Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 133 of 145
Found at i:43701460 original size:3 final size:3
Alignment explanation
Indices: 43701452--43701502 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
43701442 CAAGACATAG
* * * * *
43701452 ATA ATA ATA ATA ATA TTA ATA ATA ATC ATA ATA GTT TTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43701499 ATA A
1 ATA A
43701503 CCAAGATATA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:43703722 original size:44 final size:45
Alignment explanation
Indices: 43703659--43703824 Score: 169
Period size: 44 Copynumber: 3.8 Consensus size: 45
43703649 AATAACCTTT
*
43703659 GACCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTC
1 GACCTGCTCCACTACTGCTTAGGGAGATAAGATCTCACCGTCTTC
* **** *
43703703 GACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGT-TTA
1 GACCTGCTCCACTACTGCTTAGGGAGATAAGATCTCACCGTCTTC
* * * * *
43703746 AATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTC
1 GACCTGCTCCACTACTGCTTAGGGAGATAAGATCTCACCGTCTTC
* * *
43703790 GATCTGCTCCACTACTACTTAGGGAGATAAAATCT
1 GACCTGCTCCACTACTGCTTAGGGAGATAAGATCT
43703825 AATATGATGA
Statistics
Matches: 98, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
43 35 0.36
44 62 0.63
45 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (45 bp):
GACCTGCTCCACTACTGCTTAGGGAGATAAGATCTCACCGTCTTC
Found at i:43706033 original size:25 final size:26
Alignment explanation
Indices: 43705971--43706037 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
43705961 TTTATTTTTC
43705971 TTTTCTTCTTC-TTTTTTTCCTATTT
1 TTTTCTTCTTCATTTTTTTCCTATTT
** * *
43705996 TTGAC-T-TTGATTTTTTT-TTATTT
1 TTTTCTTCTTCATTTTTTTCCTATTT
43706019 TTTTCTTCTTCATTTTTTT
1 TTTTCTTCTTCATTTTTTT
43706038 GTCTGAGCTC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
23 10 0.31
24 9 0.28
25 13 0.41
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTTCTTCTTCATTTTTTTCCTATTT
Found at i:43715577 original size:16 final size:17
Alignment explanation
Indices: 43715556--43715588 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
43715546 ATACTTTTAC
*
43715556 TTTTATTAATT-TAAAA
1 TTTTATAAATTATAAAA
43715572 TTTTATAAATTATAAAA
1 TTTTATAAATTATAAAA
43715589 ATTATATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATAAATTATAAAA
Found at i:43738634 original size:7 final size:7
Alignment explanation
Indices: 43738622--43738655 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
43738612 ATTTGTCTGA
43738622 AATTTCC
1 AATTTCC
43738629 AATTTCC
1 AATTTCC
43738636 AATTTCC
1 AATTTCC
43738643 AATTTCC
1 AATTTCC
43738650 AATTTC
1 AATTTC
43738656 TCATATGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTCC
Found at i:43742504 original size:24 final size:24
Alignment explanation
Indices: 43742477--43742528 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43742467 TTAGTAAGTC
*
43742477 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
43742501 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
43742525 AAAT
1 AAAT
43742529 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:43744046 original size:15 final size:15
Alignment explanation
Indices: 43744026--43744055 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43744016 AAGATGAACA
43744026 CACAAATTTAACGTG
1 CACAAATTTAACGTG
43744041 CACAAATTTAACGTG
1 CACAAATTTAACGTG
43744056 GAAAAACCCC
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:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
CACAAATTTAACGTG
Found at i:43744318 original size:24 final size:24
Alignment explanation
Indices: 43744291--43744342 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43744281 TTAGTAAGTC
*
43744291 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
43744315 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
43744339 AAAT
1 AAAT
43744343 CTTTTCTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:43751376 original size:25 final size:26
Alignment explanation
Indices: 43751348--43751406 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
43751338 TTTTAAAATG
* * * *
43751348 AAATATTAATGGACAAT-AAATAATA
1 AAATAATAATAGAAAATAAAATAAGA
43751373 AAATAATAATAGAAAATAAAATAAGA
1 AAATAATAATAGAAAATAAAATAAGA
43751399 AAACTAAT
1 AAA-TAAT
43751407 CTTCATCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (26 bp):
AAATAATAATAGAAAATAAAATAAGA
Found at i:43751390 original size:13 final size:14
Alignment explanation
Indices: 43751366--43751406 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
43751356 ATGGACAATA
*
43751366 AATAATAAAATAAT
1 AATAAGAAAATAAT
43751380 AAT-AGAAAATAA-
1 AATAAGAAAATAAT
43751392 AATAAGAAAACTAAT
1 AATAAGAAAA-TAAT
43751407 CTTCATCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 3 0.13
13 14 0.61
14 6 0.26
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (14 bp):
AATAAGAAAATAAT
Found at i:43751853 original size:19 final size:19
Alignment explanation
Indices: 43751824--43751862 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
43751814 CAATTAATTA
43751824 ATTTTTAAAATATTTTATAT
1 ATTTTTAAAATATTTT-TAT
