Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 368 of 378
Found at i:110229435 original size:3 final size:3
Alignment explanation
Indices: 110229424--110229466 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
110229414 AAAAAATCTG
*
110229424 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110229467 AATTGTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:110229844 original size:3 final size:3
Alignment explanation
Indices: 110229836--110229877 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
110229826 TAACGCCTCT
* * *
110229836 TTA TTA TTA TTA CTA TT- GTA TTA TTA CTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110229878 ATTTTCCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:110229859 original size:14 final size:15
Alignment explanation
Indices: 110229840--110229880 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
110229830 GCCTCTTTAT
110229840 TATTATTACTATT-G
1 TATTATTACTATTAG
*
110229854 TATTATTACTATTAT
1 TATTATTACTATTAG
110229869 TATTATTA-TATT
1 TATTATTACTATT
110229881 TTCCCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAG
Found at i:110233811 original size:19 final size:19
Alignment explanation
Indices: 110233791--110233831 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
110233781 TTGTTTTGCA
*
110233791 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
110233811 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
110233830 TT
1 TT
110233832 TGTGAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:110236451 original size:29 final size:30
Alignment explanation
Indices: 110236408--110236467 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
110236398 CTCACTGCAA
110236408 AGGATTACACATTGCCGGGGGTATTGATTG
1 AGGATTACACATTGCCGGGGGTATTGATTG
110236438 AGGA-TACACATTGCCGGGGGTATTGATTG
1 AGGATTACACATTGCCGGGGGTATTGATTG
110236467 A
1 A
110236468 TAATGGATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.28
Consensus pattern (30 bp):
AGGATTACACATTGCCGGGGGTATTGATTG
Found at i:110241838 original size:65 final size:65
Alignment explanation
Indices: 110241734--110241897 Score: 217
Period size: 65 Copynumber: 2.6 Consensus size: 65
110241724 CATTCATACA
* *
110241734 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTTAATCATAGCAT-CTAGTTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATA-CATCCTAATTATTTGA
*
110241798 T
65 C
* * * *
110241799 TCATTCATAACACGTTTAATTAAGAGCATTTGATTCATTTCGATCATACATCCTAATTATTTGAC
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATACATCCTAATTATTTGAC
* *
110241864 ACATTCAT--CACATCTAGTTAGGAGCATTTGATTC
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTC
110241898 GACCATAGCA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 22 0.26
64 3 0.03
65 61 0.71
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (65 bp):
TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATACATCCTAATTATTTGAC
Found at i:110242310 original size:42 final size:42
Alignment explanation
Indices: 110242256--110242405 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
110242246 GAACCTTAAA
*
110242256 TCCCTAATCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
* * * * * * **
110242298 TCCCTAAGCAGTAGTGG-AGCAGATCGAAAATGAAGAACCTTAAA
1 TCCCTAAGCAGTAG-GGTAACAGGTTG-AATTGCAG-ATCTTATC
** *
110242342 TCCCTAAATAGTAGGGTAACAGGTTGAATTACAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
*
110242384 TCCCTAAGCAGTAGGGAAACAG
1 TCCCTAAGCAGTAGGGTAACAG
110242406 ATCGAAGACA
Statistics
Matches: 81, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
42 43 0.53
43 15 0.19
44 23 0.28
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (42 bp):
TCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATC
Found at i:110242311 original size:86 final size:86
Alignment explanation
Indices: 110242210--110242484 Score: 356
Period size: 86 Copynumber: 3.2 Consensus size: 86
110242200 AGTGATTTTG
*
110242210 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAATCCCTAATCAGTAGGGTAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAATCCCTAATCAGTAGGGTAA
*
110242275 CAGGTTGAATTGCAGATCTTA
66 CAGGTTGAATTACAGATCTTA
* *
110242296 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGAAGAACCTTAAATCCCTAAAT-AGTAGGGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAATCCCT-AATCAGTAGGGTA
110242360 ACAGGTTGAATTACAGATCTTA
65 ACAGGTTGAATTACAGATCTTA
* * *** ** *
110242382 TCTCCCTAAGCAGTAG-GGAAACAGATCGAAGACAAAGGGGCTTAACCCCCTAAGCAGTAGGGTA
1 TCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAACCTTAAATCCCTAATCAGTAGGGTA
* * *
110242446 ACAGGCTAAATTTATAGATCTTA
65 ACAGGTTGAA-TTACAGATCTTA
* *
110242469 ACCCCCTAAGCAGTAG
1 TCTCCCTAAGCAGTAG
110242485 GGAAACGGAT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 4 0.02
86 134 0.81
87 28 0.17
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (86 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAATCCCTAATCAGTAGGGTAA
CAGGTTGAATTACAGATCTTA
Found at i:110242347 original size:44 final size:44
Alignment explanation
Indices: 110242212--110242348 Score: 136
Period size: 44 Copynumber: 3.2 Consensus size: 44
110242202 TGATTTTGTC
* * *
110242212 TCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAA
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAAATGAAGAACCTTAAA
* * * * * * * **
110242256 TCCCTAATCAGTAG-GGTAACAGGTTG-AATTGCAG-ATCTTATC
1 TCCCTAAGCAGTAGTGG-AGCAGATCGAAAATGAAGAACCTTAAA
110242298 TCCCTAAGCAGTAGTGGAGCAGATCGAAAATGAAGAACCTTAAA
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAAATGAAGAACCTTAAA
110242342 TCCCTAA
1 TCCCTAA
110242349 ATAGTAGGGT
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
42 24 0.35
43 14 0.21
44 30 0.44
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (44 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAAATGAAGAACCTTAAA
Found at i:110242497 original size:87 final size:86
Alignment explanation
Indices: 110242257--110242527 Score: 253
Period size: 86 Copynumber: 3.1 Consensus size: 86
110242247 AACCTTAAAT
* * * * * * *
110242257 CCCTAATCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGA
** * **
110242321 TCGAA-AATGAA-GAACCTTAAAT
65 TCGAAGAA--AAGGGGCTTTAACC
** * * * *
110242343 CCCTAAATAGTAGGGTAACAGGTTGAATTACAGATCTTATCTCCCTAAGCAGTAGGGAAACAGAT
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
110242408 CGAAGACAAAGGGGC-TTAACC
66 CGAAGA-AAAGGGGCTTTAACC
* *
110242429 CCCTAAGCAGTAGGGTAACAGGCTAAATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACGGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
** *
110242494 TCGAAGATGATGGGCTTTAACC
65 TCGAAGAAAAGGGGCTTTAACC
*
110242516 CCCTAAGTAGTA
1 CCCTAAGCAGTA
110242528 AGATCTTGCC
Statistics
Matches: 159, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
85 2 0.01
86 96 0.60
87 60 0.38
88 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (86 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
CGAAGAAAAGGGGCTTTAACC
Found at i:110244267 original size:17 final size:17
Alignment explanation
Indices: 110244241--110244274 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
110244231 ATTTATTTAC
110244241 TATGTTCTATT-TTATT
1 TATGTTCTATTATTATT
110244257 TATGCTTCTATTATTATT
1 TATG-TTCTATTATTATT
110244275 ATTGCCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (17 bp):
TATGTTCTATTATTATT
Found at i:110244413 original size:3 final size:3
Alignment explanation
Indices: 110244402--110244447 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
110244392 AAAAAATCTG
*
110244402 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110244448 AATTGTTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:110244826 original size:3 final size:3
Alignment explanation
Indices: 110244818--110244859 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
110244808 TAACGCCTCT
* * *
110244818 TTA TTA TTA TTA CTA TT- GTA TTA TTA CTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
110244860 ATTTTCCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:110244841 original size:14 final size:15
Alignment explanation
Indices: 110244822--110244862 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
110244812 GCCTCTTTAT
110244822 TATTATTACTATT-G
1 TATTATTACTATTAG
*
110244836 TATTATTACTATTAT
1 TATTATTACTATTAG
110244851 TATTATTA-TATT
1 TATTATTACTATT
110244863 TTCCCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAG
Found at i:110247072 original size:52 final size:52
Alignment explanation
Indices: 110246972--110247084 Score: 126
Period size: 52 Copynumber: 2.1 Consensus size: 52
110246962 CAGAAAAGAA
*
110246972 AAAAATAAATCATGGAAGAAATTATAAATTTTAATATAACTTTTTGAA-TTTT
1 AAAAATTAATCATGGAAGAAATTATAAATTTTAATAT-ACTTTTTGAATTTTT
*
110247024 AAAAATTAATC-TCGGAAGAAATT-TATAATTTGTAATAT-TTTTTATGAATTTTT
1 AAAAATTAATCAT-GGAAGAAATTATA-AATTT-TAATATACTTTT-TGAATTTTT
110247077 AAATAATT
1 AAA-AATT
110247085 GTAATAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
51 7 0.13
52 29 0.55
53 13 0.25
54 4 0.08
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (52 bp):
AAAAATTAATCATGGAAGAAATTATAAATTTTAATATACTTTTTGAATTTTT
Found at i:110247871 original size:40 final size:41
Alignment explanation
Indices: 110247796--110247872 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
110247786 CTTTGGCTTC
* * *
110247796 ATTTTTTATATTTTTATAAAAAAATATTTTATTTTTATTTT
1 ATTTTTTATATTTTTATAAAAAAAGACTGTATTTTTATTTT
*
110247837 ATTTTTT-TATTTTTTTAATAAAAAGACTGT-TTTTTA
1 ATTTTTTATATTTTTATAA-AAAAAGACTGTATTTTTA
110247873 ATTATAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
40 16 0.52
41 15 0.48
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (41 bp):
ATTTTTTATATTTTTATAAAAAAAGACTGTATTTTTATTTT
Found at i:110248073 original size:7 final size:7
Alignment explanation
Indices: 110248057--110248086 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
110248047 AATAGGGCGT
110248057 AAGA-AG
1 AAGAGAG
110248063 AAGAGAG
1 AAGAGAG
110248070 AAGAGAG
1 AAGAGAG
110248077 AAGAGAG
1 AAGAGAG
110248084 AAG
1 AAG
110248087 TGAGCGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (7 bp):
AAGAGAG
Found at i:110258537 original size:1 final size:1
Alignment explanation
Indices: 110258531--110258557 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
110258521 AAGGGCATCT
110258531 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
110258558 GGGGTCAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:110259617 original size:71 final size:71
