Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 188 of 438
Found at i:58110236 original size:55 final size:54
Alignment explanation
Indices: 58110148--58110261 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 54
58110138 AGGAAGCATC
* *
58110148 CTGGTGGCTATGCCACAAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
58110203 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
58110257 CTGGT
1 CTGGT
58110262 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 21 0.40
55 32 0.60
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:58114922 original size:28 final size:28
Alignment explanation
Indices: 58114854--58114924 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
58114844 TACTCAATGC
* * *
58114854 CTTGCACACTTACTGCCATACTCGATAT
1 CTTGCACACTAAGTGCCACACTCGATAT
**
58114882 CTCACACACTAAGTGCCACACTCGATAT
1 CTTGCACACTAAGTGCCACACTCGATAT
58114910 CTTGCACACTAAGTG
1 CTTGCACACTAAGTG
58114925 TCGTACATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (28 bp):
CTTGCACACTAAGTGCCACACTCGATAT
Found at i:58114975 original size:40 final size:40
Alignment explanation
Indices: 58114913--58115007 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
58114903 TCGATATCTT
* * **
58114913 GCACACTAAGTGTCGTACATAGCTGGAA-CTATCTCAAATC
1 GCACACTAAGTGCCATACATAGC-CAAAGCTATCTCAAATC
* * *
58114953 GCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
*
58114993 CCACACTAAGTGCCA
1 GCACACTAAGTGCCA
58115008 CAAATAGTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
Found at i:58122914 original size:40 final size:40
Alignment explanation
Indices: 58122870--58122982 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
58122860 TGCTGGAAAT
* * *
58122870 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
58122910 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* *
58122950 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
58122983 ACGTGATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:58130901 original size:40 final size:40
Alignment explanation
Indices: 58130835--58131001 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
58130825 AAATTGAATG
* * *
58130835 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58130874 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
58130914 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58130954 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58130994 ATATCCGG
1 ATATCCGG
58131002 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58133695 original size:28 final size:28
Alignment explanation
Indices: 58133649--58133717 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
58133639 AAATGCCTCG
* * *
58133649 CACACTAAGTTCCATACTCGATGTCTCA
1 CACACTAAGTGCCACACTCGATATCTCA
*
58133677 CACACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCA
58133705 CACACTAAGTGCC
1 CACACTAAGTGCC
58133718 GTACATAGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCA
Found at i:58133766 original size:40 final size:40
Alignment explanation
Indices: 58133702--58133798 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
58133692 ACTCGATATC
* * * *
58133702 TCGCACACTAAGTGCCGTACATAGCCGAAGTTATTTCAAA
1 TCGCACACTAAGTGCCATACATAGCCAAAGCTATGTCAAA
* * *
58133742 TTGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCAAAGCTATGTCAAA
58133782 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
58133799 CAAATAGCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCAAAGCTATGTCAAA
Found at i:58138388 original size:40 final size:39
Alignment explanation
Indices: 58138223--58138406 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58138213 AAATTGAATG
* * *
58138223 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58138263 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58138303 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58138343 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58138382 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58138407 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:58138431 original size:80 final size:81
Alignment explanation
Indices: 58138263--58138451 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58138253 GCTGGAAATT
* * * *
58138263 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58138328 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58138344 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58138407 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58138423 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58138452 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58152801 original size:45 final size:45
Alignment explanation
Indices: 58152636--58152852 Score: 181
Period size: 45 Copynumber: 4.7 Consensus size: 45
58152626 TCACTTGTGT
* * *** *
58152636 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTGA-GATGA
* * *
58152682 GAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TTGAGATGA
* * * *
58152730 GTGCTAGTGTAAG-CATGTTTGAGACATGCATCAGCTTGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTGAGATG-A
* *
58152775 -AGCCAATGTAAGACATGTCTGGGACATGCATCAGCTACGAGAT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCT-TGAGATGA
* *
58152818 GAGTCAGTGTAAGACCATGTATGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
58152853 GGCACAGATA
Statistics
Matches: 139, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 27 0.19
45 42 0.30
46 34 0.24
47 14 0.10
48 21 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTGAGATGA
Found at i:58153867 original size:41 final size:42
Alignment explanation
Indices: 58153810--58153889 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
58153800 AAACATGGCC
58153810 ACACAACACGCCCAT-GGGCTGACCATGTGTCACACACGACA
1 ACACAACACGCCCATGGGGCTGACCATGTGTCACACACGACA
*
58153851 ACACAACACGCCCATGGGGCTGACCGTGTGTCACACACG
1 ACACAACACGCCCATGGGGCTGACCATGTGTCACACACG
58153890 GCCTAGACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 15 0.41
42 22 0.59
ACGTcount: A:0.29, C:0.36, G:0.23, T:0.12
Consensus pattern (42 bp):
ACACAACACGCCCATGGGGCTGACCATGTGTCACACACGACA
Found at i:58154784 original size:49 final size:47
Alignment explanation
Indices: 58154665--58154885 Score: 143
Period size: 48 Copynumber: 4.7 Consensus size: 47
58154655 AAATGCCAAC
58154665 GCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAGCTAGCACATCAAAGTCGAT
* ***
58154713 GCCATGT-CCAGATAGGTCTTACAC-AGGCTATG-ATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTA-GCTA-GCA-C-ATCAAAGTCGAT
* * *
58154761 GCCATGTCCCAGACAGGTCTTACACT-GAC-A-CACTTAACAAG-CTGTT
1 GCCATGTCCCAGACAGGTCTTACACTAG-CTAGCACATCA-AAGTC-GAT
* * * * * * * *
58154807 GCCATGTCCCAGATAAGTCTTACACTAGCTTGTATATCCCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTAGCACAT--CAAAGTCGAT
* *
58154856 G-CATGTCCCAGACATGTCTTACACTGGCTA
1 GCCATGTCCCAGACAGGTCTTACACTAGCTA
58154886 TAATATGGCC
Statistics
Matches: 132, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
45 3 0.02
46 44 0.33
47 10 0.08
48 52 0.39
49 22 0.17
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTAGCACATCAAAGTCGAT
Found at i:58154819 original size:95 final size:95
Alignment explanation
Indices: 58154665--58154885 Score: 228
Period size: 94 Copynumber: 2.3 Consensus size: 95
58154655 AAATGCCAAC
* *
58154665 GCCATGTCCCAGACATGGTCTTACACT-AGCTAGCACATCAAAGTCGATGCCATGTCCAGATAGG
1 GCCATGTCCCAGACA-GGTCTTACACTGAGCTAGCACATAAAAGTCGATGCCATGTCCAGATAAG
* *
58154729 TCTTACAC-AGGCTATGATCTAT-CG-GTGTCGAT
65 TCTTACACTA-GCT-TG-TATATCCGAG-GCCGAT
* *
58154761 GCCATGTCCCAGACAGGTCTTACACTGA-C-A-CACTTAACAAG-CTGTTGCCATGTCCCAGATA
1 GCCATGTCCCAGACAGGTCTTACACTGAGCTAGCACATAA-AAGTC-GATGCCATGT-CCAGATA
58154822 AGTCTTACACTAGCTTGTATATCCCGAGGCCGAT
63 AGTCTTACACTAGCTTGTATAT-CCGAGGCCGAT
*
58154856 G-CATGTCCCAGACATGTCTTACACTG-GCTA
1 GCCATGTCCCAGACAGGTCTTACACTGAGCTA
58154886 TAATATGGCC
Statistics
Matches: 108, Mismatches: 7, Indels: 21
0.79 0.05 0.15
Matches are distributed among these distances:
93 10 0.09
94 40 0.37
95 40 0.37
96 18 0.17
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (95 bp):
GCCATGTCCCAGACAGGTCTTACACTGAGCTAGCACATAAAAGTCGATGCCATGTCCAGATAAGT
CTTACACTAGCTTGTATATCCGAGGCCGAT
Found at i:58157402 original size:40 final size:40
Alignment explanation
Indices: 58157294--58157503 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58157284 CGGGATTTAA
* * * * *
58157294 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58157334 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58157374 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58157414 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58157454 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58157494 CCGGATATAT
1 CCGGATATAT
58157504 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58165531 original size:40 final size:40
Alignment explanation
Indices: 58165423--58165632 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58165413 CGGGATTTAA
* * * * *
58165423 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58165463 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58165503 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58165543 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58165583 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58165623 CCGGATATAT
1 CCGGATATAT
58165633 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58177222 original size:49 final size:48
Alignment explanation
Indices: 58177129--58177259 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 48
58177119 ACATCAAAGT
* * *
58177129 CGATGCCATGTCCCAGACAAGTCTTATACTGACTTTCATATATTGAG-CC
1 CGATGCCATGTCCTAGAC-AGTCTTACACTGACTCTCATATATTG-GTCC
* * **
58177178 CGTTGCCATGTCCTAGACAGTTCTTACACT-AGCTCTCATCTATTGGTGT
1 CGATGCCATGTCCTAGACAG-TCTTACACTGA-CTCTCATATATTGGTCC
58177227 CGATGCCATGT-CTCAGACAGGTCTTACACTGAC
1 CGATGCCATGTCCT-AGACA-GTCTTACACTGAC
58177260 ACACTTAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
48 6 0.09
49 60 0.88
50 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACAGTCTTACACTGACTCTCATATATTGGTCC
Found at i:58190538 original size:21 final size:23
Alignment explanation
Indices: 58190496--58190548 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
58190486 TGATCAAATA
58190496 TCAA-CATC-TAGCATTCATTTG
1 TCAATCATCATAGCATTCATTTG
58190517 TCAATCATCATAGCA-TCA-TTG
1 TCAATCATCATAGCATTCATTTG
58190538 TC-ATGCATCAT
1 TCAAT-CATCAT
58190549 TATAAAGTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.07
21 15 0.52
22 7 0.24
23 5 0.17
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (23 bp):
TCAATCATCATAGCATTCATTTG
Found at i:58194137 original size:22 final size:22
Alignment explanation
Indices: 58194110--58194154 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
58194100 GGGATATGTT
58194110 AAACTAAAAGAATTGAGAGAGA
1 AAACTAAAAGAATTGAGAGAGA
58194132 AAACTAAAAGAATTGAGAGAGA
1 AAACTAAAAGAATTGAGAGAGA
58194154 A
1 A
58194155 GGAGAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.22, T:0.13
Consensus pattern (22 bp):
AAACTAAAAGAATTGAGAGAGA
Found at i:58194194 original size:39 final size:39
Alignment explanation
Indices: 58194151--58194232 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
58194141 GAATTGAGAG
* *
58194151 AGAAGGAGAATAAGACATTCAGCTAAAGAGAAAAATAAA
1 AGAAGAAGAATAAGACATTCAGCTAAAGAGAAAAAGAAA
* *
58194190 AGAAGAAGAATAGGACATTCGGCTAAAGAGAAAAAGAAA
1 AGAAGAAGAATAAGACATTCAGCTAAAGAGAAAAAGAAA
58194229 AGAA
1 AGAA
58194233 TGTCGGTCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.59, C:0.07, G:0.23, T:0.11
Consensus pattern (39 bp):
AGAAGAAGAATAAGACATTCAGCTAAAGAGAAAAAGAAA
Found at i:58197793 original size:80 final size:80
Alignment explanation
Indices: 58197709--58197857 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
58197699 TATGGTAACC
* * * *
58197709 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
58197773 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
58197789 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
58197854 CCGG
66 CCGG
58197858 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:58197799 original size:40 final size:38
Alignment explanation
Indices: 58197750--58197857 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58197740 ATCACGATTT
*
58197750 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58197790 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58197830 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58197858 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58205887 original size:40 final size:38
Alignment explanation
Indices: 58205838--58205945 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58205828 ATCACGATTT
*
58205838 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58205878 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58205918 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58205946 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58219091 original size:28 final size:28
Alignment explanation
Indices: 58219059--58219157 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
58219049 GCAATAAGCC
*
58219059 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
58219087 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
58219115 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
58219144 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58219158 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:58221254 original size:40 final size:40
Alignment explanation
Indices: 58221123--58221263 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
58221113 ACCCAAGTTT
* * * *
58221123 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * *
58221162 CTTCGGGTCTTAACCCAGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
58221202 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
58221242 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
58221264 CATTCAAATG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 76 0.87
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:58230255 original size:40 final size:39
Alignment explanation
Indices: 58230144--58230294 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
58230134 TTAATCACGT
* * *
58230144 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
58230184 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
58230224 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
58230264 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
58230295 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:58230278 original size:80 final size:79
Alignment explanation
Indices: 58230144--58230294 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58230134 TTAATCACGT
*
58230144 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
58230209 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
58230224 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
58230287 CCGGATAT
64 CCGGATAT
58230295 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:58238256 original size:40 final size:39
Alignment explanation
Indices: 58238145--58238295 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
58238135 TTAATCACGT
* * *
58238145 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
58238185 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
58238225 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
58238265 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
58238296 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:58238279 original size:80 final size:79
Alignment explanation
Indices: 58238145--58238295 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58238135 TTAATCACGT
*
58238145 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
58238210 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
58238225 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
58238288 CCGGATAT
64 CCGGATAT
58238296 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:58240412 original size:40 final size:40
Alignment explanation
Indices: 58240281--58240421 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
58240271 ACCCAAGTTT
* * * *
58240281 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * *
58240320 CTTCGGGTCTTAACCCAGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
58240360 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
58240400 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
58240422 CATTCAAATG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 76 0.87
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:58250685 original size:68 final size:67
Alignment explanation
Indices: 58250613--58250762 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
58250603 CATCATGTGT
* * * *
58250613 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
58250675 ATGTAG
62 ATGTAG
** * *
58250681 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
58250746 AG
66 AG
58250748 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
58250763 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:58250718 original size:64 final size:64
Alignment explanation
Indices: 58250637--58250820 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
58250627 AGACATTATG
* *
58250637 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
58250701 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58250766 AA
63 AA
* * * *
58250768 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
58250821 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58251909 original size:2 final size:2
Alignment explanation
Indices: 58251902--58251926 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58251892 TCATGACATG
58251902 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
58251927 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58256327 original size:28 final size:27
Alignment explanation
Indices: 58256268--58256360 Score: 143
Period size: 27 Copynumber: 3.4 Consensus size: 27
58256258 TAGAACACGA
*
58256268 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
58256295 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
58256322 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
58256349 AATATACCCCTA
1 AAT-TACCCCTA
58256361 GGGTTTAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.05
27 34 0.55
28 25 0.40
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:58257626 original size:16 final size:16
Alignment explanation
Indices: 58257601--58257631 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58257591 TAAATCAATA
58257601 GTTTTAAAATAAAATT
1 GTTTTAAAATAAAATT
*
58257617 GTTTTCAAATAAAAT
1 GTTTTAAAATAAAAT
58257632 CCTTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (16 bp):
GTTTTAAAATAAAATT
Found at i:58262374 original size:29 final size:29
Alignment explanation
Indices: 58262341--58262442 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
58262331 CCTTCGAGCT
58262341 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
58262370 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58262399 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58262428 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
58262443 GAAAGCAAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:58262375 original size:58 final size:58
Alignment explanation
Indices: 58262282--58262434 Score: 173
Period size: 58 Copynumber: 2.6 Consensus size: 58
58262272 ATACTCGATT
** * * * * *
58262282 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCACGCACACACAGTGCCATACACTTCCAGC
* ** * *
58262340 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACACAGTGCCATACACTTCCAGC
*
58262398 ACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACAC
58262435 TTAGTGCCGA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
57 4 0.05
58 76 0.95
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATATTTCCAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:58262403 original size:87 final size:87
Alignment explanation
Indices: 58262284--58262442 Score: 194
Period size: 87 Copynumber: 1.8 Consensus size: 87
58262274 ACTCGATTTC
* * * * * *
58262284 GCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGCTCGCACACT
1 GCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGCACGCACACT
58262349 TAGTGCCATATATTTCCAGCAT
66 TAGTGCCATATATTTCCAGCAT
* * ** * *
58262371 GCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 GCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGCACGCACAC
58262435 TTAGTGCC
65 TTAGTGCC
58262443 GAAAGCAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
86 4 0.07
87 55 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (87 bp):
GCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGCACGCACACT
TAGTGCCATATATTTCCAGCAT
Found at i:58265679 original size:20 final size:20
Alignment explanation
Indices: 58265654--58265691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58265644 GTTTATTCGC
*
58265654 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
58265674 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
58265692 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:58267198 original size:20 final size:20
Alignment explanation
Indices: 58267175--58267227 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
58267165 TCGGAAAAAG
58267175 GGGCTCAATGGGCCAAAACT
1 GGGCTCAATGGGCCAAAACT
58267195 GGGCTCAATGGGCCAAAACT
1 GGGCTCAATGGGCCAAAACT
*
58267215 GGGCCCAATGGGC
1 GGGCTCAATGGGC
58267228 TTACGGACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.13
Consensus pattern (20 bp):
GGGCTCAATGGGCCAAAACT
Found at i:58267405 original size:28 final size:27
Alignment explanation
Indices: 58267346--58267438 Score: 143
Period size: 27 Copynumber: 3.4 Consensus size: 27
58267336 TAGAACACGA
*
58267346 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
58267373 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
58267400 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
58267427 AATATACCCCTA
1 AAT-TACCCCTA
58267439 GGGTTTAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.05
27 34 0.55
28 25 0.40
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:58279706 original size:39 final size:39
Alignment explanation
Indices: 58279652--58279767 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
58279642 TTCAGTGATG
* *
58279652 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
58279691 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
* * *
58279730 TATATCCGGACTTAAGGTCTGCAAGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAA
58279768 ATATGTCCAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
Found at i:58290039 original size:27 final size:28
Alignment explanation
Indices: 58289983--58290052 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
58289973 AAATTTGTAC
58289983 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
58290011 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
58290038 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58290053 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:58296662 original size:48 final size:48
Alignment explanation
Indices: 58296591--58296781 Score: 355
Period size: 48 Copynumber: 4.0 Consensus size: 48
58296581 GCTGAAATTG
* *
58296591 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTCAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
58296639 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
58296687 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
58296735 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
58296782 GCCGAATGGC
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 139 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:58296755 original size:96 final size:96
Alignment explanation
Indices: 58296591--58297001 Score: 439
Period size: 96 Copynumber: 4.1 Consensus size: 96
58296581 GCTGAAATTG
58296591 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTAT
58296656 ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
58296687 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
1 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTAT
*
58296752 ATGTGGTAAAGCCGAATGGCTAATGTGAAAGCCGA
66 ATGTGGTAAAGCCGAATGGCTAATGTGAAA----T
* * ** * * *
58296787 ATGGCTAATGTGAA-ATATGTATGA-GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 AT-G-T-A--T-AAGATATGTAT-ATG-T-GGTA-AAGCCG-AATG--G-CT----AATGTCAAA
* *
58296850 TATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAAT
48 TATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
58296899 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATGTATA--AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGT
*
58296964 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
64 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
58296997 ATGTA
1 ATGTA
58297002 GGCGATGTGT
Statistics
Matches: 266, Mismatches: 23, Indels: 50
0.78 0.07 0.15
Matches are distributed among these distances:
96 92 0.35
98 60 0.23
100 2 0.01
101 1 0.00
102 2 0.01
103 2 0.01
105 13 0.05
106 7 0.03
107 7 0.03
108 6 0.02
109 13 0.05
110 1 0.00
111 1 0.00
112 3 0.01
116 56 0.21
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTAT
ATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:58296784 original size:20 final size:20
Alignment explanation
Indices: 58296759--58296801 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
58296749 TATATGTGGT
58296759 AAAGCCGAATGGCTAATGTG
1 AAAGCCGAATGGCTAATGTG
58296779 AAAGCCGAATGGCTAATGTG
1 AAAGCCGAATGGCTAATGTG
58296799 AAA
1 AAA
58296802 TATGTATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (20 bp):
AAAGCCGAATGGCTAATGTG
Found at i:58296788 original size:68 final size:68
Alignment explanation
Indices: 58296711--58296849 Score: 278
Period size: 68 Copynumber: 2.0 Consensus size: 68
58296701 TATATGTGGT
58296711 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
58296776 GTG
66 GTG
58296779 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
58296844 GTG
66 GTG
58296847 AAA
1 AAA
58296850 TATGTATGAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.27
Consensus pattern (68 bp):
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
GTG
Found at i:58296832 original size:48 final size:48
Alignment explanation
Indices: 58296779--58297001 Score: 401
Period size: 48 Copynumber: 4.6 Consensus size: 48
58296769 GGCTAATGTG
58296779 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
58296827 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
58296875 AAAGCCGAATGGTTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGT
58296925 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
58296973 AAAGCCGAATGGCTAGTGTGAAATATGTA
1 AAAGCCGAATGGCTAATGTGAAATATGTA
58297002 GGCGATGTGT
Statistics
Matches: 168, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
48 120 0.71
49 4 0.02
50 44 0.26
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
Found at i:58296867 original size:116 final size:116
Alignment explanation
Indices: 58296663--58296897 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
58296653 TATATGTGGT
58296663 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
58296728 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
66 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58296779 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
58296844 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTG
66 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58296895 AAA
1 AAA
58296898 TATATATATG
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (116 bp):
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:58296886 original size:164 final size:166
Alignment explanation
Indices: 58296615--58296947 Score: 616
Period size: 164 Copynumber: 2.0 Consensus size: 166
58296605 TATATGTGGT
58296615 AAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
*
58296680 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGA
66 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGA
58296743 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
131 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58296779 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
*
58296844 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGA
66 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGA
58296909 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
131 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58296945 AAA
1 AAA
58296948 TATGTATGAG
Statistics
Matches: 163, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
164 113 0.69
165 2 0.01
166 48 0.29
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (166 bp):
AAAGCCGAATGGCTAATGTCAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAAT
GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGA
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:58296928 original size:98 final size:98
Alignment explanation
Indices: 58296779--58296998 Score: 399
Period size: 98 Copynumber: 2.3 Consensus size: 98
58296769 GGCTAATGTG
*
58296779 AAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 AAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
58296842 ATGTGAAATATGTATGAGATATGTATATGTGGT
66 ATGTGAAATATGTATGAGATATGTATATGTGGT
*
58296875 AAAGCCGAATGGTTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 AAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
58296940 ATGTGAAATATGTATGAGATATGTATATGTGGT
66 ATGTGAAATATGTATGAGATATGTATATGTGGT
*
58296973 AAAGCCGAATGGCTAGTGTGAAATAT
1 AAAGCCGAATGGCTAATGTGAAATAT
58296999 GTAGGCGATG
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
96 19 0.16
97 2 0.02
98 97 0.82
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
AAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTATGAGATATGTATATGTGGT
Found at i:58297256 original size:37 final size:37
Alignment explanation
Indices: 58297148--58297256 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
58297138 GGAAATATAT
* *
58297148 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58297185 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
58297222 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
58297257 CATCTAAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:58305906 original size:40 final size:40
Alignment explanation
Indices: 58305861--58306027 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
58305851 CGGAATATAA
58305861 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58305901 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58305941 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58305981 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58306020 CCGGATAT
1 CCGGATAT
58306028 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58306011 original size:80 final size:79
Alignment explanation
Indices: 58305877--58306027 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58305867 ATAATCACGT
*
58305877 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
58305942 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
58305957 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
58306020 CCGGATAT
64 CCGGATAT
58306028 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:58313635 original size:40 final size:40
Alignment explanation
Indices: 58313590--58313756 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
58313580 CGGAATATAA
58313590 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58313630 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58313670 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58313710 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58313749 CCGGATAT
1 CCGGATAT
58313757 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58313740 original size:80 final size:79
Alignment explanation
Indices: 58313606--58313756 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58313596 ATAATCACGT
*
58313606 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
58313671 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
58313686 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
58313749 CCGGATAT
64 CCGGATAT
58313757 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:58315628 original size:64 final size:64
Alignment explanation
Indices: 58315549--58315679 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
58315539 AGCACAAATC
*
58315549 AATAAAAAGGATTTAAAATGTTCTCTCGCATCTTCATGTGGCAGCCCAGCATATTGTCTATTAG
1 AATAAAAAGGATTTAAAATGTTCTCTCGCATCTTCATGTGGCAGCCCAACATATTGTCTATTAG
58315613 AATAAAAAGGATTTAAAATGTTCTCTCGCATCTTCATGTGGCAGCCCAACATATTGTCTATTAG
1 AATAAAAAGGATTTAAAATGTTCTCTCGCATCTTCATGTGGCAGCCCAACATATTGTCTATTAG
58315677 AAT
1 AAT
58315680 TCAGCATTTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (64 bp):
AATAAAAAGGATTTAAAATGTTCTCTCGCATCTTCATGTGGCAGCCCAACATATTGTCTATTAG
Found at i:58322164 original size:40 final size:40
Alignment explanation
Indices: 58322096--58322272 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
58322086 ACCTAAGTAT
*
58322096 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCACACAAATGC
* *
58322135 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* *
58322175 CTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCA-CACAAATGC
* * * *
58322215 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* *
58322255 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
58322273 TTATCATCCG
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
Found at i:58322229 original size:80 final size:79
Alignment explanation
Indices: 58322096--58322272 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 79
58322086 ACCTAAGTAT
* * *
58322096 CTTCGGGAT-TTAGCCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGCCTGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGC
58322160 AACTCGCACAAATGC
65 AACTCGCACAAATGC
*
58322175 CTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGCCTTCGGGACATAGCCCGGATATA
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGACATAGCCCGGATATA
*
58322238 GCAACTCGCACGAATGC
63 GCAACTCGCACAAATGC
*
58322255 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
58322273 TTATCATCCG
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 73 0.84
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:58326001 original size:18 final size:19
Alignment explanation
Indices: 58325980--58326015 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58325970 AATAAAGAAA
*
58325980 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
58325998 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
58326016 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:58326860 original size:2 final size:2
Alignment explanation
Indices: 58326853--58326877 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58326843 CGTGATGCCC
58326853 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
58326878 CATAAGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58327451 original size:59 final size:58
Alignment explanation
Indices: 58327358--58327486 Score: 231
Period size: 59 Copynumber: 2.2 Consensus size: 58
58327348 ATTGTACAGT
58327358 ACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
* *
58327416 ACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGC
1 ACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
58327475 ACTAAGTGTGCG
1 ACTAAGTGTGCG
58327487 GATTCACTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 20 0.29
59 48 0.71
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (58 bp):
ACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATATAGC
Found at i:58327475 original size:88 final size:89
Alignment explanation
Indices: 58327325--58327486 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 89
58327315 GACAAGATTG
* * * *
58327325 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGTACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
58327390 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
58327414 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
58327478 AAGTGTGCG
66 AAGTGTGCG
58327487 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
88 51 0.77
89 15 0.23
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:58327498 original size:29 final size:29
Alignment explanation
Indices: 58327358--58327486 Score: 231
Period size: 29 Copynumber: 4.4 Consensus size: 29
58327348 ATTGTACAGT
*
58327358 ACTAAGTGTGCGAACTGAAAATATATAGC
1 ACTAAGTGTGCGAGCTGAAAATATATAGC
*
58327387 ACTAAGTGTGCGAACTGAAAATATATAGC
1 ACTAAGTGTGCGAGCTGAAAATATATAGC
58327416 ACTAAGTGTGCGAGCTGAAAATTATATAGC
1 ACTAAGTGTGCGAGCTGAAAA-TATATAGC
58327446 ACTAAGTGTGCGAGCTGAAAATATATAGC
1 ACTAAGTGTGCGAGCTGAAAATATATAGC
58327475 ACTAAGTGTGCG
1 ACTAAGTGTGCG
58327487 GATTCACTAT
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 69 0.70
30 29 0.30
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
ACTAAGTGTGCGAGCTGAAAATATATAGC
Found at i:58334084 original size:18 final size:19
Alignment explanation
Indices: 58334063--58334098 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58334053 AATAAAGAAA
*
58334063 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
58334081 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
58334099 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:58334946 original size:2 final size:2
Alignment explanation
Indices: 58334939--58334967 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58334929 CGTGATGCCC
58334939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58334968 CATAAGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58335494 original size:29 final size:29
Alignment explanation
Indices: 58335435--58335575 Score: 230
Period size: 29 Copynumber: 4.8 Consensus size: 29
58335425 TGCGGGTTTA
*
58335435 AAAATTATACAGCACTAAGTGTGCGAA-TG
1 AAAA-TATATAGCACTAAGTGTGCGAACTG
58335464 AAAATATATAGCACTAAGTGTGCGAACTG
1 AAAATATATAGCACTAAGTGTGCGAACTG
*
58335493 AAAATATATAGCACTAAGTGTGCGAGCTG
1 AAAATATATAGCACTAAGTGTGCGAACTG
*
58335522 AAAATTATATAGCACTAAGTGTGCGAGCTG
1 AAAA-TATATAGCACTAAGTGTGCGAACTG
58335552 AAAATATATAGCACTAAGTGTGCG
1 AAAATATATAGCACTAAGTGTGCG
58335576 GATTCACTAT
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
28 21 0.19
29 58 0.54
30 29 0.27
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (29 bp):
AAAATATATAGCACTAAGTGTGCGAACTG
Found at i:58335531 original size:59 final size:57
Alignment explanation
Indices: 58335435--58335575 Score: 228
Period size: 59 Copynumber: 2.4 Consensus size: 57
58335425 TGCGGGTTTA
*
58335435 AAAATTATACAGCACTAAGTGTGCGAATGAAAATATATAGCACTAAGTGTGCGAACTG
1 AAAA-TATATAGCACTAAGTGTGCGAATGAAAATATATAGCACTAAGTGTGCGAACTG
* *
58335493 AAAATATATAGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTG
1 AAAATATATAGCACTAAGTGTGCGA-ATGAAAA-TATATAGCACTAAGTGTGCGAACTG
58335552 AAAATATATAGCACTAAGTGTGCG
1 AAAATATATAGCACTAAGTGTGCG
58335576 GATTCACTAT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
57 20 0.26
58 10 0.13
59 48 0.62
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (57 bp):
AAAATATATAGCACTAAGTGTGCGAATGAAAATATATAGCACTAAGTGTGCGAACTG
Found at i:58335564 original size:88 final size:88
Alignment explanation
Indices: 58335415--58335575 Score: 261
Period size: 88 Copynumber: 1.8 Consensus size: 88
58335405 GACAAGATTG
* *
58335415 GCACTAAGTGTGCGGGTTTAAAAATTATACAGCACTAAGTGTGCGAATGAAAATATATAGCACTA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAATGAAAATATATAGCACTA
58335480 AGTGTGCGAACTGAAAATATATA
66 AGTGTGCGAACTGAAAATATATA
* * *
58335503 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGA-ATGAAAATATATAGCACT
58335567 AAGTGTGCG
65 AAGTGTGCG
58335576 GATTCACTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
87 26 0.39
88 41 0.61
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (88 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAATGAAAATATATAGCACTA
AGTGTGCGAACTGAAAATATATA
Found at i:58337224 original size:40 final size:40
Alignment explanation
Indices: 58337082--58337374 Score: 441
Period size: 40 Copynumber: 7.4 Consensus size: 40
58337072 CGGATGATAA
* *
58337082 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * * *
58337122 CCGGACTAAG-CCCGAAGGCATTTGTCCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
58337161 CCGGGCTAAG-CCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58337200 CCGGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58337240 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58337280 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58337320 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58337360 CCGGGCTAAGTCCCG
1 CCGGGCTAAGTCCCG
58337375 GTACTTGGTT
Statistics
Matches: 238, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 70 0.29
40 168 0.71
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58342372 original size:47 final size:49
Alignment explanation
Indices: 58342303--58342419 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 49
58342293 GTTGCTACAA
* * *
58342303 TGTGCCTGTGTAAGACCATGTCTAGGA-ATGGCGTCAGG-GATGATAT-T
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGCCATC-GGCGATGATATGT
*
58342350 TGTGCCAGTGTAAGACCATGTCTGGGACATGCCATCGGCGATGATATGT
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGCCATCGGCGATGATATGT
*
58342399 TGAT-TCA-TGTAAGACCATGTC
1 TG-TGCCAGTGTAAGACCATGTC
58342420 GGGGAAATGG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
47 27 0.44
48 28 0.46
49 5 0.08
50 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (49 bp):
TGTGCCAGTGTAAGACCATGTCTAGGACATGCCATCGGCGATGATATGT
Found at i:58343978 original size:22 final size:22
Alignment explanation
Indices: 58343953--58344005 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
58343943 CACGCAGGGT
*
58343953 CACACGGGCGTGTCCTTTGGAC
1 CACACGGGCGTGTCCTTCGGAC
*
58343975 CACACGGGAGTGTCCTTCGGAC
1 CACACGGGCGTGTCCTTCGGAC
58343997 CACACGGGC
1 CACACGGGC
58344006 ACGTGAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTCCTTCGGAC
Found at i:58349721 original size:37 final size:37
Alignment explanation
Indices: 58349658--58349807 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
58349648 CTTTAGCTCA
* * *
58349658 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
58349695 GACATACTCTCTACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
58349732 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
58349769 GACATAATCTCCACACGTAGTCATCGGGTCTCACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
58349806 GA
1 GA
58349808 ATATATTTCC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:58354680 original size:40 final size:40
Alignment explanation
Indices: 58354621--58354841 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
58354611 CATTTGAATG
* *
58354621 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
58354661 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
*
58354701 ATATCCGGGCTAAGACCCGAAGGCATTTGCACGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
*
58354741 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
* * * * * * *
58354781 ATGTCCGGGTTAAGACCCGAAGGTAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
58354821 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
58354842 AAACTTGGGT
Statistics
Matches: 166, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 153 0.92
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
Found at i:58357068 original size:27 final size:28
Alignment explanation
Indices: 58357011--58357080 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
58357001 AAACTTGTAC
*
58357011 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
58357039 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
58357066 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58357081 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:58357091 original size:27 final size:27
Alignment explanation
Indices: 58357011--58357092 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
58357001 AAACTTGTAC
* * *
58357011 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
58357039 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
58357066 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
58357093 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:58364977 original size:27 final size:28
Alignment explanation
Indices: 58364920--58364989 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
58364910 AAACTTGTAC
*
58364920 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
58364948 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
58364975 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58364990 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:58365000 original size:27 final size:27
Alignment explanation
Indices: 58364920--58365001 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
58364910 AAACTTGTAC
* * *
58364920 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
58364948 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
58364975 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
58365002 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:58365123 original size:47 final size:47
Alignment explanation
Indices: 58365054--58365147 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
58365044 GTTGATCACG
58365054 GACAGCGGATCGGGTAAGTACCTTGAGTTCATGGCTAATAAGCGCTA
1 GACAGCGGATCGGGTAAGTACCTTGAGTTCATGGCTAATAAGCGCTA
58365101 GACAGCGGATCGGGTAAGTACCTTGAGTTCATGGCTAATAAGCGCTA
1 GACAGCGGATCGGGTAAGTACCTTGAGTTCATGGCTAATAAGCGCTA
58365148 AGTTTATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GACAGCGGATCGGGTAAGTACCTTGAGTTCATGGCTAATAAGCGCTA
Found at i:58373800 original size:40 final size:40
Alignment explanation
Indices: 58373741--58374021 Score: 412
Period size: 40 Copynumber: 7.2 Consensus size: 40
58373731 CATTTGAATG
* *
58373741 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
58373781 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
*
58373821 ATATCCGGGCTAAGACCCGAAGGTATTTGCGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
58373861 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
*
58373901 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
* *
58373939 ----CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
* * * * * *
58373975 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
58374015 ATATCCG
1 ATATCCG
58374022 ACTAAATCCC
Statistics
Matches: 223, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
34 34 0.15
40 189 0.85
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTGTT
Found at i:58375878 original size:40 final size:40
Alignment explanation
Indices: 58375834--58376065 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
58375824 CCAGCATGAT
* * *
58375834 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58375874 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58375914 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58375954 TGCTGTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58375994 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
58376034 TGCTCTTCGGAATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
58376066 CTCAATTCTC
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:58377357 original size:37 final size:37
Alignment explanation
Indices: 58377301--58377443 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
58377291 TCAGACAAAA
* *
58377301 TCTCCACACGAAGTTATCGGGTCTTACCCGGACATAC
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAC
58377338 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAC
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAC
* *
58377375 TCTCCACACGTAGTCATCGGGTCTTACCTGGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAC
*
58377412 TCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
58377444 ATATATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAC
Found at i:58380135 original size:27 final size:29
Alignment explanation
Indices: 58380105--58380219 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
58380095 ACGCAAGAGC
*
58380105 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
58380132 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
58380161 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* ** *
58380191 ATATATTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
58380220 GTACAATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 43 0.54
30 29 0.36
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:58380172 original size:30 final size:29
Alignment explanation
Indices: 58380117--58380219 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
58380107 ATAGTGAATC
58380117 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
58380146 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
58380176 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
58380205 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58380220 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:58380209 original size:59 final size:60
Alignment explanation
Indices: 58380116--58380249 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
58380106 TATAGTGAAT
* * *
58380116 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
58380175 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
58380235 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
58380250 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:58387665 original size:29 final size:29
Alignment explanation
Indices: 58387633--58387764 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
58387623 ATAGTGAATC
58387633 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
58387662 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
58387692 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
58387721 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
58387750 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58387765 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:58387774 original size:59 final size:59
Alignment explanation
Indices: 58387633--58387764 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
58387623 ATAGTGAATC
58387633 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
58387692 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
58387750 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58387765 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:58391252 original size:30 final size:30
Alignment explanation
Indices: 58391217--58391274 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
58391207 AATTTGGGGT
* *
58391217 CACACGGCCAAGTCACACGCCCGTGTCCTA
1 CACACGGCCAAGTCACACACCCATGTCCTA
58391247 CACACGGCCAAGTCACACACCCATGTCC
1 CACACGGCCAAGTCACACACCCATGTCC
58391275 CGGGGCCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.45, G:0.17, T:0.12
Consensus pattern (30 bp):
CACACGGCCAAGTCACACACCCATGTCCTA
Found at i:58407792 original size:50 final size:50
Alignment explanation
Indices: 58407677--58407957 Score: 303
Period size: 50 Copynumber: 5.6 Consensus size: 50
58407667 TGAGAACACA
* *** * *
58407677 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTCACG
* * * *
58407729 TCTGTAGTCCTAAGTGCAGGCTACTACGTGTACCGGATAGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
* * *
58407779 TGTGTAGTACTAAGTGCAGGCTACTATGTGAACCAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
* * * * *
58407829 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAGCTTCA-ATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TT-AGGTCACG
* * * * *
58407880 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
*
58407930 TGTGTAGTACTAAGTGCAGACTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTATG
58407958 CATACTAGAT
Statistics
Matches: 190, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
49 1 0.01
50 118 0.62
51 39 0.21
52 32 0.17
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACG
Found at i:58407917 original size:101 final size:100
Alignment explanation
Indices: 58407673--58407958 Score: 340
Period size: 101 Copynumber: 2.8 Consensus size: 100
58407663 ATTGTGAGAA
* * * * * *
58407673 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAAGTCACGTCTGTAGTC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG--TTAGGTCACGTGTGTAGTA
* * * *
58407738 CTAAGTGCAGGCTACTACGTGTACCGGATAGTTAGGT
64 CTAAGTGCAGGCTACTATGCGTACCGGACAGTTAGAT
* * * * * *
58407775 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGAACCAGATAGTTAGGTCGCATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
*
58407840 AAGTGCAGGCTACTATGCGTACCTGACAGCTTCA-AT
66 AAGTGCAGGCTACTATGCGTACCGGACAG-TT-AGAT
* * *
58407876 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
*
58407941 AAGTGCAGACTACTATGC
66 AAGTGCAGGCTACTATGC
58407959 ATACTAGATA
Statistics
Matches: 155, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
100 41 0.26
101 76 0.49
102 38 0.25
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCGGACAGTTAGAT
Found at i:58408188 original size:16 final size:15
Alignment explanation
Indices: 58408167--58408196 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58408157 GAATGGAGTA
58408167 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
58408183 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
58408197 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:58413714 original size:40 final size:39
Alignment explanation
Indices: 58413669--58413798 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
58413659 CGGAATATAA
58413669 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
58413709 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58413749 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
58413789 CCGGATATAA
1 CCGGATATAA
58413799 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58413813 original size:40 final size:40
Alignment explanation
Indices: 58413685--58413836 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
58413675 ATAACCATGT
* * *
58413685 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
58413725 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
58413765 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
58413805 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
58413837 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:58413819 original size:80 final size:80
Alignment explanation
Indices: 58413685--58413834 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
58413675 ATAACCATGT
*
58413685 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
58413749 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
58413765 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
58413828 CCCGGAT
64 CCCGGAT
58413835 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:58423861 original size:14 final size:14
Alignment explanation
Indices: 58423842--58423872 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
58423832 CAAACTACAA
58423842 GGAATGAAAAGGAG
1 GGAATGAAAAGGAG
58423856 GGAATGAAAAGGAG
1 GGAATGAAAAGGAG
58423870 GGA
1 GGA
58423873 GTAAGCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.45, T:0.06
Consensus pattern (14 bp):
GGAATGAAAAGGAG
Found at i:58424381 original size:93 final size:93
Alignment explanation
Indices: 58424222--58424392 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
58424212 GCCCATAAGT
***
58424222 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58424287 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
58424315 GAACTTGGACTCAACTCAACGAGTTCGGAAATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58424380 CGAGTTCGGATGC
66 CGAGCTCGGATGC
58424393 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58424389 original size:46 final size:46
Alignment explanation
Indices: 58424214--58424389 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
58424204 TGTAACCCGC
*** *
58424214 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAAATTAGCAT
*** *
58424260 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-AATTAGCAT
* *** * * *
58424306 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGAAATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAAATTAGCAT
*
58424353 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58424390 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAAATTAGCAT
Found at i:58430803 original size:25 final size:25
Alignment explanation
Indices: 58430769--58430820 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
58430759 GCTGAAGAAC
58430769 CAGTAAAGATTTTAGCTCGAGAGAT
1 CAGTAAAGATTTTAGCTCGAGAGAT
58430794 CAGTAAAGATTTTAGCTCGAGAGAT
1 CAGTAAAGATTTTAGCTCGAGAGAT
58430819 CA
1 CA
58430821 AGCAACTAAG
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:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (25 bp):
CAGTAAAGATTTTAGCTCGAGAGAT
Found at i:58432525 original size:40 final size:40
Alignment explanation
Indices: 58432451--58432669 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
58432441 AACCCAAGTA
* *
58432451 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
58432490 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
58432530 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
58432570 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
58432610 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
58432649 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
58432670 GTCATCCGAA
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 36 0.21
40 134 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:58441008 original size:40 final size:40
Alignment explanation
Indices: 58440934--58441151 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
58440924 AACCCAAGTA
* *
58440934 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
58440973 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
58441013 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
58441053 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
58441093 CCTTCGGGACTTAGCCCGG-TATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
58441131 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
58441152 GTCATCCGAA
Statistics
Matches: 169, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 21 0.12
39 29 0.17
40 118 0.70
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:58444058 original size:53 final size:54
Alignment explanation
Indices: 58443883--58444089 Score: 229
Period size: 53 Copynumber: 3.8 Consensus size: 54
58443873 TTAGGGTTTA
* * * * *
58443883 AAGGATACCAAGTAATACCATGGCAAGGCATGG-AATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTCTATAAGGC
* * * * * * *
58443937 AAGGAAATCATGTAAGAGCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * *
58443992 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
58444045 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
58444090 AAAAAGGAAA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 47 0.39
54 32 0.26
55 43 0.35
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:58444314 original size:22 final size:22
Alignment explanation
Indices: 58444288--58444331 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
58444278 CTCTCTTTTT
*
58444288 TATAGTATCGTAAAGCAAACTA
1 TATAGTATCGCAAAGCAAACTA
*
58444310 TATAGTATCGCAAAGCGAACTA
1 TATAGTATCGCAAAGCAAACTA
58444332 GGAAAATCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (22 bp):
TATAGTATCGCAAAGCAAACTA
Found at i:58447328 original size:23 final size:23
Alignment explanation
Indices: 58447302--58447354 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
58447292 ATTTGCATCA
*
58447302 CATATCAT-ATACCAAAATCAAAC
1 CATATCATCA-ACCAAAACCAAAC
** *
58447325 CATAAGATCAACCAAAACCAAGC
1 CATATCATCAACCAAAACCAAAC
58447348 CATATCA
1 CATATCA
58447355 CATGGCTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.51, C:0.28, G:0.04, T:0.17
Consensus pattern (23 bp):
CATATCATCAACCAAAACCAAAC
Found at i:58447583 original size:26 final size:26
Alignment explanation
Indices: 58447554--58447605 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
58447544 CTTTCAAAAG
58447554 CTTAGTAAGTCATATACAAATAAACT
1 CTTAGTAAGTCATATACAAATAAACT
58447580 CTTAGTAAGTCATATACAAATAAACT
1 CTTAGTAAGTCATATACAAATAAACT
58447606 TATCAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (26 bp):
CTTAGTAAGTCATATACAAATAAACT
Found at i:58448052 original size:44 final size:41
Alignment explanation
Indices: 58447924--58448065 Score: 151
Period size: 44 Copynumber: 3.3 Consensus size: 41
58447914 AACATCTCAA
* * *
58447924 ACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAG
1 ACGTGGTCTTACAAGAAATC-AA-ATCGATGCCAATGTCCCAG
**
58447967 ACAG-GGTCTTACAAGAAATCAAATACGATGCCAACATCCCAG
1 AC-GTGGTCTTACAAGAAATCAAAT-CGATGCCAATGTCCCAG
* *
58448009 ACGTTGTCTTACACATAAATCATAAGTCGATGCCAATGTCCCAG
1 ACGTGGTCTTACA-AGAAATCA-AA-TCGATGCCAATGTCCCAG
58448053 ACGTGGTCTTACA
1 ACGTGGTCTTACA
58448066 GGATAATACA
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
41 3 0.04
42 26 0.31
43 23 0.28
44 30 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
ACGTGGTCTTACAAGAAATCAAATCGATGCCAATGTCCCAG
Found at i:58448053 original size:86 final size:85
Alignment explanation
Indices: 58447909--58448065 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 85
58447899 AGCTTGTACA
* ** *
58447909 ATGCCAACATCTCAAACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAGACAG-GG
1 ATGCCAACATCCCAAACGTGGTCTTACACATAATCAAATATCGATGCCAATGTCCCAGAC-GTGG
58447973 TCTTACAAGAAATCAAATACG
65 TCTTACAAGAAATCAAATACG
* * *
58447994 ATGCCAACATCCCAGACGTTGTCTTACACATAAATCATAA-GTCGATGCCAATGTCCCAGACGTG
1 ATGCCAACATCCCAAACGTGGTCTTACACAT-AATCA-AATATCGATGCCAATGTCCCAGACGTG
58448058 GTCTTACA
64 GTCTTACA
58448066 GGATAATACA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 27 0.44
86 33 0.53
87 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAACATCCCAAACGTGGTCTTACACATAATCAAATATCGATGCCAATGTCCCAGACGTGGT
CTTACAAGAAATCAAATACG
Found at i:58463170 original size:42 final size:42
Alignment explanation
Indices: 58463088--58463178 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
58463078 TCGCTTACTT
** * *
58463088 GATGCCATAGTCCAACTATGGTCTTACATGAAGTCTCATATC
1 GATGCCATAGTCCAACTATGGTCTTACACAAAATCACATATC
58463130 GATGCCAT-GTCCTAGAC-ATGGTCTTACACAAAATCACATATC
1 GATGCCATAGTCC-A-ACTATGGTCTTACACAAAATCACATATC
*
58463172 AATGCCA
1 GATGCCA
58463179 ACACCATATC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 36 0.86
43 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
GATGCCATAGTCCAACTATGGTCTTACACAAAATCACATATC
Found at i:58463219 original size:48 final size:48
Alignment explanation
Indices: 58463143--58463263 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
58463133 GCCATGTCCT
**** * *
58463143 AGACATGGTCTTACACAAAATCACATATCAATGCCAACACCATATCCT
1 AGACATGGTCTTACATGGGATCACATATCAATGCCAACACCATACCCC
** * * ** *
58463191 AGTTATGGTCTTACATGGGATCAGATATCGATGCCAATGCCATCCCCC
1 AGACATGGTCTTACATGGGATCACATATCAATGCCAACACCATACCCC
58463239 AGACATGGTCTTACATGGGATCACA
1 AGACATGGTCTTACATGGGATCACA
58463264 ATGCCATAGC
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (48 bp):
AGACATGGTCTTACATGGGATCACATATCAATGCCAACACCATACCCC
Found at i:58463309 original size:37 final size:37
Alignment explanation
Indices: 58463225--58463327 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
58463215 ATATCGATGC
** *
58463225 CAATGCCATCCCCCAGAC-ATGGTCTTACATGGGATCA
1 CAATGCCATAGCCCA-ACTATGGTCTTACATGGCATCA
* *
58463262 CAATGCCATAGCCCAACTATGGTCTTACATGTCATTA
1 CAATGCCATAGCCCAACTATGGTCTTACATGGCATCA
* * * *
58463299 CGATGTCATAGCCTAGCTATGGTCTTACA
1 CAATGCCATAGCCCAACTATGGTCTTACA
58463328 CGTGCCCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.04
37 54 0.96
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (37 bp):
CAATGCCATAGCCCAACTATGGTCTTACATGGCATCA
Found at i:58468923 original size:30 final size:30
Alignment explanation
Indices: 58468889--58468949 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58468879 TCCTTAACTC
58468889 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
58468919 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
58468949 A
1 A
58468950 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:58473356 original size:30 final size:30
Alignment explanation
Indices: 58473322--58473382 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58473312 TCCTTAACTC
58473322 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
58473352 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
58473382 A
1 A
58473383 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:58474031 original size:20 final size:20
Alignment explanation
Indices: 58474006--58474046 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58473996 AAGTTTTGCA
58474006 ACTTATTCAATTTAGTCCCT
1 ACTTATTCAATTTAGTCCCT
58474026 ACTTATTCAATTTAGTCCCT
1 ACTTATTCAATTTAGTCCCT
58474046 A
1 A
58474047 ACTTCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (20 bp):
ACTTATTCAATTTAGTCCCT
Found at i:58481176 original size:39 final size:39
Alignment explanation
Indices: 58481122--58481274 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
58481112 GAATGTTCGA
* *
58481122 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
58481161 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
58481200 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
58481239 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
58481275 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:58481290 original size:40 final size:39
Alignment explanation
Indices: 58481123--58481304 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
58481113 AATGTTCGAG
* * *
58481123 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
58481162 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
58481201 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
58481240 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
58481280 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
58481305 TGTTTTGAAC
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:58485106 original size:40 final size:40
Alignment explanation
Indices: 58485012--58485235 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
58485002 TATTCGAATG
*
58485012 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
58485053 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
58485093 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
58485133 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
58485172 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
58485212 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
58485236 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 39 0.25
40 89 0.56
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:58485191 original size:79 final size:80
Alignment explanation
Indices: 58485012--58485271 Score: 312
Period size: 79 Copynumber: 3.3 Consensus size: 80
58485002 TATTCGAATG
* * * *
58485012 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
58485077 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
58485093 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAA-ACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
58485157 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
58485172 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
58485237 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
58485251 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58485272 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 15 0.10
79 80 0.52
80 28 0.18
81 32 0.21
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:58485225 original size:119 final size:119
Alignment explanation
Indices: 58485012--58485271 Score: 314
Period size: 119 Copynumber: 2.2 Consensus size: 119
58485002 TATTCGAATG
* * *
58485012 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
58485077 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
65 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* *
58485133 ATATCCGGGCTAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGC
* * *
58485196 ATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 ATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
58485251 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAA-CCCGAAG
58485272 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
117 8 0.07
118 26 0.21
119 57 0.47
120 18 0.15
121 13 0.11
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (119 bp):
ATATCCGGGCTAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:58492831 original size:40 final size:40
Alignment explanation
Indices: 58492737--58492961 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
58492727 TATTCGAATG
*
58492737 ATATCCGGGCTAAG-TCTCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTA-GTGACT
* * * *
58492778 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
58492818 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
58492858 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
58492898 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
58492938 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
58492962 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 28 0.18
42 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:58492917 original size:80 final size:80
Alignment explanation
Indices: 58492737--58492997 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
58492727 TATTCGAATG
* * * * *
58492737 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
58492802 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
58492818 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
58492883 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
58492898 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
58492963 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
58492977 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58492998 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.62
81 31 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:58492951 original size:120 final size:120
Alignment explanation
Indices: 58492737--58492997 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 120
58492727 TATTCGAATG
* * * *
58492737 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
58492802 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
58492858 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
58492921 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
58492977 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
58492998 ATTACTTGAG
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 30 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:58494436 original size:27 final size:27
Alignment explanation
Indices: 58494398--58494453 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
58494388 TCATAATTAC
58494398 ATAGTTCCTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
58494425 ATAGTTCCTAGTGACATGTCACATTGT
1 ATAGTTCCTAGTGACATGTCACATTGT
58494452 AT
1 AT
58494454 CCTAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
ATAGTTCCTAGTGACATGTCACATTGT
Done.