43751844 ATTTTT-AAATATTTTTAT
1 ATTTTTAAAATATTTTTAT
43751862 A
1 A
43751863 AAATTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTAAAATATTTTTAT
Found at i:43751869 original size:20 final size:20
Alignment explanation
Indices: 43751826--43751869 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
43751816 ATTAATTAAT
*
43751826 TTTTAAAATATTTTAT-ATA
1 TTTTAAAATATTTTATAAAA
*
43751845 TTTTTAAATATTTTTATAAAA
1 TTTTAAAATA-TTTTATAAAA
43751866 TTTT
1 TTTT
43751870 CTAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 6 0.29
21 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAAATATTTTATAAAA
Found at i:43779936 original size:20 final size:19
Alignment explanation
Indices: 43779907--43779944 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
43779897 CTTTAAAAAG
43779907 AAAAAAAATTTTGCTTTAT
1 AAAAAAAATTTTGCTTTAT
43779926 AAAATAAAATTTTGCTTTA
1 AAAA-AAAATTTTGCTTTA
43779945 GGTTAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
AAAAAAAATTTTGCTTTAT
Found at i:43785430 original size:16 final size:15
Alignment explanation
Indices: 43785411--43785441 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
43785401 ATGGCCACCT
43785411 TTGCATGGGAAGCTAA
1 TTGCATGGGAA-CTAA
43785427 TTGCATGGGAACTAA
1 TTGCATGGGAACTAA
43785442 CTTTAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (15 bp):
TTGCATGGGAACTAA
Found at i:43785522 original size:44 final size:44
Alignment explanation
Indices: 43785465--43785553 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
43785455 TTATTTCTTT
43785465 ACGGGTTCTCCTTTTAATTTATGTTGCTTCGATTGATCTTATTC
1 ACGGGTTCTCCTTTTAATTTATGTTGCTTCGATTGATCTTATTC
43785509 ACGGGTTCTCCTTTTAATTTATGTTGCTTCGATTGATCTTATTC
1 ACGGGTTCTCCTTTTAATTTATGTTGCTTCGATTGATCTTATTC
43785553 A
1 A
43785554 TTTGAAGTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (44 bp):
ACGGGTTCTCCTTTTAATTTATGTTGCTTCGATTGATCTTATTC
Found at i:43788655 original size:52 final size:50
Alignment explanation
Indices: 43788582--43788718 Score: 125
Period size: 52 Copynumber: 2.7 Consensus size: 50
43788572 GTATAATGAT
* * *
43788582 AAATTTAGCCCTCAAAGTTTACACATTCTATCAATTT-GTCATTGATTTAAAA
1 AAATTTAACCCACAAA-TTTACACATTCTATCAATTTAATCA-TGATTT-AAA
* *
43788634 AAATTTAACCCACAACATTTACACATT-TCGTCAATTTAATCATGATTTAAC
1 AAATTTAACCCACAA-ATTTACACATTCT-ATCAATTTAATCATGATTTAAA
* ** *
43788685 ATATTTAACCCGTAATAATTACACATTCTATCAA
1 AAATTTAACCCACAA-ATTTACACATTCTATCAA
43788719 CATTTACGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
51 29 0.41
52 37 0.53
53 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (50 bp):
AAATTTAACCCACAAATTTACACATTCTATCAATTTAATCATGATTTAAA
Found at i:43790869 original size:243 final size:244
Alignment explanation
Indices: 43790403--43790890 Score: 897
Period size: 243 Copynumber: 2.0 Consensus size: 244
43790393 TTGTGAAACA
* *
43790403 CAGTTTCATACGGTACTTGGAGAAACGTTAGTCGAAATTCTCCCAGGATACAACAACAAAAGTGA
1 CAGTTTCATACGGTACTTGGACAAACGTTAGTCGAAATTCTCCCACGATACAACAACAAAAGTGA
* * *
43790468 TCAAAGTAGTAGCACCTCTACAGCAATCAACGAACGAATTTTGCCTTTTTCTATCACCGGAATGT
66 CCAAAGTAGTAGCACCTCTACAACAATCAACGAACGAATTTTGCCTTTTTCCATCACCGGAATGT
* *
43790533 TTGAAAAATGGAGAGGAAAAGGAAGAGTTTTGAAATGAACAGAATTTCGGCATAAAAAATTATGT
131 TTGAAAAATGGAGAGGAAAAGGAAGAGTTTTGAAATGAACAGAATTTCGGCAAAAAAAATTATGC
43790598 CGCTGAGGAAAAATAAATTCATATTGGGCTTAAAATATCCGCATGGGCC
196 CGCTGAGGAAAAATAAATTCATATTGGGCTTAAAATATCCGCATGGGCC
43790647 CAGTTTCATACGGTACTTGGACAAACGTTAGTCGAAATTCTCCCACGATACAACAACAAAAGTGA
1 CAGTTTCATACGGTACTTGGACAAACGTTAGTCGAAATTCTCCCACGATACAACAACAAAAGTGA
*
43790712 CCAAAGTAGTAGCACCTGTACAACAATCAACGAACGAATTTTGCC-TTTTCCATCACCGGAATGT
66 CCAAAGTAGTAGCACCTCTACAACAATCAACGAACGAATTTTGCCTTTTTCCATCACCGGAATGT
43790776 TTGAAAAATGGAGAGGAAAAGGAAGAGTTTTGAAATGAACAGAATTTCGGCAAAAAAAATTATGC
131 TTGAAAAATGGAGAGGAAAAGGAAGAGTTTTGAAATGAACAGAATTTCGGCAAAAAAAATTATGC
43790841 CGCTGAGGAAAAATAAATTCATATTGGGCTTAAAATATCCGCATGGGCC
196 CGCTGAGGAAAAATAAATTCATATTGGGCTTAAAATATCCGCATGGGCC
43790890 C
1 C
43790891 GAGTGGTCCG
Statistics
Matches: 236, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
243 131 0.56
244 105 0.44
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (244 bp):
CAGTTTCATACGGTACTTGGACAAACGTTAGTCGAAATTCTCCCACGATACAACAACAAAAGTGA
CCAAAGTAGTAGCACCTCTACAACAATCAACGAACGAATTTTGCCTTTTTCCATCACCGGAATGT
TTGAAAAATGGAGAGGAAAAGGAAGAGTTTTGAAATGAACAGAATTTCGGCAAAAAAAATTATGC
CGCTGAGGAAAAATAAATTCATATTGGGCTTAAAATATCCGCATGGGCC
Found at i:43791529 original size:22 final size:22
Alignment explanation
Indices: 43791483--43791529 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
43791473 TAAATTAATT
**
43791483 TAAAAGAAATTTAATTTCATGA
1 TAAAAGAAATTTAATTTCAAAA
43791505 TAAAA-AAATTTATATTTCAAAA
1 TAAAAGAAATTTA-ATTTCAAAA
43791527 TAA
1 TAA
43791530 TTAGAAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAAAGAAATTTAATTTCAAAA
Found at i:43791828 original size:13 final size:12
Alignment explanation
Indices: 43791805--43791832 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43791795 TGCAAATGAG
43791805 TTTTCTTTTTTT
1 TTTTCTTTTTTT
