Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 290 of 333
Found at i:95780690 original size:14 final size:13
Alignment explanation
Indices: 95780652--95780696 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
95780642 TTGATTTTTG
95780652 AAAAACAGAAATT
1 AAAAACAGAAATT
*
95780665 AAAAGCAGAAATT
1 AAAAACAGAAATT
*
95780678 GAAAAACAAAAATT
1 -AAAAACAGAAATT
95780692 AAAAA
1 AAAAA
95780697 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.71, C:0.07, G:0.09, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:95780729 original size:100 final size:101
Alignment explanation
Indices: 95780477--95780784 Score: 410
Period size: 100 Copynumber: 3.1 Consensus size: 101
95780467 GAGTTGAGTT
* *
95780477 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
95780541 AGTTGA--TTTGAAAAGTAGAATTTGTAAGGCAAAAA
65 AGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAA
* * *
95780576 TTGAAAAACAGAAATTGAAAATACCTCAGCATGCC-CTGAGGCTCAACTTACCTCTCGCAATATG
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGCCTC-GAGGCTCAACTCACCTCTCGCAATATG
*
95780640 AGTTGATTTTTGAAAAACAGAAATT-AAAAGCAGAAA
65 AGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAA
* * *
95780676 TTGAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGA
* *
95780741 GTTGATTTTTGAAAAGCATAAATTGAAAAAACAGAAA
66 GTTGATTTTTGAAAAGCAGAAATTG-AAAAGCAGAAA
95780778 TTGAAAA
1 TTGAAAA
95780785 TACCTCAGCG
Statistics
Matches: 182, Mismatches: 20, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
98 2 0.01
99 61 0.34
100 87 0.48
101 15 0.08
102 17 0.09
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.25
Consensus pattern (101 bp):
TTGAAAAACAAAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAGCAGAAATTGAAAAGCAGAAA
Found at i:95780833 original size:90 final size:87
Alignment explanation
Indices: 95780665--95780840 Score: 255
Period size: 90 Copynumber: 2.0 Consensus size: 87
95780655 AACAGAAATT
* *
95780665 AAAAGCAGAAATTGAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCCCAACTCACCTC
95780730 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * *
95780752 AAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCT-GAGGCCCAACTCA
1 AAAAGCAGAAATTG-AAAAACAAAAATTAAAAATACCTC-G-GCGTG-CCTCGAGGCCCAACTCA
95780816 CCTCTCGCAATATGAGTTGATTTTT
62 CCTCTCGCAATATGAGTTGATTTTT
95780841 TTGAAAGATA
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
87 13 0.16
88 22 0.28
89 1 0.01
90 40 0.51
91 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAAAAATTAAAAATACCTCGGCGTGCCTCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:95781731 original size:12 final size:12
Alignment explanation
Indices: 95781709--95781747 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
95781699 CCTTGATCCC
95781709 TTTCTCTTTTTCT
1 TTTCTC-TTTTCT
*
95781722 TTTTTCTTTTCT
1 TTTCTCTTTTCT
95781734 TTTCTCTTTT-T
1 TTTCTCTTTTCT
95781745 TTT
1 TTT
95781748 AAGATGCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 15 0.62
13 5 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTCTTTTCT
Found at i:95804200 original size:76 final size:76
Alignment explanation
Indices: 95804074--95804227 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
95804064 TGCTAATGTA
95804074 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
1 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
95804139 AATCATATCTG
66 AATCATATCTG
95804150 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
1 ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
95804215 AATCATATCTG
66 AATCATATCTG
95804226 AC
1 AC
95804228 AACGCATTGA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (76 bp):
ACTAAATCGGCAATTAGCAAGTTCCTAAAAAAGGAAATTATCTGTTGATATGGAATGCCAGAAAG
AATCATATCTG
Found at i:95805773 original size:45 final size:44
Alignment explanation
Indices: 95805723--95805872 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 44
95805713 AACTTTAAAT
* * * *
95805723 CCCTAAGCAGTAGGGTAACACGCTGAAGATTTACGGATCTTATCA
1 CCCTAAGCAGTAGGGTAACA-GCTGAAGATTTACAGACCTTAACC
* * * * * *
95805768 CCCTAAGTAGTAGGGAAACAGATCGAAGA-TGA-TGAGCTTTAACC
1 CCCTAAGCAGTAGGGTAACAGCT-GAAGATTTACAGA-CCTTAACC
* *
95805812 CCCTAAGCAGTAAGGTAACAAGC-CAA-ATTTACAGACCTTAACC
1 CCCTAAGCAGTAGGGTAAC-AGCTGAAGATTTACAGACCTTAACC
95805855 CCCTAAGCAGTAGGGTAA
1 CCCTAAGCAGTAGGGTAA
95805873 TAGGTTGAAA
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 30 0.37
44 26 0.32
45 25 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGCTGAAGATTTACAGACCTTAACC
Found at i:95806211 original size:129 final size:128
Alignment explanation
Indices: 95805963--95806310 Score: 455
Period size: 129 Copynumber: 2.7 Consensus size: 128
95805953 TGCAATGAAG
* * *
95805963 CAGGCTGAATTTGCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACGAGCTTT
1 CAGGCTGAATTTACAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGC-TT
* * * *
95806028 AACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTACATACCTTAACCCCCTAAGCAGTAGGGTAA
64 AACCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
* * * *
95806093 TAGGCTGAATTTACAAATATTAACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTA
1 CAGGCTGAATTTACAGATCTTAACCCC-TAAGCAGTAGGGAAACAGATCGAAGATGAAGGGCTTA
*
95806158 ACCCCCTAAGCAGTAGAGTAGCAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
65 ACCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
* * * * * *
95806222 CAGGTTGAATTCACAGATCTAAACCCCTAAGC-GATAGGGAAACAGATCGATGATGACAAGCCTT
1 CAGGCTGAATTTACAGATCTTAACCCCTAAGCAG-TAGGGAAACAGATCGAAGATGA-AGGGCTT
* *
95806286 AAACCCCTAAGCAGTAAGGGTAACA
64 AACCCCCTAAGCAGT-AGAGTAACA
95806311 GGTTGAAAAT
Statistics
Matches: 190, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
127 1 0.01
128 26 0.14
129 105 0.55
130 58 0.31
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (128 bp):
CAGGCTGAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGGGCTTAA
CCCCCTAAGCAGTAGAGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAA
Found at i:95806238 original size:43 final size:43
Alignment explanation
Indices: 95805976--95806313 Score: 197
Period size: 43 Copynumber: 7.8 Consensus size: 43
95805966 GCTGAATTTG
* * * * *
95805976 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAA-TTGA
* * * * * * *
95806020 C-GAGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTA
1 CAGA-CCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
* * * *
95806063 CATACCTTAACCCCCTAAGCAGTAGGGTAATAGG-CTGAATTTA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTC-GAATTGA
* ** * * *
95806106 CAAATATT-AACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGA
1 CAGACCTTAAACCCC-TAAGCAGTAGGGTAACAGGTCGAA-TTGA
* ** * * * * * * *
95806150 -TGGGCTTAACCCCCTAAGCAGTAGAGTAGCAAGCCAAATTTA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
* *
95806192 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCA
1 CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
* * *
95806235 CAGATC-TAAACCCCTAAGC-GATAGGGAAACAGATCG-ATGATGA
1 CAGACCTTAAACCCCTAAGCAG-TAGGGTAACAGGTCGAAT--TGA
95806278 CA-AGCCTTAAACCCCTAAGCAGTAAGGGTAACAGGT
1 CAGA-CCTTAAACCCCTAAGCAGT-AGGGTAACAGGT
95806314 TGAAAATCAA
Statistics
Matches: 220, Mismatches: 59, Indels: 29
0.71 0.19 0.09
Matches are distributed among these distances:
41 3 0.01
42 34 0.15
43 121 0.55
44 51 0.23
45 11 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (43 bp):
CAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTCGAATTGA
Found at i:95806714 original size:24 final size:23
Alignment explanation
Indices: 95806676--95806731 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
95806666 AATTTTGGGC
*
95806676 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
* *
95806699 CCAATAACCCCAAAACCTACTAAAC
1 CCAA-AACCCCAAAACCCACT-AAG
95806724 CCAAAACC
1 CCAAAACC
95806732 TAACAGCAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 18 0.64
25 6 0.21
ACGTcount: A:0.46, C:0.43, G:0.02, T:0.09
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:95811325 original size:46 final size:47
Alignment explanation
Indices: 95811260--95811399 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 47
95811250 TTATCTTTGA
* * * * *
95811260 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
**
95811306 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
95811352 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
95811398 CA
1 CA
95811400 GAGAGCACAC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:95816224 original size:65 final size:65
Alignment explanation
Indices: 95816106--95816235 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 65
95816096 TCATTCATGA
* * *
95816106 TACATCTAGTTAGGAGCATTTGATTCATTTTTTATCATAGCATCCTAGTTATTTGTCATAAGCAT
1 TACATCTAGTTAGGAACATTTGATTCATTTTTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
* *
95816171 TACATTCTAGTTAGGAACATTTGATTCA-TTTTGATTATAGCATTCTAAG-TATTTGGCATAAGC
1 TACA-TCTAGTTAGGAACATTTGATTCATTTTTGATCATAGCATCCT-AGTTATTTGGCATAAGC
95816234 AT
64 AT
95816236 AGGAAATCGA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 34 0.59
66 24 0.41
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (65 bp):
TACATCTAGTTAGGAACATTTGATTCATTTTTGATCATAGCATCCTAGTTATTTGGCATAAGCAT
Found at i:95816436 original size:84 final size:86
Alignment explanation
Indices: 95816290--95816660 Score: 472
Period size: 86 Copynumber: 4.4 Consensus size: 86
95816280 TCGGTCAAGA
* * * * ** *
95816290 CAGCGAGCCTTAACCCCCTAAGCAGTGGGGTAATAGGC--AGGAAAATACAGACCTCCCCTAAAC
1 CAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAAC
95816353 AGTAGTAGAGAA-A-ATCGAAGAT
66 AGTAGT-G-GAACAGATCGAAG-T
* * * *
95816375 -AGCAAGCCTTAACTCTCTAAGCAGTAGGGTAACCGG-T-TAGAAAATACAGATCTCCCCTAAAC
1 CAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAAC
*
95816437 AGTAGTGGAGCAGATCGAAGT
66 AGTAGTGGAACAGATCGAAGT
* * *
95816458 CAGCAAGCCTTAA-CTTCTTAAGCGGTACGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
1 CAGCAAGCCTTAACCCTC-TAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
95816522 CAGTAGTGGAACAGATCGAAGT
65 CAGTAGTGGAACAGATCGAAGT
95816544 CAGCAAGCCTTAACCC-CTTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
1 CAGCAAGCCTTAACCCTC-TAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAA
*
95816608 CAGTAATGGAACAGATCGAAGT
65 CAGTAGTGGAACAGATCGAAGT
* *
95816630 CAGCAAGCCTTAACCCTTTAAGCAATAGGGT
1 CAGCAAGCCTTAACCCTCTAAGCAGTAGGGT
95816661 TGTAACGACC
Statistics
Matches: 253, Mismatches: 24, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
82 2 0.01
83 5 0.02
84 93 0.37
85 1 0.00
86 151 0.60
87 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (86 bp):
CAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAAC
AGTAGTGGAACAGATCGAAGT
Found at i:95816542 original size:170 final size:172
Alignment explanation
Indices: 95816331--95816643 Score: 485
Period size: 170 Copynumber: 1.8 Consensus size: 172
95816321 AATAGGCAGG
*
95816331 AAAATACAGACCTCCCCTAAACAGTAGTAGAGAAAATCGAAGAT-AGCAAGCCTTAA-CTCTCTA
1 AAAATACAGACCTCCCCTAAACAGTAGTAGAGAAAATCGAAG-TCAGCAAGCCTTAACCCCT-TA
* * * * *
95816394 AGCAGTAGGGTAACCGG-T-TAGAAAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAG
64 AGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAG
95816457 TCAGCAAGCCTTAACTTCTTAAGCGGTACGGTAACAGGCTAAAA
129 TCAGCAAGCCTTAACTTCTTAAGCGGTACGGTAACAGGCTAAAA
*
95816501 AAAATACAGATCTCCCCTAAACAGTAGT-G-GAACAGATCGAAGTCAGCAAGCCTTAACCCCTTA
1 AAAATACAGACCTCCCCTAAACAGTAGTAGAGAA-A-ATCGAAGTCAGCAAGCCTTAACCCCTTA
95816564 AGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAG
64 AGCAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAG
95816629 TCAGCAAGCCTTAAC
129 TCAGCAAGCCTTAAC
95816644 CCTTTAAGCA
Statistics
Matches: 130, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
168 3 0.02
169 3 0.02
170 64 0.49
171 4 0.03
172 56 0.43
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (172 bp):
AAAATACAGACCTCCCCTAAACAGTAGTAGAGAAAATCGAAGTCAGCAAGCCTTAACCCCTTAAG
CAGTAGGGTAACAGGCTAAAAAAAATACAGATCTCCCCTAAACAGTAATGGAACAGATCGAAGTC
AGCAAGCCTTAACTTCTTAAGCGGTACGGTAACAGGCTAAAA
Found at i:95818273 original size:15 final size:15
Alignment explanation
Indices: 95818253--95818309 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
95818243 CGATGAATTT
95818253 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
95818268 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
95818283 ATTGAATTTATATTG
1 ATTGAATTTATATTG
95818298 ATTGAA-TTATAT
1 ATTGAATTTATAT
95818310 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:95818712 original size:23 final size:23
Alignment explanation
Indices: 95818682--95818768 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
95818672 GCTTTATCGA
* *
95818682 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
95818705 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
95818726 CCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
95818748 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
95818769 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 34 0.64
22 1 0.02
23 18 0.34
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:95820017 original size:84 final size:84
Alignment explanation
Indices: 95819867--95820261 Score: 592
Period size: 84 Copynumber: 4.7 Consensus size: 84
95819857 GGACGTTACA
* * * * *
95819867 AGGGTAACAGGCTAAAAAATATAGATCTCCCCTAAACAGTAACGGAGCAGATCGAAAACAGCAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
* *
95819932 CCTTAACTCTCTAAGTAGT
66 CCTTAACTCCCTAAGCAGT
*
95819951 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAACAGATCGAAGACAGTAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
95820016 CCTTAACTCCCTAAGCAGT
66 CCTTAACTCCCTAAGCAGT
* * *
95820035 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAATAGTAGCGGAGCAGATCAAAGACAATAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
95820100 CCTTAACTCCCTAAGCAGT
66 CCTTAACTCCCTAAGCAGT
* ** *
95820119 AGGGTAACAGGTTAGAAAATACAGATCTTTCCTAAACAGTAGCGGAGCAGATCGAAGATAGTAAG
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
*
95820184 CCTTAACTCCCTAAGTAGT
66 CCTTAACTCCCTAAGCAGT
* * * * * *
95820203 AGGGTAACCGGCTAGAAGATACAAATCTCCCCTAAAAAGTAGTGGAGCAGATTGAAGAC
1 AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGAC
95820262 GAGTTCCTAT
Statistics
Matches: 281, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 281 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (84 bp):
AGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAACAGTAGCGGAGCAGATCGAAGACAGTAAG
CCTTAACTCCCTAAGCAGT
Found at i:95820035 original size:44 final size:42
Alignment explanation
Indices: 95819980--95820197 Score: 118
Period size: 44 Copynumber: 5.1 Consensus size: 42
95819970 TACAGATCTC
95819980 CCCTAAACAGTAGCGGAACAGATCGAAGACAGTAAGCCTTAACT
1 CCCTAAACAGTAGCGGAACAGATCGAAGA-A-TAAGCCTTAACT
* * * *
95820024 CCCTAAGCAGTAG-GGTAACAGGCTAGAA-AATACAG----ATCT
1 CCCTAAACAGTAGCGG-AACA-GATCGAAGAATA-AGCCTTAACT
* * *
95820063 CCCCTAAATAGTAGCGGAGCAGATCAAAGACAATAAGCCTTAACT
1 -CCCTAAACAGTAGCGGAACAGATCGAAG--AATAAGCCTTAACT
* * * *
95820108 CCCTAAGCAGTAG-GGTAACAGGTTAGAA-AATACAGATCTT---T
1 CCCTAAACAGTAGCGG-AACA-GATCGAAGAATA-AG-CCTTAACT
*
95820149 -CCTAAACAGTAGCGGAGCAGATCGAAGATAGTAAGCCTTAACT
1 CCCTAAACAGTAGCGGAACAGATCGAAGA-A-TAAGCCTTAACT
95820192 CCCTAA
1 CCCTAA
95820198 GTAGTAGGGT
Statistics
Matches: 127, Mismatches: 23, Indels: 48
0.64 0.12 0.24
Matches are distributed among these distances:
39 12 0.09
40 32 0.25
41 10 0.08
42 12 0.09
43 10 0.08
44 39 0.31
45 12 0.09
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (42 bp):
CCCTAAACAGTAGCGGAACAGATCGAAGAATAAGCCTTAACT
Found at i:95820076 original size:40 final size:40
Alignment explanation
Indices: 95819948--95820160 Score: 116
Period size: 40 Copynumber: 5.1 Consensus size: 40
95819938 CTCTCTAAGT
95819948 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
1 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
* * * *
95819988 AGTAGCGG-AACA-GATCGAAGACAGTA-AG-CCTTAACTCCCTAAGC
1 AGTAG-GGTAACAGGCTAGAA-A-A-TACAGATC-T--C-CCCTAAAC
*
95820032 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAT
1 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
* * * * * *
95820072 AGTAGCGG-AGCAGATCAAAGACAATA-AG-CCTTAACTCCCTAAGC
1 AGTAG-GGTAACAG-GC-TAGAAAATACAGATC-T--C-CCCTAAAC
* **
95820116 AGTAGGGTAACAGGTTAGAAAATACAGATCTTTCCTAAAC
1 AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
95820156 AGTAG
1 AGTAG
95820161 CGGAGCAGAT
Statistics
Matches: 126, Mismatches: 25, Indels: 44
0.65 0.13 0.23
Matches are distributed among these distances:
39 5 0.04
40 38 0.30
41 13 0.10
42 18 0.14
43 13 0.10
44 34 0.27
45 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (40 bp):
AGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTAAAC
Found at i:95822843 original size:125 final size:125
Alignment explanation
Indices: 95822427--95822836 Score: 464
Period size: 125 Copynumber: 3.2 Consensus size: 125
95822417 TTGAAGGTCC
* * * * *
95822427 GAGAAATCGTGCCTAATCGTGTTGGGTTTCGATTTTTTCGTTCAGCTAAAATGCGGAATATCCTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCAACTAAAATACGGAATATCCTT
** * *
95822492 TGGAAATTTTGTCCAT-TTTTTTTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTT
66 T-GAAATTTCATCCATGTTTTCTT-AAATTAAAATGAGGCAATATTTCGTATTT-GGAAGTTT
* * * *
95822554 GAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTTTCATTCGACTAAAATATGGAATATCC
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTTCATTCAACTAAAATACGGAATATCC
* * * * *
95822619 TTTTTTGAAATTTCATTCAAGTTTTCTTAAACTAAAACGAGGCAATATTTTGTATTTGGAAGTTT
64 ---TTTGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTT
* * * *
95822684 GAGAGATCGTGCCCAATCGTGCTGAGTTTCGA-TTTTTCATTCAACTAAGATACGAAATATCCTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCAACTAAAATACGGAATATCCTT
* * * *
95822748 TCAACATTTCATCCATGTTTTCTTAAATTAAAATGAGGTAATATTTCGTATTTGGAAATTC
66 TGAA-ATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTT
* * *
95822809 GATAAATCATGCCCAATCGTGTTGGGTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTT
95822837 GTGATTTACT
Statistics
Matches: 238, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
124 5 0.02
125 71 0.30
127 54 0.23
129 26 0.11
130 37 0.16
131 36 0.15
132 9 0.04
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (125 bp):
GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCAACTAAAATACGGAATATCCTT
TGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATTTGGAAGTTT
Found at i:95822882 original size:125 final size:125
Alignment explanation
Indices: 95822483--95822883 Score: 290
Period size: 125 Copynumber: 3.2 Consensus size: 125
95822473 TAAAATGCGG
* ** * * * *
95822483 AATATCCTTTGGAAATTTTGTCC-ATTTTTTTTAAAATTAAAATGAGGCAATATTTCGTATTTGG
1 AATATCCTTTTGAAATTTCATCCAAGTTTTCTT-AAACTAAAACGAGGCAATATTTCGTATTT-G
* * * * * * * * * * * ***
95822547 GGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTTTTCATTCGACTAAAATATGG
64 GAAATTCGAGAAATCATGCCCAATCGTGCTGAGTTTCGA---TTTCTCATTCAACCAAGATACCA
* *
95822612 AATATCCTTTTTTGAAATTTCATTCAAGTTTTCTTAAACTAAAACGAGGCAATATTTTGTATTTG
1 AATATCC--TTTTGAAATTTCATCCAAGTTTTCTTAAACTAAAACGAGGCAATATTTCGTATTTG
* * * * * * *
95822677 GAAGTTTGAGAGATCGTGCCCAATCGTGCTGAGTTTCGATTTTTCATTCAACTAAGATACGA
64 GAAATTCGAGAAATCATGCCCAATCGTGCTGAGTTTCGATTTCTCATTCAACCAAGATACCA
* * * * *
95822739 AATATCC-TTTCAACATTTCATCCATGTTTTCTTAAATTAAAATGAGGTAATATTTCGTATTTGG
1 AATATCCTTTTGAA-ATTTCATCCAAGTTTTCTTAAACTAAAACGAGGCAATATTTCGTATTTGG
* * * * ***
95822803 AAATTCGATAAATCATGCCCAATCGTGTTGGGTTGT-GATTTACT-GTTTGGCCAA-ATAACCA
65 AAATTCGAGAAATCATGCCCAATCGTGCTGAGTT-TCGATTT-CTCATTCAACCAAGAT-ACCA
95822864 AATATCCTTTTGAAATTTCA
1 AATATCCTTTTGAAATTTCA
95822884 AATGCACGAG
Statistics
Matches: 226, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
124 7 0.03
125 97 0.43
126 7 0.03
127 26 0.12
129 7 0.03
130 37 0.16
131 38 0.17
132 7 0.03
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (125 bp):
AATATCCTTTTGAAATTTCATCCAAGTTTTCTTAAACTAAAACGAGGCAATATTTCGTATTTGGA
AATTCGAGAAATCATGCCCAATCGTGCTGAGTTTCGATTTCTCATTCAACCAAGATACCA
Found at i:95826250 original size:18 final size:19
Alignment explanation
Indices: 95826227--95826266 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
95826217 CAAGTGTATG
95826227 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATGT
*
95826245 GTAAAAATAATATACATTT
1 GTAAAAATAATATACATGT
95826264 GTA
1 GTA
95826267 TATAATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATGT
Found at i:95826313 original size:5 final size:5
Alignment explanation
Indices: 95826299--95826328 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
95826289 AATATTTAAG
95826299 TATA- TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
95826329 GTTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:95826449 original size:24 final size:24
Alignment explanation
Indices: 95826380--95826449 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 24
95826370 ATGAAATAGA
* *
95826380 AAAAG-GAATAGAAACAT-AGAAGT
1 AAAAGAGAA-AGAAAAATGAGAAGG
95826403 AAAA-ACGAAAGAAAAA-GAAAGAAGG
1 AAAAGA-GAAAGAAAAATG--AGAAGG
95826428 AAAAGAGAAAGAAAAATGAGAA
1 AAAAGAGAAAGAAAAATGAGAA
95826450 AAAAGCTAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
25 19 0.50
26 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.06
Consensus pattern (24 bp):
AAAAGAGAAAGAAAAATGAGAAGG
Found at i:95826691 original size:24 final size:24
Alignment explanation
Indices: 95826663--95826709 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95826653 TTGAAATGGA
95826663 ATTG-ATTTAGTATTTGAT-GAATTT
1 ATTGAATTTA-TA-TTGATCGAATTT
95826687 ATTGAATTTATATTGATCGAATT
1 ATTGAATTTATATTGATCGAATT
95826710 GATATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATCGAATTT
Found at i:95839155 original size:16 final size:16
Alignment explanation
Indices: 95839124--95839154 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
95839114 AATTGTTCTC
95839124 CTTTTTTTTCTTTTTT
1 CTTTTTTTTCTTTTTT
95839140 CTTTTTTTT-TTTTTT
1 CTTTTTTTTCTTTTTT
95839155 TGGGGGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTT
Found at i:95840816 original size:41 final size:41
Alignment explanation
Indices: 95840725--95840825 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 41
95840715 TTTTCAGTTA
* * *
95840725 AGGTGAAATGTAGAAAAATACTTCTAACTTGAAGCGCTTTC
1 AGGTGAAATATAGAAAAACACTTCTAACTTGAAGCACTTTC
* * * *
95840766 AGGTAAAATATAGAAAAACACTTCTTA-TTGGAAGTACTTTT
1 AGGTGAAATATAGAAAAACACTTCTAACTT-GAAGCACTTTC
*
95840807 AGGTGAAATATAGGAAAAC
1 AGGTGAAATATAGAAAAAC
95840826 GCTTTCAGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 2 0.04
41 48 0.96
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (41 bp):
AGGTGAAATATAGAAAAACACTTCTAACTTGAAGCACTTTC
Found at i:95840838 original size:41 final size:41
Alignment explanation
Indices: 95840725--95840839 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
95840715 TTTTCAGTTA
* * * * **
95840725 AGGTGAAATGTAGAAAAATACTTCTAACTT-GAAGCGCTTTC
1 AGGTAAAATATAGAAAAACACTTCTCA-TTGGAAGTACTTTC
* *
95840766 AGGTAAAATATAGAAAAACACTTCTTATTGGAAGTACTTTT
1 AGGTAAAATATAGAAAAACACTTCTCATTGGAAGTACTTTC
* * *
95840807 AGGTGAAATATAGGAAAACGCTT-TCAGTTGGAA
1 AGGTAAAATATAGAAAAACACTTCTCA-TTGGAA
95840840 ATAGTTTCCG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
40 4 0.07
41 57 0.93
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (41 bp):
AGGTAAAATATAGAAAAACACTTCTCATTGGAAGTACTTTC
Found at i:95844062 original size:46 final size:44
Alignment explanation
Indices: 95844003--95844117 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
95843993 ACAGGACAGA
* *
95844003 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
95844049 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
95844093 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
95844118 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:95844098 original size:44 final size:45
Alignment explanation
Indices: 95844003--95844136 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
95843993 ACAGGACAGA
* *
95844003 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
95844049 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
95844093 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
95844137 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:95847885 original size:37 final size:37
Alignment explanation
Indices: 95847825--95847933 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
95847815 AGCTCAGATG
* *
95847825 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
95847862 AAATCTCCACACGTAGTCGTCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
95847899 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
95847934 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:95848132 original size:48 final size:48
Alignment explanation
Indices: 95848059--95849009 Score: 1398
Period size: 48 Copynumber: 19.3 Consensus size: 48
95848049 GGTCATTCGG
* *
95848059 CCACAATATACACTTATCTCCTACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACA--TATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848110 CCACATATACATATCTTATACATATTTCACACTAGCCATTCGGGTGGTGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTC-----G-GCTTTA
*
95848164 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848214 CCACATACACATATCTCATACATATTTCACATTAGCCATTCGGTTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848262 CCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
95848310 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
95848360 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848408 CCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848456 CCACATATACGTATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
**
95848506 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTA
1 CCAC----ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
95848558 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
95848606 CCACATATACATATCTCATATATATTTCACATTAGCCATTAGGGTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848654 CCACATGTACGTATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
95848702 CCACATATACATATCTCATACATATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATAC--ATATTTCACATTAGCCATTCGGCTTTA
*
95848752 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
*
95848802 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
95848850 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTA
*
95848900 CCACATATACATACCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848948 CCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848996 CCACACATATATAT
1 CCACATATACATAT
95849010 ATATTTATCT
Statistics
Matches: 825, Mismatches: 53, Indels: 47
0.89 0.06 0.05
Matches are distributed among these distances:
48 489 0.59
50 239 0.29
51 5 0.01
52 35 0.04
53 1 0.00
54 34 0.04
56 22 0.03
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:95848342 original size:98 final size:96
Alignment explanation
Indices: 95848059--95849009 Score: 1398
Period size: 98 Copynumber: 9.6 Consensus size: 96
95848049 GGTCATTCGG
* *
95848059 CCACAATATACACTTATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 CCAC-ATATACA--TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* *
95848124 CTTATACATATTTCACACTAGCCATTCGGGTGGTGCTTTA
63 CTCATACATATTTCACATTAGCCATTC-----G-GCTTTA
* *
95848164 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATACACATATC
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
*
95848229 TCATACATATTTCACATTAGCCATTCGGTTTTA
64 TCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848262 CCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
95848327 ATATATATATTTCACATTAGCCATTCGGCTTTA
66 --ATACATATTTCACATTAGCCATTCGGCTTTA
*
95848360 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
95848425 ATACATATTTCACACTAGCCATTCGGCTTTA
66 ATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848456 CCACATATACGTATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATATATACA
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCAC----ATATACA
**
95848521 TATCTCATACATATTTCACATTAGCCATTCAACTTTA
60 TATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
95848558 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
* * *
95848623 ATATATATTTCACATTAGCCATTAGGGTTTA
66 ATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848654 CCACATGTACGTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
95848719 ATACATATATTTCACACTAGCCATTCGGCTTTA
66 ATAC--ATATTTCACATTAGCCATTCGGCTTTA
*
95848752 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
*
95848817 TCATACATATTTCACACTAGCCATTCGGCTTTA
64 TCATACATATTTCACATTAGCCATTCGGCTTTA
* *
95848850 CCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATACC
1 CCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
95848915 TCATACATATTTCACATTAGCCATTCGGCTTTA
64 TCATACATATTTCACATTAGCCATTCGGCTTTA
* * * *
95848948 CCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
95849010 ATATTTATCT
Statistics
Matches: 782, Mismatches: 50, Indels: 37
0.90 0.06 0.04
Matches are distributed among these distances:
96 234 0.30
98 324 0.41
99 1 0.00
100 84 0.11
102 62 0.08
104 73 0.09
105 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (96 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
ATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:95848382 original size:146 final size:146
Alignment explanation
Indices: 95848059--95849009 Score: 1514
Period size: 146 Copynumber: 6.4 Consensus size: 146
95848049 GGTCATTCGG
* *
95848059 CCACAATATACACTTATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 CCAC-ATATACA--TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
95848124 CTTATACATATTTCACACTAGCCATTCGGGTGGTGCTTTACCACATATACATATCTCATATATAT
63 CTCATACATATTTCACACTAGCCATTC-----G-GCTTTACCACATATACATATCTCATATATAT
95848189 ATTTCACATTAGCCATTCGGCTTTA
122 ATTTCACATTAGCCATTCGGCTTTA
* * *
95848214 CCACATACACATATCTCATACATATTTCACATTAGCCATTCGGTTTTACCACATATACGTATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
95848279 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
66 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
95848344 TAGCCATTCGGCTTTA
131 TAGCCATTCGGCTTTA
*
95848360 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
95848425 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATATATATATTTCACAT
66 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
95848490 TAGCCATTCGGCTTTA
131 TAGCCATTCGGCTTTA
**
95848506 CCACATATATATACATATCTCATACATATTTCACATTAGCCATTCAACTTTACCACATATACATA
1 CCAC----ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
95848571 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATTTC
62 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
* *
95848634 ACATTAGCCATTAGGGTTTA
127 ACATTAGCCATTCGGCTTTA
* *
95848654 CCACATGTACGTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
95848719 ATACATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCAC
66 ATAC--ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCAC
95848784 ATTAGCCATTCGGCTTTA
129 ATTAGCCATTCGGCTTTA
*
95848802 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
* * * *
95848867 ATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTC--ATACATATTTCAC
66 --ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCAC
95848930 ATTAGCCATTCGGCTTTA
129 ATTAGCCATTCGGCTTTA
* * * *
95848948 CCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
95849010 ATATTTATCT
Statistics
Matches: 755, Mismatches: 31, Indels: 29
0.93 0.04 0.04
Matches are distributed among these distances:
144 61 0.08
146 336 0.45
147 1 0.00
148 166 0.22
150 108 0.14
152 73 0.10
154 6 0.01
155 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (146 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
TAGCCATTCGGCTTTA
Found at i:95853027 original size:13 final size:13
Alignment explanation
Indices: 95853009--95853048 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
95852999 GAATTAATTT
95853009 TTAATAAAAAATA
1 TTAATAAAAAATA
95853022 TTAATAAAAAAT-
1 TTAATAAAAAATA
*
95853034 CTAATAAAAAATA
1 TTAATAAAAAATA
95853047 TT
1 TT
95853049 TTTAAGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAATAAAAAATA
Found at i:95853038 original size:12 final size:13
Alignment explanation
Indices: 95853010--95853046 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
95853000 AATTAATTTT
*
95853010 TAATAAAAAATAT
1 TAATAAAAAATAC
95853023 TAATAAAAAAT-C
1 TAATAAAAAATAC
95853035 TAATAAAAAATA
1 TAATAAAAAATA
95853047 TTTTTAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TAATAAAAAATAC
Found at i:95857356 original size:3 final size:3
Alignment explanation
Indices: 95857348--95857375 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
95857338 TCAGAAGCAC
95857348 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
95857376 AGTATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:95866590 original size:19 final size:20
Alignment explanation
Indices: 95866556--95866598 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
95866546 CCTCTTTTTT
*
95866556 CATT-CATTTCATTCATCTG
1 CATTACATTTCATTCATATG
95866575 CATTACATTTCA-TCATATG
1 CATTACATTTCATTCATATG
95866594 CATTA
1 CATTA
95866599 AGTTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
CATTACATTTCATTCATATG
Found at i:95874734 original size:44 final size:45
Alignment explanation
Indices: 95874671--95874781 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 45
95874661 CACAAACCTT
* ** * *
95874671 ATCTCCCTAAAGTCACAGTGGAGCAAGTTGAAGTTA-C-AATTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAA-TCTC
*
95874715 ATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAGCGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTC
* *
95874760 ATTTCCCTGAAATTGCAGTGGA
1 ATCTCCCTGAAGTTGCAGTGGA
95874782 ACGGATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 30 0.54
45 24 0.43
46 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTC
Found at i:95874776 original size:45 final size:44
Alignment explanation
Indices: 95874686--95874779 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
95874676 CCTAAAGTCA
* * * *
95874686 CAGTGGAGCAAGTTGAAGTTACAATTCTCATCTCCCTGAAGTTG
1 CAGTGAAGCAAATTGAAGATACAATTCTCATCTCCCTGAAATTG
*
95874730 CAGTGAAGCAAATTGAAGATAGCGAA-TCTCATTTCCCTGAAATTG
1 CAGTGAAGCAAATTGAAGATA-C-AATTCTCATCTCCCTGAAATTG
95874775 CAGTG
1 CAGTG
95874780 GAACGGATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 18 0.42
45 23 0.53
46 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGTGAAGCAAATTGAAGATACAATTCTCATCTCCCTGAAATTG
Found at i:95874921 original size:44 final size:44
Alignment explanation
Indices: 95874853--95875025 Score: 186
Period size: 44 Copynumber: 3.9 Consensus size: 44
95874843 TCTACCATGG
95874853 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
* * * * **
95874897 CAAACCTTATCTCCCTGAAGTTTCAGTGGAGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
* * * ***
95874941 CAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
* * **
95874985 CGAATCTTATCTCCCTGAAATTGT-AGTGGAACAGATTAAAG
1 CAAATCTTATCTCCCTGAAGTT-TCAGTGGAGTAGATTAAAG
95875026 CTACGAGTTA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 108 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCA
Found at i:95875002 original size:88 final size:91
Alignment explanation
Indices: 95874853--95875116 Score: 275
Period size: 95 Copynumber: 2.9 Consensus size: 91
95874843 TCTACCATGG
* * *** * *
95874853 CAAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCACAAACCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
* *
95874918 TTCAGTGGAGCAGGTT-G-A-AGTTA
66 TTCAGTGGAACAGATTAGCACAGTTA
* *
95874941 CAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
95875006 TGT-AGTGGAACAGATTAAAGCTACGAGTTA
66 T-TCAGTGGAACAGATT--AGC-AC-AGTTA
* * * * * * * *
95875036 CAAATCTTATCTCCCTAAAGTTGCAGAGGAGCAGAGTGTAGATGCGAGTCTAATCTCCTTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
*
95875101 TACAGTGGAACAGATT
66 TTCAGTGGAACAGATT
95875117 GTAAATGCGA
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
88 68 0.47
89 1 0.01
91 1 0.01
93 1 0.01
95 74 0.51
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (91 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGT
TTCAGTGGAACAGATTAGCACAGTTA
Found at i:95875041 original size:233 final size:233
Alignment explanation
Indices: 95874622--95875058 Score: 662
Period size: 233 Copynumber: 1.9 Consensus size: 233
95874612 TATCGTGATG
*
95874622 AATCTTATCTCCCTGAAGTTGCAGTTGAGTAGATAAAGCCACAAACCTTATCTCCCTAAAGTCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGCCACAAACCTTATCTCCCTAAAGTCAC
*
95874687 AGTGGAGCAAGTTGAAGTTACAATTCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAG
66 AGTGGAGCAAGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAG
* * *
95874752 CGAATCTCATTTCCCTGAAATTGCAGTGGAACGGATTAAAGCTATAAGTCACAAATCCTATAC-C
131 CGAATCTCATCTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTCACAAATCCTAT-CTC
*
95874816 TCTAAAGTTGTAGTAGATCGGATTAAATCTACCATGGCA
195 CCTAAAGTTGTAGTAGATCGGATTAAATCTACCATGGCA
* * * **
95874855 AATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTAAAGGCACAAACCTTATCTCCCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TAAAGCCACAAACCTTATCTCCCTAAAGTCA
* * * *
95874920 CAGTGGAGCAGGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-
65 CAGTGGAGCAAGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATA
* * * * *
95874984 GCGAATCTTATCTCCCTGAAATTGTAGTGGAACAGATTAAAGCTACGAGTTACAAATCTTATCTC
130 GCGAATCTCATCTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTCACAAATCCTATCTC
95875049 CCTAAAGTTG
195 CCTAAAGTTG
95875059 CAGAGGAGCA
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
232 1 0.01
233 95 0.52
234 86 0.47
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (233 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATAAAGCCACAAACCTTATCTCCCTAAAGTCAC
AGTGGAGCAAGTTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGATAG
CGAATCTCATCTCCCTGAAATTGCAGTGGAACAGATTAAAGCTACAAGTCACAAATCCTATCTCC
CTAAAGTTGTAGTAGATCGGATTAAATCTACCATGGCA
Found at i:95875125 original size:44 final size:44
Alignment explanation
Indices: 95875044--95875146 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
95875034 TACAAATCTT
* * * *
95875044 ATCTCCCTAAAGTTGCAGAGGAGCAGAGTGTAGATGCGAGTCTA
1 ATCTCCCTGAAGTTACAGAGGAACAGAGTGTAAATGCGAGTCTA
* * *
95875088 ATCTCCTTGAAGTTACAGTGGAACAGATTGTAAATGCGAGTCTA
1 ATCTCCCTGAAGTTACAGAGGAACAGAGTGTAAATGCGAGTCTA
*
95875132 GTCTCCCTGAAGTTA
1 ATCTCCCTGAAGTTA
95875147 TAGTAAAGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAAGTTACAGAGGAACAGAGTGTAAATGCGAGTCTA
Found at i:95876642 original size:12 final size:12
Alignment explanation
Indices: 95876627--95876661 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
95876617 TTTTAAAAAC
*
95876627 TATTTTATTTAA
1 TATTTCATTTAA
95876639 TATTTCATTTAA
1 TATTTCATTTAA
95876651 TATTTCATTTA
1 TATTTCATTTA
95876662 TTTATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTCATTTAA
Found at i:95878424 original size:53 final size:53
Alignment explanation
Indices: 95878355--95878516 Score: 173
Period size: 53 Copynumber: 3.0 Consensus size: 53
95878345 CATGAAAAAT
*
95878355 AATTTTTTTGGGTGCTAGGACACTGAT-GATCGACACCCTTGTACCAAATTTAA
1 AATTTTTTTGGGTGCTAAGACACTGATAG-TCGACACCCTTGTACCAAATTTAA
** * * ** * *
95878408 AATTTTTTTTTGTGCTAATACATTGATAGTCGACACCCCAGTACTAGATTTAA
1 AATTTTTTTGGGTGCTAAGACACTGATAGTCGACACCCTTGTACCAAATTTAA
** * * *
95878461 AATAAATTTTGGGTGCTAAGACACTGATAGTTGGCACCCTTGTACCAAATTAAA
1 AAT-TTTTTTGGGTGCTAAGACACTGATAGTCGACACCCTTGTACCAAATTTAA
95878515 AA
1 AA
95878517 AATTTGGGAT
Statistics
Matches: 85, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.53
54 40 0.47
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (53 bp):
AATTTTTTTGGGTGCTAAGACACTGATAGTCGACACCCTTGTACCAAATTTAA
Found at i:95878499 original size:54 final size:51
Alignment explanation
Indices: 95878361--95878572 Score: 138
Period size: 53 Copynumber: 4.0 Consensus size: 51
95878351 AAATAATTTT
* * ** ***
95878361 TTTGGGTGCTAGGACACTGAT-GATCGACACCCTTGTACCAAATTTAAAATTTT
1 TTTGGGTGCTAAGACACTGATAG-TCGGCACCCCAGTACCAAA-TTAAAA-AAA
** * * * * *
95878414 TTTTTGTGCTAATACATTGATAGTCGACACCCCAGTACTAGATTTAAAATAAA
1 TTTGGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCA-AATTAAAA-AAA
* **
95878467 TTTTGGGTGCTAAGACACTGATAGTTGGCACCCTTGTACCAAATTAAAAAAA
1 -TTTGGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCAAATTAAAAAAA
* * * * * *
95878519 TTTGGGATGTTGAGACACTGATGGTCGGCACCTCAATACCATACTTAAAAAAA
1 TTTGGG-TGCTAAGACACTGATAGTCGGCACCCCAGTACCA-AATTAAAAAAA
95878572 T
1 T
95878573 ATTTTTTTGG
Statistics
Matches: 123, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
51 6 0.05
52 29 0.24
53 55 0.45
54 33 0.27
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
TTTGGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCAAATTAAAAAAA
Found at i:95885546 original size:15 final size:15
Alignment explanation
Indices: 95885526--95885570 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
95885516 TTATTAAATT
*
95885526 ATAATGATAGTAATA
1 ATAATGATAATAATA
95885541 ATAATGATAATAATA
1 ATAATGATAATAATA
* *
95885556 ATAACGAGAATAATA
1 ATAATGATAATAATA
95885571 CATGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (15 bp):
ATAATGATAATAATA
Found at i:95892722 original size:43 final size:45
Alignment explanation
Indices: 95892633--95892752 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 45
95892623 TGTGATTACA
*
95892633 TGTAAGACCATGTCTGGGACATTGGCAT--TATATTCAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTATG
95892676 TGTAAGACCATGTCTGGGACATTGGCATCGT-TAATC-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTAT-G
* *
95892719 TGTAAGACCCTGTAC-GGGACAATGGCATCG-ATAA
1 TGTAAGACCATGT-CTGGGACATTGGCATCGTATAA
95892753 ATAATAACAT
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
42 1 0.01
43 62 0.90
44 5 0.07
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTATG
Found at i:95894540 original size:40 final size:40
Alignment explanation
Indices: 95894481--95894704 Score: 247
Period size: 40 Copynumber: 5.5 Consensus size: 40
95894471 ACCCAAGTAT
* * *
95894481 CTTCGGGATTTA-TCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * * **
95894520 CATCGGGTCTTAGCCTGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
95894560 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* * * *
95894600 ATTCGGGACTTAGCCCGGGTGTGGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* * *
95894643 CTTCGGGACTTAGCCCGGATATAGTAACTTGCAAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
95894683 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
95894705 CATCCGAATA
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 10 0.06
40 110 0.71
41 1 0.01
43 34 0.22
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:95897872 original size:26 final size:26
Alignment explanation
Indices: 95897843--95897900 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
95897833 CCCGATATAT
95897843 GGCTCTTCGTGAGCTT-CTCGATTAAA
1 GGCTCTTCGTGAGCTTCCT-GATTAAA
* *
95897869 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCTGATTAAA
95897895 GGCTCT
1 GGCTCT
95897901 CCAGAGCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTGATTAAA
Found at i:95898005 original size:48 final size:49
Alignment explanation
Indices: 95897953--95898061 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 49
95897943 GGCTATCTAG
* ** *
95897953 AGCTTCCCATTAATGGCTCTTCTGAGCAACCCGTTAT-TGGCTCGCATA
1 AGCTTCCCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
** ** *
95898001 AGCTTCTTGATT-ATGGCTCTTATGAGCTTCCCGTTATACAGCCCGGATA
1 AGCTTC-CCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
95898050 AGCTTCCCATTA
1 AGCTTCCCATTA
95898062 TATAGCTCAC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
48 31 0.66
49 16 0.34
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (49 bp):
AGCTTCCCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
Found at i:95901221 original size:25 final size:25
Alignment explanation
Indices: 95901187--95901238 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
95901177 AAGAAAATAC
95901187 CTTACCGGTAATAATCTCGAGTAAA
1 CTTACCGGTAATAATCTCGAGTAAA
95901212 CTTACCGGTAATAATCTCGAGTAAA
1 CTTACCGGTAATAATCTCGAGTAAA
95901237 CT
1 CT
95901239 CTCGAAGGTA
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:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
CTTACCGGTAATAATCTCGAGTAAA
Found at i:95906988 original size:20 final size:20
Alignment explanation
Indices: 95906972--95907019 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
95906962 TGATTGTTTG
95906972 AAAAATAATTTGCTTG-TAC
1 AAAAATAATTTGCTTGTTAC
*
95906991 ATAAATAATTTGCTTGTGTAC
1 AAAAATAATTTGCTTGT-TAC
*
95907012 ATAAATAA
1 AAAAATAA
95907020 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATAATTTGCTTGTTAC
Found at i:95906996 original size:19 final size:21
Alignment explanation
Indices: 95906974--95907019 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
95906964 ATTGTTTGAA
95906974 AAATAATTTGC-T-TGTACAT
1 AAATAATTTGCTTGTGTACAT
95906993 AAATAATTTGCTTGTGTACAT
1 AAATAATTTGCTTGTGTACAT
95907014 AAATAA
1 AAATAA
95907020 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.44
20 1 0.04
21 13 0.52
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
AAATAATTTGCTTGTGTACAT
Found at i:95907021 original size:4 final size:4
Alignment explanation
Indices: 95907012--95907049 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
95907002 GCTTGTGTAC
*
95907012 ATAA ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
95907050 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:95907034 original size:17 final size:17
Alignment explanation
Indices: 95907014--95907049 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
95907004 TTGTGTACAT
95907014 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
*
95907031 AAATGAATAAATAAATA
1 AAATAAATAAATAAATA
95907048 AA
1 AA
95907050 GGCTCAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:95907784 original size:5 final size:5
Alignment explanation
Indices: 95907774--95907811 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
95907764 TAGGAAAATC
95907774 TTATT TTATT TT-TT TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
95907812 TGATTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 16 0.52
6 11 0.35
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTATT
Found at i:95907794 original size:6 final size:6
Alignment explanation
Indices: 95907785--95907823 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
95907775 TATTTTATTT
95907785 TTTTTA TTTTTA TTTTTA -TTTTA TTTTTGA TTTTATA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTT-TA TT
95907824 AAATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 16 0.53
7 8 0.27
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:95907802 original size:12 final size:12
Alignment explanation
Indices: 95907785--95907823 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
95907775 TATTTTATTT
95907785 TTTTTATTTTTA
1 TTTTTATTTTTA
95907797 TTTTTA-TTTTA
1 TTTTTATTTTTA
95907808 TTTTTGATTTTATA
1 TTTTT-ATTTT-TA
95907822 TT
1 TT
95907824 AAATTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 7 0.29
13 3 0.12
14 4 0.17
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:95907808 original size:17 final size:17
Alignment explanation
Indices: 95907777--95907823 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
95907767 GAAAATCTTA
95907777 TTTTA-TTTT-TTTTAT
1 TTTTATTTTTATTTTAT
95907792 TTTTATTTTTATTTTAT
1 TTTTATTTTTATTTTAT
95907809 TTTTGATTTTATATT
1 TTTT-ATTTT-TATT
95907824 AAATTAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.18
16 4 0.14
17 10 0.36
18 5 0.18
19 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTTAT
Found at i:95909222 original size:21 final size:21
Alignment explanation
Indices: 95909196--95909247 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
95909186 GATTACATTG
95909196 TGAAAAGTGTAAAATGTGGGC
1 TGAAAAGTGTAAAATGTGGGC
* *
95909217 TGAAAAGTGTAAAATTTGGGG
1 TGAAAAGTGTAAAATGTGGGC
*
95909238 TTAAAAGTGT
1 TGAAAAGTGT
95909248 GAATAAATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (21 bp):
TGAAAAGTGTAAAATGTGGGC
Found at i:95909832 original size:43 final size:42
Alignment explanation
Indices: 95909735--95909836 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
95909725 ATCGAGATAT
* *
95909735 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTAA
1 GATTACATGTAAGACCATGGCTGGGACATTGGCATCG-ATTAA
95909778 GATTACATGTAAGACCATGGCTGGGACATTGGCATCG-TTAA
1 GATTACATGTAAGACCATGGCTGGGACATTGGCATCGATTAA
* *
95909819 TCGATTTCGTGTAAGACC
1 --GATTACATGTAAGACC
95909837 TTGTCCGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
41 4 0.08
43 49 0.92
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
GATTACATGTAAGACCATGGCTGGGACATTGGCATCGATTAA
Found at i:95914914 original size:112 final size:109
Alignment explanation
Indices: 95914783--95915100 Score: 399
Period size: 111 Copynumber: 2.9 Consensus size: 109
95914773 ACACTAGAGG
* * * * *
95914783 CATTTAAAAAAAAATTGGGTGCTGGCAAATAGATGGCCGACACTAAGTATATTTTTCTGCTCTCA
1 CATTT-AAAAAAAATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATATTTTTCGGCTCCCA
*
95914848 AGGCTTTTTTTTTTTTACTTTGGGACACTGATAGCCGGCACCAATGT
65 AGGC--TTTTTTTTTTACTTTGGGACACTGATAGCCAGCACCAATGT
*
95914895 CATTTTTAAAAAAAA-TGGGTGCTGGCAAGTAGATAGCCGGCACCAAGTATATGTTTT-GGCTCC
1 CA--TTTAAAAAAAATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATAT-TTTTCGGCTCC
* * *
95914958 CAAGACTTTTTTTTTTACTTTGGGACACTGATGGCCAGCACCGATGT
63 CAAGGCTTTTTTTTTTACTTTGGGACACTGATAGCCAGCACCAATGT
* *
95915005 CATTTAAAAAAAATTTTGGGTGCGGGCCAGTAGATGGCCGGCACCAAGTATA-TTTTCGGCTCCC
1 CATTTAAAAAAAA--TTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATATTTTTCGGCTCCC
* * *
95915069 AATGCACTTTTTTTTTACTTTGGGACATTGAT
64 AAGGC-TTTTTTTTTTACTTTGGGACACTGAT
95915101 TGTTGGCACC
Statistics
Matches: 181, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
108 11 0.06
109 4 0.02
110 50 0.28
111 57 0.31
112 44 0.24
113 12 0.07
114 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (109 bp):
CATTTAAAAAAAATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATATTTTTCGGCTCCCAA
GGCTTTTTTTTTTACTTTGGGACACTGATAGCCAGCACCAATGT
Found at i:95919532 original size:26 final size:26
Alignment explanation
Indices: 95919512--95919569 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
95919502 CCCGATATAT
95919512 GGCTCTTCATGAGCTTCCCGATTAAA
1 GGCTCTTCATGAGCTTCCCGATTAAA
** ** *
95919538 GGCTCTTTGTGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCCGATTAAA
95919564 GGCTCT
1 GGCTCT
95919570 CCGGAGCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCGATTAAA
Found at i:95925318 original size:21 final size:21
Alignment explanation
Indices: 95925295--95925333 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95925285 AAATTATCTT
95925295 TTTTTTC-CATTTAAATTTAA
1 TTTTTTCTCATTTAAATTTAA
*
95925315 TTTTTTCTCATTTCAATTT
1 TTTTTTCTCATTTAAATTT
95925334 TTTTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTCTCATTTAAATTTAA
Found at i:95925318 original size:22 final size:22
Alignment explanation
Indices: 95925279--95925333 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
95925269 TCATTCCATT
* *
95925279 TCATTTAAA-TTATCTTTTTTT
1 TCATTTAAATTTATATTTTTTC
95925300 TCCATTTAAATTTA-ATTTTTTC
1 T-CATTTAAATTTATATTTTTTC
*
95925322 TCATTTCAATTT
1 TCATTTAAATTT
95925334 TTTTCATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 15 0.52
23 3 0.10
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (22 bp):
TCATTTAAATTTATATTTTTTC
Found at i:95925336 original size:18 final size:18
Alignment explanation
Indices: 95925293--95925389 Score: 58
Period size: 18 Copynumber: 5.2 Consensus size: 18
95925283 TTAAATTATC
*
95925293 TTTTTTTTC-CATTTAAA
1 TTTTTTTTCTCATTTCAA
95925310 TTTAATTTTTTCTCATTTCAA
1 -TT--TTTTTTCTCATTTCAA
*
95925331 -TTTTTTTCAT-ATAGCTCATA
1 TTTTTTTTC-TCAT--TTCA-A
* *
95925351 TTTTTTTTTTCATTTCAG
1 TTTTTTTTCTCATTTCAA
95925369 TTTTTGTTT-TCATTTCAA
1 TTTTT-TTTCTCATTTCAA
95925387 TTT
1 TTT
95925390 ATAATTTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
17 9 0.14
18 19 0.30
19 10 0.16
20 9 0.14
21 16 0.25
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTTTTTCTCATTTCAA
Found at i:95925481 original size:28 final size:27
Alignment explanation
Indices: 95925414--95925484 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
95925404 TTTAAACTTC
* *
95925414 CATTCCATTTCATAATAATTACAAATT
1 CATTTCATTTCATATTAATTACAAATT
95925441 CATTTCATTTCATATTAATTACAAATT
1 CATTTCATTTCATATTAATTACAAATT
95925468 ACATTTCATTTCATATT
1 -CATTTCATTTCATATT
95925485 TATTTAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (27 bp):
CATTTCATTTCATATTAATTACAAATT
Found at i:95925500 original size:28 final size:28
Alignment explanation
Indices: 95925414--95925501 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
95925404 TTTAAACTTC
* *
95925414 CATTCCATTTCATAATAATTACAAA-TT
1 CATTTCATTTCATATTAATTACAAATTT
*
95925441 CATTTCATTTCATATTAATTACAAATTA
1 CATTTCATTTCATATTAATTACAAATTT
* *
95925469 CATTTCATTTCATATTTATTTA-ACATTT
1 CATTTCATTTCATA-TTAATTACAAATTT
95925497 CATTT
1 CATTT
95925502 ATTAATTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 23 0.43
28 24 0.45
29 6 0.11
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (28 bp):
CATTTCATTTCATATTAATTACAAATTT
Found at i:95925606 original size:16 final size:17
Alignment explanation
Indices: 95925579--95925613 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
95925569 GTAGTCTCAT
95925579 TTCAATTTTTTTTTCAA
1 TTCAATTTTTTTTTCAA
95925596 TTCAA-TTTTTTTTCAA
1 TTCAATTTTTTTTTCAA
95925612 TT
1 TT
95925614 TATTTCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCAATTTTTTTTTCAA
Found at i:95925697 original size:25 final size:24
Alignment explanation
Indices: 95925659--95925705 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
95925649 TCAATTACAT
*
95925659 TTTATTTAAATTTTGTCATATTTTA
1 TTTATTTAAATTTTCTCA-ATTTTA
**
95925684 TTTATTTATTTTTTCTCAATTT
1 TTTATTTAAATTTTCTCAATTT
95925706 AAATATCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTATTTAAATTTTCTCAATTTTA
Found at i:95925930 original size:17 final size:16
Alignment explanation
Indices: 95925908--95925939 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
95925898 CTTTTGTTTT
95925908 CATTTCATTTTAATTTC
1 CATTTCA-TTTAATTTC
95925925 CATTTCATTTAATTT
1 CATTTCATTTAATTT
95925940 ATCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
CATTTCATTTAATTTC
Found at i:95925965 original size:45 final size:47
Alignment explanation
Indices: 95925898--95926014 Score: 132
Period size: 50 Copynumber: 2.5 Consensus size: 47
95925888 ATCCTTTCAA
* * * *
95925898 CTTTTGTTTT-CATTTCATTTTAA-TTTC-CATTTCATTTAATTTAT
1 CTTTTTTTTTCCATTTAAATTTAATTTTCTCATTTCATTTAAATTAT
*
95925942 CTTTTTTTTTCCATTTAAATTTAATTTCTTTCTCATTTTATTTAAATTAT
1 CTTTTTTTTTCCATTTAAATTTAA--T-TTTCTCATTTCATTTAAATTAT
*
95925992 CTTTTTTTTTCCATTTTAATTTA
1 CTTTTTTTTTCCATTTAAATTTA
95926015 TGTTTTTCCC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 9 0.15
45 11 0.18
49 4 0.07
50 37 0.61
ACGTcount: A:0.21, C:0.13, G:0.01, T:0.65
Consensus pattern (47 bp):
CTTTTTTTTTCCATTTAAATTTAATTTTCTCATTTCATTTAAATTAT
Found at i:95926007 original size:23 final size:23
Alignment explanation
Indices: 95925930--95926021 Score: 71
Period size: 24 Copynumber: 3.8 Consensus size: 23
95925920 ATTTCCATTT
*
95925930 CATTTAATTTATCTTTTTTTTTC
1 CATTTAAATTATCTTTTTTTTTC
95925953 CATTTAAATTTAAT-TTCTTTCTCATTT-
1 CATTTAAA-TT-ATCTT-TTT-T--TTTC
*
95925980 TATTTAAATTATCTTTTTTTTTC
1 CATTTAAATTATCTTTTTTTTTC
* *
95926003 CATTTTAATTTATGTTTTT
1 CA-TTTAAATTATCTTTTT
95926022 CCCATATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
22 3 0.05
23 8 0.15
24 19 0.35
25 10 0.18
26 5 0.09
27 7 0.13
28 3 0.05
ACGTcount: A:0.22, C:0.11, G:0.01, T:0.66
Consensus pattern (23 bp):
CATTTAAATTATCTTTTTTTTTC
Found at i:95926020 original size:21 final size:21
Alignment explanation
Indices: 95925996--95926036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95925986 AATTATCTTT
* *
95925996 TTTTTTCCATTTTAATTTATG
1 TTTTTCCCATATTAATTTATG
95926017 TTTTTCCCATATTAATTTAT
1 TTTTTCCCATATTAATTTAT
95926037 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTCCCATATTAATTTATG
Found at i:95926035 original size:50 final size:50
Alignment explanation
Indices: 95925924--95926035 Score: 147
Period size: 50 Copynumber: 2.2 Consensus size: 50
95925914 ATTTTAATTT
* *
95925924 CCATTTCATTTAATTTATCTTTTTTTTTCCATTTAAATTTAATTTCTTTC
1 CCATTTAATTTAAATTATCTTTTTTTTTCCATTTAAATTTAATTTCTTTC
* * *
95925974 TCATTTTATTTAAATTATCTTTTTTTTTCCATTTTAATTT-ATGTT-TTTC
1 CCATTTAATTTAAATTATCTTTTTTTTTCCATTTAAATTTAAT-TTCTTTC
95926023 CCATATTAATTTA
1 CCAT-TTAATTTA
95926036 TATATTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
49 9 0.17
50 45 0.83
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.62
Consensus pattern (50 bp):
CCATTTAATTTAAATTATCTTTTTTTTTCCATTTAAATTTAATTTCTTTC
Found at i:95926043 original size:23 final size:21
Alignment explanation
Indices: 95925996--95926043 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
95925986 AATTATCTTT
* * *
95925996 TTTTTTCCATTTTAATTTATG
1 TTTTTCCCATATTAATTTATA
95926017 TTTTTCCCATATTAATTTATA
1 TTTTTCCCATATTAATTTATA
95926038 TATTTT
1 T-TTTT
95926044 AATCTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTCCCATATTAATTTATA
Found at i:95929632 original size:110 final size:111
Alignment explanation
Indices: 95929433--95929676 Score: 357
Period size: 110 Copynumber: 2.2 Consensus size: 111
95929423 TAGTGTTGGC
*
95929433 GCCATCAGTGTCCCAAAGTAAAAAAAAAAAGTGCATTGGGAGCTGAAAAATGTACTTGGTGCCGA
1 GCCATCAGTGTCCCAAAGT----AAAAAAAGTGCATTAGGAGCTGAAAAATGTACTTGGTGCCGA
* * * *
95929498 CCATCTACTGGCTAACATCGAAAATTTTTTTTTAAATGACACTGATGCCG
62 CCATCTACTGGCCAACACCCAAAATTTTTTTTTAAATGACACTGATGCAG
95929548 GCCATCAGTGTCCCAAAGT-AAAAAAGTGCATTAGGAG-TAGAAAAATGTACTTGGTGCCGACCA
1 GCCATCAGTGTCCCAAAGTAAAAAAAGTGCATTAGGAGCT-GAAAAATGTACTTGGTGCCGACCA
* *
95929611 TCTACTGGCCAGCACCCAAAATTTTTTTTTAAATGACACTGGTGCAG
65 TCTACTGGCCAACACCCAAAATTTTTTTTTAAATGACACTGATGCAG
*
95929658 GCCATCAGTATCCCAAAGT
1 GCCATCAGTGTCCCAAAGT
95929677 TAAATAATAA
Statistics
Matches: 120, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
109 1 0.01
110 100 0.83
115 19 0.16
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (111 bp):
GCCATCAGTGTCCCAAAGTAAAAAAAGTGCATTAGGAGCTGAAAAATGTACTTGGTGCCGACCAT
CTACTGGCCAACACCCAAAATTTTTTTTTAAATGACACTGATGCAG
Found at i:95930754 original size:26 final size:28
Alignment explanation
Indices: 95930725--95930780 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
95930715 GTTTTACAAA
*
95930725 ATAACTTTA-TATAAAA-TTATGTCTTT
1 ATAACTTTAGTATAAAAGTTACGTCTTT
95930751 ATAACTTTATGTATAAAAGTTACGTCTTT
1 ATAACTTTA-GTATAAAAGTTACGTCTTT
95930780 A
1 A
95930781 CAACACAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.35
28 7 0.27
29 10 0.38
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (28 bp):
ATAACTTTAGTATAAAAGTTACGTCTTT
Found at i:95932452 original size:18 final size:17
Alignment explanation
Indices: 95932428--95932462 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
95932418 ATTAAGAGTT
95932428 ATTTTTTTAACTTCATG
1 ATTTTTTTAACTTCATG
*
95932445 ATTTTTTTAACTTTATG
1 ATTTTTTTAACTTCATG
95932462 A
1 A
95932463 ATTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
ATTTTTTTAACTTCATG
Found at i:95934356 original size:23 final size:24
Alignment explanation
Indices: 95934317--95934362 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
95934307 ATATTATGTG
**
95934317 ATTATATATAATTTATT-TTTAAT
1 ATTATATATAAAATATTGTTTAAT
95934340 ATTATATATAAAATATTGTTTAA
1 ATTATATATAAAATATTGTTTAA
95934363 AAATGTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTATATATAAAATATTGTTTAAT
Found at i:95934451 original size:18 final size:18
Alignment explanation
Indices: 95934411--95934458 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
95934401 ATTTTTTTAA
* *
95934411 AAAAATAAAATATTATAT
1 AAAAATAAAAAAGTATAT
* *
95934429 GAAAATAAAAAAGTATCT
1 AAAAATAAAAAAGTATAT
95934447 AAAAATAAAAAA
1 AAAAATAAAAAA
95934459 AAGTATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAATAAAAAAGTATAT
Found at i:95934610 original size:19 final size:19
Alignment explanation
Indices: 95934566--95934632 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
95934556 TCATATATAA
95934566 TATATAAATAATT-AAAT-T
1 TATATAAA-AATTAAAATAT
*
95934584 TTTA-AAAAATTAAAATAT
1 TATATAAAAATTAAAATAT
* *
95934602 TATATAAAAATAAAAAAAT
1 TATATAAAAATTAAAATAT
*
95934621 TATCTAAAAATT
1 TATATAAAAATT
95934633 TTAAAAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 4 0.10
17 7 0.17
18 7 0.17
19 22 0.55
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (19 bp):
TATATAAAAATTAAAATAT
Found at i:95934649 original size:180 final size:180
Alignment explanation
Indices: 95934339--95934708 Score: 575
Period size: 180 Copynumber: 2.1 Consensus size: 180
95934329 TTATTTTTAA
* *
95934339 TATT-ATATATAAAATATTGTTTAAAAATGTAAACAAATCATATATAATATGTAAATAATTCAAT
1 TATTCATAAATAAAATATTGTTTAAAAATGTAAACAAATCATATATAATATATAAATAATTCAAT
* *
95934403 TTTTTTAAAAAAATAAAATATTATATGAAAATAAAAAAGTATCTAAAAATAAAAAAAAGTATTTA
66 ATTTTTAAAAAAATAAAATATTATATAAAAATAAAAAAGTATCTAAAAATAAAAAAAAGTATTTA
95934468 ACTTTTAAAAATTGAAAAAACTTAATTTTTCAAAAATACATTCTAATTTT
131 ACTTTTAAAAATTGAAAAAACTTAATTTTTCAAAAATACATTCTAATTTT
* *
95934518 TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATT-AA-
1 TATTCATAAATAAAATATTGTTTAAAAATGTAAACAAATCATATATAATATATAAATAATTCAAT
* * **
95934581 ATTTTTAAAAAATTAAAATATTATATAAAAATAAAAAAATTATCTAAAAATTTTAAAAAAGTATT
66 ATTTTTAAAAAAATAAAATATTATATAAAAAT-AAAAAAGTATCTAAAAA-TAAAAAAAAGTATT
* **
95934646 TAACTTTTAAAATTTGAAAAAACTTAATTTTTCAAAAATGTATTCTAATTTT
129 TAACTTTTAAAAATTGAAAAAACTTAATTTTTCAAAAATACATTCTAATTTT
*
95934698 TTTTCATAAAT
1 TATTCATAAAT
95934709 TTTAATTTTT
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
178 29 0.17
179 22 0.13
180 123 0.71
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (180 bp):
TATTCATAAATAAAATATTGTTTAAAAATGTAAACAAATCATATATAATATATAAATAATTCAAT
ATTTTTAAAAAAATAAAATATTATATAAAAATAAAAAAGTATCTAAAAATAAAAAAAAGTATTTA
ACTTTTAAAAATTGAAAAAACTTAATTTTTCAAAAATACATTCTAATTTT
Found at i:95934906 original size:23 final size:23
Alignment explanation
Indices: 95934868--95934938 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 23
95934858 TTTTTATATA
95934868 ATATTT-TA-ATTTTTAAACTTT
1 ATATTTATATATTTTTAAACTTT
*
95934889 ATATTTATATATTTTTAAATTTT
1 ATATTTATATATTTTTAAACTTT
** *
95934912 ATA-AAATATATTTTTTAACTTT
1 ATATTTATATATTTTTAAACTTT
95934934 -TATTT
1 ATATTT
95934939 TTTTGAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.20
22 17 0.43
23 15 0.38
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTTATATATTTTTAAACTTT
Found at i:95934920 original size:22 final size:23
Alignment explanation
Indices: 95934876--95934936 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
95934866 TAATATTTTA
* **
95934876 ATTTTTAAACTTTATATTTATAT
1 ATTTTTAAATTTTATATAAATAT
95934899 ATTTTTAAATTTTATA-AAATAT
1 ATTTTTAAATTTTATATAAATAT
*
95934921 ATTTTTTAACTTTTAT
1 A-TTTTTAAATTTTAT
95934937 TTTTTTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTAAATTTTATATAAATAT
Found at i:95935523 original size:17 final size:17
Alignment explanation
Indices: 95935501--95935588 Score: 65
Period size: 14 Copynumber: 5.0 Consensus size: 17
95935491 CTTGGGCAGT
95935501 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
95935518 AGAAGAATAAGAGAAGAAACAA
1 AGAAGAAT-A-AG-AG-AA-AA
* *
95935540 AGAAGAAGAATAAGAAAA
1 AGAAGAATAA-GAGAAAA
* *
95935558 AGAAGAGTATGAG---A
1 AGAAGAATAAGAGAAAA
95935572 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
95935589 TGGAAGGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
14 12 0.22
17 11 0.20
18 10 0.19
19 4 0.07
20 5 0.09
21 3 0.06
22 9 0.17
ACGTcount: A:0.67, C:0.01, G:0.25, T:0.07
Consensus pattern (17 bp):
AGAAGAATAAGAGAAAA
Found at i:95936762 original size:16 final size:17
Alignment explanation
Indices: 95936737--95936786 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
95936727 TTTTCTTACT
95936737 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
95936753 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
95936769 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
95936786 T
1 T
95936787 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:95937772 original size:51 final size:51
Alignment explanation
Indices: 95937675--95937776 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
95937665 ATAACTAAGT
* * * *
95937675 TATCCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGTTGAAACCAAAACAACAAAGTAATA
* *
95937726 TATCCGGATGAAATATGAAGTTCTTGTTGAAGCCAAAACAACAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGTTGAAACCAAAACAACAAAGTAATA
95937777 ATTCTAGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCCGGATGAAATATGAAGCTCTTGTTGAAACCAAAACAACAAAGTAATA
Found at i:95938398 original size:23 final size:23
Alignment explanation
Indices: 95938360--95938406 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
95938350 AGGATTTATA
95938360 ATATTCCGGATGTGTTTGGGCTGG
1 ATATTCCGGATGTGTTTGGG-TGG
*
95938384 ATATTCTGG-TGTGTTTGGGTGG
1 ATATTCCGGATGTGTTTGGGTGG
95938406 A
1 A
95938407 ATCCGCGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.13, C:0.09, G:0.38, T:0.40
Consensus pattern (23 bp):
ATATTCCGGATGTGTTTGGGTGG
Found at i:95939602 original size:12 final size:12
Alignment explanation
Indices: 95939585--95939640 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
95939575 TGGGAGAAAG
95939585 AAGATGAAGAGA
1 AAGATGAAGAGA
95939597 AAGATG-AGA-A
1 AAGATGAAGAGA
95939607 GAAGATGAAGAGA
1 -AAGATGAAGAGA
95939620 AAGATG-AGAAGA
1 AAGATGAAG-AGA
95939632 AA-ATGAAGA
1 AAGATGAAGA
95939641 AAAATCATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.03
11 15 0.38
12 22 0.56
13 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.09
Consensus pattern (12 bp):
AAGATGAAGAGA
Found at i:95939610 original size:23 final size:23
Alignment explanation
Indices: 95939582--95939640 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
95939572 TTGTGGGAGA
95939582 AAGAAGATGAAGAGAAAGATGAG
1 AAGAAGATGAAGAGAAAGATGAG
95939605 AAGAAGATGAAGAGAAAGATGAG
1 AAGAAGATGAAGAGAAAGATGAG
*
95939628 AAGAAAATGAAGA
1 AAGAAGATGAAGA
95939641 AAAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (23 bp):
AAGAAGATGAAGAGAAAGATGAG
Found at i:95939814 original size:30 final size:31
Alignment explanation
Indices: 95939761--95939829 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
95939751 ACTGTTAATC
* * *
95939761 AGTGACTATTTTGTCACTTTTTTATAACGTT-
1 AGTGACTGTTTTGTCAATTTTTTA-AAAGTTG
95939792 AGTGACTGTTTTGT-AATTTTTTAAAAGTTG
1 AGTGACTGTTTTGTCAATTTTTTAAAAGTTG
95939822 AGTGACTG
1 AGTGACTG
95939830 AAATAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 16 0.47
31 13 0.38
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCAATTTTTTAAAAGTTG
Found at i:95946590 original size:45 final size:45
Alignment explanation
Indices: 95946522--95946695 Score: 240
Period size: 45 Copynumber: 3.9 Consensus size: 45
95946512 AAGAGGTGGA
** *
95946522 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGGC
* * * *
95946567 CAACATCTTGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGGC
* *
95946612 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGGC
* * *
95946657 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCA
95946696 CCATGGCCGA
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 115 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGGC
Found at i:95953231 original size:89 final size:86
Alignment explanation
Indices: 95953076--95953253 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 86
95953066 CACCTCACCC
* * *
95953076 AATTATAGTTTTAATCTTCTATTTACGCAGTGGTGTATTTTTCTTAAGGTATGAACTTGACTTGG
1 AATTATAGTTTTAATCTTCTATTTACGCAGCGGTGTATTTTTCTTAAGGTATAAACTTGACCTGG
95953141 AATACCTATATTTTAAATAAATTA
66 -A-A-CTATATTTTAAATAAATTA
* *
95953165 AATTATAGTTTTAATCTTTTATTTATGCAGCGGTGTATTTTTCTTAAGGTATAAACTTGACCTGG
1 AATTATAGTTTTAATCTTCTATTTACGCAGCGGTGTATTTTTCTTAAGGTATAAACTTGACCTGG
95953230 AACTATATTTTAAATAAATTA
66 AACTATATTTTAAATAAATTA
95953251 AAT
1 AAT
95953254 ATGTACGGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
86 22 0.26
87 1 0.01
88 1 0.01
89 60 0.71
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (86 bp):
AATTATAGTTTTAATCTTCTATTTACGCAGCGGTGTATTTTTCTTAAGGTATAAACTTGACCTGG
AACTATATTTTAAATAAATTA
Found at i:95953297 original size:19 final size:19
Alignment explanation
Indices: 95953275--95953337 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
95953265 ATTTATATTA
95953275 TTTTACTAAATTAATTAAT
1 TTTTACTAAATTAATTAAT
*
95953294 TTTTAC-ACAATATAATTTTAT
1 TTTTACTA-AAT-TAA-TTAAT
* * *
95953315 TTTGAATAAGTTAATTAAT
1 TTTTACTAAATTAATTAAT
95953334 TTTT
1 TTTT
95953338 GTCCAATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 6 0.18
21 10 0.29
22 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTACTAAATTAATTAAT
Found at i:95953331 original size:40 final size:39
Alignment explanation
Indices: 95953272--95953356 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 39
95953262 AAAATTTATA
*
95953272 TTATTTTACTAAATTAATTAATTTTT-ACACAATATAATT
1 TTATTTTAATAAATTAATTAATTTTTGAC-CAATATAATT
* *
95953311 TTATTTTGAATAAGTTAATTAATTTTTGTCCAATATAATT
1 TTATTTT-AATAAATTAATTAATTTTTGACCAATATAATT
95953351 TCTATT
1 T-TATT
95953357 AGTAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 7 0.17
40 28 0.70
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (39 bp):
TTATTTTAATAAATTAATTAATTTTTGACCAATATAATT
Found at i:95959517 original size:22 final size:21
Alignment explanation
Indices: 95959479--95959530 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
95959469 TAAAAATTCC
* *
95959479 AAAATT-TATATTTTTTTGAA
1 AAAATTATAAATTTTTTTTAA
95959499 AAAATTATAAATTTTTTTTAA
1 AAAATTATAAATTTTTTTTAA
*
95959520 AAAATTCTAAA
1 AAAATTATAAA
95959531 GAATATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAATTATAAATTTTTTTTAA
Found at i:95962358 original size:44 final size:44
Alignment explanation
Indices: 95962310--95962396 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
95962300 AAGTAAAATA
* *
95962310 GAAGTTGTGCTAATTATACATTTAAAAATAATTATAATATAATC
1 GAAGTTGTGATAATAATACATTTAAAAATAATTATAATATAATC
* * *
95962354 GAAGTTGTTATAATAATACATTTTAAAATAATTATAATTTAAT
1 GAAGTTGTGATAATAATACATTTAAAAATAATTATAATATAAT
95962397 ATACATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (44 bp):
GAAGTTGTGATAATAATACATTTAAAAATAATTATAATATAATC
Found at i:95974748 original size:19 final size:19
Alignment explanation
Indices: 95974724--95974763 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
95974714 TATACATTTT
95974724 AACTTT-TACTTATTATAAA
1 AACTTTCTACTTATT-TAAA
*
95974743 AACTTTCTAGTTATTTAAA
1 AACTTTCTACTTATTTAAA
95974762 AA
1 AA
95974764 TAATTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (19 bp):
AACTTTCTACTTATTTAAA
Found at i:95975830 original size:28 final size:29
Alignment explanation
Indices: 95975797--95975851 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
95975787 AAAATGTCCA
*
95975797 TTTTTC-TCGTTCAAAATTAATAAAATCC
1 TTTTTCGTAGTTCAAAATTAATAAAATCC
95975825 TTTTTCGTAGTTCAAAATTAATAAAAT
1 TTTTTCGTAGTTCAAAATTAATAAAAT
95975852 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (29 bp):
TTTTTCGTAGTTCAAAATTAATAAAATCC
Found at i:95981137 original size:15 final size:15
Alignment explanation
Indices: 95981114--95981143 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95981104 TCCAGTGACA
95981114 CCACAGCCTCCACCT
1 CCACAGCCTCCACCT
*
95981129 CCACCGCCTCCACCT
1 CCACAGCCTCCACCT
95981144 AATAGAACTC
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:0.17, C:0.63, G:0.07, T:0.13
Consensus pattern (15 bp):
CCACAGCCTCCACCT
Found at i:95995130 original size:50 final size:51
Alignment explanation
Indices: 95995066--95995292 Score: 280
Period size: 46 Copynumber: 4.7 Consensus size: 51
95995056 TTTGACATGA
* * *
95995066 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGTCACGT
*
95995116 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGTCACGT
* * *
95995162 TGCCATAGTGTCTTTCAACTATGGTCTTACGCATTCATTTTC-TGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGTCACGT
*
95995212 TGCCATAGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGTCACGT
* *
95995258 TGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATT
95995293 TCATATCAGA
Statistics
Matches: 154, Mismatches: 12, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
45 9 0.06
46 71 0.46
47 2 0.01
48 4 0.03
49 1 0.01
50 62 0.40
51 5 0.03
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (51 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGTCACGT
Found at i:95995230 original size:96 final size:96
Alignment explanation
Indices: 95995066--95995292 Score: 355
Period size: 96 Copynumber: 2.4 Consensus size: 96
95995056 TTTGACATGA
* * *
95995066 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACACATTCATTTTCTGTCACGTTGCCATAGTATCTTT
** * *
95995131 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTACACATTTCATATCACGT
*
95995162 TGCCATAGTGTCTTTCAACTATGGTCTTACGCATTCATTTTCTGTCACGTTGCCATAGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACACATTCATTTTCTGTCACGTTGCCATAGTATCTTT
95995227 CAACCATGGTCTTACACATTTCATATCACGT
66 CAACCATGGTCTTACACATTTCATATCACGT
* * *
95995258 TGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACACATT
95995293 TCATATCAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 120 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (96 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTACACATTCATTTTCTGTCACGTTGCCATAGTATCTTT
CAACCATGGTCTTACACATTTCATATCACGT
Found at i:95997394 original size:16 final size:17
Alignment explanation
Indices: 95997373--95997405 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95997363 AAATCCAATT
95997373 TTTCCC-TTTTTCCTTC
1 TTTCCCTTTTTTCCTTC
95997389 TTTCCCTTTTTTCCTTC
1 TTTCCCTTTTTTCCTTC
95997406 CTTCTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCCCTTTTTTCCTTC
Found at i:95997478 original size:16 final size:17
Alignment explanation
Indices: 95997447--95997492 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
95997437 TCATCCTTTC
*
95997447 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
95997464 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
95997480 TTACTTTATATAT
1 TTTCTTTTTATAT
95997493 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:95997481 original size:10 final size:10
Alignment explanation
Indices: 95997443--95997480 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
95997433 GGTTTCATCC
95997443 TTTCTTTCTT
1 TTTCTTTCTT
95997453 TTTCTATTCTT
1 TTTCT-TTCTT
95997464 TTTCTTT-TT
1 TTTCTTTCTT
95997473 ATTTCTTT
1 -TTTCTTT
95997481 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:96000761 original size:47 final size:47
Alignment explanation
Indices: 96000709--96000852 Score: 120
Period size: 47 Copynumber: 3.1 Consensus size: 47
96000699 ATTATTAAGA
* *
96000709 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
* * * ** **
96000756 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTAGGAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATAATAATT
* *
96000800 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
96000847 ATTTTA
1 ATTTTA
96000853 AATTATACAA
Statistics
Matches: 71, Mismatches: 17, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
43 3 0.04
44 22 0.31
45 8 0.11
46 8 0.11
47 27 0.38
48 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
Found at i:96000840 original size:91 final size:91
Alignment explanation
Indices: 96000679--96000885 Score: 324
Period size: 91 Copynumber: 2.3 Consensus size: 91
96000669 ATCTTATATG
* **
96000679 AATTCATATAAGAATATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AATTCATATAAGAA-AATTTATTAGGAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
* * * *
96000744 TTAATATTAATTATTTTAAATTGTATA
65 GTAATAATAATTATTTTAAATTATACA
*
96000771 AATTCATATAAGAAAATTTATTAGGAAGAATTTTATGAAATTATATATTATTATTAAATTATATG
1 AATTCATATAAGAAAATTTATTAGGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
96000836 TAATAATAATTATTTTAAATTATACA
66 TAATAATAATTATTTTAAATTATACA
*
96000862 AATTCATATAAGATAATTTATTAG
1 AATTCATATAAGAAAATTTATTAG
96000886 TTATAATTAT
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 92 0.87
92 14 0.13
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.46
Consensus pattern (91 bp):
AATTCATATAAGAAAATTTATTAGGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
TAATAATAATTATTTTAAATTATACA
Found at i:96000853 original size:26 final size:28
Alignment explanation
Indices: 96000799--96000859 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
96000789 TATTAGGAAG
* *
96000799 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
96000827 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
96000853 AATTATA
1 AATTATA
96000860 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:96000859 original size:44 final size:43
Alignment explanation
Indices: 96000717--96000859 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
96000707 GAATTTTATG
* *
96000717 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** ** * *
96000761 AAATTGTATAAATTCATATAAGAAAATT-TATTAGGAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAATAATAATTATT-TT
96000808 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
96000852 AAATTATA
1 AAATTATA
96000860 CAAATTCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 22 0.30
45 10 0.14
46 9 0.12
47 14 0.19
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:96000978 original size:59 final size:57
Alignment explanation
Indices: 96000889--96001101 Score: 152
Period size: 56 Copynumber: 3.6 Consensus size: 57
96000879 TTATTAGTTA
*
96000889 TAATTATTTTAAATT-TTATTA-AG--TCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
96000943 TAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTAT-TTTTATAGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
96001008 T
57 T
* * * * *
96001009 TAATTATTAAGAATT-TTATTA-AAT-TCATGATATTTTAATTATAATATATTTAATAA
1 TAATTATTTA-AATTATTTTTATAGTATCAT-ATATTTTAATTAAAATATATTTAATAT
*
96001065 TAATTATGTTAATTTATATTTTATAGTATCATATATT
1 TAATTAT-TTAAATTAT-TTTTATAGTATCATATATT
96001102 ATGATTTGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
53 3 0.02
54 11 0.09
55 1 0.01
56 18 0.15
57 9 0.07
58 5 0.04
59 18 0.15
60 8 0.07
61 2 0.02
62 8 0.07
63 10 0.08
64 5 0.04
65 6 0.05
66 17 0.14
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (57 bp):
TAATTATTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:96001048 original size:15 final size:15
Alignment explanation
Indices: 96001038--96001078 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
96001028 TAAATTCATG
96001038 ATAT-TTTAATTATA
1 ATATATTTAATTATA
*
96001052 ATATATTTAATAATA
1 ATATATTTAATTATA
96001067 AT-TATGTTAATT
1 ATATAT-TTAATT
96001079 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:96001059 original size:122 final size:121
Alignment explanation
Indices: 96000900--96001199 Score: 489
Period size: 122 Copynumber: 2.5 Consensus size: 121
96000890 AATTATTTTA
* * *
96000900 AATTTTATT-AAGTCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
*
96000963 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAAATCATATAAGAATATTAATTATTAAG
* *
96001020 AATTTTATTAAATTCATGATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 AATTTTATTAAATTCAT-ATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATT
*
96001085 TTATAGTATCATATATTATGATTTGAGTAAAATCATATAAGAATATTGATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAAATCATATAAGAATATTAATTATTAAG
96001142 AATTTTATTAAATT-ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
96001200 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
120 43 0.26
121 13 0.08
122 109 0.65
123 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (121 bp):
AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAAATCATATAAGAATATTAATTATTAAG
Found at i:96001171 original size:18 final size:17
Alignment explanation
Indices: 96001143--96001177 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96001133 ATTATTAAGA
*
96001143 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96001160 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96001178 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:96001443 original size:16 final size:16
Alignment explanation
Indices: 96001422--96001478 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
96001412 ACACAGCTTT
*
96001422 TCCATTACACCTCTAT
1 TCCATTACACCTCTAA
*
96001438 TTCATTACACCTCTAA
1 TCCATTACACCTCTAA
*
96001454 TCCAATACACCTCTAA
1 TCCATTACACCTCTAA
*
96001470 TCCAATACA
1 TCCATTACA
96001479 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.32
Consensus pattern (16 bp):
TCCATTACACCTCTAA
Found at i:96001554 original size:27 final size:27
Alignment explanation
Indices: 96001517--96001571 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
96001507 GCCCGTTTGG
*
96001517 CCCCTAGCCCAAAACCCATTTTCTAAC
1 CCCCTAGCCCAAAACCCATATTCTAAC
*
96001544 CCCCTAGCCCAAAACCTATATTCTAAC
1 CCCCTAGCCCAAAACCCATATTCTAAC
96001571 C
1 C
96001572 TACAAAGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.44, G:0.04, T:0.22
Consensus pattern (27 bp):
CCCCTAGCCCAAAACCCATATTCTAAC
Found at i:96002712 original size:25 final size:23
Alignment explanation
Indices: 96002660--96002723 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
96002650 TTACCTTTTT
*
96002660 TATTTTAAATATTATTGATTATTC
1 TATTTT-ACTATTATTGATTATTC
**
96002684 TATTTTTGTATTATT-ATTATTAGC
1 TATTTTACTATTATTGATTATT--C
96002708 ATATTTTACTATTATT
1 -TATTTTACTATTATT
96002724 TAGACATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 6 0.18
23 7 0.21
24 7 0.21
25 13 0.39
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
TATTTTACTATTATTGATTATTC
Found at i:96002915 original size:18 final size:19
Alignment explanation
Indices: 96002889--96002941 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
96002879 TTATACCATG
96002889 TATATATA-TATATATTTT
1 TATATATATTATATATTTT
* *
96002907 TATAAATATTATATATATT
1 TATATATATTATATATTTT
96002926 TA-ATATATTATATATT
1 TATATATATTATATATT
96002942 GTGTACATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 19 0.63
19 11 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATATATTATATATTTT
Found at i:96003381 original size:12 final size:12
Alignment explanation
Indices: 96003359--96003409 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
96003349 ATATATTGTA
*
96003359 TATTCTTACTAT
1 TATTATTACTAT
*
96003371 TATCATTACTA-
1 TATTATTACTAT
*
96003382 TATTTATTATTAT
1 TA-TTATTACTAT
*
96003395 TATTATTATTAT
1 TATTATTACTAT
96003407 TAT
1 TAT
96003410 AGCAATCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.06
12 29 0.88
13 2 0.06
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTACTAT
Done.