Alignment explanation
Indices: 110259496--110259629 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
110259486 GTTTTCCAAG
* * *
110259496 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
110259561 GTTTCA
66 GTTTCA
* * *
110259567 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
110259630 CTACTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:110259728 original size:159 final size:160
Alignment explanation
Indices: 110259402--110259787 Score: 634
Period size: 160 Copynumber: 2.4 Consensus size: 160
110259392 ATTTTGTTTT
*
110259402 TTCCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TTCCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
110259467 TTTCTGCTTCTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
66 TTTCTACTTCTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
110259532 CAAGACACGTTGAGGTAATTTCAATTTATG
131 CAAGACACGTTGAGGTAATTTCAATTTATG
*
110259562 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
1 TTCCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* * *
110259627 TTTCTACTTTTTAATTCCTGTTGTTTC-A-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC
66 TTTCTACTTCTTAATTCATGTT-TTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC
110259690 TCAAGACACGTTGAGGTAATTTCAATTTATG
130 TCAAGACACGTTGAGGTAATTTCAATTTATG
* * * * * *
110259721 TTCC-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTCCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
110259785 TTT
66 TTT
110259788 ATGTTCCAAA
Statistics
Matches: 212, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
158 57 0.27
159 69 0.33
160 83 0.39
161 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (160 bp):
TTCCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTCTACTTCTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACACGTTGAGGTAATTTCAATTTATG
Found at i:110259768 original size:70 final size:70
Alignment explanation
Indices: 110259655--110259831 Score: 318
Period size: 70 Copynumber: 2.5 Consensus size: 70
110259645 TGTTGTTTCA
110259655 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
110259720 GTTCC
66 GTTCC
110259725 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
110259790 GTTCC
66 GTTCC
* ** *
110259795 AAAATCAACTCATATTGCGAGAAATGAATTGAGCCTC
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
110259832 GGGCACGCTG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 103 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (70 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTCC
Found at i:110259875 original size:69 final size:70
Alignment explanation
Indices: 110259663--110259899 Score: 296
Period size: 70 Copynumber: 3.4 Consensus size: 70
110259653 CAAAAATCAG
110259663 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTCCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTCCAAA
* *
110259728 ATCAG
66 ATTAA
110259733 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTCCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTCCAAA
*
110259798 ATCAA
66 ATTAA
** * * * * * * * **
110259803 CTCATATTGCGAGAAATGAATTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTATGTTAGAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTCCAAA
*
110259867 ATTGA
66 ATTAA
* * * *
110259872 CTCATCTTGCGAAAGATGAGTTAAGCCT
1 CTCATATTGCGAGAGGTGAGTTGAGCCT
110259900 TTTAACTTCT
Statistics
Matches: 148, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
69 53 0.36
70 95 0.64
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (70 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTCCAAA
ATTAA
Found at i:110260183 original size:13 final size:13
Alignment explanation
Indices: 110260165--110260189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110260155 TGAGTTGAGC
110260165 CTTTTAATTTCTG
1 CTTTTAATTTCTG
110260178 CTTTTAATTTCT
1 CTTTTAATTTCT
110260190 ATGTTTCAAA
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:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:110260197 original size:68 final size:67
Alignment explanation
Indices: 110260044--110260233 Score: 199
Period size: 67 Copynumber: 2.8 Consensus size: 67
110260034 TGCCAAGGTA
* * *
110260044 TTTTCAAATTCTA-TTTTCAAAAGTCAATTCATATTGCGAGGGGTGAGTTGAGCC-TTTAATTTC
1 TTTTCAAA-TCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
110260107 CGT
65 CGC
* *
110260110 TTTTCGAAATCTACTTTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT
1 TTTTC-AAATCTACTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT
*
110260175 CTGC
64 CCGC
* * * **
110260179 TTTT-AATTTCTA-TGTTTCAAAAATCAACCCATATTGCGAAAAATGAGTTGAGCCT
1 TTTTCAA-ATCTACT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
110260234 CAGTTCACCT
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
66 9 0.09
67 42 0.40
68 39 0.38
69 14 0.13
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (67 bp):
TTTTCAAATCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCC
GC
Found at i:110262033 original size:3 final size:3
Alignment explanation
Indices: 110262025--110262081 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
110262015 TGTATTTTCA
110262025 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110262073 TAT TAT TAT
1 TAT TAT TAT
110262082 ATTTTCATTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:110277875 original size:16 final size:15
Alignment explanation
Indices: 110277837--110277875 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
110277827 AAATTAATCC
*
110277837 AAATATATATTCTTA
1 AAATATATATTATTA
110277852 AAATTATATATTATATA
1 AAA-TATATATTAT-TA
110277869 AAATATA
1 AAATATA
110277876 AATCTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATATATTATTA
Found at i:110278958 original size:16 final size:18
Alignment explanation
Indices: 110278937--110278979 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
110278927 TTTTAAAATT
110278937 ATAAAAATATTCA-A-AA
1 ATAAAAATATTCATAGAA
110278953 ATAAAAATATTCATAGAA
1 ATAAAAATATTCATAGAA
*
110278971 ATTAAAATA
1 ATAAAAATA
110278980 AAGTACATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.54
17 1 0.04
18 10 0.42
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAATATTCATAGAA
Found at i:110280178 original size:66 final size:66
Alignment explanation
Indices: 110280072--110280201 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
110280062 TATGAGCTGG
**
110280072 TACCAAAATCGAGTCCTAAACAAGCAGATCTAATTTTAACAATTAGAACAATAACAATGAAAATT
1 TACCAAAATCGAGTCCTAAACAAGCAGATCTAATTTTAACAACCAGAACAATAACAATGAAAATT
110280137 A
66 A
*
110280138 TACCAAAATCGAGTCCTAAACAAGCAGATCTAATTTTAACAACCGGAACAATAACAATGAAAAT
1 TACCAAAATCGAGTCCTAAACAAGCAGATCTAATTTTAACAACCAGAACAATAACAATGAAAAT
110280202 GATGCATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.22
Consensus pattern (66 bp):
TACCAAAATCGAGTCCTAAACAAGCAGATCTAATTTTAACAACCAGAACAATAACAATGAAAATT
A
Found at i:110281885 original size:17 final size:17
Alignment explanation
Indices: 110281865--110281898 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110281855 AGGTTTAAGT
110281865 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
110281882 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
110281899 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:110295696 original size:2 final size:2
Alignment explanation
Indices: 110295689--110295718 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
110295679 AAATTATTAG
*
110295689 GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
110295719 TGGGAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:110299268 original size:53 final size:53
Alignment explanation
Indices: 110299199--110299299 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 53
110299189 TAGTAATGAG
* *
110299199 TGGATTAAGATTTACAAACCTATAAAAATGAAGTGATTAAATTCACTAGTGAT
1 TGGATTAAGATATACAAACCTATAAAAATGAAGTGACTAAATTCACTAGTGAT
* * * *
110299252 TGGATTAAGATATACAAAGCTATAAAAATGCATTGACTAAATTTACTA
1 TGGATTAAGATATACAAACCTATAAAAATGAAGTGACTAAATTCACTA
110299300 AAGAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.32
Consensus pattern (53 bp):
TGGATTAAGATATACAAACCTATAAAAATGAAGTGACTAAATTCACTAGTGAT
Found at i:110301510 original size:26 final size:28
Alignment explanation
Indices: 110301464--110301517 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
110301454 TTGCGTGCGT
110301464 ATATATGTGTATATATAAGCTATAGAAC
1 ATATATGTGTATATATAAGCTATAGAAC
*
110301492 ATAT-TGTGTGTATAT-AGCTATAGAAC
1 ATATATGTGTATATATAAGCTATAGAAC
110301518 TTCCTTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 11 0.44
27 10 0.40
28 4 0.16
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (28 bp):
ATATATGTGTATATATAAGCTATAGAAC
Found at i:110306449 original size:25 final size:26
Alignment explanation
Indices: 110306411--110306463 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
110306401 AATTCTCCCA
*
110306411 TATTTATTTTTAAAA-TATA-ATTTT
1 TATTTATATTTAAAATTATATATTTT
110306435 TATTTAATATTTAAAATTATATATTTT
1 TATTT-ATATTTAAAATTATATATTTT
110306462 TA
1 TA
110306464 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 9 0.36
26 4 0.16
27 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTATATTTAAAATTATATATTTT
Found at i:110309358 original size:31 final size:31
Alignment explanation
Indices: 110309323--110309388 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
110309313 AAGAGCCTAG
110309323 TGACTTAAATAAAAACTTTTGAATAATTCAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
* * * *
110309354 TGACTTAAATGAAAATTTTTGAATAGTTCAT
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
110309385 TGAC
1 TGAC
110309389 CAATTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:110315057 original size:21 final size:21
Alignment explanation
Indices: 110315033--110315074 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
110315023 ATTATTATGG
110315033 AAGCATGTAAAACTACTTTAA
1 AAGCATGTAAAACTACTTTAA
110315054 AAGCATGTAAAACTACTTTAA
1 AAGCATGTAAAACTACTTTAA
110315075 TTTTTACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAGCATGTAAAACTACTTTAA
Found at i:110315105 original size:2 final size:2
Alignment explanation
Indices: 110315098--110315125 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
110315088 TAAGTAGATC
110315098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110315126 AATAAGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110316697 original size:38 final size:38