43791817 TTTTCTTTTTTT
1 TTTTCTTTTTTT
43791829 TTTT
1 TTTT
43791833 AAATATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:43794158 original size:29 final size:28
Alignment explanation
Indices: 43794091--43794161 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
43794081 CCGAAGCTCA
43794091 AAAATAAATTTCAAATCCAAAACAAATG
1 AAAATAAATTTCAAATCCAAAACAAATG
* ** * * *
43794119 AAAATTTAATTTTTAATCCAAACCGATTG
1 AAAA-TAAATTTCAAATCCAAAACAAATG
*
43794148 AAAATAAAATTCAA
1 AAAATAAATTTCAA
43794162 TATACAACCA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.55, C:0.13, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAATAAATTTCAAATCCAAAACAAATG
Found at i:43798821 original size:5 final size:5
Alignment explanation
Indices: 43798811--43798839 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
43798801 ATCATTCTCA
43798811 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
43798840 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:43802162 original size:51 final size:50
Alignment explanation
Indices: 43802086--43802226 Score: 135
Period size: 51 Copynumber: 2.8 Consensus size: 50
43802076 ATTGGTATAA
* *
43802086 TAATAAA-TTAAGCCCTCAAAGTTTACACATTCTATCAATTTG-TTATTGATT
1 TAATAAATTTAA-CCCACAAA-TTTACACATTCTATCAATTTGATCA-TGATT
* *
43802137 TAATAAATTTAACCCACAACATTTACACGTT-TCGTCAATTTGATCATGATT
1 TAATAAATTTAACCCACAA-ATTTACACATTCT-ATCAATTTGATCATGATT
* * * *
43802188 TAACATATTTAACCCATAATAATTACACATTCTATCAAT
1 TAATAAATTTAACCCACAA-ATTTACACATTCTATCAAT
43802227 ATTTAAGCGA
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
50 1 0.01
51 65 0.88
52 8 0.11
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (50 bp):
TAATAAATTTAACCCACAAATTTACACATTCTATCAATTTGATCATGATT
Found at i:43805114 original size:258 final size:259
Alignment explanation
Indices: 43804653--43805168 Score: 953
Period size: 258 Copynumber: 2.0 Consensus size: 259
43804643 TTGTGGGATC
* * *
43804653 ATAATGCTAATAACAAATCAATGTCTCGTTATGATTCACGTAATCCGTACACCAGTGGATAGGTG
1 ATAATGCTAATAACAAATCAATGTCTCATTATGATTCACATAATCCATACACCAGTGGATAGGTG
43804718 CAAGGATTGTTTGAATCATAAGGGAGCATTGATTTGTTCTTAATTAGCATTATGTGTCCATATAC
66 CAAGGATTGTTTGAATCATAAGGGAGCATTGATTTGTTC---ATTAGCATTATGTGTCCATATAC
43804783 CATGGATCGTGAACTCATTAAGAATTGGTGGTCTACAACTCAGATTAGAGCTACAGGCTAATAAA
128 CATGGATCGTGAACTCATTAAGAATTGGTGGTCTACAACTCAGATTAGAGCTACAGGCTAATAAA
43804848 GGCCATTGAAGAAAAAGCTTACGAAAATTACAAGCGAAGTTGATGCCGGTAGGAGTGCTGCAACC
193 GGCCATTGAAGAAAAAGCTTACGAAAATTACAAGCGAAGTTGATGCCGGTAGGAGTGCTGCAACC
43804913 TT
258 TT
*
43804915 ATAATGCTAATAACAAATCAATGTCTCATTATGATTCACATAATCCATACACCGGTGGATAGGTG
1 ATAATGCTAATAACAAATCAATGTCTCATTATGATTCACATAATCCATACACCAGTGGATAGGTG
43804980 CAAGGATTGTTTGAATCATAAGGGAGCATTGATTTGTTC-TTAGCATTATGTGTCCATATACCAT
66 CAAGGATTGTTTGAATCATAAGGGAGCATTGATTTGTTCATTAGCATTATGTGTCCATATACCAT
*
43805044 GGATCTTGAACTCATTAAGAATTGGTGGTCTACAACTCAGATTAGAGCTACAGGCTAATAAAGGC
131 GGATCGTGAACTCATTAAGAATTGGTGGTCTACAACTCAGATTAGAGCTACAGGCTAATAAAGGC
43805109 CATTGAAGAAAAAGCTTACGAAAATTACAAGCGAAGTTGATGCCGGTAGGAGTGCTGCAA
196 CATTGAAGAAAAAGCTTACGAAAATTACAAGCGAAGTTGATGCCGGTAGGAGTGCTGCAA
43805169 ATGCTGCTCA
Statistics
Matches: 249, Mismatches: 5, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
258 149 0.60
262 100 0.40
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (259 bp):
ATAATGCTAATAACAAATCAATGTCTCATTATGATTCACATAATCCATACACCAGTGGATAGGTG
CAAGGATTGTTTGAATCATAAGGGAGCATTGATTTGTTCATTAGCATTATGTGTCCATATACCAT
GGATCGTGAACTCATTAAGAATTGGTGGTCTACAACTCAGATTAGAGCTACAGGCTAATAAAGGC
CATTGAAGAAAAAGCTTACGAAAATTACAAGCGAAGTTGATGCCGGTAGGAGTGCTGCAACCTT
Found at i:43805418 original size:148 final size:148
Alignment explanation
Indices: 43805249--43805545 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
43805239 AAAAGTATAT
43805249 ACTCTTCTCCATGCTGCACATTATTGCAAAAAAAGAAAACACACAAGGGACCAATCTTTGATCTT
1 ACTCTTCTCCATGCTGCACATTATTGCAAAAAAAGAAAACACACAAGGGACCAATCTTTGATCTT
43805314 CGCAAAGGTCATTTGAGATCAAAGGAGAAGAACAAGAAAAACAAAGGTAAGGGGTTTGAAGAAAG
66 CGCAAAGGTCATTTGAGATCAAAGGAGAAGAACAAGAAAAACAAAGGTAAGGGGTTTGAAGAAAG
43805379 AGCCAAATATATATAGAA
131 AGCCAAATATATATAGAA
43805397 ACTCTTCTCCATGCTGCACATTATTGCAAAAAAAGAAAACACACAAGGGACCAATCTTTGATCTT
1 ACTCTTCTCCATGCTGCACATTATTGCAAAAAAAGAAAACACACAAGGGACCAATCTTTGATCTT
43805462 CGCAAAGGTCATTTGAGATCAAAGGAGAAGAACAAGAAAAACAAAGGTAAGGGGTTTGAAGAAAG
66 CGCAAAGGTCATTTGAGATCAAAGGAGAAGAACAAGAAAAACAAAGGTAAGGGGTTTGAAGAAAG
43805527 AGCCAAATATATATAGAA
131 AGCCAAATATATATAGAA
43805545 A
1 A
43805546 AATTTGAGAG
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (148 bp):
ACTCTTCTCCATGCTGCACATTATTGCAAAAAAAGAAAACACACAAGGGACCAATCTTTGATCTT
CGCAAAGGTCATTTGAGATCAAAGGAGAAGAACAAGAAAAACAAAGGTAAGGGGTTTGAAGAAAG
AGCCAAATATATATAGAA
Found at i:43809758 original size:13 final size:13
Alignment explanation
Indices: 43809742--43809769 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43809732 ATGGGCATGG
43809742 ATTATATATATAT
1 ATTATATATATAT
43809755 ATTATATATATAT
1 ATTATATATATAT
43809768 AT
1 AT
43809770 ATGAATAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATATATATAT
Found at i:43810052 original size:17 final size:17
Alignment explanation
Indices: 43810030--43810065 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43810020 GCAGCCTGTG
43810030 AGGTTTGAGTTTCCGCA
1 AGGTTTGAGTTTCCGCA
43810047 AGGTTTGAGTTTCCGCA
1 AGGTTTGAGTTTCCGCA
43810064 AG
1 AG
43810066 TGTCTTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (17 bp):
AGGTTTGAGTTTCCGCA
Found at i:43813383 original size:34 final size:34
Alignment explanation
Indices: 43813340--43813409 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
43813330 CCAGACACAA
43813340 TGGCGGCACCAACCTACCATCATCGACCACTGAT
1 TGGCGGCACCAACCTACCATCATCGACCACTGAT
*
43813374 TGGCGGCACCGACCTACCATCATCGACCACTGAT
1 TGGCGGCACCAACCTACCATCATCGACCACTGAT
43813408 TG
1 TG
43813410 TCTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.19
Consensus pattern (34 bp):
TGGCGGCACCAACCTACCATCATCGACCACTGAT
Found at i:43818638 original size:51 final size:51
Alignment explanation
Indices: 43818583--43818698 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
43818573 CTCAAAGTTG
* *
43818583 ACACATTCTATCAATTTG-TTATTGATTTAAC-TAATTTAACCCACAATATTT
1 ACACATTCTATCAATTTGATCA-TGATTTAACAT-ATTTAACCCACAATAATT
* * **
43818634 ACACATTTTGTCAATTTGATCATGATTTAACATATTTAACCCGTAATAATT
1 ACACATTCTATCAATTTGATCATGATTTAACATATTTAACCCACAATAATT
43818685 ACACATTCTATCAA
1 ACACATTCTATCAA
43818699 CATTTACACA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (51 bp):
ACACATTCTATCAATTTGATCATGATTTAACATATTTAACCCACAATAATT
Found at i:43823104 original size:11 final size:11
Alignment explanation
Indices: 43823088--43823112 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43823078 ATTGAAATAT
43823088 TATTTTTAAAA
1 TATTTTTAAAA
43823099 TATTTTTAAAA
1 TATTTTTAAAA
43823110 TAT
1 TAT
43823113 GGGAGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:43823481 original size:16 final size:16
Alignment explanation
Indices: 43823462--43823502 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
43823452 AATTTGATAC
43823462 AATTTTAATAACAATT
1 AATTTTAATAACAATT
43823478 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
43823494 AGTTTTAAT
1 AATTTTAAT
43823503 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:43823504 original size:22 final size:23
Alignment explanation
Indices: 43823476--43823537 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
43823466 TTAATAACAA
* *
43823476 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
43823498 TTAATTTTTATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
43823521 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
43823538 ACAGACCGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:43826833 original size:4 final size:4
Alignment explanation
Indices: 43826824--43826855 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
43826814 CAGCTTCAAC
43826824 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
43826856 TATATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:43835907 original size:16 final size:16
Alignment explanation
Indices: 43835862--43835908 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
43835852 TGATTTTCAG
*
43835862 TTTATATTTCTTTTTC
1 TTTATATTTATTTTTC
43835878 TTT-TATTTACTTTTATC
1 TTTATATTTA-TTTT-TC
43835895 TTTAT-TTTATTTTT
1 TTTATATTTATTTTT
43835909 TTTCCTCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
17 9 0.33
18 1 0.04
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATATTTATTTTTC
Found at i:43837230 original size:21 final size:21
Alignment explanation
Indices: 43837205--43837251 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
43837195 CGGCATTATT
43837205 ATTTAT-TAGTATCTTTATTTC
1 ATTTATGTAGTAT-TTTATTTC
* *
43837226 ATTTATGTATTATTTTATTTT
1 ATTTATGTAGTATTTTATTTC
43837247 ATTTA
1 ATTTA
43837252 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (21 bp):
ATTTATGTAGTATTTTATTTC
Found at i:43837548 original size:64 final size:61
Alignment explanation
Indices: 43837471--43837608 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 61
43837461 ATATTTGTAT
* * * *
43837471 ATATATATTATATTTTATACCTTATATTATTTATATATCTTTATATACGTATTTTTTTTAATTTT
1 ATATATA-TATATTTAATACCTTATATTA--CATATATCTTTATATAC--ATATTTTTAAATTTT
43837536 C
61 C
43837537 ATA-ATATATATTTAATACCTTATATTACATATATCTTTATATACATATTTTTAAATTTTC
1 ATATATATATATTTAATACCTTATATTACATATATCTTTATATACATATTTTTAAATTTTC
43837597 ATATATATATAT
1 ATATATATATAT
43837609 ACATACTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
60 17 0.25
61 8 0.12
62 16 0.24
64 20 0.30
65 3 0.04
66 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.56
Consensus pattern (61 bp):
ATATATATATATTTAATACCTTATATTACATATATCTTTATATACATATTTTTAAATTTTC
Found at i:43837637 original size:62 final size:62
Alignment explanation
Indices: 43837487--43837639 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 62
43837477 ATTATATTTT
* * *
43837487 ATACCTTATATTATTTATATATCTTTATATACGTATTTTTTTTAATTTTCATAATATATATTTA
1 ATACCTTATATTATTTATATA-CTTTATATACG-ATATTTTTAAATTTTCATAATATATATATA
