Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 208 of 290
Found at i:71692729 original size:18 final size:18
Alignment explanation
Indices: 71692706--71692743 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
71692696 AAAAATCACT
71692706 TAACAA-AATACTTATAAA
1 TAACAACAATACTT-TAAA
71692724 TAACAACTAATACTTTAAA
1 TAACAAC-AATACTTTAAA
71692743 T
1 T
71692744 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (18 bp):
TAACAACAATACTTTAAA
Found at i:71695269 original size:93 final size:93
Alignment explanation
Indices: 71695110--71695280 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
71695100 GGATGGTTGA
*
71695110 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
71695175 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
71695203 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
*
71695268 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
71695281 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71695283 original size:46 final size:46
Alignment explanation
Indices: 71695114--71695285 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
71695104 GGTTGAGCAT
* *
71695114 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
71695160 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
*
71695205 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
71695253 CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71695286 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 58 0.55
47 27 0.26
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:71702455 original size:55 final size:55
Alignment explanation
Indices: 71702371--71702479 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
71702361 ATTCAAGTCG
*
71702371 CGATCGAGGGAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGA
1 CGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGA
71702426 CGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGG
1 CGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGG
71702480 TACCAAGGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (55 bp):
CGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGA
Found at i:71702920 original size:93 final size:93
Alignment explanation
Indices: 71702761--71702931 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71702751 GGATGGTTGA
* * *
71702761 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71702826 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
71702854 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71702919 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71702932 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71702934 original size:46 final size:46
Alignment explanation
Indices: 71702765--71702936 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
71702755 GGTTGAGCAT
* * * *
71702765 CCGAACTCGTTAAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
71702811 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
71702856 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
71702904 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71702937 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:71710606 original size:19 final size:19
Alignment explanation
Indices: 71710584--71710627 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
71710574 AGCTTTTGAC
71710584 AAGC-AAATGGAAGTTTGCT
1 AAGCTAAAT-GAAGTTTGCT
*
71710603 AAGCTAAATGCAGTTTGCT
1 AAGCTAAATGAAGTTTGCT
*
71710622 CAGCTA
1 AAGCTA
71710628 TCTTGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (19 bp):
AAGCTAAATGAAGTTTGCT
Found at i:71713500 original size:6 final size:6
Alignment explanation
Indices: 71713459--71713499 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
71713449 GTTCATTTGT
* *
71713459 TTTATA TTTATA TTTATA TTTATA TTTATG TTTATT TTTAT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
71713500 TCTATTAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTATA
Found at i:71719491 original size:47 final size:47
Alignment explanation
Indices: 71719440--71719529 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
71719430 TTAGGATTCT
*
71719440 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCG
* *
71719487 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATG
71719530 TAGCTATTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 1 0.03
47 38 0.97
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCG
Found at i:71719671 original size:47 final size:47
Alignment explanation
Indices: 71719608--71719880 Score: 366
Period size: 47 Copynumber: 6.0 Consensus size: 47
71719598 GAAATGATAG
*
71719608 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
71719655 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
71719702 TAAGGCCTAAT-----A---G-CGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71719740 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71719787 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
71719834 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
71719881 CAAGTCCCGA
Statistics
Matches: 201, Mismatches: 16, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 33 0.16
39 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 164 0.82
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:71719808 original size:85 final size:85
Alignment explanation
Indices: 71719631--71719797 Score: 298
Period size: 85 Copynumber: 2.0 Consensus size: 85
71719621 CCGATGTGAT
*
71719631 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATAT
71719696 ATGTAATAAGGCCTAATAGC
66 ATGTAATAAGGCCTAATAGC
* *
71719716 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATAT
*
71719781 ATGTGATAAGGCCTAAT
66 ATGTAATAAGGCCTAAT
71719798 GGCCGATGTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (85 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATAT
ATGTAATAAGGCCTAATAGC
Found at i:71720053 original size:37 final size:37
Alignment explanation
Indices: 71720003--71720118 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
71719993 CCGAGCTCTA
*
71720003 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
71720040 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
71720077 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
71720114 AAGAC
1 AAGAC
71720119 TTCGTAATAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:71720573 original size:150 final size:150
Alignment explanation
Indices: 71720302--71720602 Score: 584
Period size: 150 Copynumber: 2.0 Consensus size: 150
71720292 GGTTATGTGA
71720302 AATCATACGATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTAT
1 AATCATACGATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTAT
71720367 ATGATGAGATGTGCATATTCGGTAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACG
66 ATGATGAGATGTGCATATTCGGTAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACG
*
71720432 AACAACTATGTTATAAATTG
131 AACAACTATGCTATAAATTG
71720452 AATCATACGATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTAT
1 AATCATACGATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTAT
71720517 ATGATGAGATGTGCATATTCGGTAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACG
66 ATGATGAGATGTGCATATTCGGTAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACG
*
71720582 AACAACTATGCTATAATTTG
131 AACAACTATGCTATAAATTG
71720602 A
1 A
71720603 TTGTTATCTG
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (150 bp):
AATCATACGATATATCTATGTCACATGAGCTCACTTTTATGTGAAAGTTTATCTGCCTATTGTAT
ATGATGAGATGTGCATATTCGGTAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACG
AACAACTATGCTATAAATTG
Found at i:71728338 original size:41 final size:41
Alignment explanation
Indices: 71728293--71728378 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
71728283 GGTGCTATTT
71728293 AGGGGTACCGAAGTACAAATAGGAGCACGAATATGCAATTC
1 AGGGGTACCGAAGTACAAATAGGAGCACGAATATGCAATTC
* * * *
71728334 AGGGGTATCGAAGTACAAATAGGGGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAATAGGAGCACGAATATGCAATTC
71728375 AGGG
1 AGGG
71728379 AATAATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAATAGGAGCACGAATATGCAATTC
Found at i:71731929 original size:49 final size:49
Alignment explanation
Indices: 71731857--71731950 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
71731847 AATTGTGTGA
* *
71731857 AAATTTCGTTAAGAAGTTTTATCGATTGAGTGCTCAATTTTCCTAAAAG
1 AAATTTCGTTAAGAAATTTTATCGATTGAGTGCTCAATTTGCCTAAAAG
71731906 AAATTTCGTTAAGAAATTTTATCGATTGAGTGCTCAATTTGCCTA
1 AAATTTCGTTAAGAAATTTTATCGATTGAGTGCTCAATTTGCCTA
71731951 GAAGGACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (49 bp):
AAATTTCGTTAAGAAATTTTATCGATTGAGTGCTCAATTTGCCTAAAAG
Found at i:71732915 original size:16 final size:16
Alignment explanation
Indices: 71732894--71732929 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
71732884 TACAAGTGAC
71732894 ATGTCACTAAGCTTTT
1 ATGTCACTAAGCTTTT
*
71732910 ATGTCACTAGGCTTTT
1 ATGTCACTAAGCTTTT
71732926 ATGT
1 ATGT
71732930 TATGTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (16 bp):
ATGTCACTAAGCTTTT
Found at i:71745535 original size:79 final size:79
Alignment explanation
Indices: 71745400--71745611 Score: 236
Period size: 79 Copynumber: 2.7 Consensus size: 79
71745390 CCTTCGAAAT
*
71745400 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
71745465 AATGCCTTCGGGAC
66 AATGCCTTCGGGAC
* * *
71745479 TTAACCCGGATTTAG-TAACTCGCTCCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGC
1 TTAA-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGC
71745541 ACAAATGCCTTC-GGATC
63 ACAAATGCCTTCGGGA-C
* * * * * *
71745558 TTAGTCCGGATATAG-TCATTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 TTA-ACCGGATATAGCT-A-CTCGCTCAAATGCCTTCGGGACATAGCCCGGATAT
71745612 CATTCGAATA
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.04
79 52 0.46
80 44 0.39
81 12 0.11
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:71745537 original size:39 final size:40
Alignment explanation
Indices: 71745416--71745609 Score: 232
Period size: 40 Copynumber: 4.8 Consensus size: 40
71745406 GGATATAGCT
* *
71745416 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
71745456 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
71745496 ACTCGCTCCAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
71745535 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCA
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-A
** * *
71745576 TTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
71745610 ATCATTCGAA
Statistics
Matches: 132, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.24
40 67 0.51
41 28 0.21
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:71753612 original size:27 final size:27
Alignment explanation
Indices: 71753574--71753629 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
71753564 TCACAACTAA
71753574 TGATGCCAAGTTAGTGTTGAAGTTTTT
1 TGATGCCAAGTTAGTGTTGAAGTTTTT
71753601 TGATGCCAAGTTAGTGTTGAAGTTTTT
1 TGATGCCAAGTTAGTGTTGAAGTTTTT
71753628 TG
1 TG
71753630 TACAAGAACA
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:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (27 bp):
TGATGCCAAGTTAGTGTTGAAGTTTTT
Found at i:71754746 original size:40 final size:40
Alignment explanation
Indices: 71754604--71754786 Score: 156
Period size: 40 Copynumber: 4.5 Consensus size: 40
71754594 CGATATCTTG
* * ** *
71754604 CACACTAAGTGCCAATACATAGTCGAAGCTATT-ATAATCTCG
1 CACACTAAGTGCC-ATATATAGCCGAAGCTATTCCGAA--TCA
* * * ** *
71754646 CACACTAAGTGCCTTACATAGCCGAAGCTATCTCGGTCTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAATCA
* *
71754687 CACACTAAGTGTCATATATAGCTGAAGCTATTCCGAATCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATTCCGAATCA
*
71754727 CACACTAAGTGCCACATATAGCCGAAGCTA-TCTCGAATCGA
1 CACACTAAGTGCCATATATAGCCGAAGCTATTC-CGAATC-A
*
71754768 -ACCCTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
71754787 TATTCGAATC
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.02
40 55 0.47
41 47 0.40
42 14 0.12
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATTCCGAATCA
Found at i:71759477 original size:23 final size:23
Alignment explanation
Indices: 71759447--71759493 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
71759437 TCTCTCTAAG
71759447 TTCATCTGAACTTATAAATTTAC
1 TTCATCTGAACTTATAAATTTAC
71759470 TTCATCTGAACTTATAAATTTAC
1 TTCATCTGAACTTATAAATTTAC
71759493 T
1 T
71759494 GCCTTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATCTGAACTTATAAATTTAC
Found at i:71762501 original size:17 final size:18
Alignment explanation
Indices: 71762479--71762523 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
71762469 GTGAGATGTA
71762479 TGAAAAAGATCA-AAAAG
1 TGAAAAAGATCACAAAAG
71762496 TGAAAAAG--CACAAAAG
1 TGAAAAAGATCACAAAAG
71762512 TAGAAAAA-ATCA
1 T-GAAAAAGATCA
71762524 GTCATTAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.08
16 6 0.25
17 14 0.58
18 2 0.08
ACGTcount: A:0.64, C:0.09, G:0.16, T:0.11
Consensus pattern (18 bp):
TGAAAAAGATCACAAAAG
Found at i:71766575 original size:28 final size:27
Alignment explanation
Indices: 71766530--71766594 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
71766520 TTTGCACTAT
* * * *
71766530 ACTGAAACTGTATTGGGCTTAGGCCCAC
1 ACTGATACTGAATAGGGCTCAGG-CCAC
*
71766558 ACTGATACTGAATAGGGCTCAGGCCAG
1 ACTGATACTGAATAGGGCTCAGGCCAC
71766585 ACTGATACTG
1 ACTGATACTG
71766595 CGTGCACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (27 bp):
ACTGATACTGAATAGGGCTCAGGCCAC
Found at i:71793467 original size:44 final size:44
Alignment explanation
Indices: 71793413--71793503 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
71793403 GAAGTGGTGG
71793413 TCTCTAATTCCCTTAGCCTCTCCATGAGAAATTTGGGTGGTTCC
1 TCTCTAATTCCCTTAGCCTCTCCATGAGAAATTTGGGTGGTTCC
*
71793457 TCTCTGATTCCCTTAGCCTCTCCATGAGAAATTTGGGTGGTTCC
1 TCTCTAATTCCCTTAGCCTCTCCATGAGAAATTTGGGTGGTTCC
71793501 TCT
1 TCT
71793504 AACCTGCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.37
Consensus pattern (44 bp):
TCTCTAATTCCCTTAGCCTCTCCATGAGAAATTTGGGTGGTTCC
Found at i:71795796 original size:13 final size:13
Alignment explanation
Indices: 71795778--71795804 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71795768 GCTTAGCAGG
71795778 GACACGCCCGTGT
1 GACACGCCCGTGT
71795791 GACACGCCCGTGT
1 GACACGCCCGTGT
71795804 G
1 G
71795805 CGATTGCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:71800719 original size:255 final size:255
Alignment explanation
Indices: 71800268--71801288 Score: 2024
Period size: 255 Copynumber: 4.0 Consensus size: 255
71800258 TCTAGACGAA
*
71800268 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCGAATCAAATGATTTTGAAGGG
1 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
71800333 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
66 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
71800398 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
131 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
71800463 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
196 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
71800523 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
1 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
*
71800588 TTTACCAGTTGCAATCTCGTCGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
66 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
71800653 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
131 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
71800718 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
196 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
71800778 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
1 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
71800843 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
66 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
71800908 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
131 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
71800973 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
196 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
71801033 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
1 AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
71801098 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
66 TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
71801163 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
131 TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
71801228 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
196 TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
71801288 A
1 A
71801289 CTACTAATAT
Statistics
Matches: 763, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 763 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (255 bp):
AGACAATTGAGTTGAAATGTCAGAATAATGAAACTCTCCAAATCAAATCAAATGATTTTGAAGGG
TTTACCAGTTGCAATCTCGTTGATGTTAGCTCTGAGATATGTGAAAAAGAGATGCAATGCATATC
TTGCATATGTACTTGATACAAAAGTGCCAGAAACAAAGATTGAATTAGTACCAGTTTTTTGTGAG
TATTCAGATGTGTTTTCAGAAGAGTTATCGGGTTTGCCACCGATCAGAGAGGTTGAATTT
Found at i:71809420 original size:28 final size:28
Alignment explanation
Indices: 71809389--71809448 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 28
71809379 CACGGTCAGA
* *
71809389 GACACGAACTTGTGTCTCAGTCGTGTGT
1 GACACGAACGTATGTCTCAGTCGTGTGT
**
71809417 GACACACGGGCGTATGTCTCAGTCGTGTGT
1 G--ACACGAACGTATGTCTCAGTCGTGTGT
71809447 GA
1 GA
71809449 GACACAGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.08
30 24 0.92
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (28 bp):
GACACGAACGTATGTCTCAGTCGTGTGT
Found at i:71809652 original size:66 final size:64
Alignment explanation
Indices: 71809526--71809667 Score: 171
Period size: 66 Copynumber: 2.2 Consensus size: 64
71809516 CACGGTCTCA
* * *
71809526 CACACGGGCGTGTGACTGGCCGTGTGGTACAAGTCAGTATACCCCCTAATTGGCAGACGGCCTAG
1 CACACGGGCGTGTGACTGGCCGTGTGGCACAAGTCAATATACCCACTAATTGGCA-ACGGCCTAG
* * *
71809591 CACACAGGCGTGTGACTTGGCCGTGTTGCATAAGTCAATATACCCTAC-AGATTTGGC-ACGGCC
1 CACACGGGCGTGTGAC-TGGCCGTGTGGCACAAGTCAATATACCC-ACTA-A-TTGGCAACGGCC
71809654 TAG
62 TAG
71809657 CACACGGGCGT
1 CACACGGGCGT
71809668 ATATGGCCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
65 15 0.23
66 44 0.67
67 2 0.03
68 5 0.08
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (64 bp):
CACACGGGCGTGTGACTGGCCGTGTGGCACAAGTCAATATACCCACTAATTGGCAACGGCCTAG
Found at i:71815038 original size:13 final size:13
Alignment explanation
Indices: 71815020--71815044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71815010 AGACACAGCC
71815020 GTGCGATACGGCA
1 GTGCGATACGGCA
71815033 GTGCGATACGGC
1 GTGCGATACGGC
71815045 CGTGTTGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTGCGATACGGCA
Found at i:71815552 original size:24 final size:26
Alignment explanation
Indices: 71815502--71815558 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
71815492 TTAATCCTCA
71815502 CTTTCCCATCTCTTTCCCCTCCATTTT
1 CTTT-CCATCTCTTTCCCCTCCATTTT
**
71815529 CTTTCCA-CTCTTT-CCCTCTGTTTT
1 CTTTCCATCTCTTTCCCCTCCATTTT
71815553 CTTTCC
1 CTTTCC
71815559 CCACGGCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 6 0.21
26 3 0.11
27 4 0.14
ACGTcount: A:0.05, C:0.42, G:0.02, T:0.51
Consensus pattern (26 bp):
CTTTCCATCTCTTTCCCCTCCATTTT
Found at i:71815820 original size:6 final size:7
Alignment explanation
Indices: 71815804--71815843 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
71815794 TTCAAACTAC
71815804 TTTTTAT
1 TTTTTAT
71815811 TTTTTAT
1 TTTTTAT
71815818 TTTTTAT
1 TTTTTAT
71815825 TTTTTA-
1 TTTTTAT
71815831 TTTTTAT
1 TTTTTAT
71815838 TTTTTA
1 TTTTTA
71815844 GCAGATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:71815827 original size:13 final size:14
Alignment explanation
Indices: 71815804--71815843 Score: 73
Period size: 13 Copynumber: 2.9 Consensus size: 14
71815794 TTCAAACTAC
71815804 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
71815818 TTTTTATTTTTTA-
1 TTTTTATTTTTTAT
71815831 TTTTTATTTTTTA
1 TTTTTATTTTTTA
71815844 GCAGATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:71820425 original size:15 final size:15
Alignment explanation
Indices: 71820404--71820442 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
71820394 CAAGAACTTA
71820404 AACCCTAGGTCTAAC
1 AACCCTAGGTCTAAC
*
71820419 GACCCTAGGTCTAAC
1 AACCCTAGGTCTAAC
71820434 AACCCTAGG
1 AACCCTAGG
71820443 AAGTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (15 bp):
AACCCTAGGTCTAAC
Found at i:71827755 original size:40 final size:40
Alignment explanation
Indices: 71827693--71827830 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
71827683 AAGCCAAGTA
* *
71827693 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCTCAAATG
*
71827732 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
* * *
71827772 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGT-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGC-TCAAATG
71827812 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71827831 TTATCATCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
39 14 0.16
40 73 0.84
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
Found at i:71830788 original size:25 final size:26
Alignment explanation
Indices: 71830754--71830811 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
71830744 TACATCAGTA
71830754 AAAATTTTGACAATTTTAACCC-GGT
1 AAAATTTTGACAATTTTAACCCTGGT
** *
71830779 AAAATTTTGATGATTTTACCCCTGGT
1 AAAATTTTGACAATTTTAACCCTGGT
71830805 AAAATTT
1 AAAATTT
71830812 CGAGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (26 bp):
AAAATTTTGACAATTTTAACCCTGGT
Found at i:71830921 original size:18 final size:18
Alignment explanation
Indices: 71830900--71830935 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
71830890 AACAGCTCAA
*
71830900 AAACGTAAAATCATTCTT
1 AAACATAAAATCATTCTT
*
71830918 AAACATAAACTCATTCTT
1 AAACATAAAATCATTCTT
71830936 CCGATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (18 bp):
AAACATAAAATCATTCTT
Found at i:71834593 original size:24 final size:24
Alignment explanation
Indices: 71834558--71834611 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
71834548 CATATTACAA
71834558 AAATG-AATGAATGGTATGTTATG
1 AAATGAAATGAATGGTATGTTATG
71834581 AAATGAAATGAATGGTATGTTATG
1 AAATGAAATGAATGGTATGTTATG
71834605 AAATGAA
1 AAATGAA
71834612 TTTGAATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (24 bp):
AAATGAAATGAATGGTATGTTATG
Found at i:71845053 original size:27 final size:27
Alignment explanation
Indices: 71844981--71845054 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 27
71844971 AAAAATGAAC
71844981 TTTAT-TATTATATT-TTTTTTGAAAT
1 TTTATATATTATATTATTTTTTGAAAT
71845006 TATT-TAT-TTATA-TATATTTTT-AAAT
1 T-TTATATATTATATTAT-TTTTTGAAAT
71845031 TTTATATATTATTATTATTTTTTG
1 TTTATATATTA-TATTATTTTTTG
71845055 TCAACAATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
24 3 0.08
25 16 0.40
26 11 0.28
27 7 0.17
28 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (27 bp):
TTTATATATTATATTATTTTTTGAAAT
Found at i:71845112 original size:17 final size:19
Alignment explanation
Indices: 71845075--71845115 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
71845065 TTTTTTATTC
*
71845075 TTATATATATTTAAATTTA
1 TTATATATATTTAAATATA
*
71845094 TTATATATATTAAAATAT-
1 TTATATATATTTAAATATA
71845112 TTAT
1 TTAT
71845116 GTATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATATATTTAAATATA
Found at i:71848351 original size:19 final size:19
Alignment explanation
Indices: 71848327--71848364 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
71848317 TTGACAGATG
71848327 CACTTG-CATTACAAATTTT
1 CACTTGTCA-TACAAATTTT
*
71848346 CACTTGTCATATAAATTTT
1 CACTTGTCATACAAATTTT
71848365 AATATTTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (19 bp):
CACTTGTCATACAAATTTT
Found at i:71850389 original size:42 final size:41
Alignment explanation
Indices: 71850282--71850482 Score: 213
Period size: 43 Copynumber: 4.8 Consensus size: 41
71850272 TAAGATGCCA
* * ***
71850282 ATGCCATATTCCAGATATGGTCTTACATGGGATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTATACAAG-TCACATATCG
* * *
71850324 ATGCCAATATCCCAGCTATGGTCTTACACAATGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTATACAA-GTCACATATCG
* *
71850367 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATTTTCG
1 ATGCCATATCCCAGATATGGTCTTATAC-AAGTCACA-TATCG
* * * * *
71850410 AAGCCATGTCCCAGATATGGTCTTATACGAAATCACATGTTG
1 ATGCCATATCCCAGATATGGTCTTATAC-AAGTCACATATCG
71850452 ATGCCATATCCCAGATATGGTCTTATACAAG
1 ATGCCATATCCCAGATATGGTCTTATACAAG
71850483 ATCTCAATAA
Statistics
Matches: 137, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.01
42 61 0.45
43 73 0.53
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTATACAAGTCACATATCG
Found at i:71850422 original size:85 final size:85
Alignment explanation
Indices: 71850282--71850488 Score: 231
Period size: 85 Copynumber: 2.4 Consensus size: 85
71850272 TAAGATGCCA
* * *** * * * * *
71850282 ATGCCATATTCCAGATATGGTCTTACATGGGATCACA-TATCGATGCCAATATCCCAGCTATGGT
1 ATGCCATATCCCAGATATGGTCTTATACAAGATCTCATTTTCGAAGCC-ATGTCCCAGATATGGT
* *
71850346 CTTACAC-AATGTCTCATATCG
65 CTTACACGAA-ATCACATATCG
71850367 ATGCCATATCCCAGATATGGTCTTATACGAAG-TCTCATTTTCGAAGCCATGTCCCAGATATGGT
1 ATGCCATATCCCAGATATGGTCTTATAC-AAGATCTCATTTTCGAAGCCATGTCCCAGATATGGT
* * *
71850431 CTTATACGAAATCACATGTTG
65 CTTACACGAAATCACATATCG
71850452 ATGCCATATCCCAGATATGGTCTTATACAAGATCTCA
1 ATGCCATATCCCAGATATGGTCTTATACAAGATCTCA
71850489 ATAACCCTAC
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
84 3 0.03
85 89 0.86
86 11 0.11
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTATACAAGATCTCATTTTCGAAGCCATGTCCCAGATATGGTC
TTACACGAAATCACATATCG
Found at i:71871537 original size:42 final size:42
Alignment explanation
Indices: 71871423--71871591 Score: 124
Period size: 43 Copynumber: 4.0 Consensus size: 42
71871413 TTCCAATATG
* * ** *
71871423 TGATTTCATGTAAGATCACATCTGGGGCATTGGCATTG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
* * *
71871464 TGAGATTTAAGTTTAAGACCATGTCTAGGACATTGGCATTGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
* * * **
71871509 TGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCAATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT-TGTATT
* * ** * *
71871552 TGATTACATGTAAGACCACATCTGGGCCATTTGCATTGTA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTA
71871592 CGAGCTTTTT
Statistics
Matches: 96, Mismatches: 27, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 41 0.43
44 24 0.25
45 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
Found at i:71876964 original size:47 final size:48
Alignment explanation
Indices: 71876876--71877146 Score: 199
Period size: 47 Copynumber: 5.8 Consensus size: 48
71876866 GCAAGATGCT
* * * * * *
71876876 GATGCCATTTACCAGACATGGTCTTACACTGGCACATATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCGAAGCC
*
71876923 GATGCCATGTCCCAGACATGGTCTTACACTGACTGC-CATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-CACATCTCGAAGCC
* * *
71876971 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-CTACTTCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTC-ACATCTCGAAGCC
* ** * * *
71877017 GATG-CATGTCCCAAACAT-GTCTTATGCT-AGCTCTCGTCTC-AATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTCACATCTCGAA-GCC
* * * **
71877063 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCACAT-CTCGAAGCC
*
71877111 GATG-CATGTCCCAGACAT-GTTTTACACT-AGCTCACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTCACA
71877147 AACAAATGAC
Statistics
Matches: 180, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 72 0.40
47 77 0.43
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCGAAGCC
Found at i:71877141 original size:94 final size:92
Alignment explanation
Indices: 71876970--71877143 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 92
71876960 ATCTCGTAGC
**
71876970 CGATGCATGTCCCAGACATGTCTTACACTGGCCTACTTCTCGAGGCCGATGCATGTCCCAAACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCCTACTAATCGAGGCCGATGCATGTCCCAAACAT
**
71877035 GTCTTATGCTAGCTCTCGTCTCAATGT
66 GTCTTACACTAGCTCTCGTCTCAATGT
* *
71877062 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-CTAC-TAATCGAGGCCGATGCATGTCCCAA
*
71877125 ACATGTTTTACACTAGCTC
62 ACATGTCTTACACTAGCTC
71877144 ACAAACAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 48 0.68
95 4 0.06
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCCTACTAATCGAGGCCGATGCATGTCCCAAACAT
GTCTTACACTAGCTCTCGTCTCAATGT
Found at i:71881859 original size:43 final size:42
Alignment explanation
Indices: 71881741--71881862 Score: 113
Period size: 43 Copynumber: 2.9 Consensus size: 42
71881731 AATTTGAGAT
* * * * *
71881741 TTACATGTAAGGCCATGTTTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGA
* * * * *
71881783 TTTCGTGTAAAACC-CTGTCTGTGATAG-TGGCATTGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGA-CGTTGGCATTG-TATTTGA
71881826 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTA
71881863 CGAGCTTTCC
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
42 26 0.43
43 33 0.55
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGA
Found at i:71884515 original size:23 final size:23
Alignment explanation
Indices: 71884484--71884531 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
71884474 ATGAGATCAC
71884484 ATATCGATGCCAATAGCCCAGTT
1 ATATCGATGCCAATAGCCCAGTT
*
71884507 ATATTGATGCCAATAGCCCAGTT
1 ATATCGATGCCAATAGCCCAGTT
71884530 AT
1 AT
71884532 GGTCTTACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (23 bp):
ATATCGATGCCAATAGCCCAGTT
Found at i:71884674 original size:42 final size:42
Alignment explanation
Indices: 71884556--71884674 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
71884546 TCTGATATCA
* * **
71884556 ATGCCATATCCCATATATGGTCTTATATGAAGTCTCATTTTCG
1 ATGCCATATCCCAGATATGGTCTTATATGAA-TCACATACTCG
* * ** *
71884599 AAGCCATGTCCCAGACGTGGTCTTATACGGAATCACATACT-G
1 ATGCCATATCCCAGATATGGTCTTATA-TGAATCACATACTCG
*
71884641 ATGCCATATCCTAGATATGGTCTTATATAGAATC
1 ATGCCATATCCCAGATATGGTCTTATAT-GAATC
71884675 TCAATAACCC
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
42 28 0.47
43 28 0.47
44 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATATGAATCACATACTCG
Found at i:71889966 original size:55 final size:55
Alignment explanation
Indices: 71889900--71890007 Score: 171
Period size: 55 Copynumber: 2.0 Consensus size: 55
71889890 CTATTTCATG
* * *
71889900 TTAAATTTTCGTCCTAAAGTTGATGTCGTGACAAACCAGGACCTGTGTCACGATT
1 TTAAATTTTCGTCCCAAAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGATT
* *
71889955 TTAAATTTTCGTCCCAGAGTCGATGTCGTGACAAAATAGGACCTGTGTCACGA
1 TTAAATTTTCGTCCCAAAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGA
71890008 CATAGCAGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (55 bp):
TTAAATTTTCGTCCCAAAGTCGATGTCGTGACAAAACAGGACCTGTGTCACGATT
Found at i:71890909 original size:16 final size:15
Alignment explanation
Indices: 71890888--71890921 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
71890878 AGAAAGTGTT
71890888 AAACAACATAAAAGAA
1 AAACAACA-AAAAGAA
*
71890904 AAACAATAAAAAGAA
1 AAACAACAAAAAGAA
71890919 AAA
1 AAA
71890922 ACTAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (15 bp):
AAACAACAAAAAGAA
Found at i:71901508 original size:33 final size:33
Alignment explanation
Indices: 71901466--71901532 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
71901456 CAATGCAAAA
71901466 TAATACAAACCTAGAATGAATTAGAAAATTAAG
1 TAATACAAACCTAGAATGAATTAGAAAATTAAG
71901499 TAATACAAACCTAGAATGAATTAGAAAATTAAG
1 TAATACAAACCTAGAATGAATTAGAAAATTAAG
71901532 T
1 T
71901533 CCCATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (33 bp):
TAATACAAACCTAGAATGAATTAGAAAATTAAG
Found at i:71904786 original size:100 final size:100
Alignment explanation
Indices: 71904608--71904795 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
71904598 GAAGCTATCT
* *
71904608 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACATAGTAGCC
71904673 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * ** *
71904708 GGTATGCATAATAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACATAGTAGCC
1 GGTACGCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACATAGTAGCC
71904773 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
71904796 CCTCACAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACGCATAATAGCCTACACTTAGTACTACACATGCCACCAATAATCTGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:71904796 original size:49 final size:49
Alignment explanation
Indices: 71904603--71904797 Score: 246
Period size: 49 Copynumber: 3.9 Consensus size: 49
71904593 TAGCTGAAGC
* * * **
71904603 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCCACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
71904652 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * ** * *
71904703 TTTCGGGTATGCATAATAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
71904752 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
71904798 TCACAATAGT
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 80 0.66
50 2 0.02
51 39 0.32
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:71909422 original size:93 final size:93
Alignment explanation
Indices: 71909314--71909484 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
71909304 GCCCCTAAGT
* *
71909314 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71909379 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
71909407 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71909472 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71909485 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:71909481 original size:46 final size:46
Alignment explanation
Indices: 71909309--71909481 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
71909299 AACCCGCCCC
* * * *
71909309 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
71909355 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
71909403 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
71909448 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71909482 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 1 0.01
46 60 0.57
47 29 0.28
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:71921116 original size:18 final size:18
Alignment explanation
Indices: 71921090--71921139 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
71921080 TCAATAATAT
*
71921090 TCATTTATTCAGTATCAG
1 TCATTTATTCAGTAACAG
* *
71921108 TCGTTTATTCTGTAACAG
1 TCATTTATTCAGTAACAG
*
71921126 TCAATTATTCAGTA
1 TCATTTATTCAGTA
71921140 GGAGACAGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (18 bp):
TCATTTATTCAGTAACAG
Found at i:71932614 original size:40 final size:40
Alignment explanation
Indices: 71932570--71932757 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
71932560 GCAAACACAT
* * *
71932570 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71932610 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71932650 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71932690 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71932730 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
71932758 TCCAATGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:71944326 original size:27 final size:26
Alignment explanation
Indices: 71944264--71944328 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
71944254 TCCTTTATTT
** *
71944264 AGATTGCCACAAAGGCTTTCTTTACG
1 AGATTGCCACAAAGGCTCCCATTACG
* *
71944290 TGGTTAGCCACAAAGGCTCCCATTACAG
1 AGATT-GCCACAAAGGCTCCCATTAC-G
71944318 AGATTGCCACA
1 AGATTGCCACA
71944329 TGGGCTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.77
28 4 0.13
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (26 bp):
AGATTGCCACAAAGGCTCCCATTACG
Found at i:71944401 original size:28 final size:28
Alignment explanation
Indices: 71944349--71944533 Score: 123
Period size: 28 Copynumber: 6.6 Consensus size: 28
71944339 TTCCTAATAC
* *
71944349 GCCACAAAGACTTTCATCTTC-GAAGGTT
1 GCCACAAAGGCTTTCCT-TTCAGAAGGTT
* *
71944377 GCCACAAAGGCTCTCCTTTCAGAAGTTT
1 GCCACAAAGGCTTTCCTTTCAGAAGGTT
* *
71944405 GCCATAAGGGCTTTCCTTTCA-AAGGTT
1 GCCACAAAGGCTTTCCTTTCAGAAGGTT
* * **
71944432 -CATCACAAAAGCTTTCATTTTTGGAA-GTT
1 GC--CACAAAGGCTTTC-CTTTCAGAAGGTT
71944461 CGCCACAAAGGCTTTCC-TTCTAG-AGGTT
1 -GCCACAAAGGCTTTCCTTTC-AGAAGGTT
* *
71944489 CGCCAAAAAGGCTTTCCTTTTAG-AGGTT
1 -GCCACAAAGGCTTTCCTTTCAGAAGGTT
* *
71944517 CACCAAAAAGGCTTTCC
1 -GCCACAAAGGCTTTCC
71944534 CATTCTGTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
26 1 0.01
27 11 0.09
28 91 0.72
29 20 0.16
30 2 0.02
31 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
GCCACAAAGGCTTTCCTTTCAGAAGGTT
Found at i:71944479 original size:85 final size:85
Alignment explanation
Indices: 71944377--71944532 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 85
71944367 TTCGAAGGTT
* * * *
71944377 GCCACAAAGGCTCTCCTT-TCAGAAGTTTGCCATAAGGGCTTTCCTTTCAAAGGTTCATCACAAA
1 GCCACAAAGGCTCTCCTTCT-AGAAGTTCGCCAAAAAGGCTTTCCTTTCAAAGGTTCACCA-AAA
71944441 A-GCTTTCATTTTTGGAAGTTC
64 AGGCTTTCATTTTTGGAAGTTC
* * * *
71944462 GCCACAAAGGCTTTCCTTCTAGAGGTTCGCCAAAAAGGCTTTCCTTTTAGAGGTTCACCAAAAAG
1 GCCACAAAGGCTCTCCTTCTAGAAGTTCGCCAAAAAGGCTTTCCTTTCAAAGGTTCACCAAAAAG
71944527 GCTTTC
66 GCTTTC
71944533 CCATTCTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.07
85 56 0.92
86 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (85 bp):
GCCACAAAGGCTCTCCTTCTAGAAGTTCGCCAAAAAGGCTTTCCTTTCAAAGGTTCACCAAAAAG
GCTTTCATTTTTGGAAGTTC
Found at i:71944488 original size:57 final size:56
Alignment explanation
Indices: 71944382--71944533 Score: 146
Period size: 57 Copynumber: 2.7 Consensus size: 56
71944372 AGGTTGCCAC
* * * * * *
71944382 AAAGGCTCTCCTTTCAGAAGTTTGCCATAAGGGCTTTCCTTTCAAAGGTTCATCACA
1 AAAGGCTTTCCTTTTAGAAGTTCGCCAAAAAGGCTTTCCTTTCAAAGGTTCACCA-A
* * * * *
71944439 AAA-GCTTTCATTTTTGGAAGTTCGCCACAAAGGCTTTCC-TTCTAGAGGTTCGCCAA
1 AAAGGCTTTC-CTTTTAGAAGTTCGCCAAAAAGGCTTTCCTTTC-AAAGGTTCACCAA
* *
71944495 AAAGGCTTTCCTTTTAGAGGTTCACCAAAAAGGCTTTCC
1 AAAGGCTTTCCTTTTAGAAGTTCGCCAAAAAGGCTTTCC
71944534 CATTCTGTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 36 0.47
57 41 0.53
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (56 bp):
AAAGGCTTTCCTTTTAGAAGTTCGCCAAAAAGGCTTTCCTTTCAAAGGTTCACCAA
Found at i:71948238 original size:132 final size:132
Alignment explanation
Indices: 71947849--71949188 Score: 1814
Period size: 132 Copynumber: 10.2 Consensus size: 132
71947839 GCCCAGTTAN
* *
71947849 TATCACCCTAAGCAGTAGTGGAGTAGGTAGAAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * *
71947914 AGCAGGTCGAAGATAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAATCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
71947979 CC
131 CC
* * * * * * *
71947981 AATCACCCTAAGCAGTAGTGGAG-ACAGTCGAAGAATGCAGATT-TTTCACACTAAGAAGTAGTG
1 TATCACCCTAAGCAGTAGTGGAGTA-GGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
* * * * *
71948044 GAGCAGATCGAAGATGGTGAATCTTATCTTCTCAAGAGAGTGCAGAAGCAGATTTAATCCATTAG
65 GAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
71948109 TCC
130 TCC
* * * **
71948112 TACCACCCTAAGGAGTGGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTTGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * * *
71948177 AGCAGATCGAAGATAGTGAATCTTATCTTCCCAATATAGTGGAGAAGTAAATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
*
71948242 CT
131 CC
* * * *
71948244 TATCACTCTAAGCAGTAGTGGAGTCA-GTGGAAGATTACAGATTTTGTCACCCTAAGCAGTAGTG
1 TATCACCCTAAGCAGTAGTGGAGT-AGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
* * * *
71948308 GAGCAGATCGAAGATGGTGATTCTTATCTTTCCAACACAGTGGAGAAGCAGATTTAAGCCATCAG
65 GAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
71948373 TCC
130 TCC
* * *
71948376 CATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTTACCCTAGGCAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * *** * * * * *
71948441 AG-AGGATTGAAGATGGCGAATAAGATCTTCTCAAGATAATGAAGAAGCAGATTTAAGCCATTAG
66 AGCA-GATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
*
71948505 CCC
130 TCC
* * * *
71948508 AATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAATGA
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * * * * *
71948573 AGCAGATAGAAGTTGG-GAAATTTTATCTTCCCAACACAATTGAGAAGCAGATTTAAGCCATTAG
66 AGCAGATCGAAGATGGTG-AATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
71948637 TCC
130 TCC
*
71948640 TATCACCCTAAGCATTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * *
71948705 AGCAGATCGAAGATGGTGAATCTTATCTTCCTAATACAATGGAGAAGCAGATTTAAACCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
71948770 CC
131 CC
* * ** *
71948772 TACCACCCTAAGTAGTAGTCAAGTAGGTTGAAGATTGCATATTCTGTCACCCTAAGCAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * *
71948837 AGCAGATCGAAGGTGGTGAATCTTATCTTCCCAATACAGTAGAGAAGTAGATTTAAGCC-TGTAG
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCAT-TAG
71948901 TCC
130 TCC
* *
71948904 TATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* ** * *
71948969 AGCAGATCGAATATGACGAATCTTA-CCTCCCAATACAGTGGAGAAGCCGATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
71949033 CC
131 CC
* *
71949035 TATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* ** * *
71949100 AGCAGATCGAATATGACGAATCTTA-CCTCCCAATACAGTGGAGAAGCCGATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
71949164 CC
131 CC
71949166 TATCACCCTAAGCAGTAGTGGAG
1 TATCACCCTAAGCAGTAGTGGAG
71949189 CAGATCGAAG
Statistics
Matches: 1069, Mismatches: 128, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
131 307 0.29
132 759 0.71
133 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
CC
Found at i:71948705 original size:44 final size:44
Alignment explanation
Indices: 71947849--71949106 Score: 205
Period size: 44 Copynumber: 28.6 Consensus size: 44
71947839 GCCCAGTTAN
* * *
71947849 TATCACCCTAAGCAGTAGTGGAGTAGGTAGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * * * * *
71947893 TGTCACCCTAAGTAGTAGTGGAGCAGGTCGAAGATAG-TGAATC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * * * * * *
71947936 TTATCTTCCC-AATACAGTGGAGAAGCAGATTTAATCCATT--AG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAA--GATTGCAGATTC
* * *
71947981 AATCACCCTAAGCAGTAGTGGAGACAG-TCGAAGAATGCAGATT-
1 TATCACCCTAAGCAGTAGTGGAG-CAGATTGAAGATTGCAGATTC
* * * * ** *
71948024 TTTCACACTAAGAAGTAGTGGAGCAGATCGAAGA-TGGTGAATC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
** * * *
71948067 TTATC-TTCTCAAG-AG-AGTGCAGAAGCAGATTTAATCCATT--AG-TCC
1 -TATCACCCT-AAGCAGTAGTG--G-AGCAGATTGAA--GATTGCAGATTC
* * * * *
71948112 TACCACCCTAAGGAGTGGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* ** * * * *
71948156 TGTCACCCTAAGTTGTAGTGGAGCAGATCGAAGATAG-TGAATC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * *
71948199 TTATCTTCCC-AA-TA-TAGTGGAGAAGTAAATTTAAGCCATT--AG--TC
1 -TATC-ACCCTAAGCAGTAGTGGAGCAG---ATTGAAG--ATTGCAGATTC
* * * *
71948243 TTATCACTCTAAGCAGTAGTGGAGTCAG-TGGAAGATTACAGATTT
1 -TATCACCCTAAGCAGTAGTGGAG-CAGATTGAAGATTGCAGATTC
* * **
71948288 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
** * * * * * *
71948331 TTATCTTTCC-AACACAGTGGAGAAGCAGATTTAAGCCA-T-CAG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGCAGATTC
* * *
71948376 CATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * * **
71948420 TGTTACCCTAGGCAGTAGTGGAG-AGGATTGAAGATGGC-GAATAA
1 TATCACCCTAAGCAGTAGTGGAGCA-GATTGAAGATTGCAG-ATTC
* ** * * **
71948464 GATC-TTCTCAAG-A-TAATGAAGAAGCAGATTTAAGCCATT--AG-CCC
1 TATCACCCT-AAGCAGTAGTG--G-AGCAGATTGAAG--ATTGCAGATTC
* * * *
71948508 AATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * * * * *
71948552 TGTCACCCTAAGCAGTAATGAAGCAGATAGAAG-TTGGGAAATTT
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATT-GCAGATTC
* ** * * *
71948596 TATCTTCCC-AA-CACAATTGAGAAGCAGATTTAAGCCATT--AG-TCC
1 TATC-ACCCTAAGCAGTAGTG-G-AGCAGATTGAAG--ATTGCAGATTC
* * *
71948640 TATCACCCTAAGCATTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * ** *
71948684 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGAATC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
** * * * * * * * *
71948727 TTATCTTCCTAATACAATGGAGAAGCAGATTTAAACCATT--AG-TCC
1 -TATCACCCTAA-GCAGTAGTGGAGCAGA-TTGAA-GATTGCAGATTC
* * ** * * *
71948772 TACCACCCTAAGTAGTAGTCAAGTAGGTTGAAGATTGCATATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * ** *
71948816 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAG-GTGGTGAATC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * * * * ** * *
71948859 TTATCTTCCC-AATACAGTAGAGAAGTAGATTTAAGCCTGTAG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * *
71948904 TATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* * * * *
71948948 TGTCACCCTAAGTAGTAGTGGAGCAGATCGAATA-TG-ACGAATC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCA-GATTC
* * * * * * * * *
71948991 TTACCTCCC-AATACAGTGGAGAAGCCGATTTAAGCCATT--AG-TCC
1 -TATCACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGCAGATTC
* * *
71949035 TATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
* *
71949079 TGTCACCCTAAGTAGTAGTGGAGCAGAT
1 TATCACCCTAAGCAGTAGTGGAGCAGAT
71949107 CGAATATGAC
Statistics
Matches: 828, Mismatches: 283, Indels: 206
0.63 0.21 0.16
Matches are distributed among these distances:
41 21 0.03
42 32 0.04
43 212 0.26
44 391 0.47
45 125 0.15
46 30 0.04
47 13 0.02
48 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
TATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAGATTC
Found at i:71949184 original size:87 final size:88
Alignment explanation
Indices: 71949081--71949269 Score: 265
Period size: 88 Copynumber: 2.2 Consensus size: 88
71949071 GCAGATTCTG
* *
71949081 TCACCCTAAGTAGTAGTGGAGCAGATCGAATATGACGAATCTTA-CCTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCCTCCCAATACAGTGGAGAA
*
71949145 GCCGATTTAAGCCATTAGTCCTA
66 GCAGATTTAAGCCATTAGTCCTA
** ** *
71949168 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATGTTCCCAATATAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCCTCCCAATACAGTGGAGAA
*
71949233 GCAGGTTTAAGCCATTAGTCCTA
66 GCAGATTTAAGCCATTAGTCCTA
*
71949256 -CCCCCTTAAGCAGT
1 TCACCC-TAAGCAGT
71949270 TGTGACAGCC
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 44 0.49
88 46 0.51
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (88 bp):
TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCCTCCCAATACAGTGGAGAA
GCAGATTTAAGCCATTAGTCCTA
Found at i:71951112 original size:40 final size:39
Alignment explanation
Indices: 71950959--71951150 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
71950949 AATTCCAGGC
71950959 GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
1 GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
71950998 GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
1 GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
* *
71951037 GATACTAATTCTGGGATAAGCCCGAAGGCATTTGTGCGA
1 GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
* * *
71951076 GTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 GATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGA
* *
71951116 -ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 GA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
71951151 AACGAGGAGC
Statistics
Matches: 139, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 93 0.67
40 46 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
Found at i:71951172 original size:79 final size:79
Alignment explanation
Indices: 71950959--71951183 Score: 219
Period size: 78 Copynumber: 2.9 Consensus size: 79
71950949 AATTCCAGGC
* * ** * *
71950959 GATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCG
1 GATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCG
71951022 AAGGCATTTGTGCGA
65 AAGGCATTTGTGCGA
* * ** *
71951037 GATACTAATTCTGGGATAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGA
1 GATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGA
71951102 AGGCATTTGTGCGA
66 AGGCATTTGTGCGA
* * * * *
71951116 -ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATT
1 GA-TACTAAT-ACCGGGATAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTC
71951177 CCGAAGG
62 CCGAAGG
71951184 TACGTGATTT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 56 0.44
79 45 0.35
80 25 0.20
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
GATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGA
AGGCATTTGTGCGA
Found at i:71954430 original size:50 final size:50
Alignment explanation
Indices: 71954371--71954470 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
71954361 AAGTTCGTGT
*
71954371 AACTCGAAGTAAAATTTTAAATACACTTAAAATGCATATACTTGAGTATA
1 AACTAGAAGTAAAATTTTAAATACACTTAAAATGCATATACTTGAGTATA
71954421 AACTAGAAGTAAAATTTTAAATACACTTAAAATGCATATACTTGAGTATA
1 AACTAGAAGTAAAATTTTAAATACACTTAAAATGCATATACTTGAGTATA
71954471 TGATAAATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (50 bp):
AACTAGAAGTAAAATTTTAAATACACTTAAAATGCATATACTTGAGTATA
Found at i:71956651 original size:52 final size:52
Alignment explanation
Indices: 71956566--71956665 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
71956556 TATCTTCCAG
*
71956566 TCAAGCCCAAGATGAGTCCGAGGGAGCCAAGAGCAATGCTCCAGCTTCTGTA
1 TCAAGCCCAAGATGAGTCCGAGGGAACCAAGAGCAATGCTCCAGCTTCTGTA
* * *
71956618 TCAAGCTCAAGATGAG-CCTGAGGGAACCGAGAGCCATGCTCCAGCTTC
1 TCAAGCCCAAGATGAGTCC-GAGGGAACCAAGAGCAATGCTCCAGCTTC
71956666 CATACAACGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (52 bp):
TCAAGCCCAAGATGAGTCCGAGGGAACCAAGAGCAATGCTCCAGCTTCTGTA
Found at i:71963284 original size:22 final size:23
Alignment explanation
Indices: 71963262--71963313 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
71963252 ATGTTGTTAC
71963262 TTTTATTTTAT-TTTAAGACTACT
1 TTTTATTTT-TCTTTAAGACTACT
71963285 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTTCTTTAAGAC-TACT
71963307 TTTTATT
1 TTTTATT
71963314 AGGTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTATTTTTCTTTAAGACTACT
Found at i:71972624 original size:48 final size:48
Alignment explanation
Indices: 71972558--71972741 Score: 192
Period size: 48 Copynumber: 3.8 Consensus size: 48
71972548 CTCAATATGT
* * *
71972558 GAGCAAGTGGAAGACCATGTTTGGAACATGGCATCGACATTGTTATCA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATCA
* * * *** **
71972606 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGT
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATCA
* * *
71972654 GAGCTAGTTTAAGACCTTGTTTGGAACATGGCATTGGCATTGTTA-CAA
1 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATC-A
* *
71972702 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCAGCAT
1 GAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCAT
71972742 CTTACCCTTT
Statistics
Matches: 107, Mismatches: 27, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
48 104 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATCA
Found at i:71972705 original size:96 final size:96
Alignment explanation
Indices: 71972541--71972736 Score: 313
Period size: 96 Copynumber: 2.0 Consensus size: 96
71972531 GACCATGTCC
71972541 CATCGGCCTCAATATGTGAGCAAGTGGAAGACCATGTTTGGAACATGGCATCGACATTGTTATCA
1 CATCGGCCTCAATATGTGAGCAAGTGGAAGACCATGTTTGGAACATGGCATCGACATTGTTATCA
*
71972606 GAGCTAGTGTAAGACCATGTCTGGGACATGG
66 GAGCTAGTGTAAGACCATGTCTAGGACATGG
* ** * * *
71972637 CATCGGCCTCAATATGTGAGCTAGTTTAAGACCTTGTTTGGAACATGGCATTGGCATTGTTA-CA
1 CATCGGCCTCAATATGTGAGCAAGTGGAAGACCATGTTTGGAACATGGCATCGACATTGTTATC-
71972701 AGAGCTAGTGTAAGACCATGTCTAGGACATGG
65 AGAGCTAGTGTAAGACCATGTCTAGGACATGG
71972733 CATC
1 CATC
71972737 AGCATCTTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 91 0.99
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (96 bp):
CATCGGCCTCAATATGTGAGCAAGTGGAAGACCATGTTTGGAACATGGCATCGACATTGTTATCA
GAGCTAGTGTAAGACCATGTCTAGGACATGG
Found at i:71975803 original size:42 final size:41
Alignment explanation
Indices: 71975697--71975831 Score: 126
Period size: 43 Copynumber: 3.2 Consensus size: 41
71975687 CGGAAAGCTC
* * * **
71975697 ATACAATGCCAATGTTCTAGACGTGATCTTACATGTAATCAA
1 ATACGATGCCAATGTCCTAGACATGATCTTACA-AAAATCAA
* * * * *
71975739 ATATTGATGCCACTGCCCTAGACAAGGTCTTACACAAAATCAA
1 ATA-CGATGCCAATGTCCTAGACATGATCTTACA-AAAATCAA
*
71975782 ATACGATGCCAATGTCCTAGACATGTTCTTACAAGTAAATCAA
1 ATACGATGCCAATGTCCTAGACATGATCTTACAA--AAATCAA
71975825 ATACGAT
1 ATACGAT
71975832 ACCCAACATC
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 28 0.38
43 45 0.61
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (41 bp):
ATACGATGCCAATGTCCTAGACATGATCTTACAAAAATCAA
Found at i:71975866 original size:44 final size:43
Alignment explanation
Indices: 71975758--71975904 Score: 127
Period size: 44 Copynumber: 3.4 Consensus size: 43
71975748 CCACTGCCCT
* * * ** *
71975758 AGACAAGGTCTTACAC-AAAATCAAATACGATGCCAATGTCCT
1 AGACATGGTCTTACACGTAAATCAAATACGATCCCAACATCCC
* *
71975800 AGACATGTTCTTACAAGTAAATCAAATACGATACCCAACATCCC
1 AGACATGGTCTTACACGTAAATCAAATACGAT-CCCAACATCCC
* * * * *
71975844 AGACGTGGTCTTACACGTAAATC-ATTAGTCAATGCCAACATCCT
1 AGACATGGTCTTACACGTAAATCAAATA--CGATCCCAACATCCC
*
71975888 AGACATGGTTTTACACG
1 AGACATGGTCTTACACG
71975905 AGAACACATA
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 13 0.15
43 17 0.20
44 51 0.61
45 3 0.04
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (43 bp):
AGACATGGTCTTACACGTAAATCAAATACGATCCCAACATCCC
Found at i:71984250 original size:46 final size:47
Alignment explanation
Indices: 71984176--71984293 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 47
71984166 ATCGATAAGT
* * * *
71984176 ACCTATCCCATGGCCCGTAGCAAAATCAAAGTAACT-TATCCCGGAGC
1 ACCTATACCATGGCCCGTAGCCAAATCAAAGTAACTCCA-CCCGGAAC
* * * *
71984223 ACCTATACCATGG-CCGTAGCCAAATCAAGGTAACTCCACTCTGAAT
1 ACCTATACCATGGCCCGTAGCCAAATCAAAGTAACTCCACCCGGAAC
71984269 ACCTATACCATGGCCCGTAGCCAAA
1 ACCTATACCATGGCCCGTAGCCAAA
71984294 CAAGGTATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 37 0.61
47 24 0.39
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (47 bp):
ACCTATACCATGGCCCGTAGCCAAATCAAAGTAACTCCACCCGGAAC
Found at i:71985139 original size:32 final size:32
Alignment explanation
Indices: 71985100--71985162 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
71985090 AGCTCAAAAC
*
71985100 ACTTACCTATTTAATCATGAAAGTGCCAAATT
1 ACTTACCTATTTAATCATGAAAGTACCAAATT
71985132 ACTTACCTATTTAATCATGAAAGTACCAAAT
1 ACTTACCTATTTAATCATGAAAGTACCAAAT
71985163 GTTAAAACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (32 bp):
ACTTACCTATTTAATCATGAAAGTACCAAATT
Found at i:71989054 original size:20 final size:19
Alignment explanation
Indices: 71989018--71989068 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
71989008 AAGGGCTATT
*
71989018 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
71989037 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
71989057 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
71989069 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:71989836 original size:44 final size:45
Alignment explanation
Indices: 71989786--71989877 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 45
71989776 ATATATGACG
*
71989786 CATCTGAGCTCGTTGAATTGGTCCGAGTTCATTATGGATGCGA-A
1 CATCTGAGCTCGTTGAATTGGTCCGAGTTCATAATGGATGCGATA
*
71989830 CATCTGATCTCGTTGAATTGGTCCGAGTTCATAATGGATGCGATA
1 CATCTGAGCTCGTTGAATTGGTCCGAGTTCATAATGGATGCGATA
71989875 CAT
1 CAT
71989878 GTAATTGGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 41 0.91
45 4 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (45 bp):
CATCTGAGCTCGTTGAATTGGTCCGAGTTCATAATGGATGCGATA
Found at i:71995302 original size:18 final size:17
Alignment explanation
Indices: 71995272--71995316 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
71995262 TTATACCCAC
71995272 TCTTTTCCTCCTTTGACTT
1 TCTTTT-CTCCTTT-ACTT
*
71995291 TCTTTTCTCCTTTCCTT
1 TCTTTTCTCCTTTACTT
*
71995308 TTTTTTCTC
1 TCTTTTCTC
71995317 TCTTACTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 7 0.29
19 6 0.25
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (17 bp):
TCTTTTCTCCTTTACTT
Found at i:71995652 original size:10 final size:10
Alignment explanation
Indices: 71995637--71995666 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
71995627 ATATAAAAAG
71995637 TTAAAATAAT
1 TTAAAATAAT
71995647 TTAAAATAAT
1 TTAAAATAAT
71995657 TTAAAATAAT
1 TTAAAATAAT
71995667 AAATTTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAAAATAAT
Found at i:71997854 original size:15 final size:15
Alignment explanation
Indices: 71997834--71997868 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
71997824 TAAAAAAATG
71997834 TTACAGTAGATAAAA
1 TTACAGTAGATAAAA
71997849 TTACAGTAGATAAAA
1 TTACAGTAGATAAAA
71997864 TTACA
1 TTACA
71997869 TTATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (15 bp):
TTACAGTAGATAAAA
Found at i:72010458 original size:27 final size:28
Alignment explanation
Indices: 72010428--72010485 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
72010418 TTGAAAATCA
*
72010428 ATTCAAATGAAAAA-TAATTAAAAA-ATT
1 ATTCAAATGAAAAAGTAA-AAAAAATATT
* *
72010455 ATTCTATTGAAAAAGTAAAAAAAATATT
1 ATTCAAATGAAAAAGTAAAAAAAATATT
72010483 ATT
1 ATT
72010486 ATAAAGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (28 bp):
ATTCAAATGAAAAAGTAAAAAAAATATT
Found at i:72010755 original size:28 final size:28
Alignment explanation
Indices: 72010719--72010772 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
72010709 AAGTTGTCCA
*
72010719 TTTGTACCTAGTTGGCCCCTAAATTTTT
1 TTTGAACCTAGTTGGCCCCTAAATTTTT
72010747 TTTGAACCTAGTTGGCCCCTAAATTT
1 TTTGAACCTAGTTGGCCCCTAAATTT
72010773 GTATTCCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (28 bp):
TTTGAACCTAGTTGGCCCCTAAATTTTT
Found at i:72018569 original size:16 final size:15
Alignment explanation
Indices: 72018547--72018591 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
72018537 TTGGGTTGAA
72018547 AAAATTTATTTAATT
1 AAAATTTATTTAATT
72018562 AGAAATTTATTTAATT
1 A-AAATTTATTTAATT
* *
72018578 AATATTAATTTAAT
1 AAAATTTATTTAAT
72018592 CAATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AAAATTTATTTAATT
Found at i:72018590 original size:15 final size:15
Alignment explanation
Indices: 72018554--72018596 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
72018544 GAAAAAATTT
* *
72018554 ATTTAATTAGAAATTT
1 ATTTAATTA-ATATTA
72018570 ATTTAATTAATATTA
1 ATTTAATTAATATTA
*
72018585 ATTTAATCAATA
1 ATTTAATTAATA
72018597 ATATTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTAATTAATATTA
Found at i:72022440 original size:40 final size:40
Alignment explanation
Indices: 72022346--72022644 Score: 379
Period size: 40 Copynumber: 7.5 Consensus size: 40
72022336 CGTTCAAATA
* * * * *
72022346 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* *
72022385 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
72022425 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
*
72022465 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
72022505 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* * * *
72022545 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* * * * * * *
72022585 CCTTC-GGATCATAATCCGGATATATTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAATG
*
72022625 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
72022645 CAGCATTCAA
Statistics
Matches: 232, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.14
40 191 0.82
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
Found at i:72030432 original size:40 final size:40
Alignment explanation
Indices: 72030338--72030796 Score: 663
Period size: 40 Copynumber: 11.5 Consensus size: 40
72030328 CGTTCAAATA
* * * * *
72030338 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* *
72030377 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
*
72030417 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
*
72030457 CCTTCGGGACTTAACCCGGTTTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
*
72030497 CCTTCGGGACTTAACCCGGTTTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
*
72030537 CCTTCGGGACTTAACCCGGTTTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
72030577 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
*
72030617 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
72030657 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* * * *
72030697 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
* * * * * * *
72030737 CCTTC-GGATCATAATCCGGATATATTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAATG
*
72030777 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
72030797 CAGCATTCAA
Statistics
Matches: 390, Mismatches: 26, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 33 0.08
40 349 0.89
41 8 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATG
Found at i:72032877 original size:21 final size:20
Alignment explanation
Indices: 72032849--72032887 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
72032839 ATGTGTATTT
72032849 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTGATAGATTA
*
72032869 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTGATAGAT
72032888 AGACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTA
Found at i:72047615 original size:27 final size:27
Alignment explanation
Indices: 72047581--72047640 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
72047571 GTACCTAGAC
72047581 CCCCTAGTTGATAAAATGACTATTATG
1 CCCCTAGTTGATAAAATGACTATTATG
* * *
72047608 CCCCTAGTTTATAAAATGATTGTTATG
1 CCCCTAGTTGATAAAATGACTATTATG
72047635 CCCCTA
1 CCCCTA
72047641 TGAGATGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (27 bp):
CCCCTAGTTGATAAAATGACTATTATG
Found at i:72057861 original size:12 final size:12
Alignment explanation
Indices: 72057844--72057875 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
72057834 TTCCATTATT
72057844 CACATTTTACCA
1 CACATTTTACCA
72057856 CACATTTTA-CA
1 CACATTTTACCA
72057867 -ACATTTTAC
1 CACATTTTAC
72057876 AATTAGGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 2 0.11
12 9 0.47
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (12 bp):
CACATTTTACCA
Found at i:72066491 original size:14 final size:14
Alignment explanation
Indices: 72066472--72066506 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
72066462 ATGTGCAATA
72066472 TTACTCTTATGGAC
1 TTACTCTTATGGAC
72066486 TTACTCTTATGGAC
1 TTACTCTTATGGAC
*
72066500 TTTCTCT
1 TTACTCT
72066507 GAGATGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (14 bp):
TTACTCTTATGGAC
Found at i:72068821 original size:40 final size:40
Alignment explanation
Indices: 72068777--72068888 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
72068767 CGAGATTTAA
*
72068777 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCATAGC
* * * *
72068817 CCGGATATAATC-GCTAGTATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCATAGC
* *
72068857 CCGGATATAGCAACTCGCACGAATGCCTTCGG
1 CCGGATATAACAACTCGCACAAATGCCTTCGG
72068889 ATATTAGTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.02
40 57 0.97
41 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCATAGC
Found at i:72072839 original size:17 final size:17
Alignment explanation
Indices: 72072817--72072849 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
72072807 ATTTGACAAA
*
72072817 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
72072834 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
72072850 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:72079603 original size:43 final size:43
Alignment explanation
Indices: 72079556--72079681 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
72079546 AAATACATAT
* * * * *
72079556 CGATGCCACTGTCCTAGATAGGGTCTTACACGAAATCACAACA
1 CGATGCTAATGTCCTAGACATGGTCTTACACGTAATCACAACA
* * *
72079599 CGATGCTAATGTCCCAGACATGGTCTTACACGTAATCTCAATA
1 CGATGCTAATGTCCTAGACATGGTCTTACACGTAATCACAACA
* *
72079642 CAATGCTAATGTCCTAGACATGGTCTTACATGTAATCACA
1 CGATGCTAATGTCCTAGACATGGTCTTACACGTAATCACA
72079682 TCTCGATAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
CGATGCTAATGTCCTAGACATGGTCTTACACGTAATCACAACA
Found at i:72092002 original size:19 final size:20
Alignment explanation
Indices: 72091955--72091995 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
72091945 AAGCTTAGTA
72091955 AGCCATATACAAATAAAGCT
1 AGCCATATACAAATAAAGCT
72091975 AGCCATATACAAATAAAGCT
1 AGCCATATACAAATAAAGCT
72091995 A
1 A
72091996 TCATATAAAC
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:0.51, C:0.20, G:0.10, T:0.20
Consensus pattern (20 bp):
AGCCATATACAAATAAAGCT
Found at i:72094812 original size:45 final size:45
Alignment explanation
Indices: 72094756--72094846 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
72094746 GAACTATGTG
*
72094756 ATCTAAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGGC
1 ATCTAAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGGC
* * *
72094801 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTGGC
1 ATCTAAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGGC
72094846 A
1 A
72094847 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGGC
Found at i:72101060 original size:37 final size:37
Alignment explanation
Indices: 72100994--72101157 Score: 199
Period size: 37 Copynumber: 4.5 Consensus size: 37
72100984 AGTACATAGA
*
72100994 TAATCCAACCGA-AACACACCA-ATCTCTCATAAGAGC
1 TAATCCAACCGATAACACACCAGAT-GCTCATAAGAGC
*
72101030 TAATCCAACCGATAACACACCAGATGCTCATAAGTGC
1 TAATCCAACCGATAACACACCAGATGCTCATAAGAGC
* * *
72101067 TAATCCACCCAATAACACACCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACACCAGATGCTCATAAGAGC
* * *
72101104 TAATCC-ACTCGATAACACGCTAGATGCTCATAGGAGC
1 TAATCCAAC-CGATAACACACCAGATGCTCATAAGAGC
* *
72101141 TAGTCCAACCGAAAACA
1 TAATCCAACCGATAACA
72101158 TTCCAAAACA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.12
37 93 0.85
38 4 0.04
ACGTcount: A:0.40, C:0.30, G:0.12, T:0.18
Consensus pattern (37 bp):
TAATCCAACCGATAACACACCAGATGCTCATAAGAGC
Found at i:72103409 original size:27 final size:27
Alignment explanation
Indices: 72103379--72103584 Score: 137
Period size: 27 Copynumber: 7.6 Consensus size: 27
72103369 CAAATTGTAA
*
72103379 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**
72103406 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
****
72103433 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
*** * *
72103460 AATTACCGTTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * * *
72103487 AATTACTGTTTTACCCTTGATTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * *
72103514 AATTACTAAAATACCCTC-AGTTTACAA
1 AATTACCAAATTACCCTCGA-TTTATAG
* * *
72103541 AATTACCAAAATACCCTCGA-TCAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
72103568 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
72103585 AGTTTGTAAA
Statistics
Matches: 158, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.02
27 154 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:72103421 original size:54 final size:54
Alignment explanation
Indices: 72103363--72103476 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
72103353 ATTACTGAAA
*
72103363 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
* * * ***** *
72103417 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
72103471 TACCCT
1 TACCCT
72103477 TGATTTACAG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
Found at i:72103482 original size:54 final size:54
Alignment explanation
Indices: 72103390--72103519 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
72103380 ATTACCAAAG
*
72103390 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* *
72103444 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
* * *
72103498 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
72103520 TAAAATACCC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:72103529 original size:54 final size:54
Alignment explanation
Indices: 72103390--72103546 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
72103380 ATTACCAAAG
* * *** *
72103390 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTT
* * **** *
72103444 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTT
* * *
72103498 TACCCTTGATTTACAAAATTACTAAAATACCCTC-AGTTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGA-TTTACAGAATTAC
72103547 CAAAATACCC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 88 0.99
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACTGTTT
Found at i:72103529 original size:81 final size:81
Alignment explanation
Indices: 72103345--72103561 Score: 218
Period size: 81 Copynumber: 2.7 Consensus size: 81
72103335 AATACTTTAG
* * *
72103345 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATT
1 TTTACAAAATTACTGAAATACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATT
72103410 ACCATTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * *** * * * **** *
72103426 TTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATT
** *
72103491 ACTGTTTTACCCTTGA
66 ACCATTTTACCCTCGA
* ** * *
72103507 TTTACAAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATACCCTCGAT
1 TTTACAAAATTACTGAAATACCCTCAAATTATAAAATTACCAAAGTACCCTCGAT
72103562 CAGTAAAATT
Statistics
Matches: 102, Mismatches: 34, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.36
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATT
ACCATTTTACCCTCGA
Found at i:72103832 original size:27 final size:26
Alignment explanation
Indices: 72103512--72103825 Score: 322
Period size: 27 Copynumber: 11.7 Consensus size: 26
72103502 CTTGATTTAC
* **
72103512 AAAATTACTAAAATACCCTCAGTTTAC
1 AAAATTACCAAAATACCCT-AGTTTGT
* **
72103539 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTAG-TTTGT
72103566 AAAATTACCAAAATACCCTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * * *
72103592 AAAATTGCTAAAATACCCTTGGTATGT
1 AAAATTACCAAAATACCC-TAGTTTGT
* *
72103619 AAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
*
72103646 AAAATTACCAAAATGCCCCTAGTTTGT
1 AAAATTACCAAAAT-ACCCTAGTTTGT
*
72103673 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
72103700 GAAATTACCGAAATACCTTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
*
72103727 AAAATTACCAAAATGCCCCTAGTTTGT
1 AAAATTACCAAAAT-ACCCTAGTTTGT
*
72103754 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
72103781 GAAATTACCGAAATACCTTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
72103808 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
72103826 CTAATTTACA
Statistics
Matches: 234, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
26 27 0.12
27 200 0.85
28 7 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:72103850 original size:81 final size:81
Alignment explanation
Indices: 72103540--72103828 Score: 447
Period size: 81 Copynumber: 3.6 Consensus size: 81
72103530 TCAGTTTACA
* * ** * *
72103540 AAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTGCTAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
72103604 ATACC-CTTGGTATGTA
66 ATACCAC-TGGTTTGTG
*
72103620 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATGCCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
72103685 ATACCACTGGTTTGTG
66 ATACCACTGGTTTGTG
* *
72103701 AAATTACCGAAATACCTTCAATTTGTAAAATTACCAAAATGCCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
72103766 ATACCACTGGTTTGTG
66 ATACCACTGGTTTGTG
*
72103782 AAATTACCGAAATACCTTCAATTTGTAAAATTACCAAAATACCCCTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTA
72103829 ATTTACAAAG
Statistics
Matches: 196, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
80 36 0.18
81 159 0.81
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCACTGGTTTGTG
Found at i:72104053 original size:27 final size:27
Alignment explanation
Indices: 72103963--72104053 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
72103953 CCCCTATTAA
*
72103963 GTAAAAAGACCGTAAAGCCCCTGTAGG
1 GTAAAATGACCGTAAAGCCCCTGTAGG
* *
72103990 GTAAAGA-GACCATAAAGCCCCTATAGG
1 GTAAA-ATGACCGTAAAGCCCCTGTAGG
* *
72104017 GTAAAGTGACCGTAATA-CCCCTGTATG
1 GTAAAATGACCGTAA-AGCCCCTGTAGG
72104044 GTAAAATGAC
1 GTAAAATGAC
72104054 AAATGTGCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 52 0.96
28 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCGTAAAGCCCCTGTAGG
Found at i:72104880 original size:26 final size:26
Alignment explanation
Indices: 72104851--72104955 Score: 151
Period size: 26 Copynumber: 4.1 Consensus size: 26
72104841 GAGGAAGTGC
*
72104851 AAAAGGGCTTATGCCCTAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTA
***
72104877 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTA
*
72104903 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTA
72104929 AAAAGGGCTT-TGCCCCAG-TTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTA
72104953 AAA
1 AAA
72104956 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
24 8 0.11
25 8 0.11
26 56 0.78
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTA
Found at i:72104933 original size:52 final size:51
Alignment explanation
Indices: 72104851--72104948 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
72104841 GAGGAAGTGC
*
72104851 AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAGTTTACCG
*
72104903 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTT
72104949 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 10 0.23
52 34 0.77
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:72104971 original size:25 final size:25
Alignment explanation
Indices: 72104851--72104971 Score: 102
Period size: 26 Copynumber: 4.7 Consensus size: 25
72104841 GAGGAAGTGC
* * *
72104851 AAAAGGGCTTATGCCCTAGTTTATTA
1 AAAAGGGC-TAGGCCCCAGTTTATTG
* **
72104877 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGC-TAGGCCCCAGTTTATTG
*
72104903 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGC-TAGGCCCCAGTTTATTG
**
72104929 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTAGGCCCCAGTTTATTG
72104952 AAAAGAGGCTAGGCCTCCAG
1 AAAAG-GGCTAGGCC-CCAG
72104972 ATATATGATA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.06
24 12 0.14
25 13 0.15
26 54 0.64
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTAGGCCCCAGTTTATTG
Found at i:72105244 original size:31 final size:31
Alignment explanation
Indices: 72105167--72105245 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
72105157 CGTTTACAGT
* *
72105167 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTACGA
* *
72105198 AAAGGATTTGGCCCAGTGATATGATTTACGA
1 AAAGGCTTCGGCCCAGTGATATGATTTACGA
*
72105229 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
72105246 AACTGTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTACGA
Found at i:72107328 original size:20 final size:23
Alignment explanation
Indices: 72107297--72107341 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
72107287 TTACTTGTAC
72107297 TTAAGTACATTTTA-TT-GCATT
1 TTAAGTACATTTTAGTTAGCATT
72107318 TTAAG-ACATTTTAGTTAGCATT
1 TTAAGTACATTTTAGTTAGCATT
72107340 TT
1 TT
72107342 TAATATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 7 0.32
22 7 0.32
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (23 bp):
TTAAGTACATTTTAGTTAGCATT
Found at i:72108138 original size:56 final size:56
Alignment explanation
Indices: 72108022--72108138 Score: 130
Period size: 56 Copynumber: 2.1 Consensus size: 56
72108012 ATTCATTTTT
** * * ** *
72108022 CTTATTTCTTAATTAAAATGCAAAACGATCTCTAGACATATTACTGTTTCATTTTT
1 CTTATTTCTTAATTAAAATGCAAAACGATCTCTAGACATAAGACTGATACATCATA
*
72108078 CTTATTTCTTAATTAAAATGCAAAATGATCTCTAGACATAGAAGACT-ATACA-CATA
1 CTTATTTCTTAATTAAAATGCAAAACGATCTCTAGACAT--AAGACTGATACATCATA
72108134 CTTAT
1 CTTAT
72108139 AAACTGATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
56 44 0.86
57 3 0.06
58 4 0.08
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (56 bp):
CTTATTTCTTAATTAAAATGCAAAACGATCTCTAGACATAAGACTGATACATCATA
Found at i:72110766 original size:13 final size:13
Alignment explanation
Indices: 72110748--72110774 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72110738 ATGTTGGAGG
72110748 GATCCCTTTCGCT
1 GATCCCTTTCGCT
72110761 GATCCCTTTCGCT
1 GATCCCTTTCGCT
72110774 G
1 G
72110775 TATGGCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.37, G:0.19, T:0.37
Consensus pattern (13 bp):
GATCCCTTTCGCT
Found at i:72111159 original size:27 final size:27
Alignment explanation
Indices: 72111129--72111463 Score: 393
Period size: 27 Copynumber: 12.3 Consensus size: 27
72111119 TACTAAAATG
* *
72111129 CCCTCAATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
72111156 CCCTCGATTTACAAAATTACCGTTTTTTA
1 CCCTCGATTTATAAAATTACC--ATTTTA
* * *
72111185 CCCTCTATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
72111212 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
72111239 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
72111266 CCTTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* ** *
72111293 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
72111320 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
72111347 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
72111374 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
72111401 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
72111428 CCCTC-AGTTTACAAAATTACTATTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
72111455 CCCTCGATT
1 CCCTCGATT
72111464 GTGAAATTAC
Statistics
Matches: 272, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.00
27 246 0.90
28 1 0.00
29 24 0.09
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:72111299 original size:81 final size:81
Alignment explanation
Indices: 72111129--72111463 Score: 465
Period size: 81 Copynumber: 4.1 Consensus size: 81
72111119 TACTAAAATG
* * * * *
72111129 CCCTCAATTTGTAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTTTACCCTCTATT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACC--ATTTTACCCTCGATT
72111194 TACAGAATTACCATTTTA
64 TACAGAATTACCATTTTA
* *
72111212 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCTTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
* *
72111277 TAGAATTACCGTTTTA
66 CAGAATTACCATTTTA
** * * *
72111293 CCCTCGATTTATAGAATTACTGTTTCACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
*
72111358 TAGAATTACCATTTTA
66 CAGAATTACCATTTTA
* *
72111374 CCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCTC-AGTTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TTT
* *
72111438 ACAAAATTACTATTTTA
65 ACAGAATTACCATTTTA
72111455 CCCTCGATT
1 CCCTCGATT
72111464 GTGAAATTAC
Statistics
Matches: 226, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
80 1 0.00
81 181 0.80
83 44 0.19
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
CAGAATTACCATTTTA
Found at i:72111599 original size:54 final size:54
Alignment explanation
Indices: 72111453--72111617 Score: 237
Period size: 53 Copynumber: 3.1 Consensus size: 54
72111443 ATTACTATTT
* * **
72111453 TACCCTCGATTGTGAAATTACTGAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTAGTTTGTGAAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAA
*
72111506 TACCCTAGTTTGTAAAATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTAGTTTGTGAAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAA
* *
72111559 TACCACTGGTTTGTGAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAA
1 TACC-CTAGTTTGTGAAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAA
72111613 TACCC
1 TACCC
72111618 CTGATTTACA
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
52 2 0.02
53 50 0.50
54 45 0.45
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTAGTTTGTGAAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAA
Found at i:72111634 original size:27 final size:27
Alignment explanation
Indices: 72111462--72111619 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
72111452 TTACCCTCGA
* **
72111462 TTGTGAAATTACTGAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
72111489 TTGTAAAATTACCAAAATA-CCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
72111515 TTGTAAAATTACCAAAATACCTCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
72111542 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
72111569 TTGTGAAATTACCAAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
72111596 TTGTAAAATTACCAAAATACCCCT
1 TTGTAAAATTACCAAAATACCCCT
72111620 GATTTACAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 29 0.25
27 84 0.72
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:72111641 original size:54 final size:53
Alignment explanation
Indices: 72111467--72111645 Score: 197
Period size: 54 Copynumber: 3.3 Consensus size: 53
72111457 CTCGATTGTG
** *
72111467 AAATTACTGAAATACCC-CTAGTTTGTAAAATTACCAAAATA-CCCTAGTTTGTA
1 AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCT-GATT-TA
* * *
72111520 AAATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCT-GATT-TA
*
72111574 AAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTA
1 AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTA
72111626 CAAAGTTA-CAGAAATACCCT
1 -AAA-TTACCA-AAATACCCT
72111646 TAACTTTCTA
Statistics
Matches: 111, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
52 3 0.03
53 44 0.40
54 60 0.54
55 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTA
Found at i:72111687 original size:27 final size:27
Alignment explanation
Indices: 72111656--72111707 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
72111646 TAACTTTCTA
72111656 AAAATTA-TAGAAACACCATTGGTTTAC
1 AAAATTACT-GAAACACCATTGGTTTAC
* *
72111683 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAACACCATTGGTTT
72111708 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (27 bp):
AAAATTACTGAAACACCATTGGTTTAC
Found at i:72112154 original size:21 final size:21
Alignment explanation
Indices: 72112130--72112187 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
72112120 CGATGGTAAG
72112130 TTGGGCCTCAATGGGCTAGAA
1 TTGGGCCTCAATGGGCTAGAA
72112151 TTGGGCCTCAATGGGCTAGAA
1 TTGGGCCTCAATGGGCTAGAA
* *
72112172 TCGGGCC-CAATAGGCT
1 TTGGGCCTCAATGGGCT
72112188 TTCGGCCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (21 bp):
TTGGGCCTCAATGGGCTAGAA
Found at i:72112565 original size:20 final size:20
Alignment explanation
Indices: 72112531--72112586 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
72112521 TGATAGTGGG
72112531 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
72112548 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
* *
72112569 GTATGAAATGCATATGAT
1 GTATGATATGCACATGAT
72112587 GAATTCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
20 22 0.67
21 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:72112733 original size:25 final size:26
Alignment explanation
Indices: 72112636--72112755 Score: 190
Period size: 26 Copynumber: 4.7 Consensus size: 26
72112626 GAGGAAGTGC
*
72112636 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
72112662 AAAAGGGCTTATGCCTCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
72112688 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
72112714 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
72112739 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
72112756 ATTATTAAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 30 0.34
26 58 0.66
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Done.