Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 34 of 75
Found at i:10681243 original size:26 final size:27
Alignment explanation
Indices: 10681190--10681249 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
10681180 TATTTTCTTG
*
10681190 AAATTTTACCAAATGGCAAAATCATCA
1 AAATTTTACCAAAGGGCAAAATCATCA
* **
10681217 AAATTTTACC-AAGGGTAAAATTGTCA
1 AAATTTTACCAAAGGGCAAAATCATCA
10681243 AAATTTT
1 AAATTTT
10681250 GATGTGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTTTACCAAAGGGCAAAATCATCA
Found at i:10685754 original size:17 final size:17
Alignment explanation
Indices: 10685732--10685766 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10685722 ATTACAAAAT
*
10685732 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
10685749 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
10685766 C
1 C
10685767 TCTCTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:10686347 original size:3 final size:3
Alignment explanation
Indices: 10686335--10686382 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
10686325 AACTCATTTA
10686335 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10686382 A
1 A
10686383 AAAACTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10690942 original size:3 final size:3
Alignment explanation
Indices: 10690934--10690980 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10690924 TAGTCACCTT
10690934 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10690981 TTGGCATTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10691835 original size:7 final size:7
Alignment explanation
Indices: 10691825--10691869 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
10691815 TCGGGTTTGG
10691825 GGTTCAA
1 GGTTCAA
10691832 GGTTCAA
1 GGTTCAA
*
10691839 -GTTCGA
1 GGTTCAA
*
10691845 GGTTCGA
1 GGTTCAA
*
10691852 GGTTTAA
1 GGTTCAA
10691859 GGTTCAA
1 GGTTCAA
10691866 GGTT
1 GGTT
10691870 TTGAATTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (7 bp):
GGTTCAA
Found at i:10692959 original size:2 final size:2
Alignment explanation
Indices: 10692952--10692988 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10692942 TATTTTTGTT
10692952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10692989 GAGTAAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10697147 original size:31 final size:30
Alignment explanation
Indices: 10697098--10697166 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
10697088 CCAAAAAGCT
* * *
10697098 ACTTCAAACTAAAATAGTTATTCGATTAAC
1 ACTTAAAACAAAAATAGTTATTCGATTAAA
* *
10697128 ACTTAAAACAAAAATTAGTTGTTGGATTAAA
1 ACTTAAAACAAAAA-TAGTTATTCGATTAAA
*
10697159 ATTTAAAA
1 ACTTAAAA
10697167 AATTGAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (30 bp):
ACTTAAAACAAAAATAGTTATTCGATTAAA
Found at i:10697415 original size:39 final size:40
Alignment explanation
Indices: 10697341--10697416 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
10697331 CGGCATTTGG
* *
10697341 ATAACAAACGCCACTAAAGATCAATCATTAGCGGCGTATT
1 ATAAAAAACGCCACTAAAGATCAATCATTACCGGCGTATT
* *
10697381 ATAAAAAACGCCGCTGAAA-AT-AATCATTCCCGGCGT
1 ATAAAAAACGCCACT-AAAGATCAATCATTACCGGCGT
10697417 TTTTGAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 13 0.42
40 15 0.48
41 3 0.10
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (40 bp):
ATAAAAAACGCCACTAAAGATCAATCATTACCGGCGTATT
Found at i:10697613 original size:114 final size:111
Alignment explanation
Indices: 10697411--10697824 Score: 390
Period size: 114 Copynumber: 3.7 Consensus size: 111
10697401 TAATCATTCC
* * * * * * *
10697411 CGGCGTTTTTGAGAAAGCGCCAC-AAAAACCT-AGCGCAACGACGCCGTTTCCCCAGCATTC-GG
1 CGGCGTTTCTG-GAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAGG
* * * *
10697473 TGATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAG
65 -GATTTAGCGACGCTTTTAAGAAAGCGCCGCTAATGCT-AAGGCTTTAG
*
10697522 CGGCGTTTCTAGGAAAGCGCCGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAG
1 CGGCGTTTCT-GGAAAGCGCCGCAAAAA-AACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAG
* * * *
10697587 GGATTTAGCGACGCTTTCT-ATAAAGCGCCGCTAATGGTTAGGTCGTTAG
64 GGATTTAGCGACGCTTT-TAAGAAAGCGCCGCTAATGCTAAGG-CTTTAG
* ** * *
10697636 CAGCGTTTCTGGAAAAGCGCCGCTACTTAAAACT-AGCGCAACGACGTCGTCTCCCGAGCTTTCA
1 CGGCGTTTCTGG-AAAGCGCCGC-A-AAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCA
* *
10697700 GGGATTTAGCGGCGCTTTTACAGAAAGCGCCGCTAATGCTGAAGTCTTTAG
63 GGGATTTAGCGACGCTTTTA-AGAAAGCGCCGCTAATGCT-AAGGCTTTAG
* * * * * * *
10697751 CGGCGTTTTTGTTAAAGCGCCGCAAAAAATCTAAGCCCAACGACGCCGTTTTCTG-GCTTTCGGG
1 CGGCGTTTCTG-GAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAGG
10697815 GATTTTAGCG
65 GA-TTTAGCG
10697825 GCGTTTTTGT
Statistics
Matches: 248, Mismatches: 39, Indels: 29
0.78 0.12 0.09
Matches are distributed among these distances:
111 19 0.08
112 5 0.02
113 24 0.10
114 147 0.59
115 49 0.20
116 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (111 bp):
CGGCGTTTCTGGAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTCCCGAGCTTTCAGGG
ATTTAGCGACGCTTTTAAGAAAGCGCCGCTAATGCTAAGGCTTTAG
Found at i:10697863 original size:72 final size:72
Alignment explanation
Indices: 10697746--10697989 Score: 479
Period size: 72 Copynumber: 3.4 Consensus size: 72
10697736 TGCTGAAGTC
*
10697746 TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAATCTAAGCCCAACGACGCCGTTTTCTGGCTTT
1 TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTT
10697811 CGGGGAT
66 CGGGGAT
10697818 TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTT
1 TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTT
10697883 CGGGGAT
66 CGGGGAT
10697890 TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTT
1 TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTT
10697955 CGGGGAT
66 CGGGGAT
10697962 TTTAGCGGCGTTTTTGTTAAAGCGCCGC
1 TTTAGCGGCGTTTTTGTTAAAGCGCCGC
10697990 TAATGTTCAG
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 171 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.29
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTGTTAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTT
CGGGGAT
Found at i:10708827 original size:22 final size:22
Alignment explanation
Indices: 10708795--10708837 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10708785 CTGCGGCGCT
*
10708795 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
10708817 AAAAAGTGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
10708838 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:10712177 original size:2 final size:2
Alignment explanation
Indices: 10712170--10712198 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10712160 TCGTTGGCTT
10712170 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10712199 NNNNNAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10714200 original size:8 final size:8
Alignment explanation
Indices: 10714189--10714213 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10714179 TAAAATTTTG
10714189 AAATAATA
1 AAATAATA
10714197 AAATAATA
1 AAATAATA
10714205 AAATAATA
1 AAATAATA
10714213 A
1 A
10714214 GAGATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:10724680 original size:37 final size:38
Alignment explanation
Indices: 10724611--10724682 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
10724601 ATGTGTGGAA
* **
10724611 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATACTGACTTGAAAATGAAAAAGTGAATT
*
10724649 TTGAATTGAATACTGA-TTGAAAGTGAAAAAGTGA
1 TTGAATTGAATACTGACTTGAAAATGAAAAAGTGA
10724683 TATTAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATACTGACTTGAAAATGAAAAAGTGAATT
Found at i:10729827 original size:17 final size:16
Alignment explanation
Indices: 10729805--10729836 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10729795 AATTTTTAGG
10729805 ATGTAATTATTATTTTT
1 ATGTAATTATT-TTTTT
10729822 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
10729837 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATGTAATTATTTTTTT
Found at i:10735341 original size:67 final size:69
Alignment explanation
Indices: 10735264--10735394 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 69
10735254 ATAAACAATA
* * **
10735264 TAATGGTTTTGCCTTTTAAC-TT-AATGGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
1 TAATGATTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
10735327 AACT
66 AACT
* *
10735331 TAATGATTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACGACATAGTTTTGCCTT
1 TAATGATTTTGACTTTTAACTTT-AAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTT
10735395 TTCTTATTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 18 0.33
68 2 0.04
70 35 0.64
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (69 bp):
TAATGATTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
AACT
Found at i:10736165 original size:23 final size:22
Alignment explanation
Indices: 10736135--10736177 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
10736125 AGTCTCTATA
*
10736135 CTTTTATTTTTGAGAATTTAGT
1 CTTTTATTTTTCAGAATTTAGT
*
10736157 CTTTCTATTTTTCAGATTTTA
1 CTTT-TATTTTTCAGAATTTA
10736178 AAACTCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
CTTTTATTTTTCAGAATTTAGT
Found at i:10740272 original size:20 final size:17
Alignment explanation
Indices: 10740232--10740264 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10740222 AGACCAAATA
*
10740232 CAAATAATAAATAAAAC
1 CAAAAAATAAATAAAAC
10740249 CAAAAAATAAATAAAA
1 CAAAAAATAAATAAAA
10740265 AGTCCAAATA
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:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAAAATAAATAAAAC
Found at i:10741581 original size:18 final size:19
Alignment explanation
Indices: 10741558--10741598 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
10741548 TTAAAATACA
10741558 TTTATTTTA-TTATATCGT
1 TTTATTTTATTTATATCGT
*
10741576 TTTA-TTTATTTATATCTT
1 TTTATTTTATTTATATCGT
10741594 TTTAT
1 TTTAT
10741599 ATATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTTTATTTATATCGT
Found at i:10741603 original size:18 final size:18
Alignment explanation
Indices: 10741567--10741604 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10741557 ATTTATTTTA
*
10741567 TTATATCGTTTTATTTAT
1 TTATATCGTTTTATATAT
*
10741585 TTATATCTTTTTATATAT
1 TTATATCGTTTTATATAT
10741603 TT
1 TT
10741605 TCAAACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATATCGTTTTATATAT
Found at i:10747438 original size:22 final size:20
Alignment explanation
Indices: 10747430--10747492 Score: 94
Period size: 19 Copynumber: 3.1 Consensus size: 20
10747420 AGATTACAAA
10747430 ATCATATCTTCCAAGATTGCAT
1 ATCATATC-T-CAAGATTGCAT
10747452 ATCATATC-CAAGATTGCAT
1 ATCATATCTCAAGATTGCAT
10747471 ATCATATCT-AAGATTGCAT
1 ATCATATCTCAAGATTGCAT
10747490 ATC
1 ATC
10747493 CTTGAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 32 0.80
22 8 0.20
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATATCTCAAGATTGCAT
Found at i:10747463 original size:19 final size:19
Alignment explanation
Indices: 10747439--10747492 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
10747429 AATCATATCT
10747439 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
10747458 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
10747477 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
10747493 CTTGAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:10747958 original size:44 final size:44
Alignment explanation
Indices: 10747908--10748136 Score: 156
Period size: 44 Copynumber: 5.2 Consensus size: 44
10747898 GTCGGTGCAA
10747908 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* * * * * ** * * ****
10747952 GGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAG
*
10747996 GAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
* * * * * ** * * ***
10748040 GGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAG
* * *
10748084 GAAGGTAAGATCTACTATTTTTAACCAGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
*
10748128 GTAGGCAAG
1 GAAGGCAAG
10748137 GCTAGTGTCT
Statistics
Matches: 124, Mismatches: 57, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 36 0.29
44 54 0.44
45 34 0.27
ACGTcount: A:0.22, C:0.26, G:0.27, T:0.25
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAG
Found at i:10748005 original size:88 final size:88
Alignment explanation
Indices: 10747852--10748876 Score: 1169
Period size: 88 Copynumber: 11.8 Consensus size: 88
10747842 AACTTGATCT
* * * * *
10747852 GCTGCAACTCGGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
10747917 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * *
10747940 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGACAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
10748005 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * *
10748028 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* *
10748093 ATCTACTATTTTTAACCAGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * *
10748116 GCTGCAACCCAGGTAGGCAAGGCTAGTGTCTTC-A-AT-C-T-GC--T---T-CAGGATGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
*
10748170 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * **
10748193 GCTGCCACCGAGGGAGGCGAGGCTAGTGTCTTCAATCTGCTTCACTGT-TATACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* * *
10748257 ATCTGCTATCTTTAACCTGTTGC
66 ATCTGCTATTTTTAACCTGCTCC
* * ** * * * * *
10748280 ACTGCCACTGAGGAAGGCAATGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
*
10748345 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * * **
10748368 GCTGCCACCGAGTGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
*
10748433 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * * * * * * **
10748456 GCTGCCACCGAGGGAGGCAAGGCTAGTGTCTCCGATCTACTCCACT-ACTGCT-TAGGGAGATAA
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTC-GGTACAGGAAGGCAA
* * * * *
10748519 GATCGGCAATTTTCAACATGCTCT
65 GATCTGCTATTTTTAACCTGCTCC
* * *
10748543 GCTGCAACCCAGGGAGGCAAGGCTAGAGTCTTTGATTTGCTTCGCTGTCGGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* *
10748608 ATCTGTTATTTTTAACCTACTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * ** *
10748631 GCTGCAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGAAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
* *
10748696 ATCTGCTATTTTCAACCTTCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * *
10748719 GCTGCAACCCAGTGAGGCAAGGTTAATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGACAAT
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
10748784 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * *
10748807 GCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAGG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
10748872 ATCTG
66 ATCTG
10748877 TTATCTTCAC
Statistics
Matches: 807, Mismatches: 116, Indels: 28
0.85 0.12 0.03
Matches are distributed among these distances:
77 59 0.07
78 2 0.00
79 1 0.00
80 1 0.00
81 2 0.00
82 1 0.00
83 2 0.00
84 2 0.00
85 1 0.00
86 2 0.00
87 140 0.17
88 594 0.74
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (88 bp):
GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAG
ATCTGCTATTTTTAACCTGCTCC
Found at i:10748298 original size:44 final size:44
Alignment explanation
Indices: 10748159--10748476 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
10748149 AATCTGCTTC
* * * *
10748159 AGGATGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
* * * * * * ** *
10748203 AGGGAGGCGAG-GCTAG-TGTCTTCAATCTGCTT-CACTGTTA-TAC
1 AGGAAGGCAAGATCT-GCTATCTTTAACCTG-TTCCACTGCCACT-G
*
10748246 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTGCACTGCCACTG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
* * * * * *
10748290 AGGAAGGC-A-ATGCTAG-TGTCTTCAATCTGCTT-CACTGTCAGTAC
1 AGGAAGGCAAGAT-CT-GCTATCTTTAACCTG-TTCCACTGCCACT-G
* * *
10748334 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
* * * * * ** * *
10748378 AGTG-AGGCAAG-GCTAG-TGTCTTCAATCTGTTTCACTGTTAGTAC
1 AG-GAAGGCAAGATCT-GCTATCTTTAACCTGTTCCACTGCCACT-G
* * *
10748422 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCG
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
*
10748466 AGGGAGGCAAG
1 AGGAAGGCAAG
10748477 GCTAGTGTCT
Statistics
Matches: 191, Mismatches: 62, Indels: 42
0.65 0.21 0.14
Matches are distributed among these distances:
42 2 0.01
43 69 0.36
44 79 0.41
45 39 0.20
46 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCTGTTCCACTGCCACTG
Found at i:10748599 original size:263 final size:262
Alignment explanation
Indices: 10747864--10748883 Score: 1195
Period size: 263 Copynumber: 3.9 Consensus size: 262
10747854 TGCAACTCGG
* * ** * * *
10747864 GGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTT
1 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTT
* *
10747929 TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGC
66 TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTC-GTGC
*
10747994 AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCT
130 AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
* * * *
10748059 TCGATCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTACTATTTTTAACCAGCTCCGCTGCAAC
195 TCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAAC
10748124 CCA
260 CCA
*
10748127 GGTAGGCAAGGCTAGTGTCTTCAA--T-C-T-GC---T--T-CAGGATGGCAAGATCTGCTATCT
1 GG-AGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
* * * * ** *
10748181 TTAACCTGCTCCGCTGCCACCGAGGGAGGCGAGGCTAGTGTCTTCAATCTGCTTCACTGTTATAC
65 TTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGTGC
* * * * * * ** * *
10748246 AGGAAGGCAAGATCTGCTATCTTTAACCTGTTGCACTGCCACTGAGGAAGGCAATGCTAGTGTCT
130 AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
* * *
10748311 TCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCAC
195 TCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAAC
*
10748376 CGA
260 CCA
* *
10748379 GTGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCT
1 G-GAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
* * * * * *
10748444 TTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTCCGATCTACTCCACT-AC-TGC
65 TTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGTGC
* * * * * * * *
10748507 TTAGGGAGATAAGATCGGCAATTTTCAACATGCTCTGCTGCAACCCAGGGAGGCAAGGCTAGAGT
130 --AGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGT
* * * * * *
10748572 CTTTGATTTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTACTCCGCTGCA
193 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCA
*
10748637 ACCTA
258 ACCCA
* * *
10748642 GGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGAAAGGCAAGATCTGCTAT-T
1 -GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCT
* * * * *
10748706 TTCAACCTTCTCCGCTGCAACCCAGTGAGGCAAGGTTAATGTCTTCGATCTGCTTCGCTGTCGGT
65 TT-AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTC-GT
* * * *
10748771 GCAGGAAGACAATATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGT
128 GCAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGT
* * * *
10748836 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAGGATCTGTTATCTT
193 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTT
10748884 CACTGATCTG
Statistics
Matches: 631, Mismatches: 106, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
252 138 0.22
253 75 0.12
254 2 0.00
256 1 0.00
257 1 0.00
259 2 0.00
260 2 0.00
261 3 0.00
262 5 0.01
263 284 0.45
264 115 0.18
266 3 0.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (262 bp):
GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTATCTT
TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGTGCA
GGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTT
CGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACC
CA
Found at i:10754832 original size:11 final size:11
Alignment explanation
Indices: 10754816--10754904 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
10754806 TAAATACCAA
10754816 AAAATTATTTT
1 AAAATTATTTT
**
10754827 AAAA-T-TTAA
1 AAAATTATTTT
**
10754836 AAAATT-TTAA
1 AAAATTATTTT
*
10754846 AAAAGTATTTT
1 AAAATTATTTT
*
10754857 AAAAATATTTT
1 AAAATTATTTT
**
10754868 AAAATTA--AA
1 AAAATTATTTT
*
10754877 AAAAGTATTTT
1 AAAATTATTTT
*
10754888 AAAAGTATTTT
1 AAAATTATTTT
10754899 AAAATT
1 AAAATT
10754905 TTAAAAATAA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
9 12 0.20
10 11 0.18
11 38 0.62
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:10754846 original size:10 final size:11
Alignment explanation
Indices: 10754831--10754913 Score: 63
Period size: 11 Copynumber: 7.9 Consensus size: 11
10754821 TATTTTAAAA
10754831 TTTAAAAA-AT
1 TTTAAAAATAT
10754841 TTTAAAAAAGTAT
1 TTT-AAAAA-TAT
10754854 TTTAAAAATAT
1 TTTAAAAATAT
10754865 TTT--AAA-AT
1 TTTAAAAATAT
**
10754873 TAAAAAAAGTAT
1 TTTAAAAA-TAT
*
10754885 TTTAAAAGTAT
1 TTTAAAAATAT
10754896 TTT--AAA-AT
1 TTTAAAAATAT
10754904 TTTAAAAATA
1 TTTAAAAATA
10754914 AAAAAATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
9 5 0.09
10 9 0.16
11 18 0.32
12 12 0.21
13 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:10754849 original size:31 final size:32
Alignment explanation
Indices: 10754814--10754911 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 32
10754804 AATAAATACC
* **
10754814 AAAAAATTATTTTAAAAT-TTAAAAAATTTT-
1 AAAAAAGTATTTTAAAATATTTTAAAATTTTA
10754844 AAAAAAGTATTTTAAAAATATTTTAAAA--TTA
1 AAAAAAGTATTTT-AAAATATTTTAAAATTTTA
10754875 AAAAAAGTATTTTAAAAGTATTTTAAAATTTTA
1 AAAAAAGTATTTTAAAA-TATTTTAAAATTTTA
10754908 AAAA
1 AAAA
10754912 TAAAAAAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
30 18 0.31
31 28 0.47
32 6 0.10
33 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (32 bp):
AAAAAAGTATTTTAAAATATTTTAAAATTTTA
Found at i:10755179 original size:39 final size:40
Alignment explanation
Indices: 10755117--10755210 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
10755107 NNNNNNNNNA
* * *
10755117 AAAACTAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAATT-AAAAAAAGTATGTAAAAAATATTTT
10755158 AAAATTAAAAAAATT-AAAAAAGTATGTAAAAAATATTTT
1 AAAATTAAAAAAATTAAAAAAAGTATGTAAAAAATATTTT
10755197 AAAATTAAAAAAAT
1 AAAATTAAAAAAAT
10755211 AAATATATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 36 0.72
41 14 0.28
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (40 bp):
AAAATTAAAAAAATTAAAAAAAGTATGTAAAAAATATTTT
Found at i:10755994 original size:19 final size:19
Alignment explanation
Indices: 10755970--10756019 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 19
10755960 NNNNNNNNNN
10755970 ATTGCATATCATATCCAAG
1 ATTGCATATCATATCCAAG
*
10755989 ATTGCATATATCATATCTAAG
1 ATTGC--ATATCATATCCAAG
10756010 ATTGCATATC
1 ATTGCATATC
10756020 CTTGAAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
21 18 0.64
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (19 bp):
ATTGCATATCATATCCAAG
Found at i:10756001 original size:21 final size:21
Alignment explanation
Indices: 10755975--10756018 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
10755965 NNNNNATTGC
10755975 ATATCATATCCAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
*
10755996 ATATCATATCTAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
10756017 AT
1 AT
10756019 CCTTGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATATCATATCCAAGATTGCAT
Found at i:10756766 original size:16 final size:16
Alignment explanation
Indices: 10756747--10756795 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
10756737 TTTAAATTAC
*
10756747 TTAAATTCAAA-TCAAA
1 TTAAATT-AAACTAAAA
10756763 TTAAATTAAACTAAAA
1 TTAAATTAAACTAAAA
*
10756779 TTAAA--AAAATAAAA
1 TTAAATTAAACTAAAA
10756793 TTA
1 TTA
10756796 TTTCAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.37
15 3 0.10
16 16 0.53
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAATTAAACTAAAA
Found at i:10758281 original size:4 final size:4
Alignment explanation
Indices: 10758274--10758311 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
10758264 TTTATTTGTG
10758274 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
10758312 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:10767354 original size:18 final size:18
Alignment explanation
Indices: 10767331--10767386 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
10767321 TTTCATTTAC
10767331 TTACTTTTATTTTTATTT
1 TTACTTTTATTTTTATTT
*
10767349 TTACTTTGT-TTTTTGAGTT
1 TTACTTT-TATTTTT-ATTT
* *
10767368 TT-CTTTTAATTTCATTT
1 TTACTTTTATTTTTATTT
10767385 TT
1 TT
10767387 CGAAATATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.73
Consensus pattern (18 bp):
TTACTTTTATTTTTATTT
Found at i:10768097 original size:23 final size:21
Alignment explanation
Indices: 10768058--10768104 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
10768048 AATTAATAAC
10768058 ATTATTATTATTACTATTGAT
1 ATTATTATTATTACTATTGAT
* *
10768079 ATTATTTATATATTTCTATTTAT
1 ATTA-TTAT-TATTACTATTGAT
10768102 ATT
1 ATT
10768105 TATGTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
23 14 0.64
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTATTATTATTACTATTGAT
Found at i:10778862 original size:44 final size:44
Alignment explanation
Indices: 10778813--10778901 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 44
10778803 ACATCTATTT
10778813 CATTCAACTAAACACAA-GAATGT-T-ATTACAGCTCTATTCCATTC
1 CATTCAAC-AAA-ACAAGGAAT-TATGATTACAGCTCTATTCCATTC
10778857 CATTCAACAAAACAATGGAATTACTGATTACAGCTCTATTCCATT
1 CATTCAACAAAACAA-GGAATTA-TGATTACAGCTCTATTCCATT
10778902 ACAACTCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
42 4 0.10
43 4 0.10
44 12 0.30
45 1 0.03
46 19 0.47
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (44 bp):
CATTCAACAAAACAAGGAATTATGATTACAGCTCTATTCCATTC
Found at i:10778904 original size:16 final size:16
Alignment explanation
Indices: 10778883--10778934 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
10778873 GGAATTACTG
10778883 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
10778899 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
10778915 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
10778931 ATTA
1 ATTA
10778935 GAGTGAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:10779564 original size:27 final size:27
Alignment explanation
Indices: 10779533--10779587 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10779523 AAAAATAAAA
10779533 TTCTGACACTACCGTTTCAAATACCAC
1 TTCTGACACTACCGTTTCAAATACCAC
10779560 TTCTGACACTACCGTTTCAAATACCAC
1 TTCTGACACTACCGTTTCAAATACCAC
10779587 T
1 T
10779588 AACTTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (27 bp):
TTCTGACACTACCGTTTCAAATACCAC
Found at i:10784531 original size:228 final size:228
Alignment explanation
Indices: 10784134--10785254 Score: 1695
Period size: 228 Copynumber: 4.9 Consensus size: 228
10784124 CTCTCCAAAG
* * * *
10784134 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
*
10784198 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGACAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
10784263 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
*
10784328 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
10784362 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * *
10784427 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGACAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
10784492 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
10784557 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
* *
10784590 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
*
10784655 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
10784720 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
10784785 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
*
10784818 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
10784883 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * *
10784948 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCCAGAAGGAATCC
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* * * *
10785013 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGA
196 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
* * * * * * * *
10785046 ATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * * * * * * * * *
10785111 CATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGTTTGA
66 CATCGACAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * * ** * * * *
10785176 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
10785241 ACCCTTCACCTTGT
196 ACCCTCCACCTTGT
10785255 TTTGAGGCTT
Statistics
Matches: 829, Mismatches: 63, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
227 4 0.00
228 825 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGACAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
Found at i:10785349 original size:228 final size:228
Alignment explanation
Indices: 10784134--10785497 Score: 1638
Period size: 228 Copynumber: 6.0 Consensus size: 228
10784124 CTCTCCAAAG
* * * * *
10784134 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACA
* *
10784198 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * *
10784263 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATC
* *
10784328 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
* *
10784362 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACAC
* * * *
10784427 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * *
10784492 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC
10784557 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
*
10784590 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACAC
* *
10784655 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* *
10784720 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC
10784785 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
*
10784818 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACAC
* * *
10784883 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * *
10784948 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC
* * * * *
10785013 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGA
196 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
* * * * * * * *
10785046 ATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACAC
* * * * * * * * *
10785111 CATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGTTTGA
66 CATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * ** * * *
10785176 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC
* * * * *
10785241 ACCCTTCACCTTGTTTTGA-GGCTTCGTGGAGGC
196 ACCCTCCACCTTGTCTT-ACGTCTTCGTGGGGGT
* * * * * * * * * ** * * * * * *
10785274 ATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGATAC
1 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACAC
* * * * * * * ** *
10785339 AATTGACAATGTGAAGGC-AAAGATTCAGGACAAGGAAGGTATCCCCCCAGATCAGCAAAGGCTC
66 CATCGACAATGTAAAGGCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * * ** * ** * * * * * * *
10785403 ATCTTTGCTGGCAAGCAATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGAGTC
130 ATCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATC
* *
10785468 CACCCTTCACCTTGTTCTT-CGTCTCCGTGG
195 CACCCTCCACCTTG-TCTTACGTCTTCGTGG
10785498 TGGGCAGTGA
Statistics