**
43837551 ATACCTTATATTACATATAT-CTTTATATAC-ATATTTTTAAATTTTCAT-ATATATATATA
1 ATACCTTATATTATTTATATACTTTATATACGATATTTTTAAATTTTCATAATATATATATA
* * *
43837610 CATACTTATATATTTTTTTTATACTTTATA
1 -ATACCT-TATATTATTTATATACTTTATA
43837640 GTTTTAATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
59 10 0.13
60 21 0.28
61 10 0.13
62 17 0.22
64 18 0.24
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.56
Consensus pattern (62 bp):
ATACCTTATATTATTTATATACTTTATATACGATATTTTTAAATTTTCATAATATATATATA
Found at i:43839769 original size:18 final size:19
Alignment explanation
Indices: 43839738--43839778 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
43839728 GGGAAACAGT
*
43839738 AGCAAAATAACAACATAAC
1 AGCAAAATAACAACATAAA
43839757 AGCAAAA-AACAACATAAA
1 AGCAAAATAACAACATAAA
43839775 AGCA
1 AGCA
43839779 GTAAACAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (19 bp):
AGCAAAATAACAACATAAA
Found at i:43850236 original size:4 final size:4
Alignment explanation
Indices: 43850227--43850267 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
43850217 CATGTGTTTT
*
43850227 TACA TACA TACA TACG TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T
43850268 GTTATGATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:43850565 original size:119 final size:119
Alignment explanation
Indices: 43850354--43850591 Score: 467
Period size: 119 Copynumber: 2.0 Consensus size: 119
43850344 AAATATGTTT
*
43850354 GGGTGCTTATGCGAAAAGCTCAATTTCGTTTGAATTCAAAACAAATGGTAATTGACTCTTCTATT
1 GGGTGCTAATGCGAAAAGCTCAATTTCGTTTGAATTCAAAACAAATGGTAATTGACTCTTCTATT
43850419 TTCATCATGGCTTAACTAATGCTTTATAAAGTGACCATAGAGACGCCCTTTTCA
66 TTCATCATGGCTTAACTAATGCTTTATAAAGTGACCATAGAGACGCCCTTTTCA
43850473 GGGTGCTAATGCGAAAAGCTCAATTTCGTTTGAATTCAAAACAAATGGTAATTGACTCTTCTATT
1 GGGTGCTAATGCGAAAAGCTCAATTTCGTTTGAATTCAAAACAAATGGTAATTGACTCTTCTATT
43850538 TTCATCATGGCTTAACTAATGCTTTATAAAGTGACCATAGAGACGCCCTTTTCA
66 TTCATCATGGCTTAACTAATGCTTTATAAAGTGACCATAGAGACGCCCTTTTCA
43850592 TTGTAGGTTG
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (119 bp):
GGGTGCTAATGCGAAAAGCTCAATTTCGTTTGAATTCAAAACAAATGGTAATTGACTCTTCTATT
TTCATCATGGCTTAACTAATGCTTTATAAAGTGACCATAGAGACGCCCTTTTCA
Found at i:43850980 original size:44 final size:44
Alignment explanation
Indices: 43850917--43851003 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
43850907 AGCTATCTAC
*
43850917 TAATGATACGGTTGATTCT-GAAAGGACGGCCGAAATTGAATCAT
1 TAATGATACGGCTGATTCTGGAAA-GACGGCCGAAATTGAATCAT
* **
43850961 TAATGATACGGCTGATTCTGGAAAGATGGTTGAAATTGAATCA
1 TAATGATACGGCTGATTCTGGAAAGACGGCCGAAATTGAATCA
43851004 ATGGGCTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 34 0.89
45 4 0.11
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (44 bp):
TAATGATACGGCTGATTCTGGAAAGACGGCCGAAATTGAATCAT
Found at i:43853170 original size:2 final size:2
Alignment explanation
Indices: 43853163--43853189 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43853153 AAATGTAAAG
43853163 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
43853190 GTGTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43853269 original size:18 final size:17
Alignment explanation
Indices: 43853242--43853275 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
43853232 TATTTTAAAA
43853242 TTATTAAATATAAAAGT
1 TTATTAAATATAAAAGT
43853259 TTATGTAAATATAAAAG
1 TTAT-TAAATATAAAAG
43853276 GATTAGCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
TTATTAAATATAAAAGT
Found at i:43853577 original size:12 final size:12
Alignment explanation
Indices: 43853560--43853584 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43853550 AAGAATTGCA
43853560 ACCCAATACGTT
1 ACCCAATACGTT
43853572 ACCCAATACGTT
1 ACCCAATACGTT
43853584 A
1 A
43853585 GTGTATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
ACCCAATACGTT
Found at i:43855502 original size:20 final size:20
Alignment explanation
Indices: 43855466--43855521 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
43855456 TTTCGTTTAC
43855466 AAAATAAAAAA-ATAAGAAT-
1 AAAATAAAAAAGA-AAGAATG
*
43855485 AAAATAAAAATAGAAAGACTG
1 AAAATAAAAA-AGAAAGAATG
*
43855506 AAAAAAAAAAAGAAAG
1 AAAATAAAAAAGAAAG
43855522 CACCTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.31
20 12 0.38
21 10 0.31
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAATAAAAAAGAAAGAATG
Found at i:43856158 original size:51 final size:50
Alignment explanation
Indices: 43856082--43856217 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 50
43856072 GTATAATGAT
* * *
43856082 AAATTTAGCCCTCAAAGTTTACACATTCTATCAATTTG-TTATTGATTTAAC
1 AAATTTAACCCTCAAA-TTTACACATTCTATCAATATGATCA-TGATTTAAC
* *
43856133 AAATTTAACCCACAACATTTACACATT-TCGTCAATATGATCATGATTTAAC
1 AAATTTAACCCTCAA-ATTTACACATTCT-ATCAATATGATCATGATTTAAC
* * *
43856184 ATATTTAACCCTTAATAATTACACATTCTATCAA
1 AAATTTAACCCTCAA-ATTTACACATTCTATCAA
43856218 CATTTACGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
50 1 0.01
51 65 0.93
52 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (50 bp):
AAATTTAACCCTCAAATTTACACATTCTATCAATATGATCATGATTTAAC
Found at i:43858125 original size:108 final size:108
Alignment explanation
Indices: 43857880--43858303 Score: 651
Period size: 108 Copynumber: 3.9 Consensus size: 108
43857870 GGCATGGATT
* * ** *
43857880 AAAATTCAAGAGGATATTTGGCCATTTGGTTAAACGAG--AAATCGATACCCAGCACCTTAGGGG
1 AAAATTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTA-GGG
* * *
43857943 CATG-TTCCT-GAATTTCCAAACGCAAAACATTGCCTTATTTTGT
65 CACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTT-A
** * * *
43857986 AATTTTTGGAAAGGATATTAAGCCATTTGGTTGAACAAGAAAAATCCG-CACCCAGCACCTTAGG
1 AAAATTT-AAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAAT-CGACACCCAGCACCTTAGG
*
43858050 GCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTA
64 GCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTA
43858095 AAAATTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGC
1 AAAATTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGC
43858160 ACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTA
66 ACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTA
43858203 AAAATTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGC
1 AAAATTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGC
43858268 ACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
66 ACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
43858304 CAATTAGAAA
Statistics
Matches: 293, Mismatches: 18, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
106 4 0.01
107 27 0.09
108 202 0.69
109 26 0.09
110 34 0.12
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (108 bp):
AAAATTTAAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGC
ACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTA
Found at i:43875141 original size:3 final size:3
Alignment explanation
Indices: 43875133--43875171 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
43875123 TATTTTCTCC
*
43875133 TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
43875172 TTCATGTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:43881440 original size:88 final size:88
Alignment explanation
Indices: 43881304--43881867 Score: 833
Period size: 88 Copynumber: 6.4 Consensus size: 88
43881294 TCCCTGAGCA
* *
43881304 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGA
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
43881369 CACTAGCCTTGCCTCCCTCGGTG
66 CACTAGCCTTGCCTCCCTCGGTG
* ** * ** **
43881392 GTAGCGGAGCAGGTTAAAGATAGCAGATCTTTTCTTCCTGCACCGACAGTGAAGCAGATCAAAGA
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
* * * *
43881457 CACCAACCTTGCCTCCCTGGGTT
66 CACTAGCCTTGCCTCCCTCGGTG
* * * *
43881480 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGTACTGACAGTGAAGCAGATTGAGGA
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
*
43881545 CACTAGCCTTGCCTCCCTCAGTG
66 CACTAGCCTTGCCTCCCTCGGTG
* * * *
43881568 GCAGCAGAGCAGGTTAAAGATAGCAGATCTTGTCTTCCTATACTAATAGTG-AGCAGATTGAAGA
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
*
43881632 CACAAGCCTTGCCTCCCTCGGTG
66 CACTAGCCTTGCCTCCCTCGGTG
* * *
43881655 CCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTTCTGTACTAATAGTGAAGCAGATTGAAGA
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
*
43881720 CACTAGCCTTGCCTCCTTCGGTG
66 CACTAGCCTTGCCTCCCTCGGTG
* *
43881743 GTAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCTTGTACTAACAGTGAAGCAGATTGAAGA
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
43881808 CACTAGCCTTGCCTCCCTCGGTG
66 CACTAGCCTTGCCTCCCTCGGTG
* *
43881831 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTC
1 GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTC
43881868 ACATACTGGT
Statistics
Matches: 423, Mismatches: 52, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
87 79 0.19
88 344 0.81
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
GCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGA
CACTAGCCTTGCCTCCCTCGGTG
Found at i:43881823 original size:263 final size:264
Alignment explanation
Indices: 43881304--43881867 Score: 851
Period size: 263 Copynumber: 2.1 Consensus size: 264
43881294 TCCCTGAGCA
* * *
43881304 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGA
1 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAACAGTGAAGCAGATTGAAGA
* ** **
43881369 CACTAGCCTTGCCTCCCTCGGTGGTAGCGGAGCAGGTTAAAGATAGCAGATCTTTTCTTCCTGCA
66 CACAAGCCTTGCCTCCCTCGGTGCCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCA
* * *
43881434 CCGACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAA
131 CCAACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAA
* *
43881499 ATAGCAGATCTTACCTTCCTGTACTGACAGTGAAGCAGATTGAGGACACTAGCCTTGCCTCCCTC
196 ATAGCAGATCTTACCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTC
43881564 AGTG
261 AGTG
* * *
43881568 GCAGCAGAGCAGGTTAAAGATAGCAGATCTTGTCTTCCTATACTAATAGTG-AGCAGATTGAAGA
1 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAACAGTGAAGCAGATTGAAGA
* *
43881632 CACAAGCCTTGCCTCCCTCGGTGCCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTTCTGTA
66 CACAAGCCTTGCCTCCCTCGGTGCCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCA
* * ** * * * * *
43881697 CTAATAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCTTCGGTGGTAGCGGAGCAGGTTAAAG
131 CCAACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAA
* *
43881762 ATAGCAGATCTTGCCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTC
196 ATAGCAGATCTTACCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTC
*
43881827 GGTG
261 AGTG
43881831 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTC
1 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTC
43881868 ACATACTGGT
Statistics
Matches: 268, Mismatches: 32, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
263 223 0.83
264 45 0.17
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (264 bp):
GCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTATACTAACAGTGAAGCAGATTGAAGA
CACAAGCCTTGCCTCCCTCGGTGCCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCA
CCAACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAA
ATAGCAGATCTTACCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTC
AGTG
Found at i:43881902 original size:45 final size:44
Alignment explanation
Indices: 43881852--43881980 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 44
43881842 GGTTAAAAAT
43881852 AGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCACATACT-GTGGCGAAGTAGATCGAAGAA
* ** * *
43881897 AGCAGATATTGTCTTCATGTA-T-TGGCATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCACATACTGTGGC--GAAGTAGATCGAAGAA
* * *
43881941 AGTAGATCTTGTCTTCCCATACTAGTGGTGAAGTAGATCG
1 AGCAGATCTTGTCTTCACATACT-GTGGCGAAGTAGATCG
43881981 CATCTAGTCT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
42 4 0.06
44 31 0.46
45 29 0.43
47 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCACATACTGTGGCGAAGTAGATCGAAGAA
Found at i:43882017 original size:351 final size:349
Alignment explanation
Indices: 43881285--43881964 Score: 857
Period size: 351 Copynumber: 1.9 Consensus size: 349
43881275 ATGAAACTTC
* *
43881285 AGCCTTATCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGA
1 AGCCTTATCTCCCTGAG-TGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTAA
43881350 CAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGTAGCGGAGCAGGTTAAAGATAG
65 CAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGTAGCGGAGCAGGTTAAAGATAG
** * * *
43881415 CAGATCTTTTCTTCCTGCACCGACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
130 CAGATCTTGCCTTCCTGCACCAACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTCGGTG
* * * *
43881480 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGTACTGACAGTGAAGCAGATTGAGGA
195 GCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTATACTGACAGCGAAGCAGATCGAAGA
* * * * * *
43881545 CACTAGCCTTGCCTCCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGATCTTGTCTTCCTATA
260 AACTAGCATTGCCTCCATCAGTGGCAGCAGAGCAGATCAAAGATAGCAGATCTTGTCTTCCCATA
43881610 CTAATAGTGAGCAGATTGAAGACACA
325 CTAATAGTGAGCAGATT-AAGACACA
** * *
43881636 AGCCTTGCCTCCCTCG-GTGCCAGCGGAGCAGGTTAAAGATAGCAGATCTTGCCTTTCTGTACTA
1 AGCCTTATCTCCCT-GAGTG-CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTA
* *
43881700 ATAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCTTCGGTGGTAGCGGAGCAGGTTAAAGATA
64 ACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGTAGCGGAGCAGGTTAAAGATA
* * * ** * *
43881765 GCAGATCTTGCCTTCTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGT
129 GCAGATCTTGCCTTCCTGCACCAACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTCGGT
** *** *
43881830 GGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCAC-ATACTGGTGGCGAAGTAGATCGAA
194 GGCAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTC-CTATACTGACAGCGAAGCAGATCGAA
* * * * * * *
43881894 GAAAGC-AGATATTGTCTTCATGTATTGGCATG-A-AGTAGATCAAAGATAGTAGATCTTGTCTT
258 GAAA-CTAG-CATTGCCTCCAT-CAGTGGCA-GCAGAGCAGATCAAAGATAGCAGATCTTGTCTT
43881956 CCCATACTA
319 CCCATACTA
43881965 GTGGTGAAGT
Statistics
Matches: 279, Mismatches: 43, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
350 1 0.00
351 227 0.81
352 43 0.15
353 7 0.03
354 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (349 bp):
AGCCTTATCTCCCTGAGTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTAAC
AGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGGTAGCGGAGCAGGTTAAAGATAGC
AGATCTTGCCTTCCTGCACCAACAGTGAAGCAGATCAAAGACACCAACCTTGCCTCCCTCGGTGG
CAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTATACTGACAGCGAAGCAGATCGAAGAA
ACTAGCATTGCCTCCATCAGTGGCAGCAGAGCAGATCAAAGATAGCAGATCTTGTCTTCCCATAC
TAATAGTGAGCAGATTAAGACACA
Found at i:43882036 original size:44 final size:44
Alignment explanation
Indices: 43881986--43882147 Score: 175
Period size: 44 Copynumber: 3.7 Consensus size: 44
43881976 GATCGCATCT
*
43881986 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACA
*
43882030 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-AACA
* * * * **
43882075 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACA
* * * *
43882119 AGTCTTGTTTCCCTGAAGTTACGGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
43882148 TAGATCGAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
43 3 0.03
44 60 0.61
45 34 0.34
46 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACA
Found at i:43882096 original size:45 final size:44
Alignment explanation
Indices: 43881988--43882113 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 44
43881978 TCGCATCTAG
* * *
43881988 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACAAA
* *
43882032 TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGACAAA
1 TCTTATCTTCCTGAAGTTGCAGTGGA-GCAGACTAAAGA-AACAAA
* *
43882077 TCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAG
43882114 CTACAAGTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
43 2 0.03
44 32 0.45
45 35 0.49
46 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGAAACAAA
Found at i:43883372 original size:3 final size:3
Alignment explanation
Indices: 43883366--43883421 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
43883356 AGTTATTTTC
*
43883366 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43883414 TTA TTA TT
1 TTA TTA TT
43883422 GTTGTTGTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:43883426 original size:3 final size:3
Alignment explanation
Indices: 43883420--43883445 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43883410 ATTATTATTA
43883420 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
43883446 TAGTACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:43883861 original size:13 final size:14
Alignment explanation
Indices: 43883827--43883864 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
43883817 TACTTTTATA
43883827 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
43883842 TAT-TTATTT-GTT
1 TATATTATTTCGTT
43883854 TATATTATTTC
1 TATATTATTTC
43883865 TATGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:43885161 original size:110 final size:111
Alignment explanation
Indices: 43885028--43885248 Score: 435
Period size: 110 Copynumber: 2.0 Consensus size: 111
43885018 TTTTGTGCAG
43885028 GAATGCAATTTGGGCTAAATAGAAGAAAAATGAAACAATTGGGCCAAATTAAAGAAAGAAGCAAA
1 GAATGCAATTTGGGCTAAATAGAAGAAAAATGAAACAATTGGGCCAAATTAAAGAAAGAAGCAAA
43885093 GAAGGAGGGCCAAAGTAGAATTTTTCCTATTTTAATTAGCTGAAAA
66 GAAGGAGGGCCAAAGTAGAATTTTTCCTATTTTAATTAGCTGAAAA
43885139 GAATGCAA-TTGGGCTAAATAGAAGAAAAATGAAACAATTGGGCCAAATTAAAGAAAGAAGCAAA
1 GAATGCAATTTGGGCTAAATAGAAGAAAAATGAAACAATTGGGCCAAATTAAAGAAAGAAGCAAA
43885203 GAAGGAGGGCCAAAGTAGAATTTTTCCTATTTTAATTAGCTGAAAA
66 GAAGGAGGGCCAAAGTAGAATTTTTCCTATTTTAATTAGCTGAAAA
43885249 TTTTGTTGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 102 0.93
111 8 0.07
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (111 bp):
GAATGCAATTTGGGCTAAATAGAAGAAAAATGAAACAATTGGGCCAAATTAAAGAAAGAAGCAAA
GAAGGAGGGCCAAAGTAGAATTTTTCCTATTTTAATTAGCTGAAAA
Found at i:43897357 original size:237 final size:237
Alignment explanation
Indices: 43896942--43897415 Score: 876
Period size: 237 Copynumber: 2.0 Consensus size: 237
43896932 TGTTTTTAAT
*
43896942 AAACAATTTAATTTTATTAAAACAACGAGTTTGGTCTACGAAATTCAGAAAATGGGTTCGGGAGC
1 AAACAATTTAATTTTATTAAAACAACGAGTTTGGTCTACGAAATTCAGAAAATGAGTTCGGGAGC
*
43897007 CGGTTACGTACGAGGAAGGATTAGCACCCTCGTAATGCCCAAAAATTGGTACCTAGTTGATTAGC
66 CGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAGTTGATTAGC
*
43897072 TAATGTCTTGATGTTGAAAATTAAAAACTTGAAAGAATTAAAAATACGATCATTGTATTAAAATG
131 TAATGTCTTGATGTCGAAAATTAAAAACTTGAAAGAATTAAAAATACGATCATTGTATTAAAATG
43897137 TTAGAAATTTTTGGGAAAAGAAGCATATTTCACGTTAACCAA
196 TTAGAAATTTTTGGGAAAAGAAGCATATTTCACGTTAACCAA
*
43897179 AAACAATTTAATTTTATTAAAACAACGAGTTTGGTCTACGAAATTCAGAAAATGAGTTCGGGAGT
1 AAACAATTTAATTTTATTAAAACAACGAGTTTGGTCTACGAAATTCAGAAAATGAGTTCGGGAGC
43897244 CGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAGTTGATTAGC
66 CGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAGTTGATTAGC
* *
43897309 TAATGTCTTGATGTCGAAAATTAAAAACTTGGAAGAATTAAAAATACGATCCTTGTATTAAAATG
131 TAATGTCTTGATGTCGAAAATTAAAAACTTGAAAGAATTAAAAATACGATCATTGTATTAAAATG
* *
43897374 TTGGAAATTTTTGGGAAAAGAAGCATATTTCATGTTAACCAA
196 TTAGAAATTTTTGGGAAAAGAAGCATATTTCACGTTAACCAA
43897416 GAAAGAGAAT
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 229 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (237 bp):
AAACAATTTAATTTTATTAAAACAACGAGTTTGGTCTACGAAATTCAGAAAATGAGTTCGGGAGC
CGGTTACGTACGAGGAAGGATTAGCACCCTCGTAACGCCCAAAAATTGGTACCTAGTTGATTAGC
TAATGTCTTGATGTCGAAAATTAAAAACTTGAAAGAATTAAAAATACGATCATTGTATTAAAATG
TTAGAAATTTTTGGGAAAAGAAGCATATTTCACGTTAACCAA
Found at i:43897981 original size:2 final size:2
Alignment explanation
Indices: 43897974--43898001 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43897964 AATATAAAAG
43897974 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43898002 ATAAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43898667 original size:16 final size:16
Alignment explanation
Indices: 43898646--43898677 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43898636 CACCATAGCG
43898646 CCTATCGATTTAAGAC
1 CCTATCGATTTAAGAC
43898662 CCTATCGATTTAAGAC
1 CCTATCGATTTAAGAC
43898678 GGTGGCCGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
CCTATCGATTