Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 145 of 190
Found at i:23578002 original size:20 final size:20
Alignment explanation
Indices: 23577966--23578027 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
23577956 ATCCTAAACT
*
23577966 TAAAC-AAAACTCCAAACCC
1 TAAACTAAAACCCCAAACCC
** *
23577985 TAAACTAAAACCTTAAACAC
1 TAAACTAAAACCCCAAACCC
*
23578005 TAAGCTAAAACCCCAAACCC
1 TAAACTAAAACCCCAAACCC
23578025 TAA
1 TAA
23578028 CCAAACCCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 5 0.15
20 29 0.85
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.15
Consensus pattern (20 bp):
TAAACTAAAACCCCAAACCC
Found at i:23578049 original size:29 final size:29
Alignment explanation
Indices: 23578016--23578122 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
23578006 AAGCTAAAAC
23578016 CCCAAACCCTAACCAAACCCTAAATCAAT
1 CCCAAACCCTAACCAAACCCTAAATCAAT
* *
23578045 CCCAAACCCTAACCAAGCCCTAAACCAA-
1 CCCAAACCCTAACCAAACCCTAAATCAAT
** * * *
23578073 CTTAAAACCCTAAACTAATCCTAAATCAAAT
1 C-CCAAACCCTAACCAAACCCTAAATC-AAT
* *
23578104 CCTAAACGCTAACTCAAAC
1 CCCAAACCCTAAC-CAAAC
23578123 ATTAAATTGA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
28 1 0.02
29 44 0.75
30 10 0.17
31 4 0.07
ACGTcount: A:0.45, C:0.37, G:0.02, T:0.16
Consensus pattern (29 bp):
CCCAAACCCTAACCAAACCCTAAATCAAT
Found at i:23578069 original size:18 final size:18
Alignment explanation
Indices: 23578028--23578070 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23578018 CAAACCCTAA
* *
23578028 CCAAACCCTAAATCAATC
1 CCAAACCCTAAACCAAGC
23578046 CCAAACCCT-AACCAAGC
1 CCAAACCCTAAACCAAGC
23578063 CCTAAACC
1 CC-AAACC
23578071 AACTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
CCAAACCCTAAACCAAGC
Found at i:23578152 original size:13 final size:12
Alignment explanation
Indices: 23578134--23578180 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
23578124 TTAAATTGAA
23578134 CCTAAACCAAAGC
1 CCTAAACCAAA-C
23578147 CCTAAACCAAATC
1 CCTAAACCAAA-C
23578160 CC-AAATCCCAAAC
1 CCTAAA--CCAAAC
23578173 CCTAAACC
1 CCTAAACC
23578181 CATTCCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.17
13 17 0.57
14 8 0.27
ACGTcount: A:0.45, C:0.43, G:0.02, T:0.11
Consensus pattern (12 bp):
CCTAAACCAAAC
Found at i:23583692 original size:18 final size:19
Alignment explanation
Indices: 23583671--23583710 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
23583661 ATATTTTTTA
23583671 ATTTTAT-AATATCAA-TTT
1 ATTTTATGAA-ATCAACTTT
23583689 ATTTTATGAAATCAACTTT
1 ATTTTATGAAATCAACTTT
23583708 ATT
1 ATT
23583711 AATTACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTATGAAATCAACTTT
Found at i:23584127 original size:21 final size:21
Alignment explanation
Indices: 23584068--23584128 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
23584058 TACTTTTTAT
*
23584068 TTATAATAATA-ATTTTTATG
1 TTATAATAATATATTTTTACG
* *
23584088 TTA-CA-AATTTAATTATTTACG
1 TTATAATAATAT-ATT-TTTACG
23584109 TTATAATAATATATTTTTAC
1 TTATAATAATATATTTTTAC
23584129 ATATGTTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
18 3 0.10
19 1 0.03
20 6 0.19
21 13 0.42
22 4 0.13
23 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (21 bp):
TTATAATAATATATTTTTACG
Found at i:23584494 original size:66 final size:65
Alignment explanation
Indices: 23584384--23584518 Score: 209
Period size: 66 Copynumber: 2.1 Consensus size: 65
23584374 TTATCACAAC
*
23584384 TCTTCTTAGGGTATTACTATAGTTCTAACCTATTTTACACCAAATGATACTAATTTTATAACTAT
1 TCTTCTTAGGGTATTACTATAGTTCTAACCTATTTTACACCAAATGATACTAATTTTACAACTAT
* * *
23584449 TCTTCTTTAGGGTGTTA-TAATAGTTCTAACCTATTTTACATCAAATGATATTAATTTTACAACT
1 TCTTC-TTAGGGTATTACT-ATAGTTCTAACCTATTTTACACCAAATGATACTAATTTTACAACT
23584513 AT
64 AT
23584515 TCTT
1 TCTT
23584519 ACATTTTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 6 0.09
66 58 0.91
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (65 bp):
TCTTCTTAGGGTATTACTATAGTTCTAACCTATTTTACACCAAATGATACTAATTTTACAACTAT
Found at i:23585939 original size:215 final size:217
Alignment explanation
Indices: 23585713--23586120 Score: 479
Period size: 218 Copynumber: 1.9 Consensus size: 217
23585703 ATTTGACACC
* * *
23585713 AAATGATACCAATTTTACAATTATTCTCACCT-TTTTACATTAACACTT-ATTTTTTGATTGAAT
1 AAATAATACCAATTTTACAATTATTCTCA-CTGTTTTACATTAACACTTAACTTTTTAATT-AA-
* * * * * *
23585776 TATTTTTTTTATTCATAATACTAATTTTTTTATGTTACCAA-T-TTA-TTATATTTTAATAATAT
63 T-TTTTTTTAATTCATAATAATAATTCTTGTATATTACCAACTATTATTTATATTCTAATAATAT
** * * *
23585838 CTTTTTACATTTGTTGTTACTTTTCATTACGTTTAGAATTATTA-CAATTTTTTTCTT-AAGGTG
127 CTTTTTACACATGTTGTTACCTTTCATTACATTTAGAAATATTATCAA-TTTTTTCTTAAAGGTG
23585901 TAACGATTCTTTTAACTATTTTGTATT
191 TAACGATTCTTTTAACTATTTTGTATT
** * * **
23585928 AAATAATACCAATTTTATGATTATTTTCACTGTTTTACGTTAACTTTTAACTTTTTAATTAATTT
1 AAATAATACCAATTTTACAATTATTCTCACTGTTTTACATTAACACTTAACTTTTTAATTAATTT
** * *
23585993 TTTTTAATTTGTAATAATAGTTCTTGTATATTGCCAACTTAATTATTTATATTCTAATAATATCT
66 TTTTTAATTCATAATAATAATTCTTGTATATTACCAAC-T-ATTATTTATATTCTAATAATATCT
*
23586058 TTTTACACATGTTGTTACCTTTCATTACATTTAGAAATATTATTAATTTTTTCTTAAAGGTGT
129 TTTTACACATGTTGTTACCTTTCATTACATTTAGAAATATTATCAATTTTTTCTTAAAGGTGT
23586121 TACAACATTT
Statistics
Matches: 159, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
213 30 0.19
214 3 0.02
215 41 0.26
216 9 0.06
217 3 0.02
218 64 0.40
219 9 0.06
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (217 bp):
AAATAATACCAATTTTACAATTATTCTCACTGTTTTACATTAACACTTAACTTTTTAATTAATTT
TTTTTAATTCATAATAATAATTCTTGTATATTACCAACTATTATTTATATTCTAATAATATCTTT
TTACACATGTTGTTACCTTTCATTACATTTAGAAATATTATCAATTTTTTCTTAAAGGTGTAACG
ATTCTTTTAACTATTTTGTATT
Found at i:23587450 original size:117 final size:116
Alignment explanation
Indices: 23587258--23587467 Score: 264
Period size: 116 Copynumber: 1.8 Consensus size: 116
23587248 CCATTCCTTG
* * * ** *
23587258 GGTGATCGATCCCCTATGTGGGGGGATCGATCCCTTTTTGTTGATTTTTAAACTCATTTTGCTTT
1 GGTGATCGATCCCCTATGTGGGGGAATCGATCCCTTTTTGTTGATTTTCAAACCCAAATTACTTT
* *
23587323 TTATGTAAAAAATAGATCAATCCCTTTAAGGGAAAGATTGATCTCATGCTTA
66 GTATG-AAAAAAAAGATCAATCCCTTTAAGGGAAAGATTGATCTCATGCTTA
*
23587375 GGTGATTGATCCCCTATGTGGGGGAATCGATCCC-TTTTG-TGCATTTTCAAACCCAAATTACAT
1 GGTGATCGATCCCCTATGTGGGGGAATCGATCCCTTTTTGTTG-ATTTTCAAACCCAAATTAC-T
* *
23587438 TCTGTAT-AAAAAAAAGATCGATCTCTTTAA
64 T-TGTATGAAAAAAAAGATCAATCCCTTTAA
23587468 TAGAAGGATC
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
115 2 0.03
116 39 0.49
117 34 0.43
118 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (116 bp):
GGTGATCGATCCCCTATGTGGGGGAATCGATCCCTTTTTGTTGATTTTCAAACCCAAATTACTTT
GTATGAAAAAAAAGATCAATCCCTTTAAGGGAAAGATTGATCTCATGCTTA
Found at i:23590007 original size:21 final size:22
Alignment explanation
Indices: 23589958--23590008 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
23589948 ACCTTAGACC
23589958 AATCGATC-GATTATGAAAGGG
1 AATCGATCAGATTATGAAAGGG
* *
23589979 AATTGATCAG-TTATGAAGGGG
1 AATCGATCAGATTATGAAAGGG
*
23590000 GATCGATCA
1 AATCGATCA
23590009 AAATCTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.25
Consensus pattern (22 bp):
AATCGATCAGATTATGAAAGGG
Found at i:23595909 original size:15 final size:15
Alignment explanation
Indices: 23595889--23595923 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23595879 GGGTTTAAGG
**
23595889 TTTAGGATTTTTGAT
1 TTTAGGATTTGAGAT
23595904 TTTAGGATTTGAGAT
1 TTTAGGATTTGAGAT
23595919 TTTAG
1 TTTAG
23595924 AACTTTGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (15 bp):
TTTAGGATTTGAGAT
Found at i:23596088 original size:3 final size:3
Alignment explanation
Indices: 23596080--23596172 Score: 134
Period size: 3 Copynumber: 31.3 Consensus size: 3
23596070 TTATGAAAAT
* * *
23596080 TTA TTA TTA TTA TTG TTA TCA AT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
23596127 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23596173 GCCTTTTTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
2 1 0.01
3 78 0.99
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23597743 original size:16 final size:16
Alignment explanation
Indices: 23597716--23597761 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
23597706 TGCCACCCCA
*
23597716 GTTTTCTATTTTTTTTT
1 GTTTT-TATTTTTTGTT
23597733 GTTTTTATTTTTTGTT
1 GTTTTTATTTTTTGTT
23597749 GTTTTTTATTTTT
1 G-TTTTTATTTTT
23597762 ATTAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.83
Consensus pattern (16 bp):
GTTTTTATTTTTTGTT
Found at i:23597744 original size:17 final size:17
Alignment explanation
Indices: 23597716--23597761 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
23597706 TGCCACCCCA
* *
23597716 GTTTTCTATTTTTTTTT
1 GTTTTTTATTTTTTGTT
23597733 G-TTTTTATTTTTTGTT
1 GTTTTTTATTTTTTGTT
23597749 GTTTTTTATTTTT
1 GTTTTTTATTTTT
23597762 ATTAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.83
Consensus pattern (17 bp):
GTTTTTTATTTTTTGTT
Found at i:23598127 original size:37 final size:36
Alignment explanation
Indices: 23598086--23598333 Score: 166
Period size: 37 Copynumber: 6.7 Consensus size: 36
23598076 TGATTGGGAC
*
23598086 AACACTGTAAGTCAATAAATAAAGAATCGATCGAGAT
1 AACACCGTAAGTCAA-AAATAAAGAATCGATCGAGAT
* * * * *
23598123 AACACTGCT-AGTCGAGAAATAAGAAAAT--AACGGGGAT
1 AACACCG-TAAGTC-AAAAATAA-AGAATCGATC-GAGAT
* * * *
23598160 AACACCATGAGTTAAGAAGTAAAGAATCGATCGAGAT
1 AACACCGTAAGTCAA-AAATAAAGAATCGATCGAGAT
*
23598197 AACACCGTAAGTCAAAAAGTAAGAAAAT-GA-CTGAGAT
1 AACACCGTAAGTCAAAAA-TAA-AGAATCGATC-GAGAT
** * *
23598234 AACACCGCGAGTCAAAAAATAAAGAATC-AACTAGGAT
1 AACACCGTAAGTC-AAAAATAAAGAATCGATCGA-GAT
* * * *
23598271 AACACCATAAATAAAAAAGTAAAGAATCGATCGAGAC
1 AACACCGTAAGTCAAAAA-TAAAGAATCGATCGAGAT
23598308 AACACCGTAAGTCAAATAATAAAGAA
1 AACACCGTAAGTCAAA-AATAAAGAA
23598334 AATGATTGGG
Statistics
Matches: 161, Mismatches: 32, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
36 22 0.14
37 117 0.73
38 22 0.14
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.17
Consensus pattern (36 bp):
AACACCGTAAGTCAAAAATAAAGAATCGATCGAGAT
Found at i:23598207 original size:111 final size:109
Alignment explanation
Indices: 23598083--23598333 Score: 299
Period size: 111 Copynumber: 2.3 Consensus size: 109
23598073 AAATGATTGG
* * * * *
23598083 GACAACACTGTAAGTCAATAAATAAAGAATCGA-TCGAGATAACACTGCTAGTCGAGAAATAAGA
1 GACAACACCGTAAGTCAA-AAATAAAGAAT-GACT-GAGATAACACCGCGAGTCAAAAAATAA-A
* * * * *
23598147 AAAT-AACGGGGATAACACCATGAGTTAAGAAGTAAAGAATCGATCGA
62 AAATCAACGAGGATAACACCATAAATAAAAAAGTAAAGAATCGATCGA
* * *
23598194 GATAACACCGTAAGTCAAAAAGTAAGAAAATGACTGAGATAACACCGCGAGTCAAAAAATAAAGA
1 GACAACACCGTAAGTCAAAAA-TAA-AGAATGACTGAGATAACACCGCGAGTCAAAAAATAAAAA
*
23598259 ATCAACTAGGATAACACCATAAATAAAAAAGTAAAGAATCGATCGA
64 ATCAACGAGGATAACACCATAAATAAAAAAGTAAAGAATCGATCGA
23598305 GACAACACCGTAAGTCAAATAATAAAGAA
1 GACAACACCGTAAGTCAAA-AATAAAGAA
23598334 AATGATTGGG
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
110 10 0.08
111 102 0.86
112 7 0.06
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (109 bp):
GACAACACCGTAAGTCAAAAATAAAGAATGACTGAGATAACACCGCGAGTCAAAAAATAAAAAAT
CAACGAGGATAACACCATAAATAAAAAAGTAAAGAATCGATCGA
Found at i:23598220 original size:74 final size:74
Alignment explanation
Indices: 23598095--23598292 Score: 204
Period size: 74 Copynumber: 2.7 Consensus size: 74
23598085 CAACACTGTA
* * * *
23598095 AGTCAATAAATAAAGAATCGATCGAGATAACACTGCT-AGTCGAGAAA-TAAGAAAATAACGGGG
1 AGTCAAAAAATAAAGAATCGATCGAGATAACACCG-TAAGTC-AAAAAGTAAGAAAATAACGGAG
*
23598158 ATAACACCATG
64 ATAACACCACG
* * * * *
23598169 AGTTAAGAAGTAAAGAATCGATCGAGATAACACCGTAAGTCAAAAAGTAAGAAAATGACTGAGAT
1 AGTCAAAAAATAAAGAATCGATCGAGATAACACCGTAAGTCAAAAAGTAAGAAAATAACGGAGAT
*
23598234 AACACCGCG
66 AACACCACG
* * * * *
23598243 AGTCAAAAAATAAAGAATC-AACTAGGATAACACCATAAATAAAAAAGTAA
1 AGTCAAAAAATAAAGAATCGATCGA-GATAACACCGTAAGTCAAAAAGTAA
23598293 AGAATCGATC
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
73 8 0.08
74 95 0.92
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.17
Consensus pattern (74 bp):
AGTCAAAAAATAAAGAATCGATCGAGATAACACCGTAAGTCAAAAAGTAAGAAAATAACGGAGAT
AACACCACG
Found at i:23598427 original size:22 final size:22
Alignment explanation
Indices: 23598399--23598449 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
23598389 GCAAGTCGAA
23598399 ATTATGCCCAAAGGTCTTAAAG
1 ATTATGCCCAAAGGTCTTAAAG
****
23598421 ATTATGCTTGGAGGTCTTAAAG
1 ATTATGCCCAAAGGTCTTAAAG
23598443 ATTATGC
1 ATTATGC
23598450 TTGGAGGTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (22 bp):
ATTATGCCCAAAGGTCTTAAAG
Found at i:23598450 original size:22 final size:22
Alignment explanation
Indices: 23598410--23598467 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
23598400 TTATGCCCAA
23598410 AGGTCTTAAAGATTATGCTTGG
1 AGGTCTTAAAGATTATGCTTGG
23598432 AGGTCTTAAAGATTATGCTTGG
1 AGGTCTTAAAGATTATGCTTGG
*
23598454 AGGTCTTAGAGATT
1 AGGTCTTAAAGATT
23598468 CGACCAGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (22 bp):
AGGTCTTAAAGATTATGCTTGG
Found at i:23598643 original size:22 final size:22
Alignment explanation
Indices: 23598615--23599266 Score: 199
Period size: 22 Copynumber: 29.0 Consensus size: 22
23598605 ACCGTAAGTC
23598615 GAAATTATGCCTGAAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
23598637 GAAATTATGTCC-GAAGGTCTTA
1 GAAATTATG-CCTGAAGGTCTTA
* * *
23598659 GAGATTATGCTTGGAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * * *
23598681 GAGATTGTGCTCAGAAGCT-TTA
1 GAAATTATGC-CTGAAGGTCTTA
* * * *
23598703 AAAATTATGCC-CAGATGTATTA
1 GAAATTATGCCTGA-AGGTCTTA
*
23598725 -AAGATTATGCCAT-AAAGTCTTA
1 GAA-ATTATGCC-TGAAGGTCTTA
* *
23598747 AAAATTATGCCCAGAA-GTCTTA
1 GAAATTATG-CCTGAAGGTCTTA
*
23598769 AAAATTATGCCT-AGAGGTCTTA
1 GAAATTATGCCTGA-AGGTCTTA
* *
23598791 GAAATTATGCCCGAAAGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * *
23598813 GAAATCATGCTTGAAAGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* ** *
23598835 GAGATTATGCCAAAAAGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * *
23598857 GAAATCATGCCGGGAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * *
23598879 AAAATCATGTCC-GAAGATCTTA
1 GAAATTATG-CCTGAAGGTCTTA
* * *** *
23598901 TAGAA-T-TGACCGGGACAACACCATAAGTC
1 GA-AATTATG-CC-TG--AAGGTC-T---TA
*
23598930 GAAATTATGCCT-AGAGGTTTTA
1 GAAATTATGCCTGA-AGGTCTTA
* ** * * ** *
23598952 CAAAATTTACTAGGATAACACCGTAAGTC
1 -GAAA-TTA-T-GCCTGA-A-GGT-CTTA
23598981 GAAATTATGCCTGAAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
*
23599003 GAAATTATGTCTGAAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * *
23599025 GAGATTATGCTTGGAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * * *
23599047 GAGATTGTGCTCAGAAGCT-TTA
1 GAAATTATGC-CTGAAGGTCTTA
* * * *
23599069 AAAATTATGCC-CAGATGTATTA
1 GAAATTATGCCTGA-AGGTCTTA
*
23599091 -AAGATTATGCCCT-AAAGTCTTA
1 GAA-ATTATG-CCTGAAGGTCTTA
* *
23599113 AAAATTATGTCCAGAA-GTCTTA
1 GAAATTATG-CCTGAAGGTCTTA
*
23599135 AAAATTATGCCT-AGAGGTCTTA
1 GAAATTATGCCTGA-AGGTCTTA
* *
23599157 GAAATTATGCCCGAAAGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* *
23599179 GAAATCATG-CTCGAAAGTCTTA
1 GAAATTATGCCT-GAAGGTCTTA
* ** *
23599201 GAGATTATGCCAAAAAGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * *
23599223 GAAATCATGCCGGGAGGTCTTA
1 GAAATTATGCCTGAAGGTCTTA
* * *
23599245 AAAATCATGTCC-GAAGATCTTA
1 GAAATTATG-CCTGAAGGTCTTA
23599267 TAGAATTGAC
Statistics
Matches: 476, Mismatches: 106, Indels: 96
0.70 0.16 0.14
Matches are distributed among these distances:
20 4 0.01
21 22 0.05
22 372 0.78
23 39 0.08
24 4 0.01
25 10 0.02
26 5 0.01
27 5 0.01
28 7 0.01
29 6 0.01
30 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (22 bp):
GAAATTATGCCTGAAGGTCTTA
Found at i:23599076 original size:366 final size:366
Alignment explanation
Indices: 23598549--23599299 Score: 1439
Period size: 366 Copynumber: 2.1 Consensus size: 366
23598539 AACAACCAGA
*
23598549 ACAACACCATGAGTCGAAATTATGCCCAGACGTTTTACAAAATTTACTAGGATAACACCGTAAGT
1 ACAACACCATAAGTCGAAATTATGCCCAGACGTTTTACAAAATTTACTAGGATAACACCGTAAGT
23598614 CGAAATTATGCCTGAAGGTCTTAGAAATTATGTCCGAAGGTCTTAGAGATTATGCTTGGAGGTCT
66 CGAAATTATGCCTGAAGGTCTTAGAAATTATGTCCGAAGGTCTTAGAGATTATGCTTGGAGGTCT
23598679 TAGAGATTGTGCTCAGAAGCTTTAAAAATTATGCCCAGATGTATTAAAGATTATGCCATAAAGTC
131 TAGAGATTGTGCTCAGAAGCTTTAAAAATTATGCCCAGATGTATTAAAGATTATGCCATAAAGTC
23598744 TTAAAAATTATGCCCAGAAGTCTTAAAAATTATGCCTAGAGGTCTTAGAAATTATGCCCGAAAGT
196 TTAAAAATTATGCCCAGAAGTCTTAAAAATTATGCCTAGAGGTCTTAGAAATTATGCCCGAAAGT
*
23598809 CTTAGAAATCATGCTTGAAAGTCTTAGAGATTATGCCAAAAAGTCTTAGAAATCATGCCGGGAGG
261 CTTAGAAATCATGCTCGAAAGTCTTAGAGATTATGCCAAAAAGTCTTAGAAATCATGCCGGGAGG
23598874 TCTTAAAAATCATGTCCGAAGATCTTATAGAATTGACCGGG
326 TCTTAAAAATCATGTCCGAAGATCTTATAGAATTGACCGGG
* *
23598915 ACAACACCATAAGTCGAAATTATGCCTAGAGGTTTTACAAAATTTACTAGGATAACACCGTAAGT
1 ACAACACCATAAGTCGAAATTATGCCCAGACGTTTTACAAAATTTACTAGGATAACACCGTAAGT
*
23598980 CGAAATTATGCCTGAAGGTCTTAGAAATTATGTCTGAAGGTCTTAGAGATTATGCTTGGAGGTCT
66 CGAAATTATGCCTGAAGGTCTTAGAAATTATGTCCGAAGGTCTTAGAGATTATGCTTGGAGGTCT
*
23599045 TAGAGATTGTGCTCAGAAGCTTTAAAAATTATGCCCAGATGTATTAAAGATTATGCCCTAAAGTC
131 TAGAGATTGTGCTCAGAAGCTTTAAAAATTATGCCCAGATGTATTAAAGATTATGCCATAAAGTC
*
23599110 TTAAAAATTATGTCCAGAAGTCTTAAAAATTATGCCTAGAGGTCTTAGAAATTATGCCCGAAAGT
196 TTAAAAATTATGCCCAGAAGTCTTAAAAATTATGCCTAGAGGTCTTAGAAATTATGCCCGAAAGT
23599175 CTTAGAAATCATGCTCGAAAGTCTTAGAGATTATGCCAAAAAGTCTTAGAAATCATGCCGGGAGG
261 CTTAGAAATCATGCTCGAAAGTCTTAGAGATTATGCCAAAAAGTCTTAGAAATCATGCCGGGAGG
23599240 TCTTAAAAATCATGTCCGAAGATCTTATAGAATTGACCGGG
326 TCTTAAAAATCATGTCCGAAGATCTTATAGAATTGACCGGG
23599281 ACAACACCATAAGTCGAAA
1 ACAACACCATAAGTCGAAA
23599300 AAGTAAAAAA
Statistics
Matches: 378, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
366 378 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (366 bp):
ACAACACCATAAGTCGAAATTATGCCCAGACGTTTTACAAAATTTACTAGGATAACACCGTAAGT
CGAAATTATGCCTGAAGGTCTTAGAAATTATGTCCGAAGGTCTTAGAGATTATGCTTGGAGGTCT
TAGAGATTGTGCTCAGAAGCTTTAAAAATTATGCCCAGATGTATTAAAGATTATGCCATAAAGTC
TTAAAAATTATGCCCAGAAGTCTTAAAAATTATGCCTAGAGGTCTTAGAAATTATGCCCGAAAGT
CTTAGAAATCATGCTCGAAAGTCTTAGAGATTATGCCAAAAAGTCTTAGAAATCATGCCGGGAGG
TCTTAAAAATCATGTCCGAAGATCTTATAGAATTGACCGGG
Found at i:23599776 original size:41 final size:41
Alignment explanation
Indices: 23599693--23599835 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 41
23599683 CTTTTACAAG
* * * *
23599693 TGTAAATGCAAGTGATGCAAATGCGAATGT--CTTTCTTGTGA
1 TGTAGATGCAAGTGATGCAAATGCAAATATCCCTTTC--ATGA
23599734 TGTAGATGCAAGTGATGCAAATGCAAATATCCCTTTCATGA
1 TGTAGATGCAAGTGATGCAAATGCAAATATCCCTTTCATGA
* * * * * *
23599775 TGCATAGGCAAGTTATGCAAATGCAAATATCCCTTTTAAGA
1 TGTAGATGCAAGTGATGCAAATGCAAATATCCCTTTCATGA
23599816 TGCATAGA--CAAGTGATGCAA
1 TG--TAGATGCAAGTGATGCAA
23599836 CTACAAATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
41 78 0.92
43 7 0.08
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (41 bp):
TGTAGATGCAAGTGATGCAAATGCAAATATCCCTTTCATGA
Found at i:23599843 original size:41 final size:41
Alignment explanation
Indices: 23599742--23599835 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
23599732 GATGTAGATG
* *
23599742 CAAGTGATGCAAATGCAAATATCCCTTTCATGATGCATAGG
1 CAAGTGATGCAAATGCAAATATCCCTTTCAAGATGCATAGA
* *
23599783 CAAGTTATGCAAATGCAAATATCCCTTTTAAGATGCATAGA
1 CAAGTGATGCAAATGCAAATATCCCTTTCAAGATGCATAGA
23599824 CAAGTGATGCAA
1 CAAGTGATGCAA
23599836 CTACAAATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (41 bp):
CAAGTGATGCAAATGCAAATATCCCTTTCAAGATGCATAGA
Found at i:23600350 original size:14 final size:13
Alignment explanation
Indices: 23600331--23600360 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
23600321 GACAAGCTGG
23600331 TTTTCCTCTTTTTT
1 TTTTCCT-TTTTTT
23600345 TTTTCCTTTTTTT
1 TTTTCCTTTTTTT
23600358 TTT
1 TTT
23600361 GTTTTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCCTTTTTTT
Found at i:23607300 original size:15 final size:16
Alignment explanation
Indices: 23607282--23607322 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
23607272 GTTTTTAGAA
23607282 TTTTGGATTTTTA-GG
1 TTTTGGATTTTTAGGG
23607297 TTTTGGA-TTTTAGGG
1 TTTTGGATTTTTAGGG
*
23607312 TTTGGGATTTT
1 TTTTGGATTTT
23607323 GGATTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 15 0.65
16 3 0.13
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (16 bp):
TTTTGGATTTTTAGGG
Found at i:23607480 original size:15 final size:14
Alignment explanation
Indices: 23607463--23607510 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23607453 GGATTTTTTA
23607463 TTTTAGGGTTTGGG
1 TTTTAGGGTTTGGG
* *
23607477 ATTTTAGAGTTTTGG
1 -TTTTAGGGTTTGGG
* *
23607492 TTTAAGGGTTAGGG
1 TTTTAGGGTTTGGG
23607506 TTTTA
1 TTTTA
23607511 TGGCTTAGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (14 bp):
TTTTAGGGTTTGGG
Found at i:23607662 original size:3 final size:3
Alignment explanation
Indices: 23607654--23607714 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
23607644 TTATGAAAAT
* *
23607654 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TCA AT- TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23607699 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
23607715 GCATTTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 5 0.10
3 46 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23607712 original size:14 final size:14
Alignment explanation
Indices: 23607653--23607712 Score: 75
Period size: 14 Copynumber: 4.1 Consensus size: 14
23607643 TTTATGAAAA
23607653 TTTATTATTATTAT
1 TTTATTATTATTAT
*
23607667 ATTATTATTATTAT
1 TTTATTATTATTAT
*
23607681 TATTATCAATTTATTAT
1 T-TTAT-TA-TTATTAT
23607698 TTTATTATTATTAT
1 TTTATTATTATTAT
23607712 T
1 T
23607713 ATGCATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 21 0.54
15 5 0.13
16 5 0.13
17 8 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:23607880 original size:21 final size:20
Alignment explanation
Indices: 23607840--23607886 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
23607830 CTTATTATCA
*
23607840 TTTTTT-AGATTATTATTAT
1 TTTTTTAAGATTATTAGTAT
*
23607859 TTTTTTAAGCATTTTTAGTAT
1 TTTTTTAAG-ATTATTAGTAT
23607880 TTTTTTA
1 TTTTTTA
23607887 TTTATTATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 16 0.67
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTTTTAAGATTATTAGTAT
Found at i:23607964 original size:22 final size:25
Alignment explanation
Indices: 23607934--23607983 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
23607924 AAAAACAATC
*
23607934 AAATATTTATTCT-AATAAAT-TTA
1 AAATATTTATCCTGAATAAATATTA
*
23607957 AAAT-TTTATCCTGCATAAATATTA
1 AAATATTTATCCTGAATAAATATTA
23607981 AAA
1 AAA
23607984 CAACTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 10 0.43
24 6 0.26
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATATTTATCCTGAATAAATATTA
Found at i:23609296 original size:16 final size:16
Alignment explanation
Indices: 23609269--23609308 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
23609259 CACCCCAGTC
*
23609269 TTCTATTTTTTTTTTGT
1 TTCTA-TTTTTTGTTGT
23609286 TTCTATTTTTTGTTGT
1 TTCTATTTTTTGTTGT
*
23609302 TTTTATT
1 TTCTATT
23609309 AATTATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (16 bp):
TTCTATTTTTTGTTGT
Found at i:23610804 original size:116 final size:116
Alignment explanation
Indices: 23610696--23610916 Score: 282
Period size: 116 Copynumber: 1.9 Consensus size: 116
23610686 AATTTATTTC
* * * ** *
23610696 TAGGATGATCAATCCCCTATGTAGGGGGATCGATCCCTTTTGTTAATTTTCAAACTCATTTTACT
1 TAGG-TGATCAATCCCCTATATAGGGGGATCGATCCCTTTTGTGAATTTTCAAACCCAGATTACA
*
23610761 TTTTGTGTAAAAAACAAATCGATCCCTTTAA-AGGAGGGATCAATCCCATGCT
65 TTTTGTATAAAAAACAAATCGATCCCTTTAATA-GAGGGATCAATCCCATGCT
* * * **
23610813 TAGGTGATCGATCCCCTATATAGGGGGATCGATCCTTTTTGTGCATTTTTGAACCCAGATTACAT
1 TAGGTGATCAATCCCCTATATAGGGGGATCGATCCCTTTTGTGAATTTTCAAACCCAGATTACAT
* * *
23610878 TTTGTATAAAAAAGAGATCGATTCCTTTAATAGAGGGAT
66 TTTGTATAAAAAACAAATCGATCCCTTTAATAGAGGGAT
23610917 TGATCGGGTA
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
116 83 0.94
117 5 0.06
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (116 bp):
TAGGTGATCAATCCCCTATATAGGGGGATCGATCCCTTTTGTGAATTTTCAAACCCAGATTACAT
TTTGTATAAAAAACAAATCGATCCCTTTAATAGAGGGATCAATCCCATGCT
Found at i:23611221 original size:221 final size:221
Alignment explanation
Indices: 23610836--23611291 Score: 831
Period size: 221 Copynumber: 2.1 Consensus size: 221
23610826 CCCTATATAG
* * *
23610836 GGGGATCGATCCTTTTTGTGCATTTTTGAACCCAGATTACATTTTGTATAAAAAAGAGATCGATT
1 GGGGATCGATCCCTTTTATGCATTTTCGAACCCAGATTACATTTTGTATAAAAAAGAGATCGATT
*
23610901 CCTTTAATAGAGGGATTGATCGGGTAAGCATAAAACCCTAACCAATCAATCCCTACAGGGAAGGG
66 CCTTTAATAGAGGGATTGATCGGGTAAGCATAAAACCCCAACCAATCAATCCCTACAGGGAAGGG
*
23610966 ATCGATTGGTTCTTGCCAAAATGCCACAAATTTTGCTTTTGGAAGAAAAGTGGATCAATCCCTTT
131 ATCGATTGGTTCTTGCCAAAATGCCACAAATTTTGCTTATGGAAGAAAAGTGGATCAATCCCTTT
*
23611031 AGCCAGAGGATCTATCAGGTAAGGGA
196 AGCCAGAGGATCGATCAGGTAAGGGA
23611057 GGGGATCGATCCCTTTTATGCATTTTCGAACCCAGATTACATTTTGTATAAAAAAGAGATCGATT
1 GGGGATCGATCCCTTTTATGCATTTTCGAACCCAGATTACATTTTGTATAAAAAAGAGATCGATT
*
23611122 CCTTTAATGGAGGGATTGATCGGGTAAGCATAAAACCCCAACCAATCAATCCCTACAGGGAAGGG
66 CCTTTAATAGAGGGATTGATCGGGTAAGCATAAAACCCCAACCAATCAATCCCTACAGGGAAGGG
*
23611187 ATCGATTGGTTCTTGCCAAAATGCCACGAATTTTGCTTATGGAAGAAAAGTGGATCAATCCCTTT
131 ATCGATTGGTTCTTGCCAAAATGCCACAAATTTTGCTTATGGAAGAAAAGTGGATCAATCCCTTT
*
23611252 AGCCAGAGGATCGATTAGGTAAGGGA
196 AGCCAGAGGATCGATCAGGTAAGGGA
23611278 GGGGATCGATCCCT
1 GGGGATCGATCCCT
23611292 CCCCTTAGGA
Statistics
Matches: 226, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
221 226 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (221 bp):
GGGGATCGATCCCTTTTATGCATTTTCGAACCCAGATTACATTTTGTATAAAAAAGAGATCGATT
CCTTTAATAGAGGGATTGATCGGGTAAGCATAAAACCCCAACCAATCAATCCCTACAGGGAAGGG
ATCGATTGGTTCTTGCCAAAATGCCACAAATTTTGCTTATGGAAGAAAAGTGGATCAATCCCTTT
AGCCAGAGGATCGATCAGGTAAGGGA
Found at i:23615924 original size:113 final size:114
Alignment explanation
Indices: 23615707--23615927 Score: 347
Period size: 113 Copynumber: 1.9 Consensus size: 114
23615697 AGTTGAAGAC
* * * * *
23615707 AGTGCTCGTGCTAAGGGACAATAGGTCTTTCATGATGTGGCTGAGCTTATTTCTGCAATAGATAG
1 AGTGCTCGTGCTAAGGGACAACAAGTCTTCCATGATGTGGCTGAGCTTATTTCTGCAATAGAAAA
* *
23615772 TGATCTTCAAAATCCACTAGCCCTAATGCTAGAGGTCAACTTGAAAAAT
66 TGATATTCAAAATCCACTAGCCCTAATGCTAAAGGTCAACTTGAAAAAT
*
23615821 AGTGCTCGTGCTAGGGGACAACAAGTCTTCCATGATGTGGCTGAGCTTATTT-TGCAATAGAAAA
1 AGTGCTCGTGCTAAGGGACAACAAGTCTTCCATGATGTGGCTGAGCTTATTTCTGCAATAGAAAA
23615885 TGATATTCAAAATCCACTAGCCCTAATG-TCAAAGGTCAACTTG
66 TGATATTCAAAATCCACTAGCCCTAATGCT-AAAGGTCAACTTG
23615928 GTTTCTCGAC
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
112 1 0.01
113 49 0.50
114 48 0.49
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (114 bp):
AGTGCTCGTGCTAAGGGACAACAAGTCTTCCATGATGTGGCTGAGCTTATTTCTGCAATAGAAAA
TGATATTCAAAATCCACTAGCCCTAATGCTAAAGGTCAACTTGAAAAAT
Found at i:23616004 original size:20 final size:20
Alignment explanation
Indices: 23615965--23616031 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
23615955 TTTCTCCTCC
*
23615965 TTCTTGCCCTCACTTTTTTTT
1 TTCTTTCCCTCAC-TTTTTTT
23615986 TTCTTTCCCTCACTTTTTTT
1 TTCTTTCCCTCACTTTTTTT
* * *
23616006 TTCTCTCTCTTACCTTTTTTT
1 TTCTTTCCCTCA-CTTTTTTT
23616027 TTCTT
1 TTCTT
23616032 CTATTTTGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.66
Consensus pattern (20 bp):
TTCTTTCCCTCACTTTTTTT
Found at i:23623788 original size:13 final size:13
Alignment explanation
Indices: 23623766--23623801 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
23623756 GTAATAGATC
23623766 ATTA-TATAATTT
1 ATTATTATAATTT
23623778 ATTATTATAATTT
1 ATTATTATAATTT
23623791 ATTAATTATAA
1 ATT-ATTATAA
23623802 AGTAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.18
13 11 0.50
14 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTATAATTT
Found at i:23624029 original size:39 final size:41
Alignment explanation
Indices: 23623957--23624033 Score: 140
Period size: 39 Copynumber: 1.9 Consensus size: 41
23623947 ATGTGAATTA
23623957 AAAAAATAATATTTTAATATGTGATTTTTTGAATTTGTATT
1 AAAAAATAATATTTTAATATGTGATTTTTTGAATTTGTATT
23623998 AAAAAATAATATTTT-A-ATGTGATTTTTTGAATTTGT
1 AAAAAATAATATTTTAATATGTGATTTTTTGAATTTGT
23624034 TCAAAATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 20 0.56
40 1 0.03
41 15 0.42
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (41 bp):
AAAAAATAATATTTTAATATGTGATTTTTTGAATTTGTATT
Found at i:23626141 original size:20 final size:21
Alignment explanation
Indices: 23626105--23626151 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
23626095 GAACACAAGT
23626105 TTTCTATTTTCTATTTTCTTT
1 TTTCTATTTTCTATTTTCTTT
* *
23626126 TTTTTATTTTGT-TTTTCTTT
1 TTTCTATTTTCTATTTTCTTT
23626146 TATTCT
1 T-TTCT
23626152 TTGGTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTCTATTTTCTATTTTCTTT
Found at i:23626318 original size:18 final size:19
Alignment explanation
Indices: 23626279--23626319 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
23626269 GCAAGATTGC
23626279 TAATTGCATGATACTTTATTA
1 TAATTGCATGATA--TTATTA
23626300 TAATTGCATGATA-TATTA
1 TAATTGCATGATATTATTA
23626318 TA
1 TA
23626320 TTATTGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
21 13 0.65
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (19 bp):
TAATTGCATGATATTATTA
Found at i:23628901 original size:60 final size:60
Alignment explanation
Indices: 23628752--23628900 Score: 203
Period size: 60 Copynumber: 2.5 Consensus size: 60
23628742 CATGTCTTTA
* *
23628752 TTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAACATCTTTTGAAAATATTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAACATCTTTTGAAAATATTCATT
** * * * *
23628812 TTCAAAAAAAATTGATACTCTCAACTTTTTCTCGAAAAATATTTTTTGAAAAT-TTCATCT
1 TTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAACATCTTTTGAAAATATTCAT-T
23628872 TT-AAGGAAAATTGATACTTTCAACTTTTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTT
23628901 TGAAATTTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 28 0.36
60 49 0.64
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (60 bp):
TTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAACATCTTTTGAAAATATTCATT
Found at i:23628923 original size:41 final size:43
Alignment explanation
Indices: 23628853--23628940 Score: 144
Period size: 41 Copynumber: 2.1 Consensus size: 43
23628843 TCGAAAAATA
*
23628853 TTTTTTGAAAATTTCATCTTTAAGGAAAATTGATACTTTCAAC
1 TTTTTTGAAAATTTCATCTTTAAAGAAAATTGATACTTTCAAC
*
23628896 TTTTTTG-AAATTTTAT-TTTAAAGAAAATTGATACTTTCAAC
1 TTTTTTGAAAATTTCATCTTTAAAGAAAATTGATACTTTCAAC
23628937 TTTT
1 TTTT
23628941 CCTTAAAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 28 0.65
42 8 0.19
43 7 0.16
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (43 bp):
TTTTTTGAAAATTTCATCTTTAAAGAAAATTGATACTTTCAAC
Found at i:23629184 original size:174 final size:173
Alignment explanation
Indices: 23628923--23629595 Score: 570
Period size: 174 Copynumber: 3.8 Consensus size: 173
23628913 TTAAAGAAAA
* * *
23628923 TTGATACTTTCAACTTTTCCTTAAAGCATTTTGAAATTTTTATTGTTAAGGAAAATTAATACTTT
1 TTGATACTTTCAACTTTTCCTTAAAACATTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTT
* * *
23628988 CAATTTTTCCTTAAAACATTTTGAAAATTTTATTTTCAAGGAAAATTAATACTTTCAATTTTTCC
66 CAATTTTTCCATAAAACATTTTGAAATTTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCC
23629053 TAAAATTTTTTTTTTGAAATTTTATTTTAAGGACAATTGATACT
131 TAAAATTTTTTTTTTGAAATTTTATTTTAAGGA-AATTGATACT
* * *
23629097 TTGATACTTTCAACTTTTCCTTAAAACATTTTGAAATTTTTATTTTTGATGAAAATTGATATTTT
1 TTGATACTTTCAACTTTTCCTTAAAACATTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTT
* * * * * **
23629162 C-ATTATTTCCCTAAAGCATTTTGAAATTTTTATTTTTAAAGAAAATTGATACTTTTAACCTTTC
66 CAATT-TTTCCATAAAACATTTTGAAATTTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTC
* *
23629226 CTCAAAAAATATTTTTATTGAAATTTTCATTTTTAAGG-AA---A-A--
130 CT---AAAATTTTTTTTTTGAAATTTT-A-TTTTAAGGAAATTGATACT
* *** * * *
23629268 TTGATACTTTAAACTTTTCCTTAAATTTTTTTTTAGATTTTT-TCTCTTTTAGGAAAATTGATAC
1 TTGATACTTTCAACTTTTCCTTAAA-ACATTTTGAAATTTTTAT-T-TTTAAGGAAAATTGATAC
* * *
23629332 CTTCAACTTTTCCATAAAACATTTTTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAAT
63 TTTCAATTTTTCCATAAAACA---TTTTGAAATTTTTATTTTCAAGGAAAATTGATACTTTCAAT
*
23629397 TTTTCCTTAAAGTATTTTTTATGTTTGAAATTTTTATTTCCAAGG-AA---A-A--
125 TTTTCC-TAAA--ATTTTTT-T-TTTGAAA-TTTTATTT-TAAGGAAATTGATACT
* * * * * * *
23629446 TTGATACTTTCAACCTTTCTTTAAAGTACATTTTTTGAAA-TTTGATCTTCAAGAAAAATTAATA
1 TTGATACTTTCAACTTTTCCTTAAA--ACA--TTTTGAAATTTTTATTTTTAAGGAAAATTGATA
* * ** * * *
23629510 CTTTCAACTTTTCCTTAAAGTATTTTTTGAAATTTTTATTTTTAAAGAAAATTGATACCTTCAAC
62 CTTTCAATTTTTCCATAAA--ACATTTTGAAATTTTTATTTTCAAGGAAAATTGATACTTTCAA-
* * *
23629575 TTTTACTTAAAATATTTTTTT
124 TTTTTCCTAAAATTTTTTTTT
23629596 GATACCTTCA
Statistics
Matches: 408, Mismatches: 64, Indels: 54
0.78 0.12 0.10
Matches are distributed among these distances:
171 25 0.06
172 12 0.03
173 33 0.08
174 120 0.29
175 1 0.00
176 53 0.13
177 27 0.07
178 78 0.19
179 48 0.12
180 3 0.01
181 8 0.02
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (173 bp):
TTGATACTTTCAACTTTTCCTTAAAACATTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTT
CAATTTTTCCATAAAACATTTTGAAATTTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCC
TAAAATTTTTTTTTTGAAATTTTATTTTAAGGAAATTGATACT
Found at i:23629210 original size:25 final size:25
Alignment explanation
Indices: 23629127--23629210 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
23629117 TTAAAACATT
* *
23629127 TTGAAATTTTTATTTTTGATGAAAA
1 TTGAAATTTTTATTTTTAAAGAAAA
* * * **
23629152 TTGATATTTTCATTATTTCCCTAAAGCATT
1 TTGA-AATTT--TTATTT--TTAAAGAAAA
23629182 TTGAAATTTTTATTTTTAAAGAAAA
1 TTGAAATTTTTATTTTTAAAGAAAA
23629207 TTGA
1 TTGA
23629211 TACTTTTAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
25 14 0.33
26 4 0.10
27 6 0.14
28 6 0.14
29 4 0.10
30 8 0.19
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (25 bp):
TTGAAATTTTTATTTTTAAAGAAAA
Found at i:23629368 original size:58 final size:58
Alignment explanation
Indices: 23628896--23629597 Score: 588
Period size: 55 Copynumber: 12.1 Consensus size: 58
23628886 TACTTTCAAC
* *
23628896 TTTTTTGAAA-TTTTA-TTTTAAAGAAAATTGATACTTTCAACTTTTCCTTAAAGCA-
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
* * *
23628951 --TTTTGAAATTTTTATTGTTAAGGAAAATTAATACTTTCAATTTTTCCTTAAAACA-
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
* * * * **
23629006 --TTTTGAAAATTTTATTTTCAAGGAAAATTAATACTTTCAATTTTTCC-TAAAATTTT
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAA-CAT
23629062 TTTTTTGAAA-TTTTA-TTTTAAGGACAATTGATACTTTGATACTTTCAACTTTTCCTTAAAACA
1 TTTTTTGAAATTTTTATTTTTAAGG--AA---A-A--TTGATACTTTCAACTTTTCCTTAAAACA
23629125 -
58 T
* * * * * *
23629125 --TTTTGAAATTTTTATTTTTGATGAAAATTGATATTTTC-ATTATTTCCCTAAAGCA-
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACT-TTTCCTTAAAACAT
* * * * *
23629180 --TTTTGAAATTTTTATTTTTAAAGAAAATTGATACTTTTAACCTTTCCTCAAAAAATAT
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCT--TAAAACAT
* * *
23629238 TTTTATTGAAATTTTCATTTTTAAGGAAAATTGATACTTTAAACTTTTCCTT-AAA-TT
1 TTTT-TTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
* * * * *
23629295 TTTTTTTAGATTTTT-TCTCTTTTAGGAAAATTGATACCTTCAACTTTTCCATAAAACAT
1 TTTTTTGAAATTTTTAT-T-TTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
* * * **
23629354 TTTTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAGTATTTT
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAA--A-CAT
** * *
23629415 TTATGTTTGAAATTTTTATTTCCAAGGAAAATTGATACTTTCAACCTTTCTTTAAAGTACA-
1 TT-T-TTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAA--ACAT
* * * * * **
23629476 TTTTTTGAAA-TTTGATCTTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAGTA-
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
* * * *
23629532 TTTTTTGAAATTTTTATTTTTAAAGAAAATTGATACCTTCAACTTTTACTTAAAATAT
1 TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
23629590 TTTTTTGA
1 TTTTTTGA
23629598 TACCTTCAAC
Statistics
Matches: 530, Mismatches: 80, Indels: 71
0.78 0.12 0.10
Matches are distributed among these distances:
53 8 0.02
54 12 0.02
55 140 0.26
56 28 0.05
57 81 0.15
58 91 0.17
59 22 0.04
60 5 0.01
61 58 0.11
62 7 0.01
63 55 0.10
64 18 0.03
65 5 0.01
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (58 bp):
TTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAACAT
Found at i:23629497 original size:121 final size:118
Alignment explanation
Indices: 23628896--23629597 Score: 560
Period size: 115 Copynumber: 6.1 Consensus size: 118
23628886 TACTTTCAAC
* *
23628896 TTTTTTGAAATTTT-ATTTTAAAG-AAAATTGATACTTTCAACTTTTCCTTAAAGCA------TT
1 TTTTTTGAAATTTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTT
* **
23628953 TTGAAATTTTTATTGTTAAGGAAAATTAATACTTTCAATTTTTCCTTAAAACA-
66 TTGAAATTTTTATT-TTAAGGAAAATTGATACTTTCAACCTTTCCTTAAAACAT
* * *
23629006 --TTTTGAAAATTTT-ATTTTCAAGGAAAATTAATACTTTCAATTTTTCC-TAAA--ATTTTTTT
1 TTTTTTG-AAATTTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTT
*
23629065 TTTGAAA-TTTTATTTTAAGGACAATTGATACTTTGATACTTTCAACTTTTCCTTAAAACA-
65 TTTGAAATTTTTATTTTAAGG--AA---A-A--TTGATACTTTCAACCTTTCCTTAAAACAT
* * * * * * *
23629125 --TTTTGAAATTTTTATTTTTGATG-AAAATTGATATTTTC-ATTATTTCCCTAAAGCA------
1 TTTTTTGAAATTTTCA-TTTTCAAGAAAAATTGATACTTTCAACT-TTTCCTTAAAGTATTTTTT
* * * *
23629180 TTTTGAAATTTTTATTTTTAAAGAAAATTGATACTTTTAACCTTTCCTCAAAAAATAT
64 TTTTGAAATTTTTA-TTTTAAGGAAAATTGATACTTTCAACCTTTCCT--TAAAACAT
* * *
23629238 TTTTATTGAAATTTTCATTTTTAAGGAAAATTGATACTTTAAACTTTTCCTT-AA--ATTTTTTT
1 TTTT-TTGAAATTTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTT
* * * * * * *
23629300 TTAG-ATTTTTTCTCTTTTAGGAAAATTGATACCTTCAACTTTTCCATAAAACAT
65 TTTGAAATTTTTAT-TTTAAGGAAAATTGATACTTTCAACCTTTCCTTAAAACAT
* *
23629354 TTTTTTGAAATTTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAGTATTTTTTAT
1 TTTTTTGAAATTTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTT-T
* *
23629419 GTTTGAAATTTTTATTTCCAAGGAAAATTGATACTTTCAACCTTTCTTTAAAGTACA-
65 -TTTGAAATTTTTATTT-TAAGGAAAATTGATACTTTCAACCTTTCCTTAAA--ACAT
* * *
23629476 TTTTTTGAAA-TTTGATCTTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAGTA----TTTT
1 TTTTTTGAAATTTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTT
* * * * *
23629536 TTGAAATTTTTATTTTTAAAGAAAATTGATACCTTCAACTTTTACTTAAAATAT
66 TTGAAATTTTTA-TTTTAAGGAAAATTGATACTTTCAACCTTTCCTTAAAACAT
23629590 TTTTTTGA
1 TTTTTTGA
23629598 TACCTTCAAC
Statistics
Matches: 485, Mismatches: 57, Indels: 96
0.76 0.09 0.15
Matches are distributed among these distances:
107 1 0.00
108 5 0.01
109 19 0.04
110 41 0.08
111 6 0.01
112 13 0.03
113 14 0.03
114 8 0.02
115 93 0.19
116 57 0.12
117 11 0.02
118 56 0.12
119 55 0.11
120 15 0.03
121 77 0.16
122 11 0.02
123 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (118 bp):
TTTTTTGAAATTTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTT
TTGAAATTTTTATTTTAAGGAAAATTGATACTTTCAACCTTTCCTTAAAACAT
Found at i:23629594 original size:236 final size:224
Alignment explanation
Indices: 23628896--23629597 Score: 674
Period size: 236 Copynumber: 3.0 Consensus size: 224
23628886 TACTTTCAAC
* * *
23628896 TTTTTTGAAA-TTTTA-TTTTAAAGAAAATTGATACTTTCAACT-TTTCCTTAAAGCATTTTGAA
1 TTTTTTGAAATTTTTATTTTTCAAGAAAATTGATACTTTC-ATTATTTCCCTAAAGCATTTTGAA
* ** *
23628958 ATTTTTATTGTTAAGGAAAATTAATACTTTCAATTTTTCCTTAAAACA--TTTTGAAAATTTTAT
65 ATTTTTATT-TTAAGGAAAATTGATACTTTCAACCTTTCCTTAAAACATTTTTTG-AAATTTCAT
* *
23629021 TTTCAAGGAAAATTAATACTTTCAATTTTTCCTAAAATTTTTTTTTTGAAA-TTTTA-TTTTAAG
128 TTTCAAGGAAAATTAATACTTTCAACTTTTCCTTAAA--TTTTTTTTGAAATTTTTATTTTTAA-
* *
23629084 GACAATTGATACTTTGATACTTTCAACTTTTCCTTAAAACA-
190 -AGAA---A-A--TTGATACCTTCAACTTTTCCTTAAAACAT
* * *
23629125 --TTTTGAAATTTTTATTTTTGATGAAAATTGATATTTTCATTATTTCCCTAAAGCATTTTGAAA
1 TTTTTTGAAATTTTTATTTTTCAAGAAAATTGATACTTTCATTATTTCCCTAAAGCATTTTGAAA
* * * *
23629188 TTTTTATTTTTAAAGAAAATTGATACTTTTAACCTTTCCTCAAAAAATATTTTTATTGAAATTTT
66 TTTTTA-TTTTAAGGAAAATTGATACTTTCAACCTTTCCT--TAAAACA-TTTT-TTGAAA-TTT
* * * * *
23629253 CATTTTTAAGGAAAATTGATACTTTAAACTTTTCCTTAAATTTTTTTTTAGATTTTT-TCTCTTT
125 CATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTTAAATTTTTTTTGAAATTTTTAT-T-TTT
* * *
23629317 TAGGAAAATTGATACCTTCAACTTTTCCATAAAACAT
188 AAAGAAAATTGATACCTTCAACTTTTCCTTAAAACAT
* *
23629354 TTTTTTGAAATTTTTA-TTTTCAAGAAAAATTGATACTTTCAATT-TTTCCTTAAAGTATTTTTT
1 TTTTTTGAAATTTTTATTTTTCAAG-AAAATTGATACTTTC-ATTATTTCCCTAAAG-------C
* *
23629417 ATGTTTGAAATTTTTATTTCCAAGGAAAATTGATACTTTCAACCTTTCTTTAAAGTACATTTTTT
57 AT-TTTGAAATTTTTATTT-TAAGGAAAATTGATACTTTCAACCTTTCCTTAAA--ACATTTTTT
* * * *
23629482 GAAATTTGATCTTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAGTATTTTTTGAAATTTTT
118 GAAATTTCATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTTAAA-TTTTTTTTGAAATTTTT
* *
23629547 ATTTTTAAAGAAAATTGATACCTTCAACTTTTACTTAAAATAT
182 ATTTTTAAAGAAAATTGATACCTTCAACTTTTCCTTAAAACAT
23629590 TTTTTTGA
1 TTTTTTGA
23629598 TACCTTCAAC
Statistics
Matches: 390, Mismatches: 50, Indels: 59
0.78 0.10 0.12
Matches are distributed among these distances:
227 8 0.02
228 33 0.08
229 72 0.18
230 9 0.02
231 44 0.11
232 3 0.01
233 10 0.03
234 11 0.03
235 41 0.11
236 84 0.22
237 24 0.06
238 10 0.03
239 41 0.11
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (224 bp):
TTTTTTGAAATTTTTATTTTTCAAGAAAATTGATACTTTCATTATTTCCCTAAAGCATTTTGAAA
TTTTTATTTTAAGGAAAATTGATACTTTCAACCTTTCCTTAAAACATTTTTTGAAATTTCATTTT
CAAGGAAAATTAATACTTTCAACTTTTCCTTAAATTTTTTTTGAAATTTTTATTTTTAAAGAAAA
TTGATACCTTCAACTTTTCCTTAAAACAT
Found at i:23629598 original size:33 final size:33
Alignment explanation
Indices: 23629561--23629630 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
23629551 TTAAAGAAAA
23629561 TTGATACCTTCAACTTTTACTTAAAATATTTTT
1 TTGATACCTTCAACTTTTACTTAAAATATTTTT
* *
23629594 TTGATACCTTCAACTTTTCCTTAAAGTATTTTT
1 TTGATACCTTCAACTTTTACTTAAAATATTTTT
23629627 TTGA
1 TTGA
23629631 AATTTGATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (33 bp):
TTGATACCTTCAACTTTTACTTAAAATATTTTT
Found at i:23629660 original size:147 final size:149
Alignment explanation
Indices: 23629446--23629743 Score: 483
Period size: 148 Copynumber: 2.0 Consensus size: 149
23629436 CCAAGGAAAA
* *
23629446 TTGATACTTTCAACCTTTCTTTAAAGTACATTTTTTGAAATTTGATCTTCAAGAAAAATTAATAC
1 TTGATACCTTCAACCTTTCCTTAAAGTACATTTTTTGAAATTTGATCTTCAAGAAAAATTAATAC
* *
23629511 TTTCAACTTTTCCTTAAAGTATT-TTTTGAAATTTTTATTTTTAAAGAAAATTGATACCTTCAAC
66 TTTCAACTTCTCCTTAAAGTATTCTTTTAAAATTTTTATTTTTAAAGAAAATTGATACCTTCAAC
23629575 TTTTACTTAAAATATTTTT
131 TTTTACTTAAAATATTTTT
* * *
23629594 TTGATACCTTCAACTTTTCCTTAAAGTA-TTTTTTTGAAATTTGATCTTCAAGGAAAATTAATAC
1 TTGATACCTTCAACCTTTCCTTAAAGTACATTTTTTGAAATTTGATCTTCAAGAAAAATTAATAC
* *
23629658 TTTCAACTTCTCCTTAAAGTATTCTTTTAAAATTTTTATTTTTAAGGAAAATTGATACTTTCAAC
66 TTTCAACTTCTCCTTAAAGTATTCTTTTAAAATTTTTATTTTTAAAGAAAATTGATACCTTCAAC
* *
23629723 TTTTCCTTAAAGTATTTTT
131 TTTTACTTAAAATATTTTT
23629742 TT
1 TT
23629744 AATTTTTTTT
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
147 56 0.41
148 82 0.59
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (149 bp):
TTGATACCTTCAACCTTTCCTTAAAGTACATTTTTTGAAATTTGATCTTCAAGAAAAATTAATAC
TTTCAACTTCTCCTTAAAGTATTCTTTTAAAATTTTTATTTTTAAAGAAAATTGATACCTTCAAC
TTTTACTTAAAATATTTTT
Found at i:23629665 original size:90 final size:90
Alignment explanation
Indices: 23629507--23629685 Score: 243
Period size: 90 Copynumber: 2.0 Consensus size: 90
23629497 AGAAAAATTA
* * * * *
23629507 ATACTTTCAACTTTTCCTTAAAGTATTTTTTGAAATTTTTATTTTTAAAGAAAATTGATACCTTC
1 ATACCTTCAACTTTTCCTTAAAGTATTTTTTGAAATTTTGATCTTCAAAGAAAATTAATACCTTC
* *
23629572 AACTTTTACTTAAAATATTTTTTTG
66 AACTTCTACTTAAAATATTCTTTTG
* *
23629597 ATACCTTCAACTTTTCCTTAAAGTATTTTTTTGAAA-TTTGATCTTCAAGGAAAATTAATACTTT
1 ATACCTTCAACTTTTCCTTAAAGTA-TTTTTTGAAATTTTGATCTTCAAAGAAAATTAATACCTT
* *
23629661 CAACTTCTCCTTAAAGTATTCTTTT
65 CAACTTCTACTTAAAATATTCTTTT
23629686 AAAATTTTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 67 0.87
91 10 0.13
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (90 bp):
ATACCTTCAACTTTTCCTTAAAGTATTTTTTGAAATTTTGATCTTCAAAGAAAATTAATACCTTC
AACTTCTACTTAAAATATTCTTTTG
Found at i:23629787 original size:60 final size:58
Alignment explanation
Indices: 23629594--23629803 Score: 260
Period size: 58 Copynumber: 3.6 Consensus size: 58
23629584 AAATATTTTT
* * * *
23629594 TTGATACCTTCAACTTTTCCTTAAAGTATTTTTTTGAAA-TTTGATCTTCAAGGAAAA
1 TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTAAAATTTTTATTTTCAAGGAAAA
* * * *
23629651 TTAATACTTTCAACTTCTCCTTAAAGTATTCTTTTAAAATTTTTATTTTTAAGGAAAA
1 TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTAAAATTTTTATTTTCAAGGAAAA
** *
23629709 TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTAATTTTTTTTAATTTTCAAAGAAAA
1 TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTAA-AATTTTT-ATTTTCAAGGAAAA
* * **
23629769 TTGATACTTTCAAATTTTCCTAAAAACATTTTTTT
1 TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTT
23629804 TTGTCATTTT
Statistics
Matches: 131, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
57 34 0.26
58 49 0.37
59 5 0.04
60 43 0.33
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.49
Consensus pattern (58 bp):
TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTAAAATTTTTATTTTCAAGGAAAA
Found at i:23629815 original size:60 final size:59
Alignment explanation
Indices: 23629640--23629803 Score: 150
Period size: 60 Copynumber: 2.8 Consensus size: 59
23629630 AAATTTGATC
* * * * * ** * ** *
23629640 TTCAAGGAAAATTAATACTTTCAACTTCTCCTTAAAGTATTCTTTTA-AAATTTTTATT
1 TTCAAAGAAAATTGATACTTTCAAATTTTCCTAAAAACATTTTTTTATTTATTTTAATT
* * * * ** *
23629698 TTTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTAATTTTTTTTAATT
1 TTCAAAGAAAATTGATACTTTCAAATTTTCCTAAAAACATTTTTTT-ATTTATTTTAATT
23629758 TTCAAAGAAAATTGATACTTTCAAATTTTCCTAAAAACATTTTTTT
1 TTCAAAGAAAATTGATACTTTCAAATTTTCCTAAAAACATTTTTTT
23629804 TTGTCATTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
58 42 0.47
59 1 0.01
60 47 0.52
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (59 bp):
TTCAAAGAAAATTGATACTTTCAAATTTTCCTAAAAACATTTTTTTATTTATTTTAATT
Found at i:23629918 original size:28 final size:28
Alignment explanation
Indices: 23629882--23629963 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
23629872 CCATTTAACT
23629882 AATAAATAAATAAGCAAAAAAATAGATA
1 AATAAATAAATAAGCAAAAAAATAGATA
* *
23629910 AATAAATAAATAAACAAAATAAAAAGATA
1 AATAAATAAATAAGCAAAA-AAATAGATA
* * *
23629939 TATAGACTAAATAAGCAATAAAATA
1 AATA-AATAAATAAGCAAAAAAATA
23629964 AAATAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 18 0.40
29 15 0.33
30 12 0.27
ACGTcount: A:0.70, C:0.05, G:0.06, T:0.20
Consensus pattern (28 bp):
AATAAATAAATAAGCAAAAAAATAGATA
Found at i:23631087 original size:85 final size:85
Alignment explanation
Indices: 23630955--23631139 Score: 237
Period size: 85 Copynumber: 2.2 Consensus size: 85
23630945 ACCTAAAGAT
* * ** *
23630955 GGATCTAACACAGGTCAATGTCCAAAATAAAATGACCTAGATGGAATCGAAGTCTAAAATAAATA
1 GGATCTAGCATAGGTCAAAATCCAAAATAAAATGACCTAGATAGAATCGAAGTCTAAAATAAATA
*
23631020 ACTTAGACTAAATCAAAGAAA
66 ACTTAGACTAAACCAAA-AAA
* ** * * *
23631041 -GATCTGGCATAGGTCAAAATCCAAAATAGCATGACTTGGATAGAATCGAAGTCTGAAATAAATA
1 GGATCTAGCATAGGTCAAAATCCAAAATAAAATGACCTAGATAGAATCGAAGTCTAAAATAAATA
*
23631105 ACTTGGACTAAACCAAAAAA
66 ACTTAGACTAAACCAAAAAA
23631125 GGATCTAGCATAGGT
1 GGATCTAGCATAGGT
23631140 TGAAATATGA
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 3 0.04
85 81 0.96
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (85 bp):
GGATCTAGCATAGGTCAAAATCCAAAATAAAATGACCTAGATAGAATCGAAGTCTAAAATAAATA
ACTTAGACTAAACCAAAAAA
Found at i:23631172 original size:85 final size:84
Alignment explanation
Indices: 23630977--23631186 Score: 217
Period size: 85 Copynumber: 2.5 Consensus size: 84
23630967 GGTCAATGTC
* * *
23630977 CAAAATAAAATGACCTAGATGGAATCGAAGTCTAAAATAAATAACTTAGACTAAATCAAAGAAAG
1 CAAAAT-AAATGACCTAGATAGAATCGAAGTCTGAAATAAATAACTTAGACTAAACCAAAGAAAG
* *
23631042 ATCTGGCATAGGTCAAAATC
65 ATCTAGCATAGGTCAAAATA
* * * *
23631062 CAAAATAGCATGACTTGGATAGAATCGAAGTCTGAAATAAATAACTTGGACTAAACCAAA-AAAG
1 CAAAATA-AATGACCTAGATAGAATCGAAGTCTGAAATAAATAACTTAGACTAAACCAAAGAAA-
**
23631126 GATCTAGCATAGGTTGAAATA
64 GATCTAGCATAGGTCAAAATA
** * * *
23631147 TGAAATGAAATGACCTAAACT-GAATCAAAGCCTGAAATAA
1 CAAAAT-AAATGACCTAGA-TAGAATCGAAGTCTGAAATAA
23631187 TCGAAGAAAG
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
84 4 0.04
85 96 0.94
86 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (84 bp):
CAAAATAAATGACCTAGATAGAATCGAAGTCTGAAATAAATAACTTAGACTAAACCAAAGAAAGA
TCTAGCATAGGTCAAAATA
Found at i:23631437 original size:85 final size:84
Alignment explanation
Indices: 23631324--23631775 Score: 387
Period size: 85 Copynumber: 5.3 Consensus size: 84
23631314 CCGAAGCCTA
*** * * * *
23631324 AAATAAATAACTTGGACTAAGTTGAAGAAGGATCTGGCATAGGCTAAGATCTAAAACAAAATGAC
1 AAATAAATAACTTGGACTAAGCCAAAGAAGGATTTGACATAGGCTAAAATCCAAAACAAAATGAC
* *
23631389 CCAGATGGAA-TCAAAGTTTG
66 CTAGAT-GAACT-AAAGTCTG
* * * *
23631409 AAATGAATAACTTGGACTAAGCCAAAGAAAGATTTGGCATAGGCTAAGATCCAAAACAAAATGA-
1 AAATAAATAACTTGGACTAAGCCAAAGAAGGATTTGACATAGGCTAAAATCCAAAACAAAATGAC
*
23631473 CTTGAATGGAACTAAAGTCTG
66 CTAG-AT-GAACTAAAGTCTG
* * * * *
23631494 AAATGAATAACTTGGACTAAACCAAAGAAGGATTTAACATATG-TCAAAATTCGAAAACAAAATG
1 AAATAAATAACTTGGACTAAGCCAAAGAAGGATTTGACATAGGCT-AAAA-TCCAAAACAAAATG
*
23631558 ACCTAGACTGAACTAAAGTCTA
64 ACCTAGA-TGAACTAAAGTCTG
* * * * * *
23631580 AAATGAATAACTTAGACTAAGTCGAAGAAGGATTTGACATAAG-TCAAAATCCAAAAAAAAATGA
1 AAATAAATAACTTGGACTAAGCCAAAGAAGGATTTGACATAGGCT-AAAATCCAAAACAAAATGA
* * *
23631644 CCTGGATGAAACTAAAGTTTA
65 CCTAGATG-AACTAAAGTCTG
* * * ** * * *
23631665 AAATAAATAACTTAGACTAAGCCAAAAAAAGATCCGACAAAAG-TCGAAATCCAAAACAAAATGA
1 AAATAAATAACTTGGACTAAGCCAAAGAAGGATTTGACATAGGCT-AAAATCCAAAACAAAATGA
* *
23631729 CCTGGACTGAA-TCGAAGTCTG
65 CCTAGA-TGAACT-AAAGTCTG
23631750 AAATAAATAA-TCTGGACTAAGCCAAA
1 AAATAAATAACT-TGGACTAAGCCAAA
23631776 ATGCATTAGT
Statistics
Matches: 314, Mismatches: 43, Indels: 20
0.83 0.11 0.05
Matches are distributed among these distances:
84 7 0.02
85 230 0.73
86 73 0.23
87 4 0.01
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.21
Consensus pattern (84 bp):
AAATAAATAACTTGGACTAAGCCAAAGAAGGATTTGACATAGGCTAAAATCCAAAACAAAATGAC
CTAGATGAACTAAAGTCTG
Found at i:23631589 original size:171 final size:170
Alignment explanation
Indices: 23631376--23631775 Score: 448
Period size: 171 Copynumber: 2.3 Consensus size: 170
23631366 GCTAAGATCT
* *
23631376 AAAACAAAATGACCCAGA-TGGAATCAAAGTTTGAAATGAATAACTTGGACTAAGCCAAAGAAAG
1 AAAACAAAATGACCTAGACT-GAATCAAAGTCTGAAATGAATAACTTGGACTAAGCCAAAGAAAG
* * * * * * * *
23631440 ATTTGGCAT-AGGCTAAGATCCAAAACAAAATGACTTGAATGGAACTAAAGTCTGAAATGAATAA
65 ATTTGACATAAGTC-AAAATCCAAAAAAAAATGACCTGAATGAAACTAAAGTCTAAAATAAATAA
* * * ** * * *
23631504 CTTGGACTAAACCAAAGAAGGATTTAACATATGTCAAAATTCG
129 CTTAGACTAAACCAAAAAAAGATCCAACAAAAGTCAAAA-TCC
* * * * *
23631547 AAAACAAAATGACCTAGACTGAA-CTAAAGTCTAAAATGAATAACTTAGACTAAGTCGAAGAAGG
1 AAAACAAAATGACCTAGACTGAATC-AAAGTCTGAAATGAATAACTTGGACTAAGCCAAAGAAAG
* *
23631611 ATTTGACATAAGTCAAAATCCAAAAAAAAATGACCTGGATGAAACTAAAGTTTAAAATAAATAAC
65 ATTTGACATAAGTCAAAATCCAAAAAAAAATGACCTGAATGAAACTAAAGTCTAAAATAAATAAC
* * *
23631676 TTAGACTAAGCCAAAAAAAGATCCGACAAAAGTCGAAATCC
130 TTAGACTAAACCAAAAAAAGATCCAACAAAAGTCAAAATCC
* * *
23631717 AAAACAAAATGACCTGGACTGAATCGAAGTCTGAAATAAATAA-TCTGGACTAAGCCAAA
1 AAAACAAAATGACCTAGACTGAATCAAAGTCTGAAATGAATAACT-TGGACTAAGCCAAA
23631776 ATGCATTAGT
Statistics
Matches: 189, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
169 1 0.01
170 51 0.27
171 133 0.70
172 4 0.02
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.20
Consensus pattern (170 bp):
AAAACAAAATGACCTAGACTGAATCAAAGTCTGAAATGAATAACTTGGACTAAGCCAAAGAAAGA
TTTGACATAAGTCAAAATCCAAAAAAAAATGACCTGAATGAAACTAAAGTCTAAAATAAATAACT
TAGACTAAACCAAAAAAAGATCCAACAAAAGTCAAAATCC
Found at i:23631749 original size:256 final size:257
Alignment explanation
Indices: 23631194--23631775 Score: 649
Period size: 256 Copynumber: 2.3 Consensus size: 257
23631184 TAATCGAAGA
* * * * * * * * * * *
23631194 AAGATCCAAAACAAAATAACTTGGATTAAATCGAAATCCGAGATGAATAACTTTGATTGAGCTAA
1 AAGATCCAAAACAAAATGACCTGGAATGAATCGAAGTCTGAAATGAATAACTTGGACTAAGCCAA
*
23631259 AGAAGGATTTAACATAAGTCAAAATTCGAAAACAAAATGACTTAGACTGAATGAACCGAAGCCTA
66 AGAAGGATTTAACATAAGTCAAAATTCGAAAACAAAATGACCTAGACTGAAT-AA-C-AAGCCTA
* * * * * *
23631324 AAATAAATAACTTGGACTAAGTTGAAGAAGGATCTGGCATAGGCTAAGATCTAAAACAAAATGAC
128 AAATAAATAACTTAGACTAAGTCGAAGAAGGATCTGACATAGGCTAAAATCCAAAAAAAAATGAC
* * * * * ** * * *
23631389 CCAGATGGAATCAAAGTTTGAAATGAATAACTTGGACTAAGCCAAAGAAAGATTTGGCATAGGCT
193 CCAGATGAAATCAAAGTTTAAAATAAATAACTTAGACTAAGCCAAAAAAAGATCCGACAAAGGCG
* * *
23631454 AAGATCCAAAACAAAATGA-CTTGAATGGAA-CTAAAGTCTGAAATGAATAACTTGGACTAAACC
1 AAGATCCAAAACAAAATGACCTGGAAT-GAATC-GAAGTCTGAAATGAATAACTTGGACTAAGCC
* *
23631517 AAAGAAGGATTTAACATATGTCAAAATTCGAAAACAAAATGACCTAGACTGAACT-A-AAGTCTA
64 AAAGAAGGATTTAACATAAGTCAAAATTCGAAAACAAAATGACCTAGACTGAA-TAACAAGCCTA
* * *
23631580 AAATGAATAACTTAGACTAAGTCGAAGAAGGATTTGACATAAG-TCAAAATCCAAAAAAAAATGA
128 AAATAAATAACTTAGACTAAGTCGAAGAAGGATCTGACATAGGCT-AAAATCCAAAAAAAAATGA
**
23631644 CCTGGATGAAA-CTAAAGTTTAAAATAAATAACTTAGACTAAGCCAAAAAAAGATCCGACAAAAG
192 CCCAGATGAAATC-AAAGTTTAAAATAAATAACTTAGACTAAGCCAAAAAAAGATCCGAC-AAAG
*
23631708 TCG
255 GCG
* *
23631711 AA-ATCCAAAACAAAATGACCTGGACTGAATCGAAGTCTGAAATAAATAA-TCTGGACTAAGCCA
1 AAGATCCAAAACAAAATGACCTGGAATGAATCGAAGTCTGAAATGAATAACT-TGGACTAAGCCA
23631774 AA
65 AA
23631776 ATGCATTAGT
Statistics
Matches: 269, Mismatches: 44, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
255 3 0.01
256 154 0.57
257 12 0.04
259 6 0.02
260 93 0.35
261 1 0.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (257 bp):
AAGATCCAAAACAAAATGACCTGGAATGAATCGAAGTCTGAAATGAATAACTTGGACTAAGCCAA
AGAAGGATTTAACATAAGTCAAAATTCGAAAACAAAATGACCTAGACTGAATAACAAGCCTAAAA
TAAATAACTTAGACTAAGTCGAAGAAGGATCTGACATAGGCTAAAATCCAAAAAAAAATGACCCA
GATGAAATCAAAGTTTAAAATAAATAACTTAGACTAAGCCAAAAAAAGATCCGACAAAGGCG
Found at i:23632604 original size:48 final size:51
Alignment explanation
Indices: 23632552--23632675 Score: 155
Period size: 51 Copynumber: 2.5 Consensus size: 51
23632542 ACTCAAATCA
* *
23632552 CCCTTTATGGGTTTTCAATTTGAG-CTTT-TTTTT-TTAAAATTCAAAATG
1 CCCTTTATGGGTTTTCAATTTAAGCCTTTCTTTTTCTTAAAACTCAAAATG
* ** *
23632600 CCCTTTATGGGTTTTCGATTTAAGCCTTTCTTTTTCTTTTAACTCAAACTG
1 CCCTTTATGGGTTTTCAATTTAAGCCTTTCTTTTTCTTAAAACTCAAAATG
* *
23632651 CCTTTTGTGGGTTTTCAATTTAAGC
1 CCCTTTATGGGTTTTCAATTTAAGC
23632676 ACCTATCCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 22 0.34
49 4 0.06
50 5 0.08
51 33 0.52
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (51 bp):
CCCTTTATGGGTTTTCAATTTAAGCCTTTCTTTTTCTTAAAACTCAAAATG
Found at i:23643496 original size:25 final size:25
Alignment explanation
Indices: 23643468--23643551 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
23643458 CAACTTTTCC
23643468 TTAAAACATTTTGAAATTTTTATTT
1 TTAAAACATTTTGAAATTTTTATTT
** * *
23643493 TTAAAGA-AAATTGATACTTTTAACTTTT
1 TTAAA-ACATTTTGA-AATTTTTA--TTT
*
23643521 CCTTAAAACATTTTGAAATTTTTATTG
1 --TTAAAACATTTTGAAATTTTTATTT
23643548 TTAA
1 TTAA
23643552 GAAAAATTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
25 14 0.33
26 7 0.16
27 2 0.05
28 3 0.07
29 7 0.16
30 10 0.23
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (25 bp):
TTAAAACATTTTGAAATTTTTATTT
Found at i:23643860 original size:119 final size:116
Alignment explanation
Indices: 23643364--23644229 Score: 602
Period size: 115 Copynumber: 7.5 Consensus size: 116
23643354 TCGAAAAATA
* * *
23643364 TTTTTTGAAAATTTCATCTTT-AAGGAAAATTGATACTTTCAAATTTTCCTTAAAGCA------T
1 TTTTTTG-AAATTTTAT-TTTCAA-GAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTT
* * * * *
23643422 TTTGAAATTTTTATTGTTAAAG-AAAATTGATACTTTCAACTTTTCCTTAAA--A-
63 TTTGAAA-TTTGA-TATTCAAGAAAAATTGATACTTTCAACTTCTCTTTAAAGTAG
** * * **
23643474 CATTTTGAAATTTTTATTTTTAAAGAAAATTGATACTTTTAACTTTTCCTTAAA--A----CATT
1 TTTTTTGAAA-TTTTA-TTTTCAAGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTT
* * * * ** *
23643533 TTGAAATTT-TTATTGTTAAGAAAAATTGATACTTTCAACCTT-TCCTCAAAAAACT
64 TTGAAATTTGATA-T-TCAAGAAAAATTGATACTTTCAA-CTTCTCTTTAAAGTA-G
* * * *
23643588 TTTTTTAAAAATTTTCATTTTTAAGGAAAATTGATACTTTCAACTTTTCTTTAAA--ATGTTTTT
1 TTTTTT-GAAATTTT-ATTTTCAA-GAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTT
* * *** * * * * *
23643651 TTT-AGATTT--TTTTTTTGGAAAATTGTTACCTTCAACTTTTCCTTAAA-TCATG
63 TTTGAAATTTGATATTCAAGAAAAATTGATACTTTCAACTTCTCTTTAAAGT-A-G
*
23643703 TTTTTTGAAAATTTTATTTTCAAAGAAAATTGATACTTTAAACTTTTCCTTAAAGTATTTTTTTT
1 TTTTTTG-AAATTTTATTTTC-AAGAAAATTGATACTTTCAACTTTTCCTTAAAGTA-TTTTTTT
* *
23643768 GTTTGAAATTTGATATTCAAGAAAAATTGATACTTTGAACTTCTTTTTAAAGTAG
63 -TTTGAAATTTGATATTCAAGAAAAATTGATACTTTCAACTTCTCTTTAAAGTAG
*
23643823 TTTTTTGAATTTTTATTTTCAAGAAAATTTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTGT
1 TTTTTTGAAATTTTATTTTCAAGAAAA-TTGATACTTTCAACTTTTCCTTAAAGTATTTTTTT-T
* * * *
23643888 TTGAAATTT-TTATTTCCAA-AGAAAATTGATACTTTTAACTTTTCTTTAAAGTAT
64 TTGAAATTTGATA-TT-CAAGA-AAAATTGATACTTTCAACTTCTCTTTAAAGTAG
* * * *
23643942 TTTTTTGAAATTTGATTTTCAAAGAAAATTCATACTTTCAACTTCTCTTTAAAGTA---TTTTTT
1 TTTTTTGAAATTTTATTTTC-AAGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTTT
* * * *
23644004 TGAAATTTTTATTTTTGAAG-AAAATTGATACTTTCAACTTCTCTTTAAAGTAT
65 TGAAA-TTTGA-TATTCAAGAAAAATTGATACTTTCAACTTCTCTTTAAAGTAG
** * * * * *
23644057 TTTTTTTTAATTTTATTTTTAAAAAAATTGATATTTTTAACTTTTTCTT-AA--A-TTTTTTTTT
1 TTTTTTGAAATTTTATTTTCAAGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTTTT
* * * * *
23644118 -AACTTTGATCTTCAAGGAAAATTGATGCTTTCAACTTCTCCTTAAAGTA-
66 GAAATTTGATATTCAAGAAAAATTGATACTTTCAACTTCTCTTTAAAGTAG
* *
23644167 TTTTTTAAAAATTTTTATTTTCAA-AGAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTT
1 TTTTTT-GAAA-TTTTATTTTCAAGA-AAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTT
23644230 GAATTTTTTT
Statistics
Matches: 620, Mismatches: 85, Indels: 96
0.77 0.11 0.12
Matches are distributed among these distances:
107 1 0.00
108 2 0.00
109 10 0.02
110 84 0.14
111 44 0.07
112 36 0.06
113 11 0.02
114 72 0.12
115 129 0.21
116 16 0.03
117 11 0.02
118 37 0.06
119 123 0.20
120 15 0.02
121 28 0.05
122 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (116 bp):
TTTTTTGAAATTTTATTTTCAAGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTTTT
GAAATTTGATATTCAAGAAAAATTGATACTTTCAACTTCTCTTTAAAGTAG
Found at i:23644239 original size:57 final size:57
Alignment explanation
Indices: 23643264--23644243 Score: 802
Period size: 55 Copynumber: 17.0 Consensus size: 57
23643254 CATGCCTTTA
* * * * * *
23643264 TTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAGCATCTTTCGAAATTTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCT-TAAAA-TATTTTTTGAAATTTTTATT
** ** * *
23643323 TTCAAAGAAAATTGATACTCACAACATTTTCTCGAAAAATATTTTTTGAAAATTTCATCT
1 TTCAAAGAAAATTGATACTTTCAAC-TTTTC-CTTAAAATATTTTTTGAAATTTTTAT-T
* * **
23643383 TT-AAGGAAAATTGATACTTTCAAATTTTCCTTAAAGCA--TTTTGAAATTTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAAATTTTTATT
*
23643437 GTT-AAAGAAAATTGATACTTTCAACTTTTCCTTAAAACA--TTTTGAAATTTTTATT
1 -TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAAATTTTTATT
* * *
23643492 TTTAAAGAAAATTGATACTTTTAACTTTTCCTTAAAACA--TTTTGAAATTTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAAATTTTTATT
* * * * *
23643547 GTT--AAGAAAAATTGATACTTTCAACCTTTCCTCAAAAAACTTTTTTTAAAAATTTTCATT
1 -TTCAAAG-AAAATTGATACTTTCAACTTTTCCTTAAAATA--TTTTTT-GAAATTTTTATT
* * * * * *
23643607 TTTAAGGAAAATTGATACTTTCAACTTTTCTTTAAAATGTTTTTTTTAGATTTTT-TT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAT-ATTTTTTGAAATTTTTATT
** * * * *
23643664 TT--TGGAAAATTGTTACCTTCAACTTTTCCTTAAATCATGTTTTTTGAAAATTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAA--ATATTTTTTGAAATTTTTATT
* * * *
23643721 TTCAAAGAAAATTGATACTTTAAACTTTTCCTTAAAGTATTTTTTTTGTTTGAAA-TTTGATA
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAA--A---TATTT-TTTGAAATTTTTATT
* * *
23643783 TTC-AAGAAAAATTGATACTTTGAACTTCTT-TTTAAAGTAGTTTTTTG-AATTTTTATT
1 TTCAAAG-AAAATTGATACTTTCAACTT-TTCCTTAAAATA-TTTTTTGAAATTTTTATT
*
23643840 TTC-AAGAAAATTTGATACTTTCAACTTTTCCTTAAAGTATTTTTTTGTTTGAAATTTTTATT
1 TTCAAAGAAAA-TTGATACTTTCAACTTTTCCTTAAA--A--TATTT-TTTGAAATTTTTATT
* * * * *
23643902 TCCAAAGAAAATTGATACTTTTAACTTTTCTTTAAAGTATTTTTTTGAAA-TTTGATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATA-TTTTTTGAAATTTTTATT
* * * *
23643959 TTCAAAGAAAATTCATACTTTCAACTTCTCTTTAAAGTATTTTTTTGAAATTTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATA-TTTTTTGAAATTTTTATT
** * * * **
23644017 TTTGAAGAAAATTGATACTTTCAACTTCTCTTTAAAGTATTTTTTTTTAA-TTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATA-TTTTTTGAAATTTTTATT
* * * * ** * * *
23644074 TTTAAA-AAAATTGATATTTTTAACTTTTTCTT-AAAT-TTTTTTTTAACTTTGATC
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAAATTTTTATT
* * * * *
23644128 TTCAAGGAAAATTGATGCTTTCAACTTCTCCTTAAAGTATTTTTTAAAAATTTTTATT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTT-GAAATTTTTATT
* *
23644186 TTCAAAG-AAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAATTTTTTTTT
1 TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAAATTTTTATT
23644242 TT
1 TT
23644244 TTTAAATTGA
Statistics
Matches: 765, Mismatches: 112, Indels: 91
0.79 0.12 0.09
Matches are distributed among these distances:
53 10 0.01
54 15 0.02
55 195 0.25
56 57 0.07
57 155 0.20
58 86 0.11
59 97 0.13
60 52 0.07
61 11 0.01
62 71 0.09
63 16 0.02
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (57 bp):
TTCAAAGAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTGAAATTTTTATT
Found at i:23644455 original size:29 final size:30
Alignment explanation
Indices: 23644419--23644503 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
23644409 CAATTTAACC
23644419 AATAAATAAATAAGCAAAAAAA-ATAGATA
1 AATAAATAAATAAGCAAAAAAATATAGATA
* *
23644448 AATAAATAAATAAACAAAATAAATATATATA
1 AATAAATAAATAAGCAAAA-AAATATAGATA
* * *
23644479 TATAGACTAAATAAGCAATAAAATA
1 AATA-AATAAATAAGCAAAAAAATA
23644504 AAATAAAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.38
30 3 0.06
31 14 0.30
32 12 0.26
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (30 bp):
AATAAATAAATAAGCAAAAAAATATAGATA
Found at i:23644466 original size:25 final size:25
Alignment explanation
Indices: 23644420--23644468 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
23644410 AATTTAACCA
*
23644420 ATAAATAAATAAGCAAAAAAAATAG
1 ATAAATAAATAAACAAAAAAAATAG
* *
23644445 ATAAATAAATAAATAAACAAAATA
1 ATAAATAAATAAACAAAAAAAATA
23644469 AATATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (25 bp):
ATAAATAAATAAACAAAAAAAATAG
Found at i:23644987 original size:20 final size:21
Alignment explanation
Indices: 23644964--23645004 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
23644954 TCTAAAAATC
* *
23644964 TGTAGAAAATT-TTCAAAAAA
1 TGTAAAAAATTCTCCAAAAAA
23644984 TGTAAAAAATTCTCCAAAAAA
1 TGTAAAAAATTCTCCAAAAAA
23645005 GCCTATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (21 bp):
TGTAAAAAATTCTCCAAAAAA
Found at i:23647739 original size:19 final size:19
Alignment explanation
Indices: 23647695--23647775 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 19
23647685 CAAAACATTC
*
23647695 AAAGATTCAAAGCTTCTC-
1 AAAGATTCAAAGGTTCTCA
* *
23647713 -ACGATTCAAATGTTCTCA
1 AAAGATTCAAAGGTTCTCA
*
23647731 AAAGATTCAAAGGTTCGCA
1 AAAGATTCAAAGGTTCTCA
*
23647750 AAAGATT-ATAAGGTTCACA
1 AAAGATTCA-AAGGTTCTCA
23647769 AAAGATT
1 AAAGATT
23647776 TCCAACCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
17 14 0.26
18 1 0.02
19 38 0.72
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (19 bp):
AAAGATTCAAAGGTTCTCA
Found at i:23647858 original size:18 final size:17
Alignment explanation
Indices: 23647800--23647859 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 17
23647790 TCAAGGTCGC
23647800 AAAAGATTCAAAGATTCA
1 AAAAGA-TCAAAGATTCA
* *
23647818 CCAAAGATCAAATGTTTGC-
1 -AAAAGATCAAA-GATT-CA
23647837 AAAAGATCAAAGATTCA
1 AAAAGATCAAAGATTCA
23647854 TAAAAG
1 -AAAAG
23647860 TTAAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
16 1 0.03
17 3 0.09
18 20 0.61
19 8 0.24
20 1 0.03
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (17 bp):
AAAAGATCAAAGATTCA
Found at i:23647872 original size:36 final size:37
Alignment explanation
Indices: 23647798--23647874 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
23647788 TTTCAAGGTC
* * **
23647798 GCAAAAGATTCAAAGATTCACCAAAGATCAAATGTTT
1 GCAAAAGATTCAAAGATTCACAAAAGATAAAAAATTT
* *
23647835 GCAAAAGA-TCAAAGATTCATAAAAGTTAAAAAATTT
1 GCAAAAGATTCAAAGATTCACAAAAGATAAAAAATTT
23647871 GCAA
1 GCAA
23647875 TTGTAAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 26 0.76
37 8 0.24
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (37 bp):
GCAAAAGATTCAAAGATTCACAAAAGATAAAAAATTT
Found at i:23648049 original size:22 final size:22
Alignment explanation
Indices: 23648021--23648188 Score: 107
Period size: 22 Copynumber: 7.7 Consensus size: 22
23648011 TTTGCAAGTA
23648021 AAAATTCTAAAGATTCACATCC
1 AAAATTCTAAAGATTCACATCC
**
23648043 AAAATTC-AAAGATTCACACTAA
1 AAAATTCTAAAGATTCACA-TCC
* *
23648065 AAAATTTTAAAGATTCATATCC
1 AAAATTCTAAAGATTCACATCC
* **
23648087 AAAA-T-TATAGATTCACATTGGA
1 AAAATTCTAAAGATTCACA-T-CC
* * *
23648109 AAAATTTTAGATATTCACATCC
1 AAAATTCTAAAGATTCACATCC
** *
23648131 AAAATTC--AAGATTGGCATTCAA
1 AAAATTCTAAAGATTCACA-TC-C
23648153 AAAATT-TAAAGATTCACATCC
1 AAAATTCTAAAGATTCACATCC
* *
23648174 ATAATTC-AAAAATTC
1 AAAATTCTAAAGATTC
23648189 CTATTCAAAA
Statistics
Matches: 110, Mismatches: 25, Indels: 23
0.70 0.16 0.15
Matches are distributed among these distances:
20 16 0.15
21 27 0.25
22 37 0.34
23 20 0.18
24 10 0.09
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAATTCTAAAGATTCACATCC
Found at i:23648195 original size:44 final size:44
Alignment explanation
Indices: 23648020--23648210 Score: 210
Period size: 44 Copynumber: 4.3 Consensus size: 44
23648010 ATTTGCAAGT
*
23648020 AAAAATTCTAAAGATTCACATCCAAAATTCAAAGATTCACACT-A
1 AAAAATT-TAAAGATTCACATCCAAAATTCAAAGATTCACATTCA
* * *
23648064 AAAAATTTTAAAGATTCATATCCAAAATT-ATAGATTCACATTGGA
1 AAAAA-TTTAAAGATTCACATCCAAAATTCAAAGATTCACATT-CA
* * * **
23648109 AAAATTTTAGATATTCACATCCAAAATTC-AAGATTGGCATTCA
1 AAAAATTTAAAGATTCACATCCAAAATTCAAAGATTCACATTCA
* *
23648152 AAAAATTTAAAGATTCACATCCATAATTCAAAAATTC-CTATTCA
1 AAAAATTTAAAGATTCACATCCAAAATTCAAAGATTCAC-ATTCA
*
23648196 AAAAATTTAGAGATT
1 AAAAATTTAAAGATT
23648211 ATGCTCGAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
43 38 0.31
44 78 0.63
45 7 0.06
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (44 bp):
AAAAATTTAAAGATTCACATCCAAAATTCAAAGATTCACATTCA
Found at i:23648390 original size:22 final size:22
Alignment explanation
Indices: 23648316--23648398 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
23648306 GGAAGCTTTA
*
23648316 GAGATTATGTCTT-GAGGTTTTT
1 GAGATTATG-CTTGGAGATTTTT
* * * *
23648338 GTGATTATGC-TAGAGGTTTTA
1 GAGATTATGCTTGGAGATTTTT
* * *
23648359 CAAATCATGCTTGGAGATTTTT
1 GAGATTATGCTTGGAGATTTTT
23648381 GAGATTATGCTTGGAGAT
1 GAGATTATGCTTGGAGAT
23648399 CTTACATTTC
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 31 0.66
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (22 bp):
GAGATTATGCTTGGAGATTTTT
Found at i:23653851 original size:174 final size:175
Alignment explanation
Indices: 23653401--23654016 Score: 568
Period size: 174 Copynumber: 3.5 Consensus size: 175
23653391 AAATCTACCA
* * * **
23653401 TACCTTTACCAACACTTTATACAATCATTGGTATAGATAAACTTTTTT-TGATGGTATATAAACT
1 TACCTATACCAACACTTTATATAACCATTGGTATAGATAAACTTTTTTCTGACAGTATAT-AACT
* * * * * * * * * *** *
23653465 ATCCGTCAGTA-AATGTATATTATATACTAACATTTGGT-TATACTGATAGTTAAATTGCGTCAG
65 ATCCATCAATATAA-GTATGTTATATACTGACACTT-ATCTATACTAACAGTCAAATTATATAAG
* * * * * * * *
23653528 TAAAAGAGATT-TATACTAA-TAGTTTTT-TAATACTGTAAGAATATACCA-
128 TAAAA-AGTTTCTATACGAACGAATTTTTAT-A-ACTATCAGTATAGA-CAG
* * * * *
23653576 TACCTTTACCAACACTTTATATAATCGTTGGTATAGATAAACTTTTTTCTAAC-GATATATAGCT
1 TACCTATACCAACACTTTATATAACCATTGGTATAGATAAACTTTTTTCTGACAG-TATATAACT
* * *
23653640 ATCCATCAATATAAGTATGATATATACTGATACTTATCTATACTAACGGTCAAATTATATAAGTA
65 ATCCATCAATATAAGTATGTTATATACTGACACTTATCTATACTAACAGTCAAATTATATAAGTA
* * *
23653705 AAAAGTTTCTATACGGACGAATTTTTATAAGTATCAGTATAGACAT
130 AAAAGTTTCTATACGAACGAATTTTTATAACTATCAGTATAGACAG
* * * *
23653751 TACCTATACCAATACTTTGTATAACCATCGGTATAGATAAACTTTTTT-TGACAGTACATAACTA
1 TACCTATACCAACACTTTATATAACCATTGGTATAGATAAACTTTTTTCTGACAGTATATAACTA
* * * * *
23653815 TCCGTCAGTATAAGTATGTTATATACTGACACTTATCTATACTGACAGTTAAATTATGTAAGTAA
66 TCCATCAATATAAGTATGTTATATACTGACACTTATCTATACTAACAGTCAAATTATATAAGTAA
* * * * * *
23653880 AAAGTTTTTATACTAATGAATTTTTGTTACTGTCAGTATAGACAG
131 AAAGTTTCTATACGAACGAATTTTTATAACTATCAGTATAGACAG
* * * * * *
23653925 TGCCTATACCAACATTTTTTATAACCATTGGTATAGGTAAA-TTTTTTCTGATAGTATATAAATA
1 TACCTATACCAACACTTTATATAACCATTGGTATAGATAAACTTTTTTCTGACAGTATATAACTA
23653989 TCCATCAATATAAGTATGTTATATACTG
66 TCCATCAATATAAGTATGTTATATACTG
23654017 TCGGTTATAA
Statistics
Matches: 363, Mismatches: 68, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
173 6 0.02
174 185 0.51
175 155 0.43
176 16 0.04
177 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (175 bp):
TACCTATACCAACACTTTATATAACCATTGGTATAGATAAACTTTTTTCTGACAGTATATAACTA
TCCATCAATATAAGTATGTTATATACTGACACTTATCTATACTAACAGTCAAATTATATAAGTAA
AAAGTTTCTATACGAACGAATTTTTATAACTATCAGTATAGACAG
Found at i:23654139 original size:17 final size:16
Alignment explanation
Indices: 23654112--23654153 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
23654102 TTCTAATAAA
23654112 AATTTTTAAAAACTAT
1 AATTTTTAAAAACTAT
23654128 AATTTGTTAAAAACTAT
1 AATTT-TTAAAAACTAT
*
23654145 AATTATTAA
1 AATTTTTAA
23654154 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (16 bp):
AATTTTTAAAAACTAT
Found at i:23657793 original size:68 final size:68
Alignment explanation
Indices: 23657646--23657773 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 68
23657636 ATATTACACT
* * * *
23657646 AATGAATAGGATGTTTATAAAATTATTTATGCTGGTATTTAAATGTATGATTACCTTCTTTATAT
1 AATGAATAAGATGTTTATAAAATTATTTATGCTAGTATATAAATGGATGATTACCTTCTTTATAT
23657711 ATG
66 ATG
* *
23657714 AATGAATAAGATGTTTATAAAATTATTTCT-CTTAGTATATGAATGGATGATTACCTTCTT
1 AATGAATAAGATGTTTATAAAATTATTTATGC-TAGTATATAAATGGATGATTACCTTCTT
23657774 ACCTTCTGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 1 0.02
68 52 0.98
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATTATTTATGCTAGTATATAAATGGATGATTACCTTCTTTATAT
ATG
Found at i:23657957 original size:15 final size:15
Alignment explanation
Indices: 23657937--23657966 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23657927 AAACATTCAA
23657937 TGATGTTTGTTTTAT
1 TGATGTTTGTTTTAT
23657952 TGATGTTTGTTTTAT
1 TGATGTTTGTTTTAT
23657967 CAGACTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (15 bp):
TGATGTTTGTTTTAT
Found at i:23658360 original size:55 final size:54
Alignment explanation
Indices: 23658296--23658435 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 54
23658286 TAACTGTCGG
* * *
23658296 TATAAGTAAGAAAATTAAAAAATACAAGTCTATACTAAC-GAATATTAAGCATCGA
1 TATAGGTAAGAAAATTAAAACATA-AAGTCTATACTAACAG-ATATTAACCATCGA
* * * *
23658351 TATAGGTAAG--AA--AAATCAT-AAGTTTATACTAACAGATGTTAACCATCGG
1 TATAGGTAAGAAAATTAAAACATAAAGTCTATACTAACAGATATTAACCATCGA
23658400 TATAGGTAAGAAAATTAAAACATAAAAGTCTATACT
1 TATAGGTAAGAAAATTAAAACAT-AAAGTCTATACT
23658436 GATGGACTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
49 34 0.49
50 1 0.01
51 7 0.10
53 8 0.12
55 19 0.28
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (54 bp):
TATAGGTAAGAAAATTAAAACATAAAGTCTATACTAACAGATATTAACCATCGA
Found at i:23658448 original size:104 final size:104
Alignment explanation
Indices: 23658292--23658538 Score: 284
Period size: 104 Copynumber: 2.4 Consensus size: 104
23658282 TCTCTAACTG
*
23658292 TCGGTATAAGTAAGAAAATTAAAAAATACAAGTCTATACTAACGAATATTAAGCATCGATATAGG
1 TCGGTATAAGTAAGAAAATTAAAAAATAAAAGTCTATACTAACGAATATTAAGCATCGATATAGG
* **
23658357 TAAGAAAAATCATAAGTTTATACT-AACAG-ATGTTAACCA
66 TAAAAAAAATCATAAGACTATACTGAACAGCA--TTAACCA
* * ** * * *
23658396 TCGGTATAGGTAAGAAAATTAAAACATAAAAGTCTATACTGATGGACT-TTAAGCATTGGTATAG
1 TCGGTATAAGTAAGAAAATTAAAAAATAAAAGTCTATACT-AACGAATATTAAGCATCGATATAG
* * *
23658460 GTAAAAAAAATTATAAGACTATATTGATCAGCATTAACCA
65 GTAAAAAAAATCATAAGACTATACTGAACAGCATTAACCA
* * *
23658500 TCGGTATAAGTAAGAAAAATTGAAATATATAAGTCTATA
1 TCGGTATAAGTAAG-AAAATTAAAAAATAAAAGTCTATA
23658539 TAGACGTGCG
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
104 91 0.75
105 29 0.24
106 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (104 bp):
TCGGTATAAGTAAGAAAATTAAAAAATAAAAGTCTATACTAACGAATATTAAGCATCGATATAGG
TAAAAAAAATCATAAGACTATACTGAACAGCATTAACCA
Found at i:23658458 original size:55 final size:56
Alignment explanation
Indices: 23658251--23658468 Score: 161
Period size: 55 Copynumber: 4.1 Consensus size: 56
23658241 AATATAATAA
* * * * * *
23658251 AAAATTAAAACATACAAGTTTATATTGATGGTCT-CTAA-CTGTCGGTATAAGTAAG
1 AAAATTAAAACATACAAGTCTATACTGATGGACTATTAAGC-ATCGGTATAGGTAAG
* ** * *
23658306 AAAATTAAAAAATACAAGTCTATACT-AACGAATATTAAGCATCGATATAGGTAAG
1 AAAATTAAAACATACAAGTCTATACTGATGGACTATTAAGCATCGGTATAGGTAAG
* * * ** * *
23658361 --AA--AAATCAT--AAGTTTATACTAACAGA-TGTTAACCATCGGTATAGGTAAG
1 AAAATTAAAACATACAAGTCTATACTGATGGACTATTAAGCATCGGTATAGGTAAG
* * *
23658410 AAAATTAAAACATAAAAGTCTATACTGATGGACT-TTAAGCATTGGTATAGGTAAA
1 AAAATTAAAACATACAAGTCTATACTGATGGACTATTAAGCATCGGTATAGGTAAG
23658465 AAAA
1 AAAA
23658469 ATTATAAGAC
Statistics
Matches: 126, Mismatches: 27, Indels: 20
0.73 0.16 0.12
Matches are distributed among these distances:
49 30 0.24
50 3 0.02
51 7 0.06
53 8 0.06
54 3 0.02
55 73 0.58
56 2 0.02
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (56 bp):
AAAATTAAAACATACAAGTCTATACTGATGGACTATTAAGCATCGGTATAGGTAAG
Found at i:23659961 original size:7 final size:7
Alignment explanation
Indices: 23659949--23660013 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
23659939 TCAATAAATC
23659949 AATAAAA
1 AATAAAA
23659956 AAT-AAA
1 AATAAAA
23659962 AATAACTAGA
1 AATAA--A-A
*
23659972 AA-ATAA
1 AATAAAA
23659978 AATAAAA
1 AATAAAA
23659985 ACAT--AA
1 A-ATAAAA
23659991 AAT-AAA
1 AATAAAA
23659997 AATAAAA
1 AATAAAA
23660004 AATAAAA
1 AATAAAA
23660011 AAT
1 AAT
23660014 TAAACATAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
5 2 0.04
6 17 0.35
7 22 0.46
8 2 0.04
9 2 0.04
10 3 0.06
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (7 bp):
AATAAAA
Found at i:23659964 original size:6 final size:6
Alignment explanation
Indices: 23659953--23660011 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
23659943 TAAATCAATA
* *
23659953 AAAAAT AAAAAT --AACT AGAAAAT -AAAAT AAAAAC ATAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT A-AAAAT AAAAAT
23660000 AAAAAAT AAAAA
1 -AAAAAT AAAAA
23660012 ATTAAACATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 3 0.07
5 5 0.12
6 21 0.49
7 14 0.33
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:23659964 original size:17 final size:17
Alignment explanation
Indices: 23659933--23660001 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
23659923 TTCCTTTTTA
23659933 AAAAAATCAATAAATCAA-T
1 AAAAAAT-AA-AAAT-AACT
23659952 AAAAAATAAAAATAACT
1 AAAAAATAAAAATAACT
* *
23659969 AGAAAATAAAATAAAAAC-
1 AAAAAAT-AAA-AATAACT
*
23659987 ATAAAATAAAAATAA
1 AAAAAATAAAAATAA
23660002 AAAATAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 6 0.14
17 14 0.33
18 11 0.26
19 12 0.28
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAAATAACT
Found at i:23659992 original size:13 final size:13
Alignment explanation
Indices: 23659974--23660029 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
23659964 TAACTAGAAA
23659974 ATAAAATAAAAAC
1 ATAAAATAAAAAC
*
23659987 ATAAAATAAAAAT
1 ATAAAATAAAAAC
*
23660000 AAAAAATAAAAA-
1 ATAAAATAAAAAC
23660012 ATTAAACATAAGAAAC
1 A-TAAA-ATAA-AAAC
23660028 AT
1 AT
23660030 GAATATGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.03
13 26 0.72
14 4 0.11
15 4 0.11
16 1 0.03
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (13 bp):
ATAAAATAAAAAC
Found at i:23661032 original size:25 final size:25
Alignment explanation
Indices: 23660980--23661032 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
23660970 TAATATTTTT
* * *
23660980 AAAAAAGAGAGAAAATTTAAATTAA
1 AAAAAAGAAAGAAAATTAAAAGTAA
* *
23661005 AAAAAAGAAATAAAATTAAAAGTGA
1 AAAAAAGAAAGAAAATTAAAAGTAA
23661030 AAA
1 AAA
23661033 TTGTGACAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (25 bp):
AAAAAAGAAAGAAAATTAAAAGTAA
Found at i:23665179 original size:151 final size:150
Alignment explanation
Indices: 23664905--23665192 Score: 359
Period size: 151 Copynumber: 1.9 Consensus size: 150
23664895 GGTTAACACC
* * * *
23664905 CATCAGTATAGACTTGTATGTTTTAATTTTTCTTGTCTATACCAATGGTTAATAGTCATCAGTAT
1 CATCAATATAGACTTATATGTTTTAATTTTTCTTGCCTATACCAATAGTTAATAGTCATCAGTAT
* * *
23664970 AAACTTATAAATGTTTGTACCTATACTGACGTTTAATGCCCATTAGTATAGATTTGTATGTTTTA
66 AAACTTATAAATGTTTGTACCTATACTGACGCTTAAT-CCCATTAATATAGACTTGTATGTTTTA
23665035 ATTTTCTCACCGATACTGACT
130 ATTTTCTCACCGATACTGACT
* *
23665056 CATCAATATAGACTTATATGTTTTAATTTTTC-TGACCTATACTAATAGTTAAT-GCTTATCAGT
1 CATCAATATAGACTTATATGTTTTAATTTTTCTTG-CCTATACCAATAGTTAATAG-TCATCAGT
* * * * * *
23665119 ATAGACTTGT-AATTTTTCTTACCTATACTGATGCTTAGCAT-CCATTAATATAGACTTGTATTT
64 ATAAACTTATAAATGTTT-GTACCTATACTGACGCTTA--ATCCCATTAATATAGACTTGTATGT
23665182 TTTAATTTTCT
126 TTTAATTTTCT
23665193 TACCTATATT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
150 9 0.08
151 106 0.91
153 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (150 bp):
CATCAATATAGACTTATATGTTTTAATTTTTCTTGCCTATACCAATAGTTAATAGTCATCAGTAT
AAACTTATAAATGTTTGTACCTATACTGACGCTTAATCCCATTAATATAGACTTGTATGTTTTAA
TTTTCTCACCGATACTGACT
Found at i:23665193 original size:55 final size:55
Alignment explanation
Indices: 23665132--23665252 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 55
23665122 GACTTGTAAT
* * *
23665132 TTTTCTTACCTATACTGATGCTTAG-CATCCATTAATATAGACTTGTATTTTTTAA
1 TTTTCTTACCTATACTGATGCTTAGACAT-CATTAATATAAAATTGTATATTTTAA
* * * ** *
23665187 TTTTCTTACCTATATTGATGGTTAGAGATTGTTAGTATAAAATTGTATATTTTAA
1 TTTTCTTACCTATACTGATGCTTAGACATCATTAATATAAAATTGTATATTTTAA
23665242 TTTTCTTACCT
1 TTTTCTTACCT
23665253 TTACCAATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 54 0.96
56 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (55 bp):
TTTTCTTACCTATACTGATGCTTAGACATCATTAATATAAAATTGTATATTTTAA
Found at i:23665263 original size:55 final size:55
Alignment explanation
Indices: 23665174--23665280 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
23665164 TAATATAGAC
* *** * *
23665174 TTGTATTTTTTAATTTTCTTACCTATATTGATGGTTAGAGATTGTTAGTATAAAA
1 TTGTATATTTTAATTTTCTTACCTATACCAATGGTTAGAGATTCTCAGTATAAAA
*
23665229 TTGTATATTTTAATTTTCTTACCTTTACCAATGGTTAGAGATTCTCAGTATA
1 TTGTATATTTTAATTTTCTTACCTATACCAATGGTTAGAGATTCTCAGTATA
23665281 GACTTGTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (55 bp):
TTGTATATTTTAATTTTCTTACCTATACCAATGGTTAGAGATTCTCAGTATAAAA
Found at i:23665654 original size:68 final size:68
Alignment explanation
Indices: 23665528--23665654 Score: 218
Period size: 68 Copynumber: 1.9 Consensus size: 68
23665518 ACAAAAGGTA
* * *
23665528 AGAAGGTAATCATCCATTCATATACCAATAGAAATAATTTTATAAACATCTTATTCATTCATTTA
1 AGAAGGTAATCATCCATTCATATACCAACAAAAATAATTTTATAAACATCCTATTCATTCATTTA
23665593 TAC
66 TAC
*
23665596 AGAAGGTAATCATCCATTTATATACCAACAAAAATAATTTTATAAACATCCTATTCATT
1 AGAAGGTAATCATCCATTCATATACCAACAAAAATAATTTTATAAACATCCTATTCATT
23665655 AGTGTAATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (68 bp):
AGAAGGTAATCATCCATTCATATACCAACAAAAATAATTTTATAAACATCCTATTCATTCATTTA
TAC
Found at i:23669838 original size:62 final size:63
Alignment explanation
Indices: 23669772--23669926 Score: 156
Period size: 64 Copynumber: 2.5 Consensus size: 63
23669762 CATTTATGGT
* * * *
23669772 AAAAAATGCTTTGAATAATCCCTTTCAATTTTTATGAGG-GATTATT-AAGGGTTTTTTTGCAA
1 AAAAAAAGCCTTGAATAATCCCTTTCAATTTTTAT-AGGAGATTATTGAAGGCTTTTTCTGCAA
*** * *
23669834 AAAAAAACGCCTTGAATAATCCCTAAAAAATTTTTATAGGAGATTATTGAAGTCTTTTTCTGC-C
1 AAAAAAA-GCCTTGAATAATCCCT-TTCAATTTTTATAGGAGATTATTGAAGGCTTTTTCTGCAA
* *
23669898 AAAAACA-CCTTGAATACTCCCTTTCAATT
1 AAAAAAAGCCTTGAATAATCCCTTTCAATT
23669927 ATTAAAAGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
61 4 0.05
62 20 0.27
63 18 0.24
64 22 0.29
65 11 0.15
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (63 bp):
AAAAAAAGCCTTGAATAATCCCTTTCAATTTTTATAGGAGATTATTGAAGGCTTTTTCTGCAA
Found at i:23669851 original size:63 final size:61
Alignment explanation
Indices: 23669772--23669926 Score: 152
Period size: 63 Copynumber: 2.5 Consensus size: 61
23669762 CATTTATGGT
* * * *
23669772 AAAAAATGCTTTGAATAATCCCTTTCAATTTTTATGAGG-GATTATT-AAGGGTTTTTTTGC
1 AAAAAACGCCTTGAATAATCCCTTTCAATTTTTAT-AGGAGATTATTGAAGGCTTTTTCTGC
*** *
23669832 AAAAAAAAACGCCTTGAATAATCCCTAAAAAATTTTTATAGGAGATTATTGAAGTCTTTTTCTGC
1 ---AAAAAACGCCTTGAATAATCCCT-TTCAATTTTTATAGGAGATTATTGAAGGCTTTTTCTGC
* * *
23669897 CAAAAACACCTTGAATACTCCCTTTCAATT
1 AAAAAACGCCTTGAATAATCCCTTTCAATT
23669927 ATTAAAAGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
61 4 0.05
62 20 0.27
63 24 0.32
64 16 0.21
65 11 0.15
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (61 bp):
AAAAAACGCCTTGAATAATCCCTTTCAATTTTTATAGGAGATTATTGAAGGCTTTTTCTGC
Found at i:23670423 original size:64 final size:62
Alignment explanation
Indices: 23670349--23670545 Score: 178
Period size: 57 Copynumber: 3.2 Consensus size: 62
23670339 GCTAGAAATG
*
23670349 CCTTGAATAATCCCCTTATATTTTTTATAA-GTGGATTATTCAAGGTGTTTTTTGGCTAAAAACA
1 CCTTGAATAATCCCCTTATATTTTTTA-AACG-GGATTATTCAAGGTGTTTTTT-GCCAAAAACA
* * * *
23670413 TCTTGAATAATCCTC-TATAATTTTTTAAACGGGATTATTCGAGGTGTTTTTTGCCAAAAATA
1 CCTTGAATAATCCCCTTAT-ATTTTTTAAACGGGATTATTCAAGGTGTTTTTTGCCAAAAACA
* * * * **
23670475 CCTTCAATAATCTCCTCAT-TTTTTT----GGGATCATTCAAGGTGTTTTTGTG--ATAAAATG
1 CCTTGAATAATCCCCTTATATTTTTTAAACGGGATTATTCAAGGTGTTTTT-TGCCA-AAAACA
23670532 CCTTGAATAATCCC
1 CCTTGAATAATCCC
23670546 TTTCAGGCAT
Statistics
Matches: 113, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
56 1 0.01
57 36 0.32
58 2 0.02
61 6 0.05
62 19 0.17
63 27 0.24
64 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (62 bp):
CCTTGAATAATCCCCTTATATTTTTTAAACGGGATTATTCAAGGTGTTTTTTGCCAAAAACA
Found at i:23670499 original size:62 final size:64
Alignment explanation
Indices: 23670344--23670499 Score: 171
Period size: 63 Copynumber: 2.5 Consensus size: 64
23670334 TTCTAGCTAG
* * * *
23670344 AAATGCCTTGAATAATCCCCTTATATTTTTTATAAGTGGATTATTCAAGGTGTTTTTTGGCTAA
1 AAATACCTTGAATAATCTCCTCATATTTTTTATAAGTGGATTATTCAAGGTGTTTTTTGGCCAA
* * *
23670408 AAACATCTTGAATAA--TCCTCTATAATTTTTTA-AACG-GGATTATTCGAGGTGTTTTTT-GCC
1 AAATACCTTGAATAATCTCCTC-AT-ATTTTTTATAA-GTGGATTATTCAAGGTGTTTTTTGGCC
23670468 AA
63 AA
*
23670470 AAATACCTTCAATAATCTCCTCAT-TTTTTT
1 AAATACCTTGAATAATCTCCTCATATTTTTT
23670500 GGGATCATTC
Statistics
Matches: 77, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
61 6 0.08
62 19 0.25
63 26 0.34
64 26 0.34
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (64 bp):
AAATACCTTGAATAATCTCCTCATATTTTTTATAAGTGGATTATTCAAGGTGTTTTTTGGCCAA
Found at i:23671042 original size:46 final size:46
Alignment explanation
Indices: 23670968--23671056 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
23670958 TTATTGAATG
* *
23670968 GGATTATTGAAGGCATTTCTGGTCAAAAATACCTTGAATAATTCTT
1 GGATTATTGAAGGCATTTCTGGTCAAAAACACCTTCAATAATTCTT
* *
23671014 GGATTATTGAAGGTATTTTTGG-CTAAAAACACCTTCAATAATT
1 GGATTATTGAAGGCATTTCTGGTC-AAAAACACCTTCAATAATT
23671057 TTTTTCAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (46 bp):
GGATTATTGAAGGCATTTCTGGTCAAAAACACCTTCAATAATTCTT
Found at i:23676255 original size:39 final size:38
Alignment explanation
Indices: 23676212--23676302 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 38
23676202 AAAAGAGACT
* * *
23676212 AGATTTTTACACCTCATATGA-AAAGAACTTTTCAAGATG
1 AGATTTTTA-ACCTCAAATGAGAAA-AAATTTTCAAGATA
* *
23676251 AGATTTTTTATCCTTAAATGAGAAAAAATTTTCAAGATA
1 AGA-TTTTTAACCTCAAATGAGAAAAAATTTTCAAGATA
23676290 AGATTTTTAACCT
1 AGATTTTTAACCT
23676303 TGGATTGAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
38 9 0.20
39 26 0.59
40 9 0.20
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (38 bp):
AGATTTTTAACCTCAAATGAGAAAAAATTTTCAAGATA
Found at i:23676482 original size:21 final size:21
Alignment explanation
Indices: 23676458--23676504 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23676448 ATAAGATGAC
*
23676458 ATTTTATTTACAAATCTTTAA
1 ATTTCATTTACAAATCTTTAA
* * *
23676479 ATTTCCTTTGCGAATCTTTAA
1 ATTTCATTTACAAATCTTTAA
23676500 ATTTC
1 ATTTC
23676505 CTTCATGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTCATTTACAAATCTTTAA
Found at i:23676514 original size:21 final size:21
Alignment explanation
Indices: 23676470--23676514 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23676460 TTTATTTACA
**
23676470 AATCTTTAAATTTCCTTTGCG
1 AATCTTTAAATTTCCTTCACG
*
23676491 AATCTTTAAATTTCCTTCATG
1 AATCTTTAAATTTCCTTCACG
23676512 AAT
1 AAT
23676515 ATTTGAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (21 bp):
AATCTTTAAATTTCCTTCACG
Found at i:23676562 original size:21 final size:21
Alignment explanation
Indices: 23676530--23676627 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
23676520 AACTTTTGTG
*
23676530 AACCTTC-GTGTGAATCTTAA
1 AACCTTCAATGTGAATCTTAA
*
23676550 AACCCTCAATGTGAATC-TAGA
1 AACCTTCAATGTGAATCTTA-A
* * *
23676571 AACTTTCGATGTGAATCTCAA
1 AACCTTCAATGTGAATCTTAA
* *
23676592 AACCTTCTATATGAATCTT-A
1 AACCTTCAATGTGAATCTTAA
*
23676612 AACCTTTCGATGTGAA
1 AACC-TTCAATGTGAA
23676628 CCTCAACTCC
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
20 13 0.21
21 48 0.77
22 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (21 bp):
AACCTTCAATGTGAATCTTAA
Found at i:23676607 original size:42 final size:42
Alignment explanation
Indices: 23676534--23676633 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
23676524 TTTGTGAACC
* *
23676534 TTCG-TGTGAATCTTAAAACCCTCAATGTGAATC-TAGAAACT
1 TTCGATGTGAATCTCAAAACCCTCAATATGAATCTTA-AAACT
* * *
23676575 TTCGATGTGAATCTCAAAACCTTCTATATGAATCTTAAACCT
1 TTCGATGTGAATCTCAAAACCCTCAATATGAATCTTAAAACT
*
23676617 TTCGATGTGAACCTCAA
1 TTCGATGTGAATCTCAA
23676634 CTCCAATGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.08
42 45 0.88
43 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
TTCGATGTGAATCTCAAAACCCTCAATATGAATCTTAAAACT
Found at i:23676814 original size:40 final size:40
Alignment explanation
Indices: 23676730--23676834 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
23676720 TCTTTGAAAA
* *
23676730 TTTTTAAATGTGAA-CTTTTGATTC--TAAGAAATGAATC
1 TTTTCAAATGTGAATCTTTTGATTCTTTAGGAAATGAATC
*
23676767 TTTTCAAATGTGAATCTTTTGATTCTTTAGGATATGAA-C
1 TTTTCAAATGTGAATCTTTTGATTCTTTAGGAAATGAATC
*
23676806 TTCTTCAAATGTGAAT-ATTTGATT-TTTAG
1 TT-TTCAAATGTGAATCTTTTGATTCTTTAG
23676835 ATTTGAATCT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
37 13 0.22
38 15 0.25
39 10 0.17
40 22 0.37
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (40 bp):
TTTTCAAATGTGAATCTTTTGATTCTTTAGGAAATGAATC
Found at i:23676833 original size:122 final size:120
Alignment explanation
Indices: 23676644--23676914 Score: 309
Period size: 122 Copynumber: 2.2 Consensus size: 120
23676634 CTCCAATGTA
* * * * *
23676644 AATCTTTTCAAATATGAACCTTTTATTTTAATATATGAATCTCTTTAAACTTGAATTTTTATTTT
1 AATCTTTTCAAATGTGAATCTTTTATTTTAAGATATGAATCTCTTCAAACTTGAATTTTGATTTT
* * *
23676709 TTAGATGTAAATCTTTGAAAATTTTTAAATGTGAACTTTTGATTCT-AAGAAATG
66 TTAGATGTAAATCTTTGAAAAATTTCAAATGTGAACCTTTGATTCTAAAGAAATG
*
23676763 AATCTTTTCAAATGTGAATCTTTTGATTCTTTAGGATATGAA-CTTCTTCAAA-TGTGAATATTT
1 AATCTTTTCAAATGTGAATCTTTT-A-T-TTTAAGATATGAATC-TCTTCAAACT-TGAAT-TTT
* * * **
23676826 GA-TTTTTAGATTTGAATCTTTGAAAAATTTCAAATGTGAACCTTTGATTTTAAAGATGTG
60 GATTTTTTAGATGTAAATCTTTGAAAAATTTCAAATGTGAACCTTTGATTCTAAAGAAATG
*
23676886 AATCTCTTT-AAATGTGAATATTTTATTTT
1 AATCT-TTTCAAATGTGAATCTTTTATTTT
23676915 TCAAATGTGA
Statistics
Matches: 129, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
119 22 0.17
120 4 0.03
121 4 0.03
122 67 0.52
123 29 0.22
124 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (120 bp):
AATCTTTTCAAATGTGAATCTTTTATTTTAAGATATGAATCTCTTCAAACTTGAATTTTGATTTT
TTAGATGTAAATCTTTGAAAAATTTCAAATGTGAACCTTTGATTCTAAAGAAATG
Found at i:23676914 original size:83 final size:86
Alignment explanation
Indices: 23676768--23676930 Score: 217
Period size: 83 Copynumber: 1.9 Consensus size: 86
23676758 AAATGAATCT
* * *
23676768 TTTCAAATGTGAATCTTTTGATTCTTTAGGATATGAACTTCTTCAAATGTGAATATTTGATTTTT
1 TTTCAAATGTGAATCCTTTGATTCTTAAAGATATGAACTTCTTCAAATGTGAATATTTGATTTTT
* *
23676833 -AGATTTGAATCTTTGAAAAA
66 CAAATGTGAATCTTTGAAAAA
* * *
23676853 TTTCAAATGTGAA-CCTTTGATT-TTAAAGATGTGAA-TCTCTTTAAATGTGAATATTTTATTTT
1 TTTCAAATGTGAATCCTTTGATTCTTAAAGATATGAACT-TCTTCAAATGTGAATATTTGATTTT
23676915 TCAAATGTGAATCTTT
65 TCAAATGTGAATCTTT
23676931 AATATTTTAG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 1 0.01
83 34 0.50
84 20 0.29
85 13 0.19
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (86 bp):
TTTCAAATGTGAATCCTTTGATTCTTAAAGATATGAACTTCTTCAAATGTGAATATTTGATTTTT
CAAATGTGAATCTTTGAAAAA
Found at i:23680691 original size:21 final size:21
Alignment explanation
Indices: 23680662--23680702 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23680652 TGAAATAGTT
* *
23680662 TGGGCAAATTTTGGAGAAATC
1 TGGGAAAATTTTGAAGAAATC
23680683 TGGGAAAATTTTGAAGAAAT
1 TGGGAAAATTTTGAAGAAAT
23680703 TTGGATTTTT
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:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (21 bp):
TGGGAAAATTTTGAAGAAATC
Found at i:23681274 original size:15 final size:15
Alignment explanation
Indices: 23681239--23681273 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23681229 TGTATTTCTG
*
23681239 AAAAAACAAATCTAC
1 AAAAAACAAATATAC
23681254 AAAAAACAAA-ATAC
1 AAAAAACAAATATAC
23681268 AAAAAA
1 AAAAAA
23681274 ATCCTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.77, C:0.14, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAAACAAATATAC
Found at i:23681291 original size:20 final size:18
Alignment explanation
Indices: 23681262--23681313 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
23681252 ACAAAAAACA
*
23681262 AAATACAAAAAAATCCTTTC
1 AAATAAAAAAAAAT--TTTC
*
23681282 AAATAAAAAAATATTTTC
1 AAATAAAAAAAAATTTTC
*
23681300 AAATAAACAAAAAT
1 AAATAAAAAAAAAT
23681314 AATTTTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 16 0.57
20 12 0.43
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (18 bp):
AAATAAAAAAAAATTTTC
Found at i:23681320 original size:22 final size:18
Alignment explanation
Indices: 23681268--23681311 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23681258 AACAAAATAC
**
23681268 AAAAAAATCCTTTCAAAT
1 AAAAAAATATTTTCAAAT
23681286 AAAAAAATATTTTCAAAT
1 AAAAAAATATTTTCAAAT
23681304 AAACAAAA
1 AAA-AAAA
23681312 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAAATATTTTCAAAT
Found at i:23684851 original size:57 final size:54
Alignment explanation
Indices: 23684720--23684862 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 54
23684710 CCTGACAAAT
** * * **
23684720 AAAAAAATGAAAAAAAAATTGATGGGACAAAATACCAATGTGCTCCACCAAAAAG
1 AAAAAAA-GAAAAAAAAATTGATGGGGTAAAATGCCAATGTACTCCAAAAAAAAG
*
23684775 --AAAAAGAAAAAAAATTTGATGGGGTAAAATGCCAATGTACTCTGTCAAAAAAAAG
1 AAAAAAAGAAAAAAAAATTGATGGGGTAAAATGCCAATGTACTC---CAAAAAAAAG
23684830 AAAAAAAGAAAAAAAAATTGATGGGGTAAAATG
1 AAAAAAAGAAAAAAAAATTGATGGGGTAAAATG
23684863 TCAAAGTGCC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
52 32 0.43
53 5 0.07
55 8 0.11
57 30 0.40
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (54 bp):
AAAAAAAGAAAAAAAAATTGATGGGGTAAAATGCCAATGTACTCCAAAAAAAAG
Found at i:23685179 original size:27 final size:26
Alignment explanation
Indices: 23685124--23685183 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
23685114 AAAAAAGGAA
* * *
23685124 AAAAAAATGAAAAAAAATCAAGAAGC
1 AAAAAAATAAAAAAAAATCAAAAAAC
23685150 AAAAAAATAAAAATAAAAAT-AAAAAAC
1 AAAAAAAT-AAAA-AAAAATCAAAAAAC
23685177 AAAAAAA
1 AAAAAAA
23685184 AAGGAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
27 15 0.52
28 6 0.21
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (26 bp):
AAAAAAATAAAAAAAAATCAAAAAAC
Found at i:23686298 original size:86 final size:86
Alignment explanation
Indices: 23686153--23686589 Score: 393
Period size: 86 Copynumber: 5.1 Consensus size: 86
23686143 TGCAAACTTA
* *
23686153 AAAATCCTTGTGAATCTTGCATTTTTGTGAATCTAGAACCTTT-TCGAAACTTGGAGTCTTATGA
1 AAAATCCTTGTGAATCTTGCATCTTTGCGAATCTAGAACCTTTGT-GAAACTTGGAGTCTTATGA
* *
23686217 ATCTTTCTTTCTTATGATCCTG
65 ATCTTTCTTTCTTACGAACCTG
* * * * *
23686239 AAAATCCTTGTGAATCTTGTATCTTTGCGAATCTGGGACCTTTGTGAAACTTGGAGTCTTGTAAA
1 AAAATCCTTGTGAATCTTGCATCTTTGCGAATCTAGAACCTTTGTGAAACTTGGAGTCTTATGAA
*
23686304 TCTTTTTTTCTTGA-GAACCTG
66 TCTTTCTTTCTT-ACGAACCTG
** * * * * * *
23686325 AAAAT-CTT-TGAAAAATTACAACTTTGCAAATCT-GAAACTTTTGTGAAACTTAGAGTCTTGTG
1 AAAATCCTTGTG-AATCTTGCATCTTTGCGAATCTAG-AACCTTTGTGAAACTTGGAGTCTTATG
*
23686387 AATCTTTTTTTCTTACGAACCTG
64 AATCTTTCTTTCTTACGAACCTG
** * * *** * **
23686410 AAAATCCTTAAGAATCTTGCATCTTTACGAATCTAGAACATTTACAAAACTTGGCGTCTTACAAA
1 AAAATCCTTGTGAATCTTGCATCTTTGCGAATCTAGAACCTTTGTGAAACTTGGAGTCTTATGAA
* * *
23686475 TCTTTCTTTCTTGCGACCCTA
66 TCTTTCTTTCTTACGAACCTG
* * * * * ** * *
23686496 AAAATCCTTGCGAACCTTACATCTTTGTGAATCTAGAACCTTCGCAAAACTTGGAATCTTACGAA
1 AAAATCCTTGTGAATCTTGCATCTTTGCGAATCTAGAACCTTTGTGAAACTTGGAGTCTTATGAA
* *
23686561 T-TTTCCATTCTTACGAATCTG
66 TCTTT-CTTTCTTACGAACCTG
23686582 AAAA-CCTT
1 AAAATCCTT
23686590 TGCAAATTTT
Statistics
Matches: 286, Mismatches: 56, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
84 4 0.01
85 75 0.26
86 203 0.71
87 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (86 bp):
AAAATCCTTGTGAATCTTGCATCTTTGCGAATCTAGAACCTTTGTGAAACTTGGAGTCTTATGAA
TCTTTCTTTCTTACGAACCTG
Found at i:23690101 original size:20 final size:21
Alignment explanation
Indices: 23690066--23690106 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
23690056 AAATCAATCC
*
23690066 CTTAATCCCAATTTGA-ATAT
1 CTTAATCCCAACTTGATATAT
*
23690086 CTTAATCCTAACTTGATATAT
1 CTTAATCCCAACTTGATATAT
23690107 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (21 bp):
CTTAATCCCAACTTGATATAT
Found at i:23692222 original size:15 final size:16
Alignment explanation
Indices: 23692189--23692219 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23692179 AACGTGATCT
*
23692189 TTTTTTTAAAATTTAA
1 TTTTTTAAAAATTTAA
23692205 TTTTTTAAAAATTTA
1 TTTTTTAAAAATTTA
23692220 TTTAAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTTAAAAATTTAA
Found at i:23692784 original size:19 final size:19
Alignment explanation
Indices: 23692760--23692800 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
23692750 AAGATATCAA
*
23692760 TTATTATTAATTTCATTTT
1 TTATTATTAATTTCATTGT
*
23692779 TTATTATTATTTTCATTGT
1 TTATTATTAATTTCATTGT
23692798 TTA
1 TTA
23692801 AATCAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTATTATTAATTTCATTGT
Found at i:23693171 original size:3 final size:3
Alignment explanation
Indices: 23693165--23693210 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
23693155 TTATTACCAT
* *
23693165 TAA TAA T-A TAA -AA TAC CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23693211 CATCATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:23694300 original size:39 final size:39
Alignment explanation
Indices: 23694249--23694415 Score: 176
Period size: 39 Copynumber: 4.3 Consensus size: 39
23694239 AGAGGCTATA
23694249 AAACTTTAAATTCAAAAAGCTCATCACACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCATCACACCAGAGGCAAC
* * * *
23694288 GAACTTTAAATTCAAAAGGCTCCTCTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCATCACACCAGAGGCAAC
* * * *
23694327 AAACTTTAAA-TCCAAAAGCTCCTTTA-ACCAAAGGCAAC
1 AAACTTTAAATTCAAAAAGCT-CATCACACCAGAGGCAAC
* ** * *
23694365 AAACTTTAAATGTTAAAAAGCTCATCTGACCAGAGGTAAT
1 AAACTTTAAAT-TCAAAAAGCTCATCACACCAGAGGCAAC
*
23694405 GAACTTTAAAT
1 AAACTTTAAAT
23694416 GGCTCCTTTA
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
38 29 0.28
39 48 0.46
40 27 0.26
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAAGCTCATCACACCAGAGGCAAC
Found at i:23694507 original size:39 final size:38
Alignment explanation
Indices: 23694276--23694525 Score: 209
Period size: 33 Copynumber: 6.8 Consensus size: 38
23694266 AGCTCATCAC
* * *
23694276 ACCAGAGGCAACGAACTTTAAAT-TCAAAAGGCTCCTCTC
1 ACCAGAGGCAACAAACTTTAAATGT-AAAA-GCTCCTTTA
**
23694315 ACCAGAGGCAACAAACTTTAAATCCAAAAGCTCCTTTA
1 ACCAGAGGCAACAAACTTTAAATGTAAAAGCTCCTTTA
* * * *
23694353 ACCAAAGGCAACAAACTTTAAATGTTAAAAAGCTCATCTG
1 ACCAGAGGCAACAAACTTTAAATG-T-AAAAGCTCCTTTA
* **
23694393 ACCAGAGGTAATGAACTTTAAATG-----GCTCCTTTA
1 ACCAGAGGCAACAAACTTTAAATGTAAAAGCTCCTTTA
* * **
23694426 ACCAAATGCAATGAACTTTAAATG-----GCTCCTTTA
1 ACCAGAGGCAACAAACTTTAAATGTAAAAGCTCCTTTA
* *
23694459 ACCAAAGGCAACAAACTTTAAATGTTAAAAGCTCCTTTC
1 ACCAGAGGCAACAAACTTTAAATG-TAAAAGCTCCTTTA
23694498 ACCAGAGGCAACAAACTTTAAAT-TAAAA
1 ACCAGAGGCAACAAACTTTAAATGTAAAA
23694526 ATTTGAGAGG
Statistics
Matches: 177, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
33 57 0.32
37 5 0.03
38 29 0.16
39 56 0.32
40 30 0.17
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (38 bp):
ACCAGAGGCAACAAACTTTAAATGTAAAAGCTCCTTTA
Found at i:23706370 original size:51 final size:50
Alignment explanation
Indices: 23706296--23706410 Score: 122
Period size: 51 Copynumber: 2.3 Consensus size: 50
23706286 TTAAAAAAAG
** * ** *
23706296 ATTTTAAGAACATTCCGACTCTTTAGTGAGTTCCTAAAATTTATTAAACAA
1 ATTTTAAGATTATCCCGACTCTTTAGTGAAATCCTAAAAATT-TTAAACAA
* * * *
23706347 ATTTTAAGATTATCCCGATTCTTTGGTGAAATCCTAAAAATTTTGAATAA
1 ATTTTAAGATTATCCCGACTCTTTAGTGAAATCCTAAAAATTTTAAACAA
*
23706397 GTTTTAAGATTATC
1 ATTTTAAGATTATC
23706411 TCAATTTTGG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
50 19 0.36
51 34 0.64
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (50 bp):
ATTTTAAGATTATCCCGACTCTTTAGTGAAATCCTAAAAATTTTAAACAA
Found at i:23706855 original size:16 final size:16
Alignment explanation
Indices: 23706836--23706880 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
23706826 CATTTAAACA
23706836 ATTTATTTTTTATTTT
1 ATTTATTTTTTATTTT
*
23706852 ATTTA-TTATT-TTTT
1 ATTTATTTTTTATTTT
*
23706866 A-TAATTTTTTATTTT
1 ATTTATTTTTTATTTT
23706881 TTAGCAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 8 0.33
16 5 0.21
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTATTTTTTATTTT
Found at i:23706872 original size:17 final size:17
Alignment explanation
Indices: 23706835--23706883 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
23706825 TCATTTAAAC
23706835 AATTTATT-TTTTATT-T
1 AATTTATTATTTT-TTAT
*
23706851 TATTTATTATTTTTTAT
1 AATTTATTATTTTTTAT
*
23706868 AATTTTTTATTTTTTA
1 AATTTATTATTTTTTA
23706884 GCAAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
AATTTATTATTTTTTAT
Found at i:23706956 original size:18 final size:19
Alignment explanation
Indices: 23706929--23706967 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23706919 AGGAAATTTA
* *
23706929 AATAATATTT-TTTCTTTT
1 AATAAAATTTATTTCCTTT
23706947 AATAAAATTTATTTCCTTT
1 AATAAAATTTATTTCCTTT
23706966 AA
1 AA
23706968 ATTGTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
AATAAAATTTATTTCCTTT
Found at i:23707080 original size:3 final size:3
Alignment explanation
Indices: 23707074--23707137 Score: 105
Period size: 3 Copynumber: 22.0 Consensus size: 3
23707064 TTATTACCAC
*
23707074 TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23707120 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
23707138 CATAAAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 4 0.07
3 53 0.93
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:23726605 original size:28 final size:28
Alignment explanation
Indices: 23726565--23726624 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
23726555 TTGATGAGAT
23726565 AGAACAATAGTCTAAAGTAATTTCATCA
1 AGAACAATAGTCTAAAGTAATTTCATCA
23726593 AGAACAATAGTCTAAAGTAATTTCATCA
1 AGAACAATAGTCTAAAGTAATTTCATCA
23726621 AGAA
1 AGAA
23726625 AAAAAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (28 bp):
AGAACAATAGTCTAAAGTAATTTCATCA
Found at i:23730506 original size:20 final size:20
Alignment explanation
Indices: 23730483--23730520 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23730473 GGTTCATCAT
23730483 TTTTTATAT-TTAATTTTTTG
1 TTTTTATATATT-ATTTTTTG
23730503 TTTTTATATATTATTTTT
1 TTTTTATATATTATTTTT
23730521 ATATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTATATATTATTTTTTG
Found at i:23730546 original size:22 final size:24
Alignment explanation
Indices: 23730503--23730546 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
23730493 TAATTTTTTG
**
23730503 TTTTTATATATTATTTTTATATGA
1 TTTTTATATATTATTTAAATATGA
23730527 TTTTTA-ATA-TATTTAAATAT
1 TTTTTATATATTATTTAAATAT
23730547 AAAATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 3 0.17
24 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATATGA
Done.