Matches: 1024, Mismatches: 107, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
227 6 0.01
228 1015 0.99
229 3 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCGGACAC
CATCGACAATGTAAAGGCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
Found at i:10787020 original size:19 final size:19
Alignment explanation
Indices: 10786993--10787040 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10786983 TATATAAAAT
* *
10786993 TATACAAAATCAAAGTTTA
1 TATATAAAATCAAAGTTCA
*
10787012 TATATAAAATCGAAGTTCA
1 TATATAAAATCAAAGTTCA
*
10787031 TGTATAAAAT
1 TATATAAAAT
10787041 TACATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
TATATAAAATCAAAGTTCA
Found at i:10800777 original size:29 final size:29
Alignment explanation
Indices: 10800730--10800791 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
10800720 TGTAATGTTG
* *
10800730 TACATGAACTTTGATTTTG-TTCAATTTT
1 TACATGAAATTTGAATTTGATTCAATTTT
*
10800758 ATACATGAAATTTTAATTTGATTCAATTTT
1 -TACATGAAATTTGAATTTGATTCAATTTT
10800788 TACA
1 TACA
10800792 AACAACTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (29 bp):
TACATGAAATTTGAATTTGATTCAATTTT
Found at i:10806690 original size:33 final size:32
Alignment explanation
Indices: 10806656--10806721 Score: 78
Period size: 36 Copynumber: 1.9 Consensus size: 32
10806646 GAAATGGTAG
*
10806656 CAAAATAGTAAAAAAAAAAAACAACAAAAATAGCAA
1 CAAAACAGTAAAAAAAAAAAAC--CAAAAATAG--A
*
10806692 CAAAACAGTAAAAAAAAATAACCAAAAATA
1 CAAAACAGTAAAAAAAAAAAACCAAAAATA
10806722 ATTGTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 8 0.29
36 20 0.71
ACGTcount: A:0.74, C:0.12, G:0.05, T:0.09
Consensus pattern (32 bp):
CAAAACAGTAAAAAAAAAAAACCAAAAATAGA
Found at i:10810553 original size:33 final size:32
Alignment explanation
Indices: 10810519--10810584 Score: 78
Period size: 36 Copynumber: 1.9 Consensus size: 32
10810509 GAAATGGTAG
*
10810519 CAAAATAGTAAAAAAAAAAAACAACAAAAATAGCAA
1 CAAAACAGTAAAAAAAAAAAAC--CAAAAATAG--A
*
10810555 CAAAACAGTAAAAAAAAATAACCAAAAATA
1 CAAAACAGTAAAAAAAAAAAACCAAAAATA
10810585 ATTGTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 8 0.29
36 20 0.71
ACGTcount: A:0.74, C:0.12, G:0.05, T:0.09
Consensus pattern (32 bp):
CAAAACAGTAAAAAAAAAAAACCAAAAATAGA
Found at i:10812991 original size:25 final size:25
Alignment explanation
Indices: 10812944--10812993 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
10812934 TTTGTTATTG
*
10812944 TTGAAAAAGTATGGAAATGATGTTA
1 TTGAAAAAGTATGGAAATAATGTTA
10812969 TTGAAAAAGTA-GGAAATTAATGTTA
1 TTGAAAAAGTATGGAAA-TAATGTTA
10812994 ATATAGAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (25 bp):
TTGAAAAAGTATGGAAATAATGTTA
Found at i:10814482 original size:22 final size:22
Alignment explanation
Indices: 10814457--10814503 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10814447 TGAAAACAAA
* *
10814457 AAAAAATAATACTGATAATAAT
1 AAAAAATAATAATAATAATAAT
*
10814479 AAAAAATAGTAATAATAATAAT
1 AAAAAATAATAATAATAATAAT
10814501 AAA
1 AAA
10814504 GAAGTTCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAATAATAATAATAATAAT
Found at i:10816415 original size:51 final size:51
Alignment explanation
Indices: 10816338--10816669 Score: 262
Period size: 46 Copynumber: 6.8 Consensus size: 51
10816328 TTTCAACTTT
* * * * * * *
10816338 AACGCCAGGGAGATAAGATGCGCTGCCTACAACATTAATCTACTCCGCTGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
10816389 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAA--T-CT--ACTGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * * * **
10816435 GATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATATGTTCCACTGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * *
10816486 AACGCCAAAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTA-T----TGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * * ** *
10816532 AATGCCAAGGAGACAAGATTCACTGCCTTCAGCTTTAATCTGTTCCACCGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* *
10816583 AACGCCAAGGAAATGAGATTCATTGCCTTCAACTTTAATCTA-T----TGC
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
* * * * * *
10816629 AATGCCAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCT
1 AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCT
10816670 GTTCCATTGT
Statistics
Matches: 229, Mismatches: 42, Indels: 25
0.77 0.14 0.08
Matches are distributed among these distances:
46 111 0.48
47 1 0.00
48 3 0.01
49 2 0.01
50 2 0.01
51 110 0.48
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
AACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTACTCCACTGC
Found at i:10816461 original size:46 final size:46
Alignment explanation
Indices: 10816385--10816669 Score: 282
Period size: 46 Copynumber: 6.0 Consensus size: 46
10816375 ATCTACTCCG
* *
10816385 CTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCTA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * *
10816431 CTGCGATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATATGTTCCA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTT-A-A---TCTA
* *
10816482 CTGCAACGCCAAAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * * * *
10816528 TTGCAATGCCAAGGAGACAAGATTCACTGCCTTCAGCTTTAATCTGTTCCA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--A
* * ** *
10816579 CCGCAACGCCAAGGAAATGAGATTCATTGCCTTCAACTTTAATCTA
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * * * *
10816625 TTGCAATGCCAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCT
1 CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
10816670 GTTCCATTGT
Statistics
Matches: 194, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
46 112 0.58
47 1 0.01
48 2 0.01
49 2 0.01
50 1 0.01
51 76 0.39
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (46 bp):
CTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
Found at i:10816516 original size:97 final size:97
Alignment explanation
Indices: 10816352--10816675 Score: 459
Period size: 97 Copynumber: 3.3 Consensus size: 97
10816342 CCAGGGAGAT
* * * * ** * *
10816352 AAGATGCGCTGCCTACAACATTAATCTACTCCGCTGCAACGCCAAGGAAATAAGATTCACTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
* * *
10816417 TCAACTTTAATCTACTGCGATGCCAAGGAAAT
66 TCAACTTTAATCTATTGCAATGCCAAGGAAAC
* * *
10816449 AAGATTCGCTGCCTTCAGCTTTAATATGTTCCACTGCAACGCCAAAGAAATGAGATTCGCTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
* *
10816514 TCAGCTTTAATCTATTGCAATGCCAAGGAGAC
66 TCAACTTTAATCTATTGCAATGCCAAGGAAAC
* * *
10816546 AAGATTCACTGCCTTCAGCTTTAATCTGTTCCACCGCAACGCCAAGGAAATGAGATTCATTGCCT
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
*
10816611 TCAACTTTAATCTATTGCAATGCCAGGGAAAC
66 TCAACTTTAATCTATTGCAATGCCAAGGAAAC
*
10816643 AAGATTCGCCGCCTTCAGCTTTAATCTGTTCCA
1 AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCA
10816676 TTGTAACTTT
Statistics
Matches: 200, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 200 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (97 bp):
AAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAGATTCACTGCCT
TCAACTTTAATCTATTGCAATGCCAAGGAAAC
Found at i:10817002 original size:24 final size:24
Alignment explanation
Indices: 10816975--10817030 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
10816965 CAGATTGCCC
*
10816975 CCACTGTAATCTTCAAGGTTTAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
10816999 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
10817023 CCACTGTA
1 CCACTGTA
10817031 CTTTTGGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:10824013 original size:24 final size:24
Alignment explanation
Indices: 10823966--10824013 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10823956 GGATCTTAGC
* * *
10823966 TAGCTGCTCTTGCATTTGCGTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
*
10823990 TAGCTGGTCTTGCATCTCCCTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
10824014 AAGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (24 bp):
TAGCTGCTCTTGCATCTCCCTTTG
Found at i:10825810 original size:24 final size:24
Alignment explanation
Indices: 10825763--10825810 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10825753 GGATCTTAGC
* * *
10825763 TAGCTGCTCTTGCATTTGCGTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
*
10825787 TAGCTGGTCTTGCATCTCCCTTTG
1 TAGCTGCTCTTGCATCTCCCTTTG
10825811 AAGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.08, C:0.25, G:0.23, T:0.44
Consensus pattern (24 bp):
TAGCTGCTCTTGCATCTCCCTTTG
Found at i:10829797 original size:13 final size:13
Alignment explanation
Indices: 10829779--10829803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10829769 ACATAAGTGA
10829779 AATTTAAATAAAT
1 AATTTAAATAAAT
10829792 AATTTAAATAAA
1 AATTTAAATAAA
10829804 GCCAATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTTAAATAAAT
Found at i:10829859 original size:3 final size:3
Alignment explanation
Indices: 10829840--10829883 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
10829830 GCCTGCCTAA
* *
10829840 AAT AAT AA- AACT GAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10829884 AGAAGTTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.91
4 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10829863 original size:18 final size:18
Alignment explanation
Indices: 10829840--10829884 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10829830 GCCTGCCTAA
*
10829840 AATAATAAAACTGATAAT
1 AATAATAAAACTAATAAT
* *
10829858 AATAATAATAGTAATAAT
1 AATAATAAAACTAATAAT
10829876 AATAATAAA
1 AATAATAAA
10829885 GAAGTTCACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAATAAAACTAATAAT
Found at i:10829922 original size:15 final size:14
Alignment explanation
Indices: 10829895--10829925 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
10829885 GAAGTTCACG
10829895 AATAAAAAAAATAA
1 AATAAAAAAAATAA
10829909 AATAAAACAAAATAA
1 AATAAAA-AAAATAA
10829924 AA
1 AA
10829926 GCAAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AATAAAAAAAATAA
Found at i:10831158 original size:18 final size:19
Alignment explanation
Indices: 10831120--10831159 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10831110 TTTTGGGCTA
10831120 GGGTTTGCAATGGGTTATT
1 GGGTTTGCAATGGGTTATT
10831139 GGGTTTG-AATTGGG-TATT
1 GGGTTTGCAA-TGGGTTATT
10831157 GGG
1 GGG
10831160 CTAATGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (19 bp):
GGGTTTGCAATGGGTTATT
Found at i:10837183 original size:17 final size:17
Alignment explanation
Indices: 10837161--10837193 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10837151 ATGATGAACT
10837161 TAATTA-AATAATAATAA
1 TAATTATAAT-ATAATAA
10837178 TAATTATAATATAATA
1 TAATTATAATATAATA
10837194 TTGTAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATTATAATATAATAA
Found at i:10844652 original size:3 final size:3
Alignment explanation
Indices: 10844623--10844672 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
10844613 AACTAACACG
* * *
10844623 ATT ACT ATT ATCT -TT ATT CTT -TT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10844667 ATT ATT
1 ATT ATT
10844673 TTGCTATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 3 0.08
3 35 0.90
4 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10851702 original size:45 final size:45
Alignment explanation
Indices: 10851641--10851979 Score: 173
Period size: 44 Copynumber: 7.7 Consensus size: 45
10851631 TATTGGCTTT
*
10851641 AATCTGCTCCATTGCAACTTTAGGGAGATAAGATTCATCATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCATCTTC
* * * * *
10851686 AATCTGCCCCACTGCAA-TTTCAGGGGGATAAGATTCGT-TTATTC
1 AATCTGCTCCACTGCAACTTT-AGGGAGATAAGATTCATCATCTTC
* * * * * * *
10851730 AGTCTGCTCCGCTACAACTTTAGGGATATAAGACT-A-GAT-GT-
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCATCTTC
* ** * * * *
10851771 GATCTGCT-CTTTGCAACTTCAGAGAGATAAGA-TCTGTCAT-TTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTC-ATCATCTTC
* * ** * * * * *** *
10851814 AATCCGTTCTGCTACAACTTCAGGAAGATAGGATT-ATTGGCTTT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCATCTTC
*
10851858 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATCATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCATCTTC
* * * *
10851903 AATCTGC-CGCACTGC-ACTTTCAGGGGGATAAGATTCGT-TTATTC
1 AATCTGCTC-CACTGCAACTTT-AGGGAGATAAGATTCATCATCTTC
* * * * *
10851947 AGTCGGCTCCGCTACAACTTTAGGGAAATAAGA
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGA
10851980 CTAGATGCGA
Statistics
Matches: 216, Mismatches: 63, Indels: 31
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.00
40 18 0.08
41 6 0.03
42 4 0.02
43 7 0.03
44 107 0.50
45 73 0.34
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCATCTTC
Found at i:10851761 original size:44 final size:45
Alignment explanation
Indices: 10851641--10851762 Score: 113
Period size: 45 Copynumber: 2.7 Consensus size: 45
10851631 TATTGGCTTT
* * * *
10851641 AATCTGCTCCATTGCAACTTTAGGGAGATAAGATTCATCATCTTC
1 AATCTGCCCCACTACAACTTTAGGGAGATAAGATTCATCATATTC
* * * *
10851686 AATCTGCCCCACTGCAA-TTTCAGGGGGATAAGATTCGT-TTATTC
1 AATCTGCCCCACTACAACTTT-AGGGAGATAAGATTCATCATATTC
* * * *
10851730 AGTCTGCTCCGCTACAACTTTAGGGATATAAGA
1 AATCTGCCCCACTACAACTTTAGGGAGATAAGA
10851763 CTAGATGTGA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 30 0.48
45 33 0.52
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
AATCTGCCCCACTACAACTTTAGGGAGATAAGATTCATCATATTC
Found at i:10851851 original size:217 final size:217
Alignment explanation
Indices: 10851513--10852104 Score: 963
Period size: 217 Copynumber: 2.7 Consensus size: 217
10851503 CTACTTGCTT
* * *
10851513 AGTCTGGTCTGCTACAACTTTAGGGATGTAAGACTAGATGTGATCTGCTCTTTGCAACTTCAGAG
1 AGTCTGCTCCGCTACAACTTTAGGGATATAAGACTAGATGTGATCTGCTCTTTGCAACTTCAGAG
*
10851578 AGATAGGATCTGTCATTTTAATCCGTTCCGCTACAACTTCAGGAAGATAGGATTATTGGCTTTAA
66 AGATAAGATCTGTCATTTTAATCCGTTCCGCTACAACTTCAGGAAGATAGGATTATTGGCTTTAA
* *
10851643 TCTGCTCCATTGCAACTTTAGGGAGATAAGATTCATCATCTTCAATCTGCCCCACTGCAATTTCA
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATCATCTTCAATCTGCCCCACTGCAATTTCA
10851708 GGGGGATAAGATTCGTTTATTC
196 GGGGGATAAGATTCGTTTATTC
10851730 AGTCTGCTCCGCTACAACTTTAGGGATATAAGACTAGATGTGATCTGCTCTTTGCAACTTCAGAG
1 AGTCTGCTCCGCTACAACTTTAGGGATATAAGACTAGATGTGATCTGCTCTTTGCAACTTCAGAG
*
10851795 AGATAAGATCTGTCATTTTAATCCGTTCTGCTACAACTTCAGGAAGATAGGATTATTGGCTTTAA
66 AGATAAGATCTGTCATTTTAATCCGTTCCGCTACAACTTCAGGAAGATAGGATTATTGGCTTTAA
* *
10851860 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATCATCTTCAATCTGCCGCACTGCACTTTCA
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATCATCTTCAATCTGCCCCACTGCAATTTCA
10851925 GGGGGATAAGATTCGTTTATTC
196 GGGGGATAAGATTCGTTTATTC
* * * * * *
10851947 AGTCGGCTCCGCTACAACTTTAGGGAAATAAGACTAGATGCGATCTGCTATCTGTAACTTCAGAG
1 AGTCTGCTCCGCTACAACTTTAGGGATATAAGACTAGATGTGATCTGCTCTTTGCAACTTCAGAG
* * * *
10852012 AGATAAGATCTGTGATTTTAATCCGCTCCGCTACAACTTTAGGGAGATAGGATTATCT-GCTTCT
66 AGATAAGATCTGTCATTTTAATCCGTTCCGCTACAACTTCAGGAAGATAGGATTAT-TGGCTT-T
* *
10852076 -GTCTGCTCCACTGCAACTTCAGAGAGATA
129 AATCTGCTCCACTGCAACTTCAGGGAGATA
10852105 GGACTAGATG
Statistics
Matches: 351, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
217 349 0.99
218 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (217 bp):
AGTCTGCTCCGCTACAACTTTAGGGATATAAGACTAGATGTGATCTGCTCTTTGCAACTTCAGAG
AGATAAGATCTGTCATTTTAATCCGTTCCGCTACAACTTCAGGAAGATAGGATTATTGGCTTTAA
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATCATCTTCAATCTGCCCCACTGCAATTTCA
GGGGGATAAGATTCGTTTATTC
Found at i:10852120 original size:128 final size:128
Alignment explanation
Indices: 10851978--10852232 Score: 395
Period size: 128 Copynumber: 2.0 Consensus size: 128
10851968 AGGGAAATAA
*
10851978 GACTAGATGCGATCTGCTATCTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCGC
1 GACTAGATGCGATCTGCTATCTGTAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCGC
* * *
10852043 TACAACTTTAGGGAGATAGGATTA-TCTGCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAG
66 TACAACTTCAGGGAAATAGGATTAGCCT-CTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAG
* * * *
10852106 GACTAGATGTGATCTGCTCTCTGTAACTTTAGAAAGATAAGATCTGTGATTTTAATCCGCTCTGC
1 GACTAGATGCGATCTGCTATCTGTAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCGC
* * *
10852171 TACAACTTCAGGGAAATAGGATTAGCCTCTTCTGTCTGTTCCACTGTAACTTCAGGGAGATA
66 TACAACTTCAGGGAAATAGGATTAGCCTCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATA
10852233 AAACTTGTGG
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
128 113 0.98
129 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (128 bp):
GACTAGATGCGATCTGCTATCTGTAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCGC
TACAACTTCAGGGAAATAGGATTAGCCTCTTCTGTCTGCTCCACTGCAACTTCAGAGAGATAG
Found at i:10852233 original size:88 final size:87
Alignment explanation
Indices: 10852140--10852414 Score: 309
Period size: 88 Copynumber: 3.1 Consensus size: 87
10852130 AACTTTAGAA
* * *
10852140 AGATAAGATCTGTGATTTTAATCCGCTCTGCTACAACTTCAGGGAAATAGGATTAGCCTCTTCTG
1 AGATAAGA-CTGTGATTTTAATCCGCTCTACTACAACTTCAGGGAGATAGGATTAGCTTCTTCTG
*
10852205 TCTGTTCCACTGTAACTTCAGGG
65 TCTGTTCCACTGCAACTTCAGGG
* * * * * *
10852228 AGATAAAACTTGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGTTTAGCTTCTTCTG
1 AGATAAGAC-TGTGATTTTAATCCGCTCTACTACAACTTCAGGGAGATAGGATTAGCTTCTTCTG
*** *
10852293 TCTGTTTTGCTGCAACATCAGGG
65 TCTGTTCCACTGCAACTTCAGGG
* *
10852316 AGATAAGACT-TGCTATCTTTAATCCGCTCTACTACAACTTCAGGGAGATAGGATTTGCTTTTTC
1 AGATAAGACTGTG--AT-TTTAATCCGCTCTACTACAACTTCAGGGAGATAGGATTAGCTTCTTC
* * * * *
10852380 AGTCTGCTCCTCTACAACTGCAGGG
63 TGTCTGTTCCACTGCAACTTCAGGG
10852405 AGATAAGACT
1 AGATAAGACT
10852415 AGATGCGATA
Statistics
Matches: 153, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 81 0.53
89 68 0.44
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (87 bp):
AGATAAGACTGTGATTTTAATCCGCTCTACTACAACTTCAGGGAGATAGGATTAGCTTCTTCTGT
CTGTTCCACTGCAACTTCAGGG
Found at i:10852361 original size:45 final size:44
Alignment explanation
Indices: 10852305--10852414 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
10852295 TGTTTTGCTG
*
10852305 CAACATCAGGGAGATAAGACTTGCTATCTTT-AATCCGCT-CTACTA
1 CAACTTCAGGGAGATAAGACTTGCT-T-TTTCAATCCGCTCCT-CTA
* * * *
10852350 CAACTTCAGGGAGATAGGATTTGCTTTTTCAGTCTGCTCCTCTA
1 CAACTTCAGGGAGATAAGACTTGCTTTTTCAATCCGCTCCTCTA
*
10852394 CAACTGCAGGGAGATAAGACT
1 CAACTTCAGGGAGATAAGACT
10852415 AGATGCGATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 3 0.05
44 28 0.51
45 24 0.44
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGACTTGCTTTTTCAATCCGCTCCTCTA
Found at i:10868625 original size:21 final size:21
Alignment explanation
Indices: 10868601--10868641 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10868591 ATTTTTCTTG
* *
10868601 GGTCTAAGCTGATGTACTGTT
1 GGTCCAAGCTAATGTACTGTT
10868622 GGTCCAAGCTAATGTACTGT
1 GGTCCAAGCTAATGTACTGT
10868642 CAGTCCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (21 bp):
GGTCCAAGCTAATGTACTGTT
Found at i:10868647 original size:21 final size:21
Alignment explanation
Indices: 10868606--10868649 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10868596 TCTTGGGTCT
* **
10868606 AAGCTGATGTACTGTTGGTCC
1 AAGCTAATGTACTGTCAGTCC
10868627 AAGCTAATGTACTGTCAGTCC
1 AAGCTAATGTACTGTCAGTCC
10868648 AA
1 AA
10868650 TCAATCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
AAGCTAATGTACTGTCAGTCC
Found at i:10870168 original size:83 final size:83
Alignment explanation
Indices: 10870041--10870208 Score: 264
Period size: 83 Copynumber: 2.0 Consensus size: 83
10870031 GAGTGGGGTA
*
10870041 GGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATTATACAT
1 GGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATCATACAT
* *
10870106 CCATAGTGAAGTGGAGCG
66 CCATAATGAAGTAGAGCG
* * * *
10870124 GGGTGGGGTGAGAATGGATGCACGAACATCCCATGGAGGTGATAATGATTTTCAAAATCATACAT
1 GGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATCATACAT
*
10870189 CTATAATGAAGTAGAGCG
66 CCATAATGAAGTAGAGCG
10870207 GG
1 GG
10870209 TTGAGGTGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (83 bp):
GGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATCATACAT
CCATAATGAAGTAGAGCG
Found at i:10878659 original size:42 final size:41
Alignment explanation
Indices: 10878600--10878702 Score: 152
Period size: 42 Copynumber: 2.5 Consensus size: 41
10878590 GAGACATTAA
* *
10878600 ATTGGTGGATGGTGTTGTAGTGGGATCCATAGGAGTGGGAAG
1 ATTGGTGGGTGGTGTTGT-GTGGGATCCATAGGAGTAGGAAG
*
10878642 ATTGGTGGGTGGTGTTGTGATGGGGTCCATAGGAGTAGGAAG
1 ATTGGTGGGTGGTGTTGTG-TGGGATCCATAGGAGTAGGAAG
*
10878684 ATTGGTAGGTGGTGTTGTG
1 ATTGGTGGGTGGTGTTGTG
10878703 GTGTGACCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.18, C:0.04, G:0.47, T:0.31
Consensus pattern (41 bp):
ATTGGTGGGTGGTGTTGTGTGGGATCCATAGGAGTAGGAAG
Found at i:10878714 original size:42 final size:41
Alignment explanation
Indices: 10878600--10878715 Score: 151
Period size: 42 Copynumber: 2.8 Consensus size: 41
10878590 GAGACATTAA
* *
10878600 ATTGGTGGATGGTGTTGTAGTGGGATCCATAGGAGTGGGAAG
1 ATTGGTGG-TGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
* *
10878642 ATTGGTGGGTGGTGTTGTGATGGGGTCCATAGGAGTAGGAAG
1 ATTGGT-GGTGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
* *
10878684 ATTGGTAGGTGGTGTTGTGGTGTGACCCATAG
1 ATTGGT-GGTGGTGTTGTGGTGGGATCCATAG
10878716 AGATAGAAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 62 0.97
43 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.45, T:0.30
Consensus pattern (41 bp):
ATTGGTGGTGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
Found at i:10883820 original size:16 final size:17
Alignment explanation
Indices: 10883787--10883821 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10883777 CTTCTAGGAT
*
10883787 AAAAATATTTTTAGAAC
1 AAAAATATTCTTAGAAC
10883804 AAAAATATTCTTA-AAC
1 AAAAATATTCTTAGAAC
10883820 AA
1 AA
10883822 TCTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAAATATTCTTAGAAC
Found at i:10884637 original size:22 final size:21
Alignment explanation
Indices: 10884612--10884652 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10884602 TCTTCTTCTT
10884612 CTTTGAATCCTCTGCTTTCTAG
1 CTTTGAATCCTCTG-TTTCTAG
**
10884634 CTTTGTTTCCTCTGTTTCT
1 CTTTGAATCCTCTGTTTCT
10884653 TCTTCGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.07, C:0.27, G:0.12, T:0.54
Consensus pattern (21 bp):
CTTTGAATCCTCTGTTTCTAG
Found at i:10897875 original size:47 final size:47
Alignment explanation
Indices: 10897777--10897875 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
10897767 AAAATTTTAA
* * *
10897777 AAAATGGAAAAATATTTTTTAAAAATAAAATAAAATAAACATTACTTT
1 AAAATGGAAAAAAACTTTTAAAAAATAAAATAAAATAAACATTA-TTT
*
10897825 AAAAT-GAAAAAAACTTTTAAAATAATAAAATAAATTTAAACATT-TTT
1 AAAATGGAAAAAAACTTTTAAAA-AATAAAATAAA-ATAAACATTATTT
10897872 AAAA
1 AAAA
10897876 AGTACATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
47 21 0.47
48 16 0.36
49 8 0.18
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (47 bp):
AAAATGGAAAAAAACTTTTAAAAAATAAAATAAAATAAACATTATTT
Found at i:10902123 original size:14 final size:14
Alignment explanation
Indices: 10902106--10902132 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10902096 AAAATAAACC
10902106 GTACAAAAGAACAT
1 GTACAAAAGAACAT
10902120 GTACAAAAGAACA
1 GTACAAAAGAACA
10902133 GTGACTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (14 bp):
GTACAAAAGAACAT
Found at i:10914557 original size:46 final size:46
Alignment explanation
Indices: 10914457--10914730 Score: 379
Period size: 46 Copynumber: 5.9 Consensus size: 46
10914447 GAACAGCTGT
* * * * *
10914457 AACAACATTCAGACAACATTGATTTG-TACAAGAATAGACAGCATTTA
1 AACAACATTCAGACAGCA-TAATATGCTA-AAAAATGGACAGCATTTA
* *
10914504 AATAACATTCAGACAACATAATATGCTAAAAAATGGACAGCATTTA
1 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
10914550 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
1 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
* * *
10914596 AACATCATTCGGACAGCATAATATCCTAAAAAATGGACAGCATTTA
1 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
* * *
10914642 AACAACATTCGGACAGCATAATATCCTAAAAAATGGACATCATTTA
1 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
* * *
10914688 AACATCATTCGGACAGCATAATGTGCTAAAAAATGGACAGCAT
1 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCAT
10914731 AATATCCTAA
Statistics
Matches: 210, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
46 191 0.91
47 19 0.09
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (46 bp):
AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
Found at i:10914765 original size:114 final size:115
Alignment explanation
Indices: 10914606--10914844 Score: 417
Period size: 114 Copynumber: 2.1 Consensus size: 115
10914596 AACATCATTC
*
10914606 GGACAGCATAATATCCTAAAAAATGGACAGCATTTAAACAACATTCGGACAGCATAATATCCTAA
1 GGACAGCATAATATCCTAAAAAATGGACAGCA-TTAAACAACATTCAGACAGCATAATATCCTAA
* * *
10914671 AAAATGGACATCATTTAAACATCATTCGGACAGCATAATGTGCTAAAAAAT
65 AAAATGGACATCATTTAAACATCATTCGGACAGCATAATATACCAAAAAAT
10914722 GGACAGCATAATATCCTAAAAAATGGACAGC-TTAAACAACATTCAGACAGCATAATATCCTAAA
1 GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCAGACAGCATAATATCCTAAA
*
10914786 AAATGGACATCATTTAAACATCATTCGGATAGCATAATATACCAAAAAAT
66 AAATGGACATCATTTAAACATCATTCGGACAGCATAATATACCAAAAAAT
10914836 GGACAGCAT
1 GGACAGCAT
10914845 TTTGTTATCA
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
114 87 0.74
116 31 0.26
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (115 bp):
GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCAGACAGCATAATATCCTAAA
AAATGGACATCATTTAAACATCATTCGGACAGCATAATATACCAAAAAAT
Found at i:10914786 original size:68 final size:69
Alignment explanation
Indices: 10914652--10914794 Score: 225
Period size: 68 Copynumber: 2.1 Consensus size: 69
10914642 AACAACATTC
* * * * *
10914652 GGACAGCATAATATCCTAAAAAATGGACATCATTTAAACATCATTCGGACAGCATAATGTGCTAA
1 GGACAGCATAATATCCTAAAAAATGGACAGCA-TTAAACAACATTCAGACAGCATAATATCCTAA
10914717 AAAAT
65 AAAAT
10914722 GGACAGCATAATATCCTAAAAAATGGACAGC-TTAAACAACATTCAGACAGCATAATATCCTAAA
1 GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCAGACAGCATAATATCCTAAA
10914786 AAAT
66 AAAT
10914790 GGACA
1 GGACA
10914795 TCATTTAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
68 38 0.56
70 30 0.44
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (69 bp):
GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCAGACAGCATAATATCCTAAA
AAAT
Found at i:10914820 original size:46 final size:46
Alignment explanation
Indices: 10914723--10914846 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
10914713 CTAAAAAATG
10914723 GACAGCATAATATCCTAAAAAATGGACAGC--TTAAACAACATTCA
1 GACAGCATAATATCCTAAAAAATGGACAGCATTTAAACAACATTCA
* * *
10914767 GACAGCATAATATCCTAAAAAATGGACATCATTTAAACATCATTCG
1 GACAGCATAATATCCTAAAAAATGGACAGCATTTAAACAACATTCA
*
10914813 GATAGCATAATATACC-AAAAAATGGACAGCATTT
1 GACAGCATAATAT-CCTAAAAAATGGACAGCATTT
10914847 TGTTATCACG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 29 0.40
46 41 0.57
47 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (46 bp):
GACAGCATAATATCCTAAAAAATGGACAGCATTTAAACAACATTCA
Found at i:10915562 original size:42 final size:43
Alignment explanation
Indices: 10915452--10915574 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
10915442 AAAGCTTGTA
* * * *
10915452 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
* * * *
10915495 CAATGCCATTGTCCCAGATAGGGTCTTACACGAAATCATATA-
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
*
10915537 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATC
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-AAATC
10915575 TCAAATCGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.42
43 39 0.58
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
Found at i:10920226 original size:3 final size:3
Alignment explanation
Indices: 10920213--10920252 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
10920203 TATATGTATC
*
10920213 ATA AAA ATA ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
10920253 TGAACTTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10931250 original size:9 final size:9
Alignment explanation
Indices: 10931238--10931263 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10931228 AAATCTTTTC
10931238 TTTCTTTAT
1 TTTCTTTAT
10931247 TTTCTTTAT
1 TTTCTTTAT
10931256 TTTCTTTA
1 TTTCTTTA
10931264 CTTTAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCTTTAT
Found at i:10945518 original size:28 final size:28
Alignment explanation
Indices: 10945479--10945540 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
10945469 TAGCCCAACC
10945479 TAAGG-GACTGCTAGAAGATGTGTTAGT
1 TAAGGTGACTGCTAGAAGATGTGTTAGT
10945506 TAAGGTGACTGCTAGAAGATGTGTTAGT
1 TAAGGTGACTGCTAGAAGATGTGTTAGT
10945534 TAAGGTG
1 TAAGGTG
10945541 CATAGTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.15
28 29 0.85
ACGTcount: A:0.29, C:0.06, G:0.34, T:0.31
Consensus pattern (28 bp):
TAAGGTGACTGCTAGAAGATGTGTTAGT
Found at i:10946057 original size:56 final size:56
Alignment explanation
Indices: 10945971--10946084 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
10945961 CAAAACTTTA
10945971 AATACAATTTTCATTTATATTATTGTACATTCAACTAACCATGTAGTTTAGATTCT
1 AATACAATTTTCATTTATATTATTGTACATTCAACTAACCATGTAGTTTAGATTCT
10946027 AATACAATTTTCATTTATATTATTGTACATTCAACTAACCATGTAGTTTAGATTCT
1 AATACAATTTTCATTTATATTATTGTACATTCAACTAACCATGTAGTTTAGATTCT
10946083 AA
1 AA
10946085 CTTATATTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (56 bp):
AATACAATTTTCATTTATATTATTGTACATTCAACTAACCATGTAGTTTAGATTCT
Found at i:10955310 original size:25 final size:25
Alignment explanation
Indices: 10955267--10955321 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10955257 GAGCCATCAT
* *
10955267 TGGGTAGCTCCGAAGAGCCATTTATC
1 TGGG-AGCTCCAAAGAGCCATATATC
*
10955293 TGGGAGCTCCAAATAGCCATATATC
1 TGGGAGCTCCAAAGAGCCATATATC
10955318 -GGGA
1 TGGGA
10955322 AGTTCAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (25 bp):
TGGGAGCTCCAAAGAGCCATATATC
Found at i:10955856 original size:21 final size:21
Alignment explanation
Indices: 10955831--10955874 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10955821 TAAATTTAAC
* * *
10955831 TTAATTTAATGAAATTCATAT
1 TTAATTCAATCAAATTCAAAT
10955852 TTAATTCAATCAAATTCAAAT
1 TTAATTCAATCAAATTCAAAT
10955873 TT
1 TT
10955875 TAGGCGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAATTCAATCAAATTCAAAT
Found at i:10965519 original size:9 final size:9
Alignment explanation
Indices: 10965495--10965531 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
10965485 TGAGTTTTCG
10965495 AATTCGAAT
1 AATTCGAAT
* *
10965504 AACTCGATT
1 AATTCGAAT
10965513 AATTCGAAT
1 AATTCGAAT
10965522 AATTCGAAT
1 AATTCGAAT
10965531 A
1 A
10965532 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10966575 original size:27 final size:27
Alignment explanation
Indices: 10966544--10966618 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
10966534 CTGCATCGAG
*
10966544 ACCCCCATAGGGTAAAATGATCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
*
10966571 ACCCCCATAGGGTAAAATGGCCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
*
10966598 ACCCCCATAGTGTAAAATGAC
1 ACCCCCATAGGGTAAAATGAC
10966619 TGTTATACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (27 bp):
ACCCCCATAGGGTAAAATGACCGAAAT
Found at i:10966626 original size:27 final size:27
Alignment explanation
Indices: 10966544--10966629 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
10966534 CTGCATCGAG
10966544 ACCCCCATAGGGTAAAATGA-TCGAAAT
1 ACCCCCATAGGGTAAAATGACT-GAAAT
* *
10966571 ACCCCCATAGGGTAAAATGGCCGAAAT
1 ACCCCCATAGGGTAAAATGACTGAAAT
* **
10966598 ACCCCCATAGTGTAAAATGACTGTTAT
1 ACCCCCATAGGGTAAAATGACTGAAAT
10966625 ACCCC
1 ACCCC
10966630 TAGGAGATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (27 bp):
ACCCCCATAGGGTAAAATGACTGAAAT
Found at i:10967070 original size:54 final size:54
Alignment explanation
Indices: 10967001--10967222 Score: 317
Period size: 54 Copynumber: 4.1 Consensus size: 54
10966991 GGCGGTCAAT
10967001 AAATGATCGAAATACCCGC-ATAGGGTAAAATGA-CAGAAATACCCCTATAGGGTA
1 AAATGATCGAAATACCC-CTATAGGGTAAAATGACCA-AAATACCCCTATAGGGTA
* *
10967055 AAATGATCGAGATACCCCTATAGGGTAAAATGATCAAAATA-CCCTCATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCT-ATAGGGTA
*
10967109 AAATGAT-GAAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAAGGTA
1 AAATGATCG-AAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAGGGTA
* * * *
10967163 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAACACCCCCATAGGGTA
1 AAATGATCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAGGGTA
10967217 AAATGA
1 AAATGA
10967223 CTGTTATACC
Statistics
Matches: 153, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
53 6 0.04
54 140 0.92
55 7 0.05
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (54 bp):
AAATGATCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAGGGTA
Found at i:10967136 original size:81 final size:80
Alignment explanation
Indices: 10967001--10967223 Score: 320
Period size: 81 Copynumber: 2.8 Consensus size: 80
10966991 GGCGGTCAAT
* * * *
10967001 AAATGATCGAAATACCCGCATAGGGTAAAATGACAGAAATACCCCTATAGGGTAAAATGATCGAG
1 AAATGATCGAAATACCCCCATAGGGTAAAATGACA-AAATACCCCTATAGGGTAAAATGACCAAA
*
10967066 ATACCCCTATAGGGTA
65 ATACCCCTATAAGGTA
* * *
10967082 AAATGATCAAAATACCCTCATAGGGTAAAATGATGAAAATACCCCTATAGGGTAAAATGACCAAA
1 AAATGATCGAAATACCCCCATAGGGTAAAATGA-CAAAATACCCCTATAGGGTAAAATGACCAAA
10967147 ATACCCCTATAAGGTA
65 ATACCCCTATAAGGTA
* * *
10967163 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAACACCCCCATAGGGTAAAATGAC
1 AAATGATCGAAATACCCCCATAGGGTAAAATGA-CAAAATACCCCTATAGGGTAAAATGAC
10967224 TGTTATACCT
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 126 0.99
82 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.18
Consensus pattern (80 bp):
AAATGATCGAAATACCCCCATAGGGTAAAATGACAAAATACCCCTATAGGGTAAAATGACCAAAA
TACCCCTATAAGGTA
Found at i:10967223 original size:27 final size:27
Alignment explanation
Indices: 10967001--10967223 Score: 277
Period size: 27 Copynumber: 8.3 Consensus size: 27
10966991 GGCGGTCAAT
* * *
10967001 AAATGATCGAAATACCCGCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
10967028 AAATGA-CAGAAATACCCCTATAGGGTA
1 AAATGACCA-AAATACCCCCATAGGGTA
* * * *
10967055 AAATGATCGAGATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
10967082 AAATGATCAAAATACCCTCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
** *
10967109 AAATGATGAAAATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
10967136 AAATGACCAAAATACCCCTATAAGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
10967163 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
10967190 AAATGACCAAAACACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
10967217 AAATGAC
1 AAATGAC
10967224 TGTTATACCT
Statistics
Matches: 174, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 172 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCCCATAGGGTA
Found at i:10967630 original size:28 final size:28
Alignment explanation
Indices: 10967586--10967729 Score: 173
Period size: 28 Copynumber: 5.2 Consensus size: 28
10967576 ATGGCATTGT
10967586 ACTATTACTGTATTGGGCTAAGGCCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
* *
10967614 ACTATTACTGTACTGGGATAAGGCCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
* *
10967642 ACTATTACTTTATTAGGCTAAGGCCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
* * * **
10967670 ACTATTAATTTATTGGGCTAAAGTTCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
* **
10967698 ACTGTTACTGTATCAGGC-AAGGCCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
10967725 ACTAT
1 ACTAT
10967730 ATTGATGCTG
Statistics
Matches: 96, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 10 0.10
28 86 0.90
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTATTACTGTATTGGGCTAAGGCCCAC
Found at i:10968377 original size:21 final size:21
Alignment explanation
Indices: 10968335--10968379 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10968325 AATTTAACTC
* * **
10968335 AATTTAATGAAATTCATTTTT
1 AATTCAATCAAATTCACATTT
10968356 AATTCAATCAAATTCACATTT
1 AATTCAATCAAATTCACATTT
10968377 AAT
1 AAT
10968380 CCTTATTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTCAATCAAATTCACATTT
Found at i:10968389 original size:11 final size:11
Alignment explanation
Indices: 10968373--10968397 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10968363 TCAAATTCAC
10968373 ATTTAATCCTT
1 ATTTAATCCTT
10968384 ATTTAATCCTT
1 ATTTAATCCTT
10968395 ATT
1 ATT
10968398 CCAAGCCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTAATCCTT
Found at i:10971679 original size:109 final size:109
Alignment explanation
Indices: 10971488--10971712 Score: 335
Period size: 109 Copynumber: 2.1 Consensus size: 109
10971478 TTATACATAA
** * *
10971488 ATTCATGTATCATGAGCTGGGAATTTGATTTACACATTTCGAAGGCTACACCATGAACATTCATA
1 ATTCATGTATCATGAGCTGCCAATTCGATTAACACATTTCGAAGGCTACACCATGAACATTCATA
* *
10971553 CAGGCATATCTTGCCATGGGTTTTAACCACATGGTCTTACACAC
66 CAGACATATCTTGCCATGGGTCTTAACCACATGGTCTTACACAC
* *
10971597 ATTCATGTATCATGATCTTCCAATTCGATTAACACAGTTT-GAAGGCTACACCATGAACATTCAT
1 ATTCATGTATCATGAGCTGCCAATTCGATTAACACA-TTTCGAAGGCTACACCATGAACATTCAT
* * *
10971661 ACAGACATATCTTTCCATGGGTCTTGACCACATGGTCTTGCACAC
65 ACAGACATATCTTGCCATGGGTCTTAACCACATGGTCTTACACAC
10971706 ATTCATG
1 ATTCATG
10971713 AATTGTGATA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 101 0.97
110 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (109 bp):
ATTCATGTATCATGAGCTGCCAATTCGATTAACACATTTCGAAGGCTACACCATGAACATTCATA
CAGACATATCTTGCCATGGGTCTTAACCACATGGTCTTACACAC
Found at i:10974261 original size:27 final size:27
Alignment explanation
Indices: 10974214--10974276 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
10974204 CCACGAGGGG
10974214 TATTCTTTCAGAGATTGCCACGAAA-GC
1 TATTCTTTCAGAGATTGCCAC-AAAGGC
* * *
10974241 TATTCTTTCATA-ATTTTCCACAAAGGT
1 TATTCTTTCAGAGA-TTGCCACAAAGGC
10974268 TATTCTTTC
1 TATTCTTTC
10974277 CTTTCGTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (27 bp):
TATTCTTTCAGAGATTGCCACAAAGGC
Found at i:10983572 original size:17 final size:18
Alignment explanation
Indices: 10983552--10983586 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10983542 AAATAACCTC
10983552 AATACCAT-AATATGCAA
1 AATACCATGAATATGCAA
*
10983569 AATATCATGAATATGCAA
1 AATACCATGAATATGCAA
10983587 CAACTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (18 bp):
AATACCATGAATATGCAA
Found at i:10984368 original size:23 final size:23
Alignment explanation
Indices: 10984338--10984384 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10984328 AATTACCCTT
10984338 AATGGAACTCATTATCAGAGCCC
1 AATGGAACTCATTATCAGAGCCC
10984361 AATGGAACTCATTATCAGAGCCC
1 AATGGAACTCATTATCAGAGCCC
10984384 A
1 A
10984385 CTAACTCCTA
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:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (23 bp):
AATGGAACTCATTATCAGAGCCC
Found at i:10987068 original size:42 final size:42
Alignment explanation
Indices: 10987009--10987111 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
10986999 CAATGCCAAC
* * *
10987009 GTCCCAGAC-GTGGTCTTACATGTAATC-AATATCGATGTC-ATT
1 GTCCCAGACAG-GGTCTTACACGAAATCAAATAT-GATATCGA-T
10987051 GTCCCAGACAGGGTCTTACACGAAATCAAATATGATATCGAT
1 GTCCCAGACAGGGTCTTACACGAAATCAAATATGATATCGAT
*
10987093 GTCCCAGACATGGTCTTAC
1 GTCCCAGACAGGGTCTTAC
10987112 GCATAAATCT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
42 47 0.87
43 7 0.13
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCAAATATGATATCGAT
Found at i:10992878 original size:18 final size:21
Alignment explanation
Indices: 10992836--10992884 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
10992826 TTACATTTCA
*
10992836 TTTAATTTTGTTTATGAATTC
1 TTTAATTTTGTATATGAATTC
10992857 TTTAATTTT-TATA-GAATT-
1 TTTAATTTTGTATATGAATTC
10992875 TTTAGATTTT
1 TTTA-ATTTT
10992885 AAAAAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 10 0.38
20 3 0.12
21 9 0.35
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (21 bp):
TTTAATTTTGTATATGAATTC
Found at i:11009603 original size:20 final size:20
Alignment explanation
Indices: 11009574--11009611 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11009564 ATATTTGAAG
*
11009574 TATAAAAAATTATTAAAAAC
1 TATAAAAAATTAATAAAAAC
*
11009594 TATAAGAAATTAATAAAA
1 TATAAAAAATTAATAAAA
11009612 TATGATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
TATAAAAAATTAATAAAAAC
Found at i:11010223 original size:20 final size:20
Alignment explanation
Indices: 11010194--11010232 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11010184 ATATTTGAAG
11010194 TATAAAAAATTATTAAAAAC
1 TATAAAAAATTATTAAAAAC
*
11010214 TATAAGAAATTATTAAAAA
1 TATAAAAAATTATTAAAAA
11010233 TTCTGTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
TATAAAAAATTATTAAAAAC
Found at i:11012779 original size:18 final size:18
Alignment explanation
Indices: 11012747--11012783 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11012737 AAATAATATT
11012747 TTGGGCTTGGGAAAAATTA
1 TTGGGCTT-GGAAAAATTA
11012766 TTGGG-TTGGAAAAATTA
1 TTGGGCTTGGAAAAATTA
11012783 T
1 T
11012784 ATGAGTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 2 0.11
19 5 0.28
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (18 bp):
TTGGGCTTGGAAAAATTA
Found at i:11012791 original size:18 final size:17
Alignment explanation
Indices: 11012756--11012792 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
11012746 TTTGGGCTTG
*
11012756 GGAAAAATTATTGGGTT
1 GGAAAAATTATTGAGTT
11012773 GGAAAAATTATATGAGTT
1 GGAAAAATTAT-TGAGTT
11012791 GG
1 GG
11012793 TTTGAGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.32
Consensus pattern (17 bp):
GGAAAAATTATTGAGTT
Found at i:11017107 original size:57 final size:57
Alignment explanation
Indices: 11017046--11017346 Score: 300
Period size: 57 Copynumber: 5.3 Consensus size: 57
11017036 TAAAATAACT
* * * * * *
11017046 TTCCACATATAAGATAATATTGACGGATTTCCTACATATAAGATAGTCCTGGTGGAC
1 TTCCACATTTACGATAGTCTTGACGGACTTCCTACATATAAGATAGTCCTGGCGGAC
* * * * * *
11017103 TTCCACATATACGATAGTCTTGGCGGACTT-CTCGCATAAAAGATAGTCTTGGCGAAC
1 TTCCACATTTACGATAGTCTTGACGGACTTCCT-ACATATAAGATAGTCCTGGCGGAC
* * * *
11017160 TTCCACATTTACGATAGTCCTGATGGACTT-CTAACATATAAGATAGTCCTCGCAGAC
1 TTCCACATTTACGATAGTCTTGACGGACTTCCT-ACATATAAGATAGTCCTGGCGGAC
* ** * * *
11017217 TTCCACATTTACGATAGTGTTGACAAACTTCCTATATATAAGATAGTCCTAGTGGAC
1 TTCCACATTTACGATAGTCTTGACGGACTTCCTACATATAAGATAGTCCTGGCGGAC
* * * ** * * *
11017274 TTCCACATTTATGATAGCCCTGACGGGTTTCCCACATATAAGATAGTCTTGGCGAAC
1 TTCCACATTTACGATAGTCTTGACGGACTTCCTACATATAAGATAGTCCTGGCGGAC
11017331 TTCCACATTTACGATA
1 TTCCACATTTACGATA
11017347 ATGCCATGAC
Statistics
Matches: 197, Mismatches: 45, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
56 2 0.01
57 193 0.98
58 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (57 bp):
TTCCACATTTACGATAGTCTTGACGGACTTCCTACATATAAGATAGTCCTGGCGGAC
Found at i:11030560 original size:20 final size:20
Alignment explanation
Indices: 11030535--11030574 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11030525 AATATTTTCC
*
11030535 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11030555 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
11030575 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11030576 original size:34 final size:35
Alignment explanation
Indices: 11030523--11030589 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11030513 CAAACACCAG
*
11030523 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
11030558 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11030590 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11032209 original size:21 final size:21
Alignment explanation
Indices: 11032183--11032223 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11032173 GAATTACAAA
11032183 AAAAAAATCAAAATAATTTTC
1 AAAAAAATCAAAATAATTTTC
*
11032204 AAAAAATTCAAAATAATTTT
1 AAAAAAATCAAAATAATTTT
11032224 TAAATCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAAATCAAAATAATTTTC
Found at i:11032265 original size:39 final size:38
Alignment explanation
Indices: 11032187--11032266 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
11032177 TACAAAAAAA
*
11032187 AAATCAAAATAATTTTCAAAAAATTCAAAATAATTTTT
1 AAATCAAAATAATTTTCAAAAAATTCAAAATAATATTT
*
11032225 AAATCTAAAAT-ATTTAT-AAAAAATTCAAAACTTATATTT
1 AAATC-AAAATAATTT-TCAAAAAATTCAAAA-TAATATTT
11032264 AAA
1 AAA
11032267 AAATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
38 22 0.59
39 15 0.41
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (38 bp):
AAATCAAAATAATTTTCAAAAAATTCAAAATAATATTT
Found at i:11036840 original size:19 final size:19
Alignment explanation
Indices: 11036816--11036855 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11036806 TTTCGAGGAA
11036816 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
11036835 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
11036854 AT
1 AT
11036856 ATACAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGCAATCTTAGATATGAT
Found at i:11036862 original size:21 final size:19
Alignment explanation
Indices: 11036819--11036868 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
11036809 CGAGGAAATG
*
11036819 CAATCTTAGATATGATATG
1 CAATCTTAGATATGATATA
11036838 CAATCTTAGATATGATATATA
1 CAATCTTAGATATG--ATATA
11036859 CAATCTTAGA
1 CAATCTTAGA
11036869 AGATATGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 14 0.50
21 14 0.50
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (19 bp):
CAATCTTAGATATGATATA
Found at i:11036873 original size:19 final size:19
Alignment explanation
Indices: 11036819--11036874 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
11036809 CGAGGAAATG
* *
11036819 CAATCTTAG-ATATGATATG
1 CAATCTTAGAAGAT-ATATA
11036838 CAATCTTAGATATGATATATA
1 CAATCTTAGA-A-GATATATA
11036859 CAATCTTAGAAGATAT
1 CAATCTTAGAAGATAT
11036875 GATTTTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 14 0.44
20 1 0.03
21 15 0.47
22 2 0.06
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
CAATCTTAGAAGATATATA
Found at i:11037092 original size:19 final size:21
Alignment explanation
Indices: 11037068--11037106 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
11037058 CTGTTTTCTT
*
11037068 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
11037087 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
11037107 TTTAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:11043957 original size:44 final size:44
Alignment explanation
Indices: 11043779--11043963 Score: 137
Period size: 44 Copynumber: 4.2 Consensus size: 44
11043769 AGGATCGTAG
* *
11043779 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAGGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACAA
* * * * *
11043823 ATCTTATTTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTA-TCTCCCTAAGCAGTAGT-GG-AGTAGATTGAAGACGA-CAA
** * * * * * *
11043867 GCCTTGTTTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTG-TAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-CGACAA
* *
11043911 ATCTTATCTCCCTAAGTAGTAGTGGAGAAGATTGAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACAA
11043955 ATCTTATCT
1 ATCTTATCT
11043964 TTCCAAGATA
Statistics
Matches: 103, Mismatches: 28, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
42 4 0.04
43 11 0.11
44 78 0.76
45 7 0.07
46 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACAA
Found at i:11045371 original size:132 final size:132
Alignment explanation
Indices: 11043733--11045319 Score: 2904
Period size: 132 Copynumber: 12.0 Consensus size: 132
11043723 ATGAAACACT
* * * * * * **
11043733 AAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
* * ** *
11043798 TAGTGGAGTAGATCGAGGACGACAAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11043863 CC
131 CC
* * * * * * * ** *
11043865 AAGCCTTGTTTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
* **
11043930 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11043995 CC
131 CC
* *
11043997 AAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAGATTGTAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044062 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044127 CC
131 CC
11044129 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044194 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044259 CC
131 CC
11044261 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044326 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044391 CC
131 CC
11044393 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044458 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044523 CC
131 CC
11044525 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044590 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044655 CC
131 CC
11044657 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044722 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044787 CC
131 CC
11044789 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044854 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11044919 CC
131 CC
11044921 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11044986 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11045051 CC
131 CC
11045053 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
11045118 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
11045183 CC
131 CC
11045185 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
1 AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
*
11045250 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
11045315 AC
131 CC
11045317 AAG
1 AAG
11045320 TCTTATCCTC
Statistics
Matches: 1427, Mismatches: 28, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 1427 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGGAGCAGCGGAGTAGGTTGAAGATTGCAGATTTTATCTTTCTAAGCAG
TAGTGGAGAAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:11045632 original size:19 final size:19
Alignment explanation
Indices: 11045604--11045667 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
11045594 AATTTTCGAG
*
11045604 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11045623 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11045642 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
11045663 GATAT
1 GATAT
11045668 ATACAATCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11045650 original size:21 final size:21
Alignment explanation
Indices: 11045605--11045680 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
11045595 ATTTTCGAGG
11045605 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
11045624 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
11045645 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
11045666 ATATACAATCTTAGA
1 ATATACAATCTTAGA
11045681 AGANNNNNNN
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:11057653 original size:7 final size:7
Alignment explanation
Indices: 11057634--11057677 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
11057624 ACTAACACAA
11057634 TTGTAATT
1 TTGTAA-T
11057642 TTGTAAT
1 TTGTAAT
11057649 TTGTAA-
1 TTGTAAT
11057655 TTGTAATT
1 TTGTAA-T
11057663 TTGTAAT
1 TTGTAAT
11057670 TTGTAAT
1 TTGTAAT
11057677 T
1 T
11057678 GTGATTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.18
7 16 0.47
8 12 0.35
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTGTAAT
Found at i:11057657 original size:21 final size:21
Alignment explanation
Indices: 11057632--11057685 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
11057622 CAACTAACAC
11057632 AATTGTAATTTTGTAATTTGT
1 AATTGTAATTTTGTAATTTGT
11057653 AATTGTAATTTTGTAATTTGT
1 AATTGTAATTTTGTAATTTGT
*
11057674 AATTGTGATTTT
1 AATTGTAATTTT
11057686 AGGAACTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
AATTGTAATTTTGTAATTTGT
Done.