA
1 AAATTAC-CAAATACCCCTGATTTATA
* *
67546794 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAA-TACCCCTGATTTATA
*
67546821 GAATTACCA
1 AAATTACCA
67546830 TTTTACCCTC
Statistics
Matches: 111, Mismatches: 24, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
26 25 0.23
27 79 0.71
28 7 0.06
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACCAAATACCCCTGATTTATA
Found at i:67546746 original size:54 final size:53
Alignment explanation
Indices: 67546679--67546829 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 53
67546669 AATTACCCCT
* *
67546679 ACTTGTAAAATTACCAAAGTACCCCTGGTTTATAAAATTACCCAAATATC-CTTG
1 ACTTGTAAAATTACCAAAGTACCCCTGATTTA-AAAATTACCAAAATA-CACTTG
* * *
67546733 ATTTGTAAAATTACCGAAA-TA-CCCTCAATTTGAAAAATTACTAAAATACACTTG
1 ACTTGTAAAATTACC-AAAGTACCCCT-GATTT-AAAAATTACCAAAATACACTTG
* *
67546787 ACTTGTAAAATTACCAAAGTACCCTTGATTTACAGAATTACCA
1 ACTTGTAAAATTACCAAAGTACCCCTGATTTA-AAAATTACCA
67546830 TTTTACCCTC
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
53 9 0.11
54 64 0.80
55 7 0.09
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
ACTTGTAAAATTACCAAAGTACCCCTGATTTAAAAATTACCAAAATACACTTG
Found at i:67546837 original size:81 final size:79
Alignment explanation
Indices: 67546752--67547169 Score: 415
Period size: 81 Copynumber: 5.2 Consensus size: 79
67546742 ATTACCGAAA
*** * * *** *
67546752 TACCCTCAATTTGA-AAAATTACTAAAATACACTTGACTTGTAAAATTACCAAAGTACCCTTGAT
1 TACCCTCAATTT-ACAAAATTACTATTTTACCCTCGA-TT-TAAAATTACCATTTTACCCTCGAT
*
67546816 TTACAGAATTACCATTT
63 TTACAGAATTACCGTTT
* * * *
67546833 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTA-A-AATTACCATTTTACCCTCGATT
* **
67546898 TACAAAATTAATGTTT
64 TACAGAATTACCGTTT
* * * *
67546914 TACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTT--AAAATTACCATTTTACCCTCGATT
*
67546979 TACAGAATTACCATTT
64 TACAGAATTACCGTTT
* * * *
67546995 TACCCTCAATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCTTTGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTA-A-AATTACCATTTTACCCTCGATT
* *
67547060 GACAGAATTACTGTTT
64 TACAGAATTACCGTTT
* * ***
67547076 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACCAAAGTACCCTCGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTT--AAAATTACCATTTTACCCTCGATT
*
67547141 TATAGAATTACCGTTT
64 TACAGAATTACCGTTT
*
67547157 TACCCTCGATTTA
1 TACCCTCAATTTA
67547170 TAAANTGGTA
Statistics
Matches: 283, Mismatches: 45, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.01
80 5 0.02
81 271 0.96
82 2 0.01
83 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (79 bp):
TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTAAAATTACCATTTTACCCTCGATTTA
CAGAATTACCGTTT
Found at i:67547171 original size:27 final size:27
Alignment explanation
Indices: 67546806--67547169 Score: 451
Period size: 27 Copynumber: 13.5 Consensus size: 27
67546796 ATTACCAAAG
* **
67546806 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
67546833 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
67546860 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
67546887 TACCCTCGATTTACAAAATTAATGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
67546914 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
67546941 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
**
67546968 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
67546995 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
67547022 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
67547049 TACCTTTGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
67547076 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *****
67547103 TACCCTTGATTTACAAAATTACCAAAG
1 TACCCTCGATTTACAGAATTACTGTTT
* *
67547130 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
67547157 TACCCTCGATTTA
1 TACCCTCGATTTA
67547170 TAAANTGGTA
Statistics
Matches: 292, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 291 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:67549168 original size:27 final size:27
Alignment explanation
Indices: 67549113--67549240 Score: 118
Period size: 27 Copynumber: 4.8 Consensus size: 27
67549103 TTAATTTACC
** * *
67549113 AAATTATTGAAATACCCC-GATTTATA
1 AAATTATCCAAATACCCTCGATTTGTA
* *
67549139 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTATCCAAATACCCTCGATTTGTA
* *
67549166 AAATTATCTAAATACCCTC-AGTTTGCA
1 AAATTATCCAAATACCCTCGA-TTTGTA
** *
67549193 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTATCCAAATACCCTCGATTTGTA
67549220 AAATTA-CCAAAGTACCCTCGA
1 AAATTATCCAAA-TACCCTCGA
67549241 CTTACAGAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
26 17 0.21
27 64 0.78
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTATCCAAATACCCTCGATTTGTA
Found at i:67549251 original size:27 final size:27
Alignment explanation
Indices: 67549205--67549613 Score: 302
Period size: 27 Copynumber: 15.2 Consensus size: 27
67549195 ATTATTGAAA
** ***
67549205 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGACTTACAAAATTACCATTT
* *
67549232 TACCCTCGACTTACAGAATTTCCATTT
1 TACCCTCGACTTACAAAATTACCATTT
* *
67549259 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGACTTACAAAATTACCATTT
* * * *
67549286 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGACTTACAAAATTACCATTT
* * * * * **
67549313 TAACCTCAATTTATAGAATTACTGTTT
1 TACCCTCGACTTACAAAATTACCATTT
* * * * *
67549340 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGACTTACAAAATTACCATTT
* * *
67549367 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGACTTACAAAATTACCATTT
* * *
67549394 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGACTTACAAAATTACCATTT
* **
67549421 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGACTTACAAAATTACCATTT
** * *
67549448 TACCCTAAATTTACAGAATTA-C-TGTT
1 TACCCTCGACTTACAAAATTACCAT-TT
* * **
67549474 TACCCTCGA-TTGACAGAATTGCTGTTT
1 TACCCTCGACTT-ACAAAATTACCATTT
* *
67549501 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGACTTACAAAATTACCATTT
* * *
67549528 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGACTTACAAAATTACCATTT
* * * *
67549555 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGACTTACAAAATTACCATTT
* *
67549582 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGACTTACAAAATTACCATTT
67549609 TACCC
1 TACCC
67549614 CTAGGGTGTT
Statistics
Matches: 326, Mismatches: 51, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
25 3 0.01
26 17 0.05
27 303 0.93
28 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGACTTACAAAATTACCATTT
Found at i:67549264 original size:81 final size:80
Alignment explanation
Indices: 67549106--67549279 Score: 183
Period size: 81 Copynumber: 2.2 Consensus size: 80
67549096 GAATACTTTA
* * * * **
67549106 ATTTACCAAATTATTGAAATACCCCGATTTATAAAATTACCCAAATATCCTCGATTTGTAAAATT
1 ATTTACAAAATTATTGAAATACCCCGACTTATAAAATTACCCAAATACCCTCGACTTACAAAATT
*
67549171 ATCTAAATACCCTC-
66 ATCCAAATACCCTCG
* * *
67549185 AGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTA-CCAAAGTACCCTCGACTTACAGA
1 A-TTTACAAAATTATTGAAATACCC-CGACTTATAAAATTACCCAAA-TACCCTCGACTTACAAA
**
67549249 ATT-TCCATTTTACCCTCG
63 ATTATCCA-AATACCCTCG
67549267 ATTTACAAAATTA
1 ATTTACAAAATTA
67549280 CTATTTTACC
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 29 0.38
81 46 0.60
82 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (80 bp):
ATTTACAAAATTATTGAAATACCCCGACTTATAAAATTACCCAAATACCCTCGACTTACAAAATT
ATCCAAATACCCTCG
Found at i:67549277 original size:54 final size:54
Alignment explanation
Indices: 67549232--67549613 Score: 473
Period size: 54 Copynumber: 7.1 Consensus size: 54
67549222 ATTACCAAAG
* *
67549232 TACCCTCGACTTACAGAATTTCCATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * * * * *
67549286 TACCCTTGATTTACAGAATTACCGTTTTAACCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * *
67549340 TACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT-ATTT
* *
67549394 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
** * * * *
67549448 TACCCTAAATTTACAGAATTA-C-TGTTTACCCTCGATTGACAGAATTGCTGTTT
1 TACCCTCGATTTACAGAATTACCAT-TTTACCCTCGATTTACAAAATTACTATTT
* * *
67549501 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * *
67549555 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
67549609 TACCC
1 TACCC
67549614 CTAGGGTGTT
Statistics
Matches: 280, Mismatches: 43, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.00
53 46 0.16
54 231 0.82
55 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
Found at i:67549641 original size:81 final size:79
Alignment explanation
Indices: 67549232--67549613 Score: 462
Period size: 81 Copynumber: 4.7 Consensus size: 79
67549222 ATTACCAAAG
* * * *
67549232 TACCCTCGACTTACAGAATTTCCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTAGATT
67549297 TACAGAATTACCGTTT
66 TACAGAATT--CGTTT
* * * * * * * *
67549313 TAACCTCAATTTATAGAATTACTGTTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTAGATT
*
67549378 TACAAAATTATCGTTT
66 TACAGAA-T-TCGTTT
* *
67549394 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTAAATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTAGATT
67549459 TACAGAATTAC-TGTT
66 TACAGAATT-CGT-TT
* * *
67549474 TACCCTCGATTGACAGAATTGCTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCA-AT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCT-AGAT
* *
67549538 TTACAAAATTACTATTT
65 TTACAGAATT-C-GTTT
* * *
67549555 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCC
67549614 CTAGGGTGTT
Statistics
Matches: 260, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
79 2 0.01
80 73 0.28
81 182 0.70
82 2 0.01
83 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (79 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTAGATT
TACAGAATTCGTTT
Found at i:67555099 original size:40 final size:40
Alignment explanation
Indices: 67554993--67555085 Score: 152
Period size: 40 Copynumber: 2.3 Consensus size: 40
67554983 NNNNNNNNNN
*
67554993 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTC
*
67555033 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
67555073 CCGAAGGCATTTG
1 CCGAAGGCATTTG
67555086 AACGAGTAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
Found at i:67556974 original size:43 final size:43
Alignment explanation
Indices: 67556926--67557759 Score: 1659
Period size: 43 Copynumber: 19.4 Consensus size: 43
67556916 TTGGTTTTCA
67556926 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67556969 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557012 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557055 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557098 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557141 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557184 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557227 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557270 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557313 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557356 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557399 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557442 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557485 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557528 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557571 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557614 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557657 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
*
67557700 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
67557743 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
67557760 TTGAAATGCA
Statistics
Matches: 790, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 790 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTAGATTG
Found at i:67557776 original size:29 final size:29
Alignment explanation
Indices: 67557741--67557814 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
67557731 GTTGTGAGAT
* *
67557741 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
67557770 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
67557799 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67557815 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:67558399 original size:40 final size:40
Alignment explanation
Indices: 67558129--67558385 Score: 270
Period size: 40 Copynumber: 6.4 Consensus size: 40
67558119 ATGATGTCCA
* *
67558129 GGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCG
* * * * *
67558169 GACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATATCCG
* * *
67558209 GGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
* *
67558249 GGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
67558289 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
* ** * * *
67558329 TGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
*
67558369 GGCTAGGTCCCGAAGAG
1 GGCTAAGTCCCGAAGAG
67558386 TAATCATGCT
Statistics
Matches: 181, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 162 0.90
41 18 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCG
Found at i:67574164 original size:46 final size:45
Alignment explanation
Indices: 67574095--67574268 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
67574085 GTAACCCGCC
*
67574095 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
67574140 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GC---GTTCACAT
* * ** * *
67574190 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
67574233 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
67574269 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 5 0.05
46 59 0.54
47 27 0.25
48 4 0.04
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:67574212 original size:93 final size:93
Alignment explanation
Indices: 67574102--67574273 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
67574092 GCCCCTAAGT
** *
67574102 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
67574167 CGAGTTCGGATGCTTAGTTACATCTCAC
66 CGAGTTCGGATGCTTAGTTACATCTCAC
* * *
67574195 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
67574260 CGAGTTCGGATGCT
66 CGAGTTCGGATGCT
67574274 CAACCATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCTTAGTTACATCTCAC
Found at i:67578974 original size:50 final size:49
Alignment explanation
Indices: 67578870--67579245 Score: 283
Period size: 50 Copynumber: 7.5 Consensus size: 49
67578860 TCTAGTATGC
*
67578870 ATAGTAGCCTGCACTTAGTACTACACA-A-GCTACCTATCAATTTGGTACA
1 ATAGTAGCCTGCACTTAGTACTACACACATG--ACCTATCAATCTGGTACA
* * * * * *
67578919 CGTAGTTGCCTGCTCTTAGTACTACACACATGACTTATCCATCTGATACA
1 -ATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACA
** * ** * * *
67578969 AGTAGTAGCCTGCGTTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGC
1 A-TAGTAGCCTGCACTTAGTACTACACACATGA-CCTA-TCAATCTGGTAC-A
** *
67579021 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACA
1 ATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACA
* * * **
67579070 CATAGTAGCCTGAACTTAGTACTACACACATGACCTAACCATCTAATACA
1 -ATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACA
* * * * * *
67579120 CATAGTAGCTTGCACTTAGTACTACACACATGATCGA-AATATCGGGTACGC
1 -ATAGTAGCCTGCACTTAGTACTACACACATGACCTATCA-ATCTGGTAC-A
*** * *
67579171 ATAGTAGCCTGCACTTAGTACTACACATGCGGCCTAACAATCTGGTACA
1 ATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACA
* * *
67579220 CGTAGTAGCCTGCACATAGTAGTACA
1 -ATAGTAGCCTGCACTTAGTACTACA
67579246 AAAATGTTCT
Statistics
Matches: 256, Mismatches: 58, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
49 3 0.01
50 212 0.83
51 37 0.14
52 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
ATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACA
Found at i:67579046 original size:101 final size:100
Alignment explanation
Indices: 67578915--67579197 Score: 255
Period size: 101 Copynumber: 2.8 Consensus size: 100
67578905 ATCAATTTGG
* * * * * *
67578915 TACACGTAGTTGCCTGCTCTTAGTACTACACACATGACTTATCCATCTGATACA-AGTAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCCGATACACA-TAGTAGCC
*** * * ** **
67578979 TGCGTTTAGTACTACACACGTGATCGAAGTTAACGGG
65 TGAACTTAGTACTACACACATGACCGAA-CCAACGAA
* ** *
67579016 TACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACATAGTAGCCT
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCCGATACACATAGTAGCCT
* * *
67579081 GAACTTAGTACTACACACATGACCTAACCATCTAA
66 GAACTTAGTACTACACACATGACCGAACCAACGAA
* * * * * * *
67579116 TACACATAGTAGCTTGCACTTAGTACTACACACATGATCGA-AATATCGGGTACGCATAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCA-ATCCGATACACATAGTAGCC
*
67579180 TGCACTTAGTACTACACA
65 TGAACTTAGTACTACACA
67579198 TGCGGCCTAA
Statistics
Matches: 148, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
99 1 0.01
100 72 0.49
101 74 0.50
102 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCCGATACACATAGTAGCCT
GAACTTAGTACTACACACATGACCGAACCAACGAA
Found at i:67579126 original size:151 final size:150
Alignment explanation
Indices: 67578868--67579245 Score: 526
Period size: 151 Copynumber: 2.5 Consensus size: 150
67578858 TCTCTAGTAT
* * *
67578868 GCATAGTAGCCTGCACTTAGTACTACACAAGCT-ACCTATCAATTTGGTACACGTAGTTGCCTGC
1 GCATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAATCTGGTACACGTAGTAGCCTGC
* * * * **
67578932 TCTTAGTACTACACACATGACTTATCCATCTGATACAAGTAGTAGCCTGCGTTTAGTACTACACA
65 ACTTAGTACTACACACATGACCTAACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTACACA
* *
67578997 CGTGATCGAAGTTAACGGGTAC
130 CATGATCGAA-ATAACGGGTAC
* * *
67579019 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACATAGTAGCCTGAA
1 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCA
*
67579084 CTTAGTACTACACACATGACCTAACCATCTAATACACA-TAGTAGCTTGCACTTAGTACTACACA
66 CTTAGTACTACACACATGACCTAACCATCTAATACA-AGTAGTAGCCTGCACTTAGTACTACACA
*
67579148 CATGATCGAAATATCGGGTAC
130 CATGATCGAAATAACGGGTAC
* * *
67579169 GCATAGTAGCCTGCACTTAGTACTACACATGCGGCCTAACAATCTGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCA
* *
67579234 CATAGTAGTACA
66 CTTAGTACTACA
67579246 AAAATGTTCT
Statistics
Matches: 201, Mismatches: 24, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
150 79 0.39
151 121 0.60
152 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (150 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCA
CTTAGTACTACACACATGACCTAACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTACACAC
ATGATCGAAATAACGGGTAC
Found at i:67588253 original size:30 final size:30
Alignment explanation
Indices: 67588217--67588322 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
67588207 TTGGATGCCT
67588217 TTGTGGCTATCTAGTGATGTATGGACACCA
1 TTGTGGCTATCTAGTGATGTATGGACACCA
* * *
67588247 TTGTGGCTATCTTA-TGAAGTAAGGACACCC
1 TTGTGGCTATC-TAGTGATGTATGGACACCA
* * * ** * *
67588277 TTGCGGCTTTCTATTTTTTTATGGACACCT
1 TTGTGGCTATCTAGTGATGTATGGACACCA
67588307 TTGTGGCTATCTAGTG
1 TTGTGGCTATCTAGTG
67588323 CTCCTGAATG
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
29 2 0.03
30 55 0.93
31 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (30 bp):
TTGTGGCTATCTAGTGATGTATGGACACCA
Found at i:67590528 original size:27 final size:26
Alignment explanation
Indices: 67590498--67590553 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
67590488 ACATAGCTTA
67590498 AATGTGTCTAGTTTAG-GACATCAATTT
1 AATGTGTCTAGTTTAGAGACA--AATTT
67590525 AATGTGTCTAGTTTAGAGACAAATTT
1 AATGTGTCTAGTTTAGAGACAAATTT
67590551 AAT
1 AAT
67590554 TAGTTACAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (26 bp):
AATGTGTCTAGTTTAGAGACAAATTT
Found at i:67591149 original size:23 final size:22
Alignment explanation
Indices: 67591116--67591162 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
67591106 TCTCATTCTT
67591116 GAAAACTTCAAGGAAGCTTCCAAG
1 GAAAACTTCAA-GAAGCTT-CAAG
*
67591140 GAAAA-TTCAAGAATCTTCAAG
1 GAAAACTTCAAGAAGCTTCAAG
67591161 GA
1 GA
67591163 TGATTACAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 5 0.23
24 5 0.23
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (22 bp):
GAAAACTTCAAGAAGCTTCAAG
Found at i:67591822 original size:11 final size:11
Alignment explanation
Indices: 67591806--67591850 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
67591796 TTCAAAGTTG
67591806 AAAAAAAAATC
1 AAAAAAAAATC
67591817 AAAAAAAAAAATTC
1 --AAAAAAAAA-TC
*
67591831 AAAAAAAATTC
1 AAAAAAAAATC
67591842 AAAAAAAAA
1 AAAAAAAAA
67591851 GTGATTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
13 9 0.31
14 2 0.07
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:67591823 original size:14 final size:14
Alignment explanation
Indices: 67591806--67591838 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
67591796 TTCAAAGTTG
67591806 AAAAAAAAATCAAA
1 AAAAAAAAATCAAA
*
67591820 AAAAAAAATTCAAA
1 AAAAAAAAATCAAA
67591834 AAAAA
1 AAAAA
67591839 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAAAATCAAA
Found at i:67592514 original size:22 final size:20
Alignment explanation
Indices: 67592475--67592514 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67592465 GCTGGAACCA
67592475 TCCTTGAAGATTCTTGAACG
1 TCCTTGAAGATTCTTGAACG
*
67592495 TCCTTGGAAGCTTCCTTGAA
1 TCCTT-GAAGATT-CTTGAA
67592515 GTTTTCAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TCCTTGAAGATTCTTGAACG
Found at i:67593130 original size:27 final size:26
Alignment explanation
Indices: 67593083--67593138 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
67593073 GCTGTAACTA
67593083 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
67593109 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
67593136 ATT
1 ATT
67593139 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:67593153 original size:27 final size:27
Alignment explanation
Indices: 67593096--67593153 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
67593086 AAATTTGTCT
* *
67593096 CTAAACTAGACACATTAAATTGATGTC
1 CTAAACTAGACACATTAAACTGATGTA
*
67593123 CTAAACTAGACACATTTAAGCT-ATGTA
1 CTAAACTAGACACA-TTAAACTGATGTA
67593150 CTAA
1 CTAA
67593154 TATAAGACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
CTAAACTAGACACATTAAACTGATGTA
Found at i:67605679 original size:27 final size:27
Alignment explanation
Indices: 67605648--67605825 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67605638 TAAATTGTAC
67605648 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
67605675 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67605701 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
67605729 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
67605757 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67605784 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
67605811 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67605826 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:67605762 original size:82 final size:81
Alignment explanation
Indices: 67605649--67605804 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67605639 AAATTGTACA
* *
67605649 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
67605713 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
67605730 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
67605795 TGCGAGTTGA
65 TGCGAATTGA
67605805 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:67605816 original size:82 final size:81
Alignment explanation
Indices: 67605645--67605825 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
67605635 GATTAAATTG
* *
67605645 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
67605710 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
67605726 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
67605790 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
67605808 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
67605826 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:67613970 original size:42 final size:42
Alignment explanation
Indices: 67613923--67614058 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
67613913 TGTGTTATCT
* * *
67613923 TGTAAGACCATATATGGGATATGGCGTTGATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGGCATTGATATGAGATTTCG
** * * * *
67613965 TGTAAGACCACGTCTAGGACATGGCATCGAAATGAGATTTTG
1 TGTAAGACCATATCTAGGATATGGCATTGATATGAGATTTCG
* * ** *
67614007 TATAAGACCATATCTAGGATATGGCATTGATGTGAGATCCCA
1 TGTAAGACCATATCTAGGATATGGCATTGATATGAGATTTCG
67614049 TGTAAGACCA
1 TGTAAGACCA
67614059 CGCCTAGGAC
Statistics
Matches: 73, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATTGATATGAGATTTCG
Found at i:67614066 original size:42 final size:42
Alignment explanation
Indices: 67613943--67614074 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
67613933 TATATGGGAT
*
67613943 ATGGCGTTGATATGAGATTTCGTGTAAGACCACGTCTAGGAC
1 ATGGCATTGATATGAGATTTCGTGTAAGACCACGTCTAGGAC
* * * * ** *
67613985 ATGGCATCGAAATGAGATTTTGTATAAGACCATATCTAGGAT
1 ATGGCATTGATATGAGATTTCGTGTAAGACCACGTCTAGGAC
* ** * *
67614027 ATGGCATTGATGTGAGATCCCATGTAAGACCACGCCTAGGAC
1 ATGGCATTGATATGAGATTTCGTGTAAGACCACGTCTAGGAC
67614069 ATGGCA
1 ATGGCA
67614075 ATTGTATCTT
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
ATGGCATTGATATGAGATTTCGTGTAAGACCACGTCTAGGAC
Found at i:67617330 original size:29 final size:29
Alignment explanation
Indices: 67617297--67617363 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
67617287 AAGATATATA
* *
67617297 TTTAACATAGATTGCCAAAAAGGCTTCCT
1 TTTAACAGAGATTGCCAAAAAGGCTTACT
* *
67617326 TTTAAGAGAGATTGCCACAAAGGCTTACT
1 TTTAACAGAGATTGCCAAAAAGGCTTACT
67617355 TTTAACAGA
1 TTTAACAGA
67617364 TAAAGCAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (29 bp):
TTTAACAGAGATTGCCAAAAAGGCTTACT
Found at i:67617374 original size:29 final size:29
Alignment explanation
Indices: 67617315--67617413 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 29
67617305 AGATTGCCAA
* ** *
67617315 AAAGGCTTCCTTTTAAGAGAGATTGCCAC
1 AAAGGCTTCCTTTTAACAGAGAAAGCAAC
* *
67617344 AAAGGCTTACTTTTAACAGATAAAGCAAC
1 AAAGGCTTCCTTTTAACAGAGAAAGCAAC
* *
67617373 AAAGGCTTCC-TTT--CAGAGATAGCCAC
1 AAAGGCTTCCTTTTAACAGAGAAAGCAAC
*
67617399 AAAGGCATCCTTTTA
1 AAAGGCTTCCTTTTA
67617414 TAGATATTGG
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 19 0.33
27 3 0.05
28 3 0.05
29 32 0.56
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGGCTTCCTTTTAACAGAGAAAGCAAC
Found at i:67617418 original size:26 final size:26
Alignment explanation
Indices: 67617305--67617419 Score: 86
Period size: 29 Copynumber: 4.2 Consensus size: 26
67617295 TATTTAACAT
* * *
67617305 AGATTGCCAAAAAGGCTTCCTTTTAAGAG
1 AGATAGCCACAAAGGCTTCCTTTT---AC
* *
67617334 AGATTGCCACAAAGGCTTACTTTTAAC
1 AGATAGCCACAAAGGCTTCCTTTT-AC
* * *
67617361 AGATAAAGCAACAAAGGCTTCCTTTCAG
1 AGAT--AGCCACAAAGGCTTCCTTTTAC
* *
67617389 AGATAGCCACAAAGGCATCCTTTTAT
1 AGATAGCCACAAAGGCTTCCTTTTAC
67617415 AGATA
1 AGATA
67617420 TTGGTGTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 23 0.32
27 5 0.07
28 5 0.07
29 38 0.54
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (26 bp):
AGATAGCCACAAAGGCTTCCTTTTAC
Found at i:67621556 original size:29 final size:26
Alignment explanation
Indices: 67621466--67621594 Score: 89
Period size: 28 Copynumber: 4.7 Consensus size: 26
67621456 TTCAGATTAT
* *
67621466 GCCACGAAGGCATTCTTTTCCAAAGATA
1 GCCACAAAGGCA-TCCTTT-CAAAGATA
* * * *
67621494 GCCACAGAGGCCTTCCTTTCAGAGTCTCA
1 GCCACAAAGG-CATCCTTTCAAAG-AT-A
*
67621523 -CCACAAAGGCATCCATTTAACAAAGATC
1 GCCACAAAGGCATCC-TTT--CAAAGATA
* * *
67621551 GCCACAAAGGCTTCCTTTTAGAGATA
1 GCCACAAAGGCATCCTTTCAAAGATA
67621577 GCCACAAAGGCATCCTTT
1 GCCACAAAGGCATCCTTT
67621595 GATGTAAATT
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
26 22 0.28
27 8 0.10
28 28 0.36
29 16 0.21
30 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (26 bp):
GCCACAAAGGCATCCTTTCAAAGATA
Found at i:67621590 original size:55 final size:57
Alignment explanation
Indices: 67621486--67621591 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
67621476 CATTCTTTTC
* *
67621486 CAAAGATAGCCACAGAGGCCTTCCTTTCAGAGTCTCACCACAAAGGCATCCATTTAA
1 CAAAGATAGCCACAAAGGCCTTCCTTTCAGAGTATCACCACAAAGGCATCCATTTAA
* *
67621543 CAAAGATCGCCACAAAGG-CTTCCTTTTAGAG-AT-AGCCACAAAGGCATCC
1 CAAAGATAGCCACAAAGGCCTTCCTTTCAGAGTATCA-CCACAAAGGCATCC
67621592 TTTGATGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 15 0.34
56 12 0.27
57 16 0.36
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (57 bp):
CAAAGATAGCCACAAAGGCCTTCCTTTCAGAGTATCACCACAAAGGCATCCATTTAA
Found at i:67623370 original size:23 final size:23
Alignment explanation
Indices: 67623340--67623385 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67623330 CATGCTCAAA
67623340 GGGTTTTTATACTTAGTTTAGTT
1 GGGTTTTTATACTTAGTTTAGTT
67623363 GGGTTTTTATACTTAGTTTAGTT
1 GGGTTTTTATACTTAGTTTAGTT
67623386 CTAACACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.22, T:0.57
Consensus pattern (23 bp):
GGGTTTTTATACTTAGTTTAGTT
Found at i:67631584 original size:43 final size:43
Alignment explanation
Indices: 67631415--67631585 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 43
67631405 TAGGATTTCT
* * * **
67631415 GATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
* * * * *
67631458 GAT-TTGAGATTTACATGTAAGACCATGTTTGGGACATCGACATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGACATTGGCATC
* * * * * * *
67631502 G-TATTTAATTTCGTGTAGGACC-CTATTTGGGACAATGGCATC
1 GATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGCATC
*
67631544 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
67631586 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 27 0.29
43 37 0.39
44 30 0.32
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:67638436 original size:39 final size:39
Alignment explanation
Indices: 67638382--67638520 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
67638372 CATGTTTTTA
*
67638382 AGTATTGTGATATATGCTTCAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
* * **
67638421 AGTATTATGATATATGTTTAAATGTTATGTGATTATACA
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
*
67638460 AGTACTGTGATATATGCTTAAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
* *
67638499 TA-TAATGTGACATATGCTTAAA
1 -AGTATTGTGATATATGCTTAAA
67638521 AGTGAATATG
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 86 0.99
40 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
Found at i:67639929 original size:30 final size:30
Alignment explanation
Indices: 67639894--67640018 Score: 125
Period size: 30 Copynumber: 4.2 Consensus size: 30
67639884 TAAAGTTACT
*
67639894 TACATAATGTAAACAATAATATACATAACA
1 TACATAATGTAAACAGTAATATACATAACA
* *
67639924 TACATAATAG-AAATAGTAATAAACATAACA
1 TACATAAT-GTAAACAGTAATATACATAACA
* ** *
67639954 TACATGACATAAATAGTAATATAC-T-ACA
1 TACATAATGTAAACAGTAATATACATAACA
67639982 TAACATACA--TAAACAGTAATATACATAACA
1 T-ACATA-ATGTAAACAGTAATATACATAACA
67640012 TACATAA
1 TACATAA
67640019 AATCCATACT
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
28 19 0.24
29 11 0.14
30 49 0.61
31 1 0.01
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.26
Consensus pattern (30 bp):
TACATAATGTAAACAGTAATATACATAACA
Found at i:67639991 original size:28 final size:28
Alignment explanation
Indices: 67639934--67640019 Score: 99
Period size: 25 Copynumber: 3.1 Consensus size: 28
67639924 TACATAATAG
*
67639934 AAATAGTAATAAACATAACAT-ACATGACAT
1 AAATAGTAATATAC-T-ACATAACAT-ACAT
67639964 AAATAGTAATATACTACATAACATACAT
1 AAATAGTAATATACTACATAACATACAT
*
67639992 AAACAGT-A-ATA-TACATAACATACAT
1 AAATAGTAATATACTACATAACATACAT
67640017 AAA
1 AAA
67640020 ATCCATACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
25 17 0.32
26 3 0.06
27 1 0.02
28 14 0.26
29 5 0.09
30 13 0.25
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (28 bp):
AAATAGTAATATACTACATAACATACAT
Found at i:67640007 original size:16 final size:16
Alignment explanation
Indices: 67639960--67640009 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
67639950 AACATACATG
*
67639960 ACATAAATAGTAATAT
1 ACATAAACAGTAATAT
*
67639976 AC-T--ACA-TAACAT
1 ACATAAACAGTAATAT
67639988 ACATAAACAGTAATAT
1 ACATAAACAGTAATAT
67640004 ACATAA
1 ACATAA
67640010 CATACATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
15 4 0.15
16 13 0.48
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (16 bp):
ACATAAACAGTAATAT
Found at i:67640032 original size:30 final size:30
Alignment explanation
Indices: 67639910--67640042 Score: 139
Period size: 30 Copynumber: 4.5 Consensus size: 30
67639900 ATGTAAACAA
* *
67639910 TAATATACATAACATACATAATAGAAATAG
1 TAATATACATAACATACATAAAATAAATAG
* * *
67639940 TAATAAACATAACATACATGACATAAATAG
1 TAATATACATAACATACATAAAATAAATAG
* *
67639970 TAATATAC-T-ACATAACAT-ACATAAACAG
1 TAATATACATAACAT-ACATAAAATAAATAG
** *
67639998 TAATATACATAACATACATAAAATCCATAC
1 TAATATACATAACATACATAAAATAAATAG
67640028 TAATATACAT-ACATA
1 TAATATACATAACATA
67640043 ATAGACATAC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
28 21 0.24
29 15 0.17
30 52 0.59
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (30 bp):
TAATATACATAACATACATAAAATAAATAG
Found at i:67640037 original size:25 final size:25
Alignment explanation
Indices: 67639974--67640059 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 25
67639964 AAATAGTAAT
67639974 ATACTACATA-ACATACATAAACAGTA-
1 ATACTA-ATATACATACATAAA-AG-AC
**
67640000 ATA-TACATA-ACATACATAAAATCC
1 ATACTA-ATATACATACATAAAAGAC
*
67640024 ATACTAATATACATACATAATAGAC
1 ATACTAATATACATACATAAAAGAC
67640049 ATACTAATATA
1 ATACTAATATA
67640060 GCAATTGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.13
25 42 0.81
26 3 0.06
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.27
Consensus pattern (25 bp):
ATACTAATATACATACATAAAAGAC
Found at i:67640044 original size:13 final size:12
Alignment explanation
Indices: 67640009--67640059 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
67639999 AATATACATA
*
67640009 ACATACATAAAAT
1 ACATAC-TAATAT
*
67640022 CCATACTAATAT
1 ACATACTAATAT
*
67640034 ACATACATAATAG
1 ACATAC-TAATAT
67640047 ACATACTAATAT
1 ACATACTAATAT
67640059 A
1 A
67640060 GCAATTGACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 16 0.50
13 16 0.50
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (12 bp):
ACATACTAATAT
Found at i:67640056 original size:12 final size:12
Alignment explanation
Indices: 67640023--67640057 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
67640013 ACATAAAATC
*
67640023 CATACTAATATA
1 CATACTAATAGA
67640035 CATACATAATAGA
1 CATAC-TAATAGA
67640048 CATACTAATA
1 CATACTAATA
67640058 TAGCAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (12 bp):
CATACTAATAGA
Found at i:67642884 original size:22 final size:22
Alignment explanation
Indices: 67642871--67642948 Score: 147
Period size: 22 Copynumber: 3.5 Consensus size: 22
67642861 ATGTGTTTAT
67642871 GAGTAAGACCATATCTGTGTGC
1 GAGTAAGACCATATCTGTGTGC
67642893 GAGTAAGACCATATCTGTGTGC
1 GAGTAAGACCATATCTGTGTGC
*
67642915 GAGTAAGACCATATATGTGTGC
1 GAGTAAGACCATATCTGTGTGC
67642937 GAGTAAGACCAT
1 GAGTAAGACCAT
67642949 GGCATCGATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (22 bp):
GAGTAAGACCATATCTGTGTGC
Found at i:67644684 original size:98 final size:99
Alignment explanation
Indices: 67644576--67644768 Score: 379
Period size: 98 Copynumber: 2.0 Consensus size: 99
67644566 CATGAAATTG
67644576 TATGAATTTTTTTTTATATGATATACATGTGTTCGGCTGGTTATAGTTAAATGTTATGTAATATG
1 TATGAATTTTTTTTTATATGATATACATGTGTTCGGCTGGTTATAGTTAAATGTTATGTAATATG
67644641 ATAGCTAGTCCCTAAACCATGATTATAAGTATTT
66 ATAGCTAGTCCCTAAACCATGATTATAAGTATTT
67644675 TATG-ATTTTTTTTTATATGATATACATGTGTTCGGCTGGTTATAGTTAAATGTTATGTAATATG
1 TATGAATTTTTTTTTATATGATATACATGTGTTCGGCTGGTTATAGTTAAATGTTATGTAATATG
67644739 ATAGCTAGTCCCTAAACCATGATTATAAGT
66 ATAGCTAGTCCCTAAACCATGATTATAAGT
67644769 TGATTAAACA
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 90 0.96
99 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (99 bp):
TATGAATTTTTTTTTATATGATATACATGTGTTCGGCTGGTTATAGTTAAATGTTATGTAATATG
ATAGCTAGTCCCTAAACCATGATTATAAGTATTT
Found at i:67645586 original size:139 final size:141
Alignment explanation
Indices: 67645290--67645572 Score: 389
Period size: 138 Copynumber: 2.0 Consensus size: 141
67645280 ACGTAGATAA
* *
67645290 AATTAATATATGAATTTGATTCATGCAAAATATTATTAATTGTATATATTTCACCAGATTTTTTA
1 AATTAATATATGAATTTGATTCATACAAAATATTATTAATTGTATATATTTCACCAGATTTATTA
* * * * *
67645355 ATATAACAATTATATTAATTAATTTTTATCAAAATATAAAAAATATGGAAATTAATATTTTTTTT
66 ATATAACAATTATATTAATGAATTTTGATCAAAATATAAAAAACATAGAAATTAATATTTGTTTT
*
67645420 GGAAAGAATAC
131 GGAAAAAATAC
*
67645431 AATTAATATATGAATTTGATTCATAC-AAA-A-TATTAATTGTATATATTTTACC-GAATTTATT
1 AATTAATATATGAATTTGATTCATACAAAATATTATTAATTGTATATATTTCACCAG-ATTTATT
* *
67645492 AATATAA-ATAGTTATATTAATGAATTTTGGTCAAAATATAAAAGACATAGAAATTAATA-TTGT
65 AATATAACA-A-TTATATTAATGAATTTTGATCAAAATATAAAAAACATAGAAATTAATATTTGT
*
67645555 TTTGGAAAAAATAT
128 TTTGGAAAAAATAC
67645569 AATT
1 AATT
67645573 CCTTTTCCTA
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
137 2 0.02
138 54 0.43
139 43 0.34
140 3 0.02
141 25 0.20
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (141 bp):
AATTAATATATGAATTTGATTCATACAAAATATTATTAATTGTATATATTTCACCAGATTTATTA
ATATAACAATTATATTAATGAATTTTGATCAAAATATAAAAAACATAGAAATTAATATTTGTTTT
GGAAAAAATAC
Found at i:67648623 original size:17 final size:17
Alignment explanation
Indices: 67648601--67648635 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
67648591 TGTGTCCCCT
67648601 GCACCTTAAAATTTTAA
1 GCACCTTAAAATTTTAA
67648618 GCACCTTAAAATTTTAA
1 GCACCTTAAAATTTTAA
67648635 G
1 G
67648636 TCAGTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (17 bp):
GCACCTTAAAATTTTAA
Found at i:67652629 original size:28 final size:28
Alignment explanation
Indices: 67652589--67652660 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
67652579 TAAATTGTTC
67652589 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
67652617 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
67652645 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
67652661 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:67656569 original size:27 final size:27
Alignment explanation
Indices: 67656538--67656625 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
67656528 CTGCCAGAAT
**
67656538 AGATAATGTGATAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGTCACCAGATAC
*
67656565 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGTCACCAGATAC
67656592 AGATATATGTGGCAGA-TCCACCAGAT-C
1 AGATA-ATGTGGCAGAGT-CACCAGATAC
67656619 AGATAAT
1 AGATAAT
67656626 TATGGCATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.04
27 35 0.66
28 16 0.30
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
AGATAATGTGGCAGAGTCACCAGATAC
Found at i:67656596 original size:54 final size:54
Alignment explanation
Indices: 67656531--67656642 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
67656521 AGCATGGCTG
* * *
67656531 CCAGAATAGATA-ATGTGATAGAGT-CACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGA-TCCACCAGAT-CAGATAATCATGGCAGAGCCA
* * *
67656585 CCAGAACAGATATATGTGGCAGATCCACCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATATATGTGACAGATCCACCAGATCAGATAATCATGGCAGAGCCA
67656639 CCAG
1 CCAG
67656643 GACACTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGATCCACCAGATCAGATAATCATGGCAGAGCCA
Found at i:67656631 original size:27 final size:27
Alignment explanation
Indices: 67656550--67656642 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
67656540 ATAATGTGAT
* *
67656550 AGAGTCACCAGATACAGATAATCGTGGC
1 AGAGCCACCAGAT-CAGATAATTGTGGC
*
67656578 AGAGCCACCAGAACAGAT-ATATGTGGC
1 AGAGCCACCAGATCAGATAAT-TGTGGC
* *
67656605 AGATCCACCAGATCAGATAATTATGGC
1 AGAGCCACCAGATCAGATAATTGTGGC
*
67656632 ATAGCCACCAG
1 AGAGCCACCAG
67656643 GACACTTCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 40 0.73
28 13 0.24
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATAATTGTGGC
Found at i:67657073 original size:8 final size:8
Alignment explanation
Indices: 67657056--67657088 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
67657046 TCTCAAAATA
67657056 TCGGCTTT
1 TCGGCTTT
*
67657064 TCGGCATT
1 TCGGCTTT
67657072 TCGGCTTT
1 TCGGCTTT
67657080 TCGGCTTT
1 TCGGCTTT
67657088 T
1 T
67657089 GCCAATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:67667302 original size:16 final size:17
Alignment explanation
Indices: 67667281--67667312 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
67667271 TATTTAGAGT
67667281 AAACTG-AAACTGTAGG
1 AAACTGAAAACTGTAGG
67667297 AAACTGAAAACTGTAG
1 AAACTGAAAACTGTAG
67667313 TGGGACCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (17 bp):
AAACTGAAAACTGTAGG
Found at i:67671356 original size:90 final size:90
Alignment explanation
Indices: 67671203--67671415 Score: 417
Period size: 90 Copynumber: 2.4 Consensus size: 90
67671193 GGTGATTTTT
67671203 CAAAATCACGTCACTGCTACTGTCCAAAACAGTTTTATTGCTAATTCACTCTTTCTGAGACTGGT
1 CAAAATCACGTCACTGCTACTGTCCAAAACAGTTTTATTGCTAATTCACTCTTTCTGAGACTGGT
67671268 TAAAATGATGTATGAAATGATACCC
66 TAAAATGATGTATGAAATGATACCC
67671293 CAAAATCACGTCACTGCTACTGTCCAAAACAGTTTTATTGCTAATTCACTCTTTCTGAGACTGGT
1 CAAAATCACGTCACTGCTACTGTCCAAAACAGTTTTATTGCTAATTCACTCTTTCTGAGACTGGT
67671358 TAAAATGATGTATGAAATGATACCC
66 TAAAATGATGTATGAAATGATACCC
*
67671383 CAAAATCACGTCACTGCTACTGTCCAGAACAGT
1 CAAAATCACGTCACTGCTACTGTCCAAAACAGT
67671416 CCCCTATACT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 122 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (90 bp):
CAAAATCACGTCACTGCTACTGTCCAAAACAGTTTTATTGCTAATTCACTCTTTCTGAGACTGGT
TAAAATGATGTATGAAATGATACCC
Found at i:67672137 original size:15 final size:15
Alignment explanation
Indices: 67672109--67672156 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
67672099 TGAATACATG
67672109 GAAACTATTG-TATAT
1 GAAA-TATTGATATAT
67672124 GAAATATTGATATAAT
1 GAAATATTGATAT-AT
*
67672140 GAAATAAATGATATAT
1 GAAAT-ATTGATATAT
67672156 G
1 G
67672157 TTTATAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.17
15 7 0.24
16 10 0.34
17 7 0.24
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (15 bp):
GAAATATTGATATAT
Found at i:67672936 original size:48 final size:48
Alignment explanation
Indices: 67672865--67673002 Score: 213
Period size: 48 Copynumber: 2.9 Consensus size: 48
67672855 GGATGTTACA
* * *
67672865 ACATATCATAGCCAATGCCATGTCCCAGACATGGTTTTACACTGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
*
67672913 ACATATTATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
* * *
67672961 ATATATCATCGCTGATGCCATGTCCCAGACATGGGCTTACAC
1 ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC
67673003 GGAATCTCAT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
ACATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
Found at i:67684321 original size:48 final size:48
Alignment explanation
Indices: 67684269--67684403 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 48
67684259 ATGAATCCAC
* *
67684269 ATATCATAGCTGATGCCATGTCCTAGACATGGTCTTACACT-GGCACAT
1 ATATCATAGCTGATGCCATGTCCCAAACATGGTCTTACA-TAGGCACAT
*
67684317 ATATCATCG-TCGATGCCATGTCCCAAACATGGTCTTACATAGGCACAT
1 ATATCATAGCT-GATGCCATGTCCCAAACATGGTCTTACATAGGCACAT
* *
67684365 ATCTCGGATA-CCGATGCCATGTCCCAAACATGGTCTTAC
1 ATATC--ATAGCTGATGCCATGTCCCAAACATGGTCTTAC
67684404 GCGAAATCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
47 2 0.03
48 45 0.59
49 27 0.36
50 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
ATATCATAGCTGATGCCATGTCCCAAACATGGTCTTACATAGGCACAT
Found at i:67689693 original size:184 final size:184
Alignment explanation
Indices: 67689384--67689751 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
67689374 CAAAAGCTTC
67689384 CACGATAAATGAGATTTTAAAATAAATAACATTTTAAAGTAAATACCTTTGATAGTGACACAAGT
1 CACGATAAATGAGATTTTAAAATAAATAACATTTTAAAGTAAATACCTTTGATAGTGACACAAGT
67689449 TTTAAAATTATTTTCTAGATCACACAATGAGGCTAAATAAACATTGGGCTTTTCAAATGATATCA
66 TTTAAAATTATTTTCTAGATCACACAATGAGGCTAAATAAACATTGGGCTTTTCAAATGATATCA
67689514 TATTTTACGAAAAACACTTCAATGTGACATCGCCAGATTCGACCATAACGTTCA
131 TATTTTACGAAAAACACTTCAATGTGACATCGCCAGATTCGACCATAACGTTCA
67689568 CACGATAAATGAGATTTTAAAATAAATAACATTTTAAAGTAAATACCTTTGATAGTGACACAAGT
1 CACGATAAATGAGATTTTAAAATAAATAACATTTTAAAGTAAATACCTTTGATAGTGACACAAGT
67689633 TTTAAAATTATTTTCTAGATCACACAATGAGGCTAAATAAACATTGGGCTTTTCAAATGATATCA
66 TTTAAAATTATTTTCTAGATCACACAATGAGGCTAAATAAACATTGGGCTTTTCAAATGATATCA
67689698 TATTTTACGAAAAACACTTCAATGTGACATCGCCAGATTCGACCATAACGTTCA
131 TATTTTACGAAAAACACTTCAATGTGACATCGCCAGATTCGACCATAACGTTCA
67689752 GGCCAGGTTT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (184 bp):
CACGATAAATGAGATTTTAAAATAAATAACATTTTAAAGTAAATACCTTTGATAGTGACACAAGT
TTTAAAATTATTTTCTAGATCACACAATGAGGCTAAATAAACATTGGGCTTTTCAAATGATATCA
TATTTTACGAAAAACACTTCAATGTGACATCGCCAGATTCGACCATAACGTTCA
Found at i:67692057 original size:18 final size:18
Alignment explanation
Indices: 67692036--67692099 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
67692026 ATTCATCATG
67692036 GTTACTGCACTGATTATT
1 GTTACTGCACTGATTATT
* * *
67692054 GTTACTGCATTGATCATG
1 GTTACTGCACTGATTATT
*
67692072 GTTACTGCACTGATTACT
1 GTTACTGCACTGATTATT
*
67692090 GCTACTGCAC
1 GTTACTGCAC
67692100 AGATCAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (18 bp):
GTTACTGCACTGATTATT
Found at i:67692077 original size:36 final size:36
Alignment explanation
Indices: 67692020--67692098 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
67692010 TCTGCTTGCA
* * *
67692020 TACTACATTCATCATGGTTACTGCACTGATTATTGT
1 TACTGCATTCATCATGGTTACTGCACTGATTACTGC
*
67692056 TACTGCATTGATCATGGTTACTGCACTGATTACTGC
1 TACTGCATTCATCATGGTTACTGCACTGATTACTGC
67692092 TACTGCA
1 TACTGCA
67692099 CAGATCAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (36 bp):
TACTGCATTCATCATGGTTACTGCACTGATTACTGC
Found at i:67692113 original size:36 final size:36
Alignment explanation
Indices: 67692030--67692114 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
67692020 TACTACATTC
* * * **
67692030 ATCATGGTTACTGCACTGATTATTGTTACTGCATTG
1 ATCATGATTACTGCACTGATTACTGCTACTGCACAG
*
67692066 ATCATGGTTACTGCACTGATTACTGCTACTGCACAG
1 ATCATGATTACTGCACTGATTACTGCTACTGCACAG
67692102 ATCAAT-ATTACTG
1 ATC-ATGATTACTG
67692115 AAATGGGCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 41 0.95
37 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (36 bp):
ATCATGATTACTGCACTGATTACTGCTACTGCACAG
Found at i:67703478 original size:30 final size:30
Alignment explanation
Indices: 67703442--67703501 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
67703432 GTAAGATTGA
*
67703442 AAATGTGTAAGTTATGTCTTCAAAATTAAG
1 AAATGTGCAAGTTATGTCTTCAAAATTAAG
*
67703472 AAATGTGCAAGTTATGTCTTCAAATTTAAG
1 AAATGTGCAAGTTATGTCTTCAAAATTAAG
67703502 CTATGCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (30 bp):
AAATGTGCAAGTTATGTCTTCAAAATTAAG
Found at i:67705577 original size:28 final size:29
Alignment explanation
Indices: 67705540--67705635 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
67705530 AAGTCTACAT
* *
67705540 ACATACATATGGCCCACTAGACCC-AATC
1 ACATTCATATGGCCCATTAGACCCAAATC
* *
67705568 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGACCCAAATC
* *
67705597 ACATTCATACGTCCCATTAGACCCAAATC
1 ACATTCATATGGCCCATTAGACCCAAATC
67705626 ACATTCATAT
1 ACATTCATAT
67705636 ACATGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 20 0.34
29 38 0.66
ACGTcount: A:0.33, C:0.32, G:0.09, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGACCCAAATC
Found at i:67708997 original size:40 final size:40
Alignment explanation
Indices: 67708942--67709083 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
67708932 NNNNNNNNNN
67708942 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
67708982 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
67709022 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
67709062 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
67709084 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.82
41 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:67709517 original size:149 final size:148
Alignment explanation
Indices: 67709247--67709543 Score: 522
Period size: 149 Copynumber: 2.0 Consensus size: 148
67709237 AGTTAGGTTT
*
67709247 GATCCCCTCTGTATGAATATACTGGTTGAGGTGTGAAGTAAGTATGGTTTTGGGAATATGCGTAT
1 GATCCCCTCTGTATGAATATACTGGTTGAGGTGTGAAGTAAGTATGATTTTGGGAATATGCGTAT
*
67709312 ATGCAACTATTCATTTAGACATATGAACGCTATACTTTAGTCGTAAATAATTTCATTACTTGAAC
66 ATGCAACTATTCATTTAGACATATGAACGCTATACTTTAGTCATAAATAATTTCATTACTTGAAC
67709377 TTACTAAGCATTAAAATG
131 TTACTAAGCATTAAAATG
* *
67709395 NGATCCCCTGTGTATGAATATACTGGTTGAGGTGTGAAGTAAGTGTGATTTTGGGAATATGCGTA
1 -GATCCCCTCTGTATGAATATACTGGTTGAGGTGTGAAGTAAGTATGATTTTGGGAATATGCGTA
* * *
67709460 TATGCAACTATTCATTTAGTCATATGAACGCTGTACTTTAGTCATAAATGATTTCATTACTTGAA
65 TATGCAACTATTCATTTAGACATATGAACGCTATACTTTAGTCATAAATAATTTCATTACTTGAA
67709525 CTTACTAAGCATTAAAATG
130 CTTACTAAGCATTAAAATG
67709544 CTCACTCTGT
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 141 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (148 bp):
GATCCCCTCTGTATGAATATACTGGTTGAGGTGTGAAGTAAGTATGATTTTGGGAATATGCGTAT
ATGCAACTATTCATTTAGACATATGAACGCTATACTTTAGTCATAAATAATTTCATTACTTGAAC
TTACTAAGCATTAAAATG
Found at i:67713657 original size:23 final size:23
Alignment explanation
Indices: 67713625--67713671 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
67713615 ACTATGCACC
67713625 GGTAGAATTCCAGAGAAGAGGAG
1 GGTAGAATTCCAGAGAAGAGGAG
*
67713648 GGTAGGATTCCAGAGAAGAGGAG
1 GGTAGAATTCCAGAGAAGAGGAG
67713671 G
1 G
67713672 TGAGTCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.43, T:0.13
Consensus pattern (23 bp):
GGTAGAATTCCAGAGAAGAGGAG
Found at i:67713927 original size:29 final size:29
Alignment explanation
Indices: 67713860--67713984 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
67713850 AAGTCTACAT
* *
67713860 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
67713888 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
67713917 ACATTCGTATGGCCCATTAGGCTCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
67713946 ACATTCATACAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
67713975 ACATTCATAT
1 ACATTCATAT
67713985 ACATGCTTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 21 0.25
29 64 0.75
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:67727151 original size:15 final size:16
Alignment explanation
Indices: 67727126--67727155 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
67727116 AAATATTATT
67727126 TAAAAATATTTATATA
1 TAAAAATATTTATATA
67727142 TAAAAA-ATTTATAT
1 TAAAAATATTTATAT
67727156 TTTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAAATATTTATATA
Found at i:67727400 original size:50 final size:51
Alignment explanation
Indices: 67727340--67727442 Score: 190
Period size: 50 Copynumber: 2.0 Consensus size: 51
67727330 TGTTAATAAT
67727340 TTACTTCAGATAATTATTTTATTTATTAACAA-ATTTTTTTATGTTCGAAC
1 TTACTTCAGATAATTATTTTATTTATTAACAATATTTTTTTATGTTCGAAC
*
67727390 TTACTTCAGATAATTATTTTATTTATTAACAATTTTTTTTTATGTTCGAAC
1 TTACTTCAGATAATTATTTTATTTATTAACAATATTTTTTTATGTTCGAAC
67727441 TT
1 TT
67727443 TCTAAGCCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 32 0.63
51 19 0.37
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (51 bp):
TTACTTCAGATAATTATTTTATTTATTAACAATATTTTTTTATGTTCGAAC
Found at i:67733165 original size:29 final size:29
Alignment explanation
Indices: 67733132--67733205 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
67733122 GTTGTGAGAT
* *
67733132 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
67733161 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
67733190 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67733206 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:67744559 original size:34 final size:34
Alignment explanation
Indices: 67744498--67744565 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
67744488 GGCTTAGTCT
* *
67744498 CAGACTGCTACTATTTCTAGAACAGGCTCAGGCC
1 CAGACTGCTACTATTACTAGAACAGGCTAAGGCC
*
67744532 CAGACTGCTACTATTACT-GAAATAGGCTAAGGCC
1 CAGACTGCTACTATTACTAG-AACAGGCTAAGGCC
67744566 TAACTGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (34 bp):
CAGACTGCTACTATTACTAGAACAGGCTAAGGCC
Found at i:67751671 original size:34 final size:34
Alignment explanation
Indices: 67751632--67751714 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
67751622 TTGAAATGTT
* *
67751632 AAATGGGCTTAGGCCCAGACTACTACTGTTACTG
1 AAATGGGCTAAGGCCCAGACTACTACTATTACTG
* * *
67751666 GAATGGGCTCAGGCCCAGACTGCTACTATTACTG
1 AAATGGGCTAAGGCCCAGACTACTACTATTACTG
*
67751700 AAATAGGCTAAGGCC
1 AAATGGGCTAAGGCC
67751715 TAACTGATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (34 bp):
AAATGGGCTAAGGCCCAGACTACTACTATTACTG
Found at i:67770717 original size:29 final size:30
Alignment explanation
Indices: 67770661--67770727 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 30
67770651 ATGCATGAGA
67770661 CCCTAAACTTTTTATTAATTACACATTT-T
1 CCCTAAACTTTTTATTAATTACACATTTAT
*
67770690 CCCTAAACTTTTATATT-CTCTACA-ATTTAGT
1 CCCTAAACTTTT-TATTAAT-TACACATTTA-T
67770721 CCCTAAA
1 CCCTAAA
67770728 GAATACAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 17 0.52
30 8 0.24
31 8 0.24
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.43
Consensus pattern (30 bp):
CCCTAAACTTTTTATTAATTACACATTTAT
Found at i:67785771 original size:29 final size:29
Alignment explanation
Indices: 67785738--67785811 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
67785728 GTTGTGAGAT
* *
67785738 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
67785767 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
67785796 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
67785812 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:67788385 original size:57 final size:57
Alignment explanation
Indices: 67788258--67788393 Score: 182
Period size: 57 Copynumber: 2.4 Consensus size: 57
67788248 TTATAGAAAG
* * * * * * *
67788258 GATTTAGCCCGAACGGGAAATCCTAATTGAGCTCTTTTGAGCATACGTTACATAAAG
1 GATTTAGCCTGGACTGGTAATCCTAATTGAGCCCTTCTGAGCATACGTTACATAAAA
* * *
67788315 GATTTAGCATGGACTGGTAATCCTAATTGGGCCCTTCTGAGCATATGTTACATAAAA
1 GATTTAGCCTGGACTGGTAATCCTAATTGAGCCCTTCTGAGCATACGTTACATAAAA
67788372 GATTTAGCCTGGACTGGTAATC
1 GATTTAGCCTGGACTGGTAATC
67788394 TTGTAATACG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (57 bp):
GATTTAGCCTGGACTGGTAATCCTAATTGAGCCCTTCTGAGCATACGTTACATAAAA
Found at i:67795226 original size:39 final size:40
Alignment explanation
Indices: 67795109--67795291 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
67795099 GCTACTCGTT
*
67795109 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
67795149 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
67795189 CAAGTGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
67795228 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
67795269 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
67795292 AACATCATTC
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.61
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:67795253 original size:79 final size:80
Alignment explanation
Indices: 67795111--67795291 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
67795101 TACTCGTTCA
* * *
67795111 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
67795176 TTAGTAAC-TCGCAC
66 ATAGTAACTTAGCAC
* **
67795190 AAGTGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 AA-TGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
67795252 GATATGGTCACTTAGCAC
63 GATATAGTAACTTAGCAC
*
67795270 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
67795292 AACATCATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 56 0.65
80 26 0.30
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:67797456 original size:40 final size:40
Alignment explanation
Indices: 67797398--67797601 Score: 261
Period size: 40 Copynumber: 5.1 Consensus size: 40
67797388 CGGATGATAA
* *
67797398 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
67797438 TCGGGCTAAGTCCTGAAGGCATTTTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
67797478 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
67797518 CCGGGCTATGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67797558 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
67797598 CCGG
1 CCGG
67797602 TTAAATCGCG
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67805653 original size:40 final size:39
Alignment explanation
Indices: 67805596--67805771 Score: 203
Period size: 40 Copynumber: 4.4 Consensus size: 39
67805586 GATGATAACA
* * *
67805596 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGAGTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-TCC
*
67805636 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCC
*
67805676 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTATATCC
* * *
67805716 GGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATATCC
* *
67805756 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
67805772 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 17 0.14
40 101 0.83
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCC
Found at i:67805729 original size:80 final size:80
Alignment explanation
Indices: 67805596--67805771 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
67805586 GATGATAACA
* * * * * *
67805596 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGAGTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTCGAG
67805661 CGAGTTA-CTATATCC
66 CGAG-TAGCTATATCC
67805676 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTCG
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTCG
67805739 AGCGAGTAGCTATATCC
64 AGCGAGTAGCTATATCC
* *
67805756 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
67805772 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
79 18 0.21
80 65 0.76
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTCGAG
CGAGTAGCTATATCC
Found at i:67809026 original size:40 final size:40
Alignment explanation
Indices: 67808954--67809174 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
67808944 TATTCGGATG
* *
67808954 ATAACCGGGCTAAGT-CTGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
67808993 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
67809033 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
67809073 ATATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
67809113 ATAACCGGGCTAAATCCCGAAGGCATTTGAGTGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
67809153 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
67809175 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 32 0.19
40 138 0.81
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:67817068 original size:43 final size:43
Alignment explanation
Indices: 67817017--67817102 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
67817007 TTTGTGACTC
67817017 CGATATGT-GCTTACGA-GTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGGC-TAC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
67817060 CGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCAT
67817103 TATACGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
42 2 0.05
43 34 0.87
44 3 0.08
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (43 bp):
CGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:67821122 original size:43 final size:43
Alignment explanation
Indices: 67820967--67821123 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
67820957 TGTGTCATCG
*
67820967 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * *
67821011 TGTAAGACCATGTCTGAGACGTTGGAATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* *
67821053 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGAGTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTACA
* *
67821096 TGTAAGACCACGTCTTGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
67821124 TGTATGAGAT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.30
43 36 0.39
44 28 0.30
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:67821138 original size:86 final size:86
Alignment explanation
Indices: 67820964--67821135 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 86
67820954 ATATGTGTCA
* * *
67820964 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACATGTAAGACCATGTCTGAG
1 TCGTGTAAGACCACGTCTGGGAAGTTGGCATCGACTTATGATGTACATGTAAGACCACGTCTGAG
**
67821029 ACGTTGGAATCGTATTTGATT
66 ACGTTGGAATCGTATGAGATT
*
67821050 TCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGA-TATTTGA-GTACATGTAAGACCACGTCT
1 TCGTGTAAGACCAC-GTCTGGGA-AGTTGGCATCGACT-TATGATGTACATGTAAGACCACGTC-
* * *
67821111 TG-GATGTTGGCATTGTATGAGATT
62 TGAGACGTTGGAATCGTATGAGATT
67821135 T
1 T
67821136 TCGAGTTATC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
85 37 0.51
86 35 0.48
87 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (86 bp):
TCGTGTAAGACCACGTCTGGGAAGTTGGCATCGACTTATGATGTACATGTAAGACCACGTCTGAG
ACGTTGGAATCGTATGAGATT
Found at i:67821442 original size:47 final size:47
Alignment explanation
Indices: 67821391--67821484 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
67821381 TGTATTTTGC
67821391 CTTAAATTTTATGAATGAATTGATGTTATTTGTTAAGTTTATTTGTA
1 CTTAAATTTTATGAATGAATTGATGTTATTTGTTAAGTTTATTTGTA
67821438 CTTAAATTTTATGAATGAATTGATGTTATTTGTTAAGTTTATTTGTA
1 CTTAAATTTTATGAATGAATTGATGTTATTTGTTAAGTTTATTTGTA
67821485 TATGGCTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (47 bp):
CTTAAATTTTATGAATGAATTGATGTTATTTGTTAAGTTTATTTGTA
Found at i:67822307 original size:55 final size:54
Alignment explanation
Indices: 67822191--67822310 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 54
67822181 CCCTATGATT
* * *
67822191 TTAAGTCAGTCTTGAGCACGGCCAAGGCACACGGGCGTGTGGCTAGCTGTGTGAC
1 TTAAGTCAGTCTTGACCACGGCCAAGGCACACGGGCATGT-GCTAGCTATGTGAC
**
67822246 CCAAGTCAGT-TTCGACCACGGCCAAGGCACACGGGCATGT-CTTATGGCTATGTGA-
1 TTAAGTCAGTCTT-GACCACGGCCAAGGCACACGGGCATGTGC-TA--GCTATGTGAC
67822301 TTAAGTCAGT
1 TTAAGTCAGT
67822311 ATGTATGCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
53 1 0.02
54 4 0.07
55 41 0.76
56 8 0.15
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (54 bp):
TTAAGTCAGTCTTGACCACGGCCAAGGCACACGGGCATGTGCTAGCTATGTGAC
Found at i:67830670 original size:23 final size:24
Alignment explanation
Indices: 67830596--67830680 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
67830586 GCTATAGATG
*
67830596 GGAAGCTCA-TAAGAGCCATAATCA
1 GGAAGCTCACAAAGAGCCAT-ATCA
* * *
67830620 GGAAGTTCACAAAGAACCATATCG
1 GGAAGCTCACAAAGAGCCATATCA
**
67830644 GGAAGCTCACGTAGAGCC-TATCA
1 GGAAGCTCACAAAGAGCCATATCA
*
67830667 GGAAGCTTACAAAG
1 GGAAGCTCACAAAG
67830681 TTCAATGTAA
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
23 15 0.31
24 25 0.52
25 8 0.17
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATATCA
Found at i:67836307 original size:21 final size:20
Alignment explanation
Indices: 67836269--67836308 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67836259 GTACAGCTTT
*
67836269 GTTCAAAATCTTCTATACAA
1 GTTCAAAATCTTCGATACAA
*
67836289 GTTCTAAATTCTTCGATACA
1 GTTC-AAAATCTTCGATACA
67836309 CATATCCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (20 bp):
GTTCAAAATCTTCGATACAA
Done.