Alignment explanation
Indices: 110316655--110316732 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
110316645 AAAGTCAAAT
110316655 CGTGGTCGAAAAAGATAATTATAAGCCGAACAACGGTG
1 CGTGGTCGAAAAAGATAATTATAAGCCGAACAACGGTG
110316693 CGTGGTCGAAAAAGATAATTATAAGCCGAACAACGGTG
1 CGTGGTCGAAAAAGATAATTATAAGCCGAACAACGGTG
110316731 CG
1 CG
110316733 GGAACTTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (38 bp):
CGTGGTCGAAAAAGATAATTATAAGCCGAACAACGGTG
Found at i:110317223 original size:25 final size:25
Alignment explanation
Indices: 110317189--110317240 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
110317179 ATAAAACACA
110317189 ATAATATGTATATTACTAATTACAT
1 ATAATATGTATATTACTAATTACAT
110317214 ATAATATGTATATTACTAATTACAT
1 ATAATATGTATATTACTAATTACAT
110317239 AT
1 AT
110317241 TTTAGATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
ATAATATGTATATTACTAATTACAT
Found at i:110320520 original size:18 final size:21
Alignment explanation
Indices: 110320497--110320545 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 21
110320487 CATGTTAGCG
110320497 AATAAAATATT-TA-ATAT-A
1 AATAAAATATTATATATATAA
110320515 AAT-AAATAATTATATATATAA
1 AATAAAAT-ATTATATATATAA
110320536 AATAAAATAT
1 AATAAAATAT
110320546 AAATAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 2 0.08
20 4 0.15
21 6 0.23
22 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAAATATTATATATATAA
Found at i:110320546 original size:18 final size:18
Alignment explanation
Indices: 110320497--110320555 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 18
110320487 CATGTTAGCG
*
110320497 AATAAAATATTTAATATA
1 AATAAAATATATAATATA
*
110320515 AAT-AAATA-ATTATATA
1 AATAAAATATATAATATA
*
110320531 TATAAAATA-A-AATATA
1 AATAAAATATATAATATA
*
110320547 AATAGAATA
1 AATAAAATA
110320556 AGTTTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 20 0.59
17 11 0.32
18 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAAAATATATAATATA
Found at i:110322738 original size:13 final size:14
Alignment explanation
Indices: 110322715--110322744 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
110322705 AATTGATTAA
110322715 AACTAAAATTAACT
1 AACTAAAATTAACT
110322729 AACT-AAATTAACT
1 AACTAAAATTAACT
110322742 AAC
1 AAC
110322745 GAGTGTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (14 bp):
AACTAAAATTAACT
Found at i:110328994 original size:29 final size:29
Alignment explanation
Indices: 110328953--110329014 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
110328943 GAGAAAGAAT
110328953 TGTA-TGAAACAGGGGTACCATGTCATCC
1 TGTATTGAAACAGGGGTACCATGTCATCC
110328981 TGTATTGAAACAGGGGTACCATGTCATCC
1 TGTATTGAAACAGGGGTACCATGTCATCC
110329010 TGTAT
1 TGTAT
110329015 CCCTTTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (29 bp):
TGTATTGAAACAGGGGTACCATGTCATCC
Found at i:110330468 original size:15 final size:15
Alignment explanation
Indices: 110330448--110330477 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110330438 TGAAAGAGGG
110330448 AAGAAGAAGACTAAA
1 AAGAAGAAGACTAAA
*
110330463 AAGAAGAAGATTAAA
1 AAGAAGAAGACTAAA
110330478 TCATTTCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.20, T:0.10
Consensus pattern (15 bp):
AAGAAGAAGACTAAA
Found at i:110342787 original size:17 final size:17
Alignment explanation
Indices: 110342762--110342794 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
110342752 ATTTAATCTT
*
110342762 TATATTTTAATTTCTAA
1 TATAATTTAATTTCTAA
110342779 TATAATTTAATTTCTA
1 TATAATTTAATTTCTA
110342795 TATTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TATAATTTAATTTCTAA
Found at i:110347850 original size:21 final size:21
Alignment explanation
Indices: 110347805--110347870 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
110347795 ATATATTAAA
*
110347805 AATATATATTTGT-ATTAATATT
1 AATATAT-TTTATAATTAA-ATT
110347827 AATATATTTTATAATTAAATT
1 AATATATTTTATAATTAAATT
* *
110347848 AAT-TTTTTTATTATTTAAATT
1 AATATATTTTA-TAATTAAATT
110347869 AA
1 AA
110347871 ATTATGGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 6 0.15
21 21 0.54
22 12 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AATATATTTTATAATTAAATT
Found at i:110352238 original size:13 final size:14
Alignment explanation
Indices: 110352209--110352243 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
110352199 TTGAGGGCTA
*
110352209 TAAATTATAATTTT
1 TAAATTATAATTAT
110352223 TAAATT-TAATTAT
1 TAAATTATAATTAT
110352236 TAAATTAT
1 TAAATTAT
110352244 TAATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TAAATTATAATTAT
Found at i:110352261 original size:28 final size:27
Alignment explanation
Indices: 110352209--110352262 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
110352199 TTGAGGGCTA
**
110352209 TAAATTATAATTTTTAAATTTAATTAT
1 TAAATTATAATTTTTAAATGAAATTAT
110352236 TAAATTATTAATATTTTAAA-GAAATTA
1 TAAATTA-TAAT-TTTTAAATGAAATTA
110352263 AAAATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 9 0.39
29 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TAAATTATAATTTTTAAATGAAATTAT
Found at i:110363434 original size:17 final size:17
Alignment explanation
Indices: 110363412--110363444 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
110363402 TATCATTGCT
*
110363412 TTTTTCTTTTAATTTTC
1 TTTTTCATTTAATTTTC
110363429 TTTTTCATTTAATTTT
1 TTTTTCATTTAATTTT
110363445 GGTACTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTAATTTTC
Found at i:110365831 original size:31 final size:31
Alignment explanation
Indices: 110365765--110365834 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
110365755 TTCAGCCCAC
*
110365765 TTCAGTCCCTAATGTTATCAAACGCTCCCGA
1 TTCAGTCCCTAATGTTATCAAACGCTCCAGA
* *
110365796 TTCAGTTCCTAATGTTATCAAACGTTCCTAG-
1 TTCAGTCCCTAATGTTATCAAACGCTCC-AGA
110365827 TTCAGTCC
1 TTCAGTCC
110365835 TTTAGATGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (31 bp):
TTCAGTCCCTAATGTTATCAAACGCTCCAGA
Found at i:110366793 original size:18 final size:17
Alignment explanation
Indices: 110366736--110366793 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
110366726 TTTAATAAAA
*
110366736 TTTATTACTTTTTTATAT
1 TTTATAACTTTTTTA-AT
110366754 TTATATATA-TTTTTATAAT
1 TT-TATA-ACTTTTT-TAAT
110366773 TTTATAACTTTTTTAAGT
1 TTTATAACTTTTTTAA-T
110366791 TTT
1 TTT
110366794 TGATAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 4 0.12
18 15 0.44
19 12 0.35
20 3 0.09
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATAACTTTTTTAAT
Found at i:110366803 original size:37 final size:36
Alignment explanation
Indices: 110366712--110366821 Score: 98
Period size: 37 Copynumber: 3.0 Consensus size: 36
110366702 AAAATTTCTA
* * *
110366712 ATATTTTTAAAATTTTTAATAAAATTTATTACTTTTTT
1 ATATTTATATAATTTTT-AT-AAATTTATAACTTTTTT
*
110366750 ATATTTATATATATTTTTATAATTTTATAACTTTTTT
1 ATATTTATATA-ATTTTTATAAATTTATAACTTTTTT
* * *
110366787 A-AGTTTTTGATAATTTTAATAAATTTA-AAATTTTT
1 ATA-TTTAT-ATAATTTTTATAAATTTATAACTTTTT
110366822 AAAGAATTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
36 8 0.13
37 33 0.54
38 14 0.23
39 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (36 bp):
ATATTTATATAATTTTTATAAATTTATAACTTTTTT
Found at i:110368034 original size:19 final size:18
Alignment explanation
Indices: 110367991--110368044 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
110367981 AATAATTAAT
110367991 TAATTTTTTAATACTTTTTA
1 TAATTTTTTAAT--TTTTTA
110368011 T--TTTTTATAATTTTTTA
1 TAATTTTT-TAATTTTTTA
110368028 TAATTTTTTGAATTTTT
1 TAATTTTTT-AATTTTT
110368045 AAAAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.23
18 6 0.20
19 16 0.53
20 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TAATTTTTTAATTTTTTA
Found at i:110368035 original size:27 final size:28
Alignment explanation
Indices: 110367991--110368045 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
110367981 AATAATTAAT
*
110367991 TAATTTTTTAATACTTTTT-ATTTTTTA
1 TAATTTTTTAATACTTTTTGAATTTTTA
*
110368018 TAATTTTTT-ATAATTTTTTGAATTTTTA
1 TAATTTTTTAAT-ACTTTTTGAATTTTTA
110368046 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.08
27 15 0.62
28 7 0.29
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
TAATTTTTTAATACTTTTTGAATTTTTA
Found at i:110368044 original size:10 final size:10
Alignment explanation
Indices: 110368010--110368036 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
110368000 AATACTTTTT
110368010 ATTTTTTATA
1 ATTTTTTATA
110368020 ATTTTTTATA
1 ATTTTTTATA
110368030 ATTTTTT
1 ATTTTTT
110368037 GAATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:110368090 original size:21 final size:20
Alignment explanation
Indices: 110368065--110368115 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
110368055 AACATTTAAA
*
110368065 AATATTTTTAATATATAATTT
1 AATATTTTTAAAATA-AATTT
*
110368086 TATATATTTTAAAATAAATTT
1 AATAT-TTTTAAAATAAATTT
110368107 AATACTTTT
1 AATA-TTTT
110368116 CTATTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTTTAAAATAAATTT
Found at i:110369103 original size:25 final size:26
Alignment explanation
Indices: 110369075--110369125 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
110369065 GTTATAAAAA
*
110369075 AATACATACAACATATA-GTATTAAG
1 AATAAATACAACATATAGGTATTAAG
*
110369100 AATAAATACAATATATATGGTATTAA
1 AATAAATACAACATATA-GGTATTAA
110369126 AAAAGTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
27 7 0.32
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (26 bp):
AATAAATACAACATATAGGTATTAAG
Found at i:110369335 original size:25 final size:27
Alignment explanation
Indices: 110369302--110369363 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
110369292 ATACACCTAA
* * *
110369302 AATATTAAAAGCCTATATATATAATAC
1 AATATTAAAAACATACATATATAATAC
*
110369329 -ATA-TAAAAATATACATATATAATAC
1 AATATTAAAAACATACATATATAATAC
110369354 AATATTAAAA
1 AATATTAAAA
110369364 TATTTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 18 0.62
26 6 0.21
27 5 0.17
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (27 bp):
AATATTAAAAACATACATATATAATAC
Found at i:110369502 original size:3 final size:3
Alignment explanation
Indices: 110369494--110369528 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
110369484 AATGTAAACC
110369494 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110369529 ATAACAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:110370030 original size:15 final size:16
Alignment explanation
Indices: 110370012--110370045 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
110370002 AAAAAGAAGA
110370012 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
110370027 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
110370042 GAGA
1 GAGA
110370046 GGGGAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:110370031 original size:22 final size:22
Alignment explanation
Indices: 110370006--110370058 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
110369996 AAGAAAAAAA
110370006 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
110370028 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
110370050 AGAAGAGAG
1 AGAAGAGAG
110370059 GGCTTGCGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:110370818 original size:23 final size:19
Alignment explanation
Indices: 110370767--110370805 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
110370757 TGGTTGTAAA
*
110370767 TGGGTTTGGGTAGGTTAAT
1 TGGGCTTGGGTAGGTTAAT
110370786 TGGGCTTGGGTAGGTTAAT
1 TGGGCTTGGGTAGGTTAAT
110370805 T
1 T
110370806 AGGGACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.41, T:0.41
Consensus pattern (19 bp):
TGGGCTTGGGTAGGTTAAT
Found at i:110371458 original size:13 final size:13
Alignment explanation
Indices: 110371440--110371464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110371430 TTTGAAACAT
110371440 AGAAATTAAAAGC
1 AGAAATTAAAAGC
110371453 AGAAATTAAAAG
1 AGAAATTAAAAG
110371465 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:110371598 original size:67 final size:67
Alignment explanation
Indices: 110371455--110371639 Score: 309
Period size: 67 Copynumber: 2.7 Consensus size: 67
110371445 TTAAAAGCAG
**
110371455 AAATTAAAAGGCTCAACTCACCTCTCGCCAA-ATGAGTTAATAATTTGAAAAGTAGATTTCGAAA
1 AAATT-AAAGGCTCAACTCACCTCTCG-CAATATGAGTTAAT-CCTTGAAAAGTAGATTTCGAAA
*
110371519 AACGG
63 AACGA
110371524 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAAGTAGATTTCGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAAGTAGATTTCGAAAAAC
110371589 GA
66 GA
110371591 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAA
110371640 ATTAAAAACC
Statistics
Matches: 112, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
67 76 0.68
68 31 0.28
69 5 0.04
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (67 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAAGTAGATTTCGAAAAAC
GA
Found at i:110371850 original size:73 final size:71
Alignment explanation
Indices: 110371680--110371858 Score: 218
Period size: 73 Copynumber: 2.5 Consensus size: 71
110371670 AAAAGACTCG
* *
110371680 ACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCTTAGCGTGCCGCA
1 ACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAATAGAATTTGAAAATACCTCAGCGTGCCGCA
110371745 AGGCTCA
65 AGGCTCA
* *
110371752 ACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAA-TTGAAATTACCTCAGCGTGCC
1 ACTCACCTCTCGCAATATGAGTTGATTTT-GA--AAATA-GAATTTGAAAATACCTCAGCGTGCC
* *
110371816 -CGAGGTTCA
62 GCAAGGCTCA
* *
110371825 GCTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 ACTCACCTCTCGCAATATGAGTTGA-TTTTGAAA
110371859 GGTAGGAATT
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
71 5 0.05
72 26 0.28
73 32 0.34
74 27 0.29
75 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (71 bp):
ACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAGAATTTGAAAATACCTCAGCGTGCCGCAA
GGCTCA
Found at i:110384242 original size:25 final size:26
Alignment explanation
Indices: 110384214--110384264 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
110384204 GTTATAAAAA
*
110384214 AATACATACAACATATA-GTATTAAG
1 AATAAATACAACATATAGGTATTAAG
*
110384239 AATAAATACAATATATATGGTATTAA
1 AATAAATACAACATATA-GGTATTAA
110384265 AAAAGTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
27 7 0.32
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (26 bp):
AATAAATACAACATATAGGTATTAAG
Found at i:110384474 original size:25 final size:27
Alignment explanation
Indices: 110384441--110384502 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
110384431 ATACACCTAA
* * *
110384441 AATATTAAAAGCCTATATATATAATAC
1 AATATTAAAAACATACATATATAATAC
*
110384468 -ATA-TAAAAATATACATATATAATAC
1 AATATTAAAAACATACATATATAATAC
110384493 AATATTAAAA
1 AATATTAAAA
110384503 TATTTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 18 0.62
26 6 0.21
27 5 0.17
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (27 bp):
AATATTAAAAACATACATATATAATAC
Found at i:110384641 original size:3 final size:3
Alignment explanation
Indices: 110384633--110384669 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
110384623 AATGTAAACC
110384633 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
110384670 TAACAGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:110385168 original size:15 final size:16
Alignment explanation
Indices: 110385150--110385183 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
110385140 AAAAAGAAGA
110385150 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
110385165 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
110385180 GAGA
1 GAGA
110385184 GGGGAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:110385169 original size:22 final size:22
Alignment explanation
Indices: 110385144--110385196 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
110385134 AAGAAAAAAA
110385144 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
110385166 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
110385188 AGAAGAGAG
1 AGAAGAGAG
110385197 GGCTTGCGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:110385955 original size:23 final size:19
Alignment explanation
Indices: 110385904--110385942 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
110385894 TGGTTGTAAA
*
110385904 TGGGTTTGGGTAGGTTAAT
1 TGGGCTTGGGTAGGTTAAT
110385923 TGGGCTTGGGTAGGTTAAT
1 TGGGCTTGGGTAGGTTAAT
110385942 T
1 T
110385943 AGGGACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.41, T:0.41
Consensus pattern (19 bp):
TGGGCTTGGGTAGGTTAAT
Found at i:110386595 original size:13 final size:13
Alignment explanation
Indices: 110386577--110386601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110386567 TTTGAAACAT
110386577 AGAAATTAAAAGC
1 AGAAATTAAAAGC
110386590 AGAAATTAAAAG
1 AGAAATTAAAAG
110386602 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:110386735 original size:67 final size:67
Alignment explanation
Indices: 110386592--110386776 Score: 309
Period size: 67 Copynumber: 2.7 Consensus size: 67
110386582 TTAAAAGCAG
**
110386592 AAATTAAAAGGCTCAACTCACCTCTCGCCAA-ATGAGTTAATAATTTGAAAAGTAGATTTCGAAA
1 AAATT-AAAGGCTCAACTCACCTCTCG-CAATATGAGTTAAT-CCTTGAAAAGTAGATTTCGAAA
*
110386656 AACGG
63 AACGA
110386661 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAAGTAGATTTCGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAAGTAGATTTCGAAAAAC
110386726 GA
66 GA
110386728 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAA
110386777 ATTAAAAACC
Statistics
Matches: 112, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
67 76 0.68
68 31 0.28
69 5 0.04
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (67 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCCTTGAAAAGTAGATTTCGAAAAAC
GA
Found at i:110386987 original size:73 final size:71
Alignment explanation
Indices: 110386817--110386995 Score: 218
Period size: 73 Copynumber: 2.5 Consensus size: 71
110386807 AAAAGACTCG
* *
110386817 ACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCTTAGCGTGCCGCA
1 ACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAATAGAATTTGAAAATACCTCAGCGTGCCGCA
110386882 AGGCTCA
65 AGGCTCA
* *
110386889 ACTCACCTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAA-TTGAAATTACCTCAGCGTGCC
1 ACTCACCTCTCGCAATATGAGTTGATTTT-GA--AAATA-GAATTTGAAAATACCTCAGCGTGCC
* *
110386953 -CGAGGTTCA
62 GCAAGGCTCA
* *
110386962 GCTCACTTCTCGCAATATGAGTTGATTTTTGAAA
1 ACTCACCTCTCGCAATATGAGTTGA-TTTTGAAA
110386996 GGTAGGAATT
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
71 5 0.05
72 26 0.28
73 32 0.34
74 27 0.29
75 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (71 bp):
ACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAGAATTTGAAAATACCTCAGCGTGCCGCAA
GGCTCA
Found at i:110399401 original size:25 final size:26
Alignment explanation
Indices: 110399373--110399423 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
110399363 GTTATAAAAA
*
110399373 AATACATACAACATATA-GTATTAAG
1 AATAAATACAACATATAGGTATTAAG
*
110399398 AATAAATACAATATATATGGTATTAA
1 AATAAATACAACATATA-GGTATTAA
110399424 AAAAGTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
27 7 0.32
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (26 bp):
AATAAATACAACATATAGGTATTAAG
Found at i:110399633 original size:25 final size:27
Alignment explanation
Indices: 110399600--110399661 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
110399590 ATACACCTAA
* * *
110399600 AATATTAAAAGCCTATATATATAATAC
1 AATATTAAAAACATACATATATAATAC
*
110399627 -ATA-TAAAAATATACATATATAATAC
1 AATATTAAAAACATACATATATAATAC
110399652 AATATTAAAA
1 AATATTAAAA
110399662 TATTTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 18 0.62
26 6 0.21
27 5 0.17
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (27 bp):
AATATTAAAAACATACATATATAATAC
Found at i:110399800 original size:3 final size:3
Alignment explanation
Indices: 110399792--110399826 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
110399782 AATGTAAACC
110399792 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110399827 ATAACAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:110400328 original size:15 final size:16
Alignment explanation
Indices: 110400310--110400343 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
110400300 AAAAAGAAGA
110400310 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
110400325 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
110400340 GAGA
1 GAGA
110400344 GGGGAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:110400329 original size:22 final size:22
Alignment explanation
Indices: 110400304--110400356 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
110400294 AAGAAAAAAA
110400304 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
110400326 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
110400348 AGAAGAGAG
1 AGAAGAGAG
110400357 GGCTTGCGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:110401116 original size:23 final size:19
Alignment explanation
Indices: 110401065--110401103 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
110401055 TGGTTGTAAA
*
110401065 TGGGTTTGGGTAGGTTAAT
1 TGGGCTTGGGTAGGTTAAT
110401084 TGGGCTTGGGTAGGTTAAT
1 TGGGCTTGGGTAGGTTAAT
110401103 T
1 T
110401104 AGGGACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.41, T:0.41
Consensus pattern (19 bp):
TGGGCTTGGGTAGGTTAAT
Found at i:110404026 original size:72 final size:72
Alignment explanation
Indices: 110403881--110404032 Score: 173
Period size: 72 Copynumber: 2.1 Consensus size: 72
110403871 AACGTGGTTT
* * **
110403881 CAACATCTCACATCACTCCAAAGCCTTAAAATTGATGATTGCTCAAAGCTGTCGTCTTTACCTGA
1 CAACACCTCACATCACTCCAAAGCCTTAAAATTGATGATTGCCCAAAGCTGTCGTCTTTACCCAA
110403946 AGAGATG
66 AGAGATG
* * * * ** *
110403953 CAACACCTCACATCCCTTCAAAGTCTTGAAATTGATGATTGCCCAGCGCTGTCGT-TTCTGCCCA
1 CAACACCTCACATCACTCCAAAGCCTTAAAATTGATGATTGCCCAAAGCTGTCGTCTT-TACCCA
110404017 AAG-GAATG
65 AAGAG-ATG
110404025 CAACACCT
1 CAACACCT
110404033 TACTGCACTC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
71 3 0.04
72 64 0.96
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (72 bp):
CAACACCTCACATCACTCCAAAGCCTTAAAATTGATGATTGCCCAAAGCTGTCGTCTTTACCCAA
AGAGATG
Found at i:110404457 original size:48 final size:48
Alignment explanation
Indices: 110404386--110404482 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
110404376 ATAAGGTAAG
110404386 TCATCAAATACAACTCTATTTGATATATATATATATCTTATTAACTTT
1 TCATCAAATACAACTCTATTTGATATATATATATATCTTATTAACTTT
* *
110404434 TCATCAAATACTACTCTATTTGATATATATATATATCTTATTAGCTTT
1 TCATCAAATACAACTCTATTTGATATATATATATATCTTATTAACTTT
110404482 T
1 T
110404483 TAAATGTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.47
Consensus pattern (48 bp):
TCATCAAATACAACTCTATTTGATATATATATATATCTTATTAACTTT
Found at i:110406874 original size:93 final size:93
Alignment explanation
Indices: 110406762--110406933 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
110406752 GCCCATAAGT
* *
110406762 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
110406827 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
110406855 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
110406920 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
110406934 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:110406929 original size:46 final size:46
Alignment explanation
Indices: 110406754--110406929 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110406744 TGTAACCCGC
* * *
110406754 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
110406800 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
110406850 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
110406893 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
110406930 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:110409448 original size:44 final size:46
Alignment explanation
Indices: 110409356--110409448 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 46
110409346 ATAATTGTAA
* * *
110409356 ATTAAATTATATATATATTGTTAAATATGTGATTATCGCAATTGCT
1 ATTAAATTATATATATATTGTTAAATAGGTAATTATCACAATTGCT
*
110409402 ATTAAATTATA-A-ATATTTTTAAAT-GGATAATTATCACAACTT-CT
1 ATTAAATTATATATATATTGTTAAATAGG-TAATTATCACAA-TTGCT
110409446 ATT
1 ATT
110409449 TTATTTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.02
44 26 0.63
45 3 0.07
46 11 0.27
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (46 bp):
ATTAAATTATATATATATTGTTAAATAGGTAATTATCACAATTGCT
Found at i:110410943 original size:34 final size:34
Alignment explanation
Indices: 110410900--110410975 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
110410890 TAAAAAATTG
*
110410900 AGTTTATGATAATTTTTTAATTAAGTTGAGATTT
1 AGTTGATGATAATTTTTTAATTAAGTTGAGATTT
110410934 AGTTGATGATAATTTTTTAATTAAGTTGAGATTT
1 AGTTGATGATAATTTTTTAATTAAGTTGAGATTT
110410968 AGTTGATG
1 AGTTGATG
110410976 GGTAATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (34 bp):
AGTTGATGATAATTTTTTAATTAAGTTGAGATTT
Found at i:110412478 original size:18 final size:18
Alignment explanation
Indices: 110412455--110412491 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
110412445 TTATCTATTA
110412455 AAGTGGTAGGTCAATTGG
1 AAGTGGTAGGTCAATTGG
110412473 AAGTGGTAGGTCAATTGG
1 AAGTGGTAGGTCAATTGG
110412491 A
1 A
110412492 GGACGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.27
Consensus pattern (18 bp):
AAGTGGTAGGTCAATTGG
Found at i:110428450 original size:10 final size:9
Alignment explanation
Indices: 110428354--110428463 Score: 53
Period size: 9 Copynumber: 11.4 Consensus size: 9
110428344 ATTTTTTTTT
*
110428354 AAAATTTTA
1 AAAATTATA
110428363 AAAATTA-A
1 AAAATTATA
110428371 TAAAATTATTTA
1 -AAAATTA--TA
* *
110428383 GAAACTATAA
1 AAAATTAT-A
110428393 AAAATT-TA
1 AAAATTATA
* *
110428401 CAATATTGTAA
1 -AAAATTAT-A
110428412 AAAATTATA
1 AAAATTATA
*
110428421 AAATTTATTA
1 AAAATTA-TA
*
110428431 AAAATCATA
1 AAAATTATA
110428440 AAAGATTATA
1 AAA-ATTATA
*
110428450 AAAAATAGTA
1 AAAATTA-TA
110428460 AAAA
1 AAAA
110428464 AAATATTGCA
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
8 2 0.03
9 35 0.45
10 33 0.43
11 6 0.08
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:110428462 original size:20 final size:20
Alignment explanation
Indices: 110428409--110428455 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
110428399 TACAATATTG
* *
110428409 TAAAAAATTATAAAA-TTTA
1 TAAAAAATCATAAAAGATTA
*
110428428 TTAAAAATCATAAAAGATTA
1 TAAAAAATCATAAAAGATTA
110428448 TAAAAAAT
1 TAAAAAAT
110428456 AGTAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAAATCATAAAAGATTA
Found at i:110429172 original size:18 final size:19
Alignment explanation
Indices: 110429125--110429175 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
110429115 TTTCATATTG
110429125 TTTTGATAA-TTTT-ATAAT
1 TTTTG-TAATTTTTAATAAT
* *
110429143 TTTTTTAGTTTTTAATAA-
1 TTTTGTAATTTTTAATAAT
110429161 TTTTGTAATTTTTAA
1 TTTTGTAATTTTTAA
110429176 AGATTTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 21 0.78
19 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTGTAATTTTTAATAAT
Found at i:110429182 original size:27 final size:27
Alignment explanation
Indices: 110429125--110429184 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
110429115 TTTCATATTG
* ** *
110429125 TTTTGATAATTTTATAATTTTTTTAGT
1 TTTTAATAATTTTATAATTTTTAAAGA
*
110429152 TTTTAATAATTTTGTAATTTTTAAAGA
1 TTTTAATAATTTTATAATTTTTAAAGA
110429179 TTTTAA
1 TTTTAA
110429185 GGGTTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.62
Consensus pattern (27 bp):
TTTTAATAATTTTATAATTTTTAAAGA
Found at i:110430968 original size:21 final size:22
Alignment explanation
Indices: 110430944--110430984 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
110430934 ATGGTATATA
110430944 AAAATGTACA-AGTA-ATATAAT
1 AAAAT-TACATAGTATATATAAT
110430965 AAAATTACATAGTATATATA
1 AAAATTACATAGTATATATA
110430985 TATACGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATTACATAGTATATATAAT
Found at i:110431586 original size:21 final size:22
Alignment explanation
Indices: 110431562--110431614 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
110431552 TATACAAAAC
* *
110431562 AAAATATACGCATAATTTA-TT
1 AAAATATACGCATAATGTACAT
**
110431583 AAAATATATACATAATGTACAT
1 AAAATATACGCATAATGTACAT
110431605 AAAATATACG
1 AAAATATACG
110431615 TATATACATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (22 bp):
AAAATATACGCATAATGTACAT
Found at i:110433348 original size:19 final size:20
Alignment explanation
Indices: 110433315--110433357 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
110433305 GCAATTAATT
* *
110433315 AATTTTTTAATATTTTTATA
1 AATTTTATAATATTTTTAAA
110433335 AATTTTATAA-ATTTTTAAA
1 AATTTTATAATATTTTTAAA
110433354 AATT
1 AATT
110433358 AATTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTTATAATATTTTTAAA
Found at i:110433351 original size:10 final size:10
Alignment explanation
Indices: 110433315--110433357 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
110433305 GCAATTAATT
110433315 AATTTTT-TA
1 AATTTTTATA
110433324 ATATTTTTATA
1 A-ATTTTTATA
110433335 AA-TTTTATA
1 AATTTTTATA
*
110433344 AATTTTTAAA
1 AATTTTTATA
110433354 AATT
1 AATT
110433358 AATTAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 10 0.33
10 17 0.57
11 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTTTATA
Found at i:110434173 original size:22 final size:22
Alignment explanation
Indices: 110434133--110434174 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
110434123 TGGCCACCCA
*
110434133 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
110434155 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
110434175 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:110434264 original size:23 final size:23
Alignment explanation
Indices: 110434238--110434327 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 23
110434228 TAGGAAGGGT
*
110434238 GGATTTTTTGATTTTTTGGAGGA
1 GGATTTTTTGTTTTTTTGGAGGA
* **
110434261 GGATTGTTCT-TCGTTTTGGAGGA
1 GGATT-TTTTGTTTTTTTGGAGGA
*
110434284 GGTTTTTTTTTGTTTTTTTGGAGG-
1 GG--ATTTTTTGTTTTTTTGGAGGA
* *
110434308 TGTTTTTTTGTTTTTTTGGA
1 GGATTTTTTGTTTTTTTGGA
110434328 AAGAAGGTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
22 18 0.33
23 17 0.31
24 7 0.13
25 12 0.22
ACGTcount: A:0.10, C:0.02, G:0.29, T:0.59
Consensus pattern (23 bp):
GGATTTTTTGTTTTTTTGGAGGA
Found at i:110434306 original size:22 final size:22
Alignment explanation
Indices: 110434281--110434327 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
110434271 TCGTTTTGGA
*
110434281 GGAGGTTTTTTTTTGTTTTTTT
1 GGAGGTGTTTTTTTGTTTTTTT
110434303 GGAGGTGTTTTTTTGTTTTTTT
1 GGAGGTGTTTTTTTGTTTTTTT
110434325 GGA
1 GGA
110434328 AAGAAGGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (22 bp):
GGAGGTGTTTTTTTGTTTTTTT
Found at i:110434667 original size:3 final size:3
Alignment explanation
Indices: 110434653--110434735 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
110434643 GAGCTTCGTT
* *
110434653 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
110434697 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
110434736 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:110434713 original size:21 final size:18
Alignment explanation
Indices: 110434653--110434735 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
110434643 GAGCTTCGTT
*
110434653 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
110434673 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
110434691 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
110434712 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
110434730 -TATTAT
1 TTATTAT
110434736 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:110434738 original size:27 final size:26
Alignment explanation
Indices: 110434652--110434739 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
110434642 AGAGCTTCGT
* * *
110434652 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
110434679 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
110434704 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
110434730 TATTATATAT
1 T-TTATATAT
110434740 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:110437566 original size:19 final size:19
Alignment explanation
Indices: 110437544--110437590 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
110437534 CTTCCTTTCT
110437544 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
110437563 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
110437582 TTTGCATTA
1 TTTGCATTA
110437591 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:110440350 original size:6 final size:6
Alignment explanation
Indices: 110440341--110440376 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
110440331 GGAGTTATAT
*
110440341 GGCAAT GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
110440377 AAAAAAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:110440391 original size:7 final size:8
Alignment explanation
Indices: 110440380--110440440 Score: 63
Period size: 8 Copynumber: 7.6 Consensus size: 8
110440370 AGGCAAAAAA
110440380 AAAAACAC
1 AAAAACAC
110440388 AAAAACAC
1 AAAAACAC
110440396 AAAAAACAC
1 -AAAAACAC
110440405 AAAAA-AC
1 AAAAACAC
110440412 ACAAAACAC
1 A-AAAACAC
* *
110440421 -GAAACAA
1 AAAAACAC
*
110440428 AAAAAAAC
1 AAAAACAC
110440436 AAAAA
1 AAAAA
110440441 AATTCTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 8 0.18
8 26 0.59
9 10 0.23
ACGTcount: A:0.79, C:0.20, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:110440400 original size:9 final size:9
Alignment explanation
Indices: 110440379--110440417 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
110440369 AAGGCAAAAA
110440379 AAAAAACAC
1 AAAAAACAC
110440388 -AAAAACAC
1 AAAAAACAC
110440396 AAAAAACAC
1 AAAAAACAC
110440405 AAAAAACAC
1 AAAAAACAC
110440414 AAAA
1 AAAA
110440418 CACGAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAC
Found at i:110440401 original size:17 final size:17
Alignment explanation
Indices: 110440379--110440440 Score: 76
Period size: 16 Copynumber: 3.8 Consensus size: 17
110440369 AAGGCAAAAA
110440379 AAAAAACACAAAAACAC
1 AAAAAACACAAAAACAC
110440396 AAAAAACACAAAAA-AC
1 AAAAAACACAAAAACAC
* *
110440412 ACAAAACAC-GAAACA-
1 AAAAAACACAAAAACAC
*
110440427 AAAAAAAACAAAAA
1 AAAAAACACAAAAA
110440441 AATTCTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 10 0.26
16 14 0.37
17 14 0.37
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAACACAAAAACAC
Found at i:110440441 original size:7 final size:7
Alignment explanation
Indices: 110440373--110440441 Score: 52
Period size: 8 Copynumber: 9.0 Consensus size: 7
110440363 AAGGCAAAGG
110440373 CAAAAAA
1 CAAAAAA
110440380 -AAAAACA
1 CAAAAA-A
110440387 CAAAAACA
1 CAAAAA-A
110440395 CAAAAAACA
1 C-AAAAA-A
110440404 CAAAAAA
1 CAAAAAA
110440411 CACAAAACA
1 CA-AAAA-A
110440420 CGAAACAAA
1 C-AAA-AAA
110440429 -AAAAAA
1 CAAAAAA
110440435 CAAAAAA
1 CAAAAAA
110440442 ATTCTAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
6 8 0.15
7 13 0.24
8 17 0.31
9 13 0.24
10 3 0.06
ACGTcount: A:0.80, C:0.19, G:0.01, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:110440441 original size:9 final size:9
Alignment explanation
Indices: 110440377--110440442 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 9
110440367 CAAAGGCAAA
110440377 AAAAAAAAC
1 AAAAAAAAC
*
110440386 ACAAAAACAC
1 A-AAAAAAAC
*
110440396 AAAAAACAC
1 AAAAAAAAC
*
110440405 AAAAAACAC
1 AAAAAAAAC
110440414 AAAACACGAAAC
1 AAAA-A--AAAC
110440426 AAAAAAAAAC
1 -AAAAAAAAC
110440436 AAAAAAA
1 AAAAAAA
110440443 TTCTAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
9 29 0.58
10 13 0.26
12 4 0.08
13 4 0.08
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:110441686 original size:66 final size:66
Alignment explanation
Indices: 110441586--110441712 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
110441576 CATTCATATA
*
110441586 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
110441651 C
66 C
*
110441652 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
110441713 TAAGCATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:110441924 original size:86 final size:87
Alignment explanation
Indices: 110441776--110442456 Score: 520
Period size: 87 Copynumber: 7.8 Consensus size: 87
110441766 ATTCACAAGC
* * * *
110441776 CTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAG--TTGCAGATCTTAACCCCCTAAGCAGTAG
110441841 GGAAACAGATCGAAGACGAAGGGT
64 GGAAACAGATCGAAGACGAAGGGT
* *** * *
110441865 CTTAAACCCTTAATTGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTA-GG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* *
110441928 AAACAGATCGAAGATGAA-GAT
66 AAACAGATCGAAGACGAAGGGT
* * * * ** *
110441949 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCTTTAACCCCCTAAGTAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCA-GATC-TTAACCCCCTAAGCAGTAG
* * * * *
110442013 GGTAACA-AGCCAAATTTAC-AA--GC
64 GGAAACAGA-TCGAA--GACGAAGGGT
* * * *
110442036 CTT-AACTCCCTAAGCAGTTGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CTTAAAC-CCCTAAGCAGTAGGGTAACAGACCGAAG--TTGCAGATCTTAACCCCCTAAGCAGTA
110442100 GGGAAACAGATCGAAGACGAAGGGT
63 GGGAAACAGATCGAAGACGAAGGGT
* * * *
110442125 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* *
110442189 AAACAGATCGAAGATGAA-GAT
66 AAACAGATCGAAGACGAAGGGT
* * * * **
110442210 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCTTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCA-GATC-TTAACCCCCTAAGCAGTAG
* * * * *
110442274 GGTAACA-AGCCAAATTTAC-AA--GC
64 GGAAACAGA-TCGAA--GACGAAGGGT
* * *
110442297 CTT-AACCCTCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CTTAAACCC-CTAAGCAGTAGGGTAACAGACCGAAG--TTGCAGATCTTAACCCCCTAAGCAGTA
* * *
110442361 GGGAAACAGATCAAAGATGATAGGCT
63 GGGAAACAGATCGAAGACGA-AGGGT
* * * * *
110442387 -TTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACA-AGCCTTAAACCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGA-CCGAAGTTGCAGA-TCTTAACCCCCTAAGCAGTAG
*
110442449 GGTAACAG
64 GGAAACAG
110442457 GCTGAAGATT
Statistics
Matches: 461, Mismatches: 97, Indels: 70
0.73 0.15 0.11
Matches are distributed among these distances:
84 30 0.07
85 55 0.12
86 99 0.21
87 120 0.26
88 61 0.13
89 87 0.19
90 9 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (87 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCGAAGACGAAGGGT
Found at i:110441987 original size:43 final size:44
Alignment explanation
Indices: 110441776--110442719 Score: 582
Period size: 43 Copynumber: 21.6 Consensus size: 44
110441766 ATTCACAAGC
* * *
110441776 CTTAAGCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * *
110441821 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACA-GAT
* * *** * *
110441865 CTTAAACCCTTAATTGGTAGGGTAACAGACCGAA-TTG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * *
110441907 CTTATCTCCCTAAGCAGTA-GGAAACAGATCGAAGATGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * **
110441949 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * *
110441992 CTTTAACCCCCTAAGTAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGA-T
* * * *
110442036 CTTAACTCCCTAAGCAGTTGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * *
110442081 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACA-GAT
* * * * *
110442125 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * *
110442167 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * **
110442210 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
110442253 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGA-T
* * *
110442297 CTTAACCCTCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * * *
110442342 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATAG-G
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * *
110442385 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGACAGA-T
* * * *
110442429 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGACAGAT
* * * ** * * **
110442474 CTTAACCCCCTAAGTAGTAGGGAAACAAATAAAAAATGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* * * * *
110442517 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGACAGAT
* * * * * *
110442560 CTTAAACCTCTAAGCAGTAGGGTAACAGGTTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGACAGAT
* * * *
110442605 CTTAACCCCCTAA-CTAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGC-AGTAGGGTAACAGATCGAAGATGACAGAT
* * * * * ** **
110442648 CTTAACCCCTTAAGCAGTTGGGAAATATATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
* *
110442692 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
110442720 GCTGGAAATT
Statistics
Matches: 697, Mismatches: 154, Indels: 97
0.74 0.16 0.10
Matches are distributed among these distances:
41 12 0.02
42 76 0.11
43 247 0.35
44 182 0.26
45 174 0.25
46 6 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGACAGAT
Found at i:110442322 original size:261 final size:260
Alignment explanation
Indices: 110441765--110442632 Score: 1302
Period size: 261 Copynumber: 3.3 Consensus size: 260
110441755 AGAATCAGTG
*
110441765 AATTCACAAGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
110441830 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCTTAATTGGTAGGGTAACAGAC
65 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
110441895 CGAATTGCAGATCTTATCTCCCTAAGCAGTA-GGAAACAGATCGAAGATGAAGATCTTAACCCCC
130 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
*
110441959 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCC
195 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
110442024 A
260 A
*
110442025 AATTTACAAGCCTTAACTCCCTAAGCAGTTGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
110442090 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
65 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
110442155 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
130 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
110442220 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
195 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
110442285 A
260 A
110442286 AATTTACAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * * *
110442351 CTAAGCAGTAGGGAAACAGATCAAAGATGATAGGCT-TTAACCCCCTAAGCAGTAGGGTAACA-A
65 CTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA
* * * * * * *
110442414 GCCGAATTTACA-AGCCTTAAAC-CCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAATCT
129 -CCGAA-TTGCAGA-TCTT-ATCTCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGATCT
* * ** *
110442476 TAACCCCCTAAGTAGTAGGGAAACAAATAAAAAATGATGGGCTTTAA-CCCCTAAGCAGTAGGGT
187 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGT
*
110442540 AACAAGCCG
252 AACAAGCCA
* * * *
110442549 AATTTACAAACCTTAAACCTCTAAGCAGTAGGGTAACAGGTTGAAGATTTACAAATCTTAACCCC
1 AATTTACAAGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
*
110442614 CTAA-CTAGTAGGGTAACAG
65 CTAAGC-AGTAGGGAAACAG
110442633 GTTGAATTTA
Statistics
Matches: 565, Mismatches: 30, Indels: 23
0.91 0.05 0.04
Matches are distributed among these distances:
259 1 0.00
260 158 0.28
261 217 0.38
262 37 0.07
263 101 0.18
264 51 0.09
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (260 bp):
AATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCC
TAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACC
GAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCT
AAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCA
Found at i:110442378 original size:132 final size:131
Alignment explanation
Indices: 110441764--110442632 Score: 1097
Period size: 132 Copynumber: 6.6 Consensus size: 131
110441754 TAGAATCAGT
*
110441764 GAATTCACAAGCCTTAAGCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * ***
110441829 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCTTAATTGGTAGGGTAAC-A
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
110441892 GACC
129 G-CC
* * * * * *
110441896 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTA-GGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
*
110441955 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACA
63 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
110442020 AGCC
128 AGCC
* *
110442024 AAATTTACAAGCCTTAACTCCCTAAGCAGTTGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAAC-CCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * *
110442089 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
110442152 GACC
129 G-CC
* * * * * *
110442156 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
110442216 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
63 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
110442281 AGCC
128 AGCC
*
110442285 AAATTTACAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
110442350 CCTAAGCAGTAGGGAAACAGATCAAAGATGATAGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
110442415 CC
130 CC
*
110442417 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * ** *
110442482 CCTAAGTAGTAGGGAAACAAATAAAAAATGATGGGCTTTAA-CCCCTAAGCAGTAGGGTAACAAG
65 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
110442546 CC
130 CC
* * * *
110442548 GAATTTACAAACCTTAAACCTCTAAGCAGTAGGGTAACAGGTTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
*
110442613 CCTAA-CTAGTAGGGTAACAG
65 CCTAAGC-AGTAGGGAAACAG
110442633 GTTGAATTTA
Statistics
Matches: 650, Mismatches: 62, Indels: 51
0.85 0.08 0.07
Matches are distributed among these distances:
128 70 0.11
129 100 0.15
130 66 0.10
131 166 0.26
132 243 0.37
133 5 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (131 bp):
GAATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
C
Found at i:110442525 original size:88 final size:86
Alignment explanation
Indices: 110441947--110442735 Score: 316
Period size: 88 Copynumber: 9.0 Consensus size: 86
110441937 GAAGATGAAG
* * *
110441947 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGATGGGCTTTAA-CCCCTAAGCAGTA
* **
110442012 GGGTAACAAGCCAAATTTACAA
65 GGGTAACAGGCTGAATTTACAA
** * * * ** * ** *
110442034 GCCTTAACTCCCTAAGCAGTTGGGTAACAGGCT-GAAGAT-TTACAGATCTTAACCCCCTAAGCA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACA-AATAGAAGATGAT-GGGCT-TTAA-CCCCTAAGCA
* * *
110442097 GTAGGGAAACA-GATCGAA--GACGAA
62 GTAGGGTAACAGGCT-GAATTTAC-AA
* * * * * * ** * ** *
110442121 GGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCA-GATC-TTATCTCCCTAAGCA
1 --ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATG-ATGGGCTTTAAC-CCCTAAGCA
* * * * *
110442183 GTAGGGAAACA-GATCGAAGATGA-AG
62 GTAGGGTAACAGGCT-GAA-TTTACAA
* *
110442208 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGATGGGCTTTAA-CCCCTAAGCAGTA
* **
110442273 GGGTAACAAGCCAAATTTACAA
65 GGGTAACAGGCTGAATTTACAA
** * * ** * ** *
110442295 GCCTTAACCCTCTAAGCAGTAGGGTAACAGGCT-GAAGAT-TTACAGATCTTAACCCCCTAAGCA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACA-AATAGAAGATGAT-GGGCT-TTAA-CCCCTAAGCA
* * * * * *
110442358 GTAGGGAAACA-GATCAAAGATGA-TA
62 GTAGGGTAACAGGCT-GAA-TTTACAA
** * *** * * ** * *
110442383 GGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAA-TTTACAAGCCTTAAACCCCTAAGCAGT
1 ATC-TTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGA-TGGGCTTTAACCCCTAAGCAGT
110442447 AGGGTAACAGGCTGAAGATTTACAA
64 AGGGTAACAGGCTG-A-ATTTACAA
* * *
110442472 ATCTTAACCCCCTAAGTAGTAGGGAAACAAATAAAAAATGATGGGCTTTAACCCCTAAGCAGTAG
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGATGGGCTTTAACCCCTAAGCAGTAG
* *
110442537 GGTAACAAGCCGAATTTACAA
66 GGTAACAGGCTGAATTTACAA
* * * * ** * * ****
110442558 ACCTTAAACCTCTAAGCAGTAGGGTAACAGGTTGAAGAT-TTACAAATCTTAACCCCCTAA-CTA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGAT-GGGCT-TTAA-CCCCTAAGC-A
* *
110442621 GTAGGGTAACAGGTTGAATTTACAG
62 GTAGGGTAACAGGCTGAATTTACAA
* * * * * * *
110442646 ATCTTAACCCCTTAAGCAGTTGGGAAATATATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGATGGG-CTTTAACCCCTAAGCAGTA
*
110442711 GGGTAACAGGCTGGAAATTACAA
65 GGGTAACAGGCT-GAATTTACAA
110442734 AT
1 AT
110442736 TTCTTTTTCC
Statistics
Matches: 523, Mismatches: 137, Indels: 83
0.70 0.18 0.11
Matches are distributed among these distances:
85 33 0.06
86 78 0.15
87 143 0.27
88 203 0.39
89 66 0.13
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (86 bp):
ATCTTAACCCCCTAAGCAGTAGGGAAACAAATAGAAGATGATGGGCTTTAACCCCTAAGCAGTAG
GGTAACAGGCTGAATTTACAA
Found at i:110442854 original size:68 final size:68
Alignment explanation
Indices: 110442737--110442935 Score: 294
Period size: 68 Copynumber: 2.9 Consensus size: 68
110442727 ATTACAAATT
*
110442737 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
*
110442800 AGGA
66 A-AA
* *
110442804 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
110442869 AAA
66 AAA
* * * * *
110442872 CCTCTTCTTTCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
110442936 TGGAAGAAGA
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
67 6 0.05
68 112 0.94
69 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:110443369 original size:132 final size:131
Alignment explanation
Indices: 110442988--110444491 Score: 1258
Period size: 132 Copynumber: 11.4 Consensus size: 131
110442978 TGGAGCAGAC
* * * * *
110442988 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTCAGCA-TGGCA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAA-CAGATCAAAGATATCAG-ATTGGCA
*
110443052 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTACAGGGAACA
64 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
110443117 AAT
129 AAT
* * *
110443120 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAA-ATTTCAGCA-TGGCA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAA-CAGATCAAAGATATCAG-ATTGGCA
* *
110443183 TCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGAATCCCTGTGCTTATAGGGAACA
64 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
110443248 AAT
129 AAT
* * *
110443251 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-TGGCA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAA-CAGATCAAAGATATCAG-ATTGGCA
*
110443315 TCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
64 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
110443380 AAT
129 AAT
* * *
110443383 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-TGGCA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAA-CAGATCAAAGATATCAG-ATTGGCA
110443447 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
64 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
*
110443512 AGT
129 AAT
* * * * * * * * * * * *
110443515 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAAATCTGACAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAACAGATCAAAGATATCAGAT-TGGCAT
* * * ** * **
110443580 TCCTGTGCTTACAGTGAAGC-AGATCCAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
65 CCCTGTGCTTATAGGGAA-CAAG-TTGAAAACATCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
*
110443642 CAAGT
127 CAAAT
* * * * * * * * * *
110443647 TGAAAACATCAGATTTGGCATCCCTGTGCTTACAGGGAACAAATCGAAGATAGCAGATCTGACAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAACAGATCAAAGATATCAGAT-TGGCAT
* * * * * *
110443712 TCCTGTGCTTACAGTGAAGC-AGATCAAAA-ATTTCAGCA--TGGCATCCCTGCGCTTATAGGGA
65 CCCTGTGCTTATAGGGAA-CAAGTTGAAAACA--TCAG-ATTTGGCATCCCTGTGCTTATAGGGA
*
110443773 ACAAGT
126 ACAAAT
* * * * * * * * * *
110443779 TGAAAACATCAGATTTGGA-ATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACA
1 CGAAGATAGCAGATCT-GACATCCCTGTGCTTACAGGGAACAGATCAAAGATATCAGAT-TGGCA
* * * * * ** *
110443843 TTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCTGCGCTTATAGGGA
64 TCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATTTGGCATCCCTGTGCTTATAGGGA
*
110443905 ACAAGT
126 ACAAAT
* * * * * * * * * * *
110443911 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAACAGATCAAAGATATCAGAT-TGGCAT
* * * * * **
110443976 TCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
65 CCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
*
110444038 CAAGT
127 CAAAT
* * * * * * * * * *
110444043 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACATCAGATTTGGCA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAAC-AGATCAAAGATATCAGA-TTGGCA
* * * * * * * * * *
110444107 TCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
64 TCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAA-
*
110444171 CAGAT
127 CAAAT
* ** * * * * *
110444176 CAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACATCAGATTTGGC
1 CGAAGATAGCAGATC-TGACATCCCTGTGCTTACAGGGAAC-AGATCAAAGATATCAGA-TTGGC
*
110444238 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
63 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC
**
110444303 GGAT
128 AAAT
* * * * * *
110444307 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA-TGACA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAA-CAGATCAAAGATATCAG-ATTGGCA
* *
110444371 TCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACG
64 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
*
110444436 GAT
129 AAT
* * *
110444439 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATA
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAA-CAGATCAAAGATA
110444492 GCGGATATCG
Statistics
Matches: 1243, Mismatches: 104, Indels: 50
0.89 0.07 0.04
Matches are distributed among these distances:
130 2 0.00
131 165 0.13
132 1041 0.84
133 33 0.03
134 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (131 bp):
CGAAGATAGCAGATCTGACATCCCTGTGCTTACAGGGAACAGATCAAAGATATCAGATTGGCATC
CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAA
T
Found at i:110443414 original size:176 final size:176
Alignment explanation
Indices: 110443178--110444527 Score: 1304
Period size: 176 Copynumber: 7.7 Consensus size: 176
110443168 AATTTCAGCA
* * * *
110443178 TGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGA-ATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCT-GACATCCCTGTGCTTATAG
*
110443242 GGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCA
65 GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCA
*
110443307 GCATGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATT
130 GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * *
110443354 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
* ** * * * * * * **
110443419 GAAGCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACAT
66 GAA-CAGATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTT
110443480 CAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
128 CAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
** * * * * * * *
110443530 TGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
* ** * * * * * * **
110443595 GAAGCAGATCCAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACAT
66 GAA-CAGATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTT
* * * * * * *
110443656 CAG-ATTTGGCATCCCTGTGCTTACAGGGAACAAATCGAAGATAGCAGATC
128 CAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * * ** * *
110443706 TGACATTCCTGTGCTTACAGTGAAGCAGATCAAAAATTTCAG--CATGGCATCCCTGCGCTTATA
1 TGGCATCCCTGTGCTTATAGGGAA-CAAATCGAAAACATCAGATC-TGACATCCCTGTGCTTATA
* * * * * * * * * * *
110443769 GGGAACA-AGTTGAAAACATCAGATTTGGA-ATCCCTGTGCTTATAGGGAA-CAAATCGAAGATA
64 GGGAACAGA-TCGAAGATAGCAGATCT-GACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATT
* * * * * * * **
110443831 GCAG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
127 TCAGCA--TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATT
* * * * *
110443882 TGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
*
110443947 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
110444012 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * *
110444058 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
*
110444123 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
110444188 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * *
110444234 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
* * *
110444299 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
* *
110444364 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
** * * * * * * *
110444410 TGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
* * * * * *
110444475 GAAGCAGATCAAAGATAGCGGATATCG-CCTTCCTGAG-TTGCAGTGAAGCAGAT
66 GAA-CAGATCGAAGATAGCAGATCT-GACATTCCTGTGCTTACAGTGAAGCAGAT
110444528 TGAAGCCGTC
Statistics
Matches: 1012, Mismatches: 135, Indels: 54
0.84 0.11 0.04
Matches are distributed among these distances:
174 3 0.00
175 43 0.04
176 893 0.88
177 70 0.07
178 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (176 bp):
TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACATCAGATCTGACATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:110443604 original size:308 final size:307
Alignment explanation
Indices: 110443047--110444493 Score: 1559
Period size: 308 Copynumber: 4.7 Consensus size: 307
110443037 GATTTCAGCA
* * * * * * * * *
110443047 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTACAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * ** * * * * * * **
110443112 GAA-CAAATCGAAGATAGCAG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAATTTC
66 GAAGCAGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAAACATC
* * * *
110443174 AGCA--TGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGA-ATCCCTGTGC
128 AG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTCGAAAACAGCAGATCT-GACATCCCTGTGC
* * * * *
110443236 TTATAGGGAA-CAAATCGAAGATAGCAG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCA
191 TTACAGGGAAGCAGATCAAAGATAGCAGCA--TGACATCCCTGTGCTTACAGGGAA-CAAGATCA
** *
110443298 AAGATTTCAGCA-TGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGATT
253 AA-ACATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
110443354 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
110443419 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
66 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
* * * * *
110443484 TTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATA
131 TTTGGCATCCCTGTGCTTATAGGGAACAAGTCGAAAACAGCAGATCTGACATCCCTGTGCTTACA
* * * * * * *
110443549 GGGAA-CGGATCGAAGATAGCA-AATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCCAAGAT
196 GGGAAGCAGATCAAAGATAGCAGCA--TGACATCCCTGTGCTTACAGGGAA-CAAGAT-CAAAAC
*
110443611 TTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
257 ATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
110443662 TGGCATCCCTGTGCTTACAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
110443727 GAAGCAGATCAAAAATTTCAGCATGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCAGA
66 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
* * * * *
110443792 TTTGGAATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
131 TTTGGCATCCCTGTGCTTATAGGGAACAAGTCGAAAACAGCAGATCTGACATCCCTGTGCTTACA
* ** * * * * *
110443857 GTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGCGCTTATAGGGAACAAGTTGAAAACATCA
196 GGGAAGCAGATCAAAGATAGCAGCATGACATCCCTGTGCTTACAGGGAACAAGATCAAAACATCA
* * * * * *
110443922 GATTTGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATC
261 GA-TTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * * ** * * *
110443970 TGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--CATGGCATCCCTGTGCTTATA
1 TGGCATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACA
* * * **
110444033 GGGAA-CAAGTTGAAA-ACATCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
64 GTGAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
* * * *
110444095 TCAGATTTGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATCTGACATTCCTGTG
126 TCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TCGAAAACAGCAGATCTGACATCCCTGTG
* ** * * * *
110444159 CTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA
190 CTTACAGGGAAGCAGATCAAAGATAGCAGCATGACATCCCTGTGCTTACAGGGAACAAGATCAAA
*
110444224 ACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
255 ACATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
**
110444278 TGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * *
110444343 GAAGTAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
* * * * *
110444408 TTTGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAAATCTGACATTCCTGTGCTTAC
131 TTTGGCATCCCTGTGCTTATAGGGAACAAG-TCGAAAACAGCAGATCTGACATCCCTGTGCTTAC
*
110444472 AGTGAAGCAGATCAAAGATAGC
195 AGGGAAGCAGATCAAAGATAGC
110444494 GGATATCGCC
Statistics
Matches: 1005, Mismatches: 111, Indels: 47
0.86 0.10 0.04
Matches are distributed among these distances:
306 4 0.00
307 119 0.12
308 845 0.84
309 35 0.03
310 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (307 bp):
TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
TTTGGCATCCCTGTGCTTATAGGGAACAAGTCGAAAACAGCAGATCTGACATCCCTGTGCTTACA
GGGAAGCAGATCAAAGATAGCAGCATGACATCCCTGTGCTTACAGGGAACAAGATCAAAACATCA
GATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:110444878 original size:22 final size:22
Alignment explanation
Indices: 110444838--110444879 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
110444828 TGGCCACCCA
*
110444838 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
110444860 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
110444880 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:110444974 original size:25 final size:23
Alignment explanation
Indices: 110444944--110445052 Score: 100
Period size: 25 Copynumber: 4.7 Consensus size: 23
110444934 AGGGGGTGGT
110444944 TTTTTGTTTTTTGGAGGAGGATTG
1 TTTTTGTTTTTTGGAGGAGG-TTG
*
110444968 TTCTTTG--TTTTGGAGGAGGTTTT
1 TT-TTTGTTTTTTGGAGGAGG-TTG
*
110444991 TTTTTGTTTTTTTGGAGG-TGTT-
1 TTTTTG-TTTTTTGGAGGAGGTTG
*
110445013 TTTTTGTTTTTTGGAAAGAAGGTTG
1 TTTTTGTTTTTTGG--AGGAGGTTG
*
110445038 TTTTTGTTTCTTGGA
1 TTTTTGTTTTTTGGA
110445053 AAGGCTAGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
21 8 0.11
22 10 0.14
23 21 0.30
24 6 0.08
25 26 0.37
ACGTcount: A:0.11, C:0.02, G:0.28, T:0.59
Consensus pattern (23 bp):
TTTTTGTTTTTTGGAGGAGGTTG
Found at i:110444999 original size:22 final size:22
Alignment explanation
Indices: 110444926--110445022 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 22
110444916 CATTCAAGAC
* *
110444926 TTTGTTTTAGGGGGTGGTTTTTT
1 TTTGTTTT-GGAGGAGGTTTTTT
* * *
110444949 GTT-TTTTGGAGGAGGATTGTTC
1 TTTGTTTTGGAGGAGG-TTTTTT
110444971 TTTGTTTTGGAGGAGGTTTTTT
1 TTTGTTTTGGAGGAGGTTTTTT
*** *
110444993 TTTGTTTTTTTGGAGGTGTTTT
1 TTTGTTTTGGAGGAGGTTTTTT
110445015 TTTGTTTT
1 TTTGTTTT
110445023 TTGGAAAGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
21 6 0.10
22 40 0.67
23 14 0.23
ACGTcount: A:0.07, C:0.01, G:0.31, T:0.61
Consensus pattern (22 bp):
TTTGTTTTGGAGGAGGTTTTTT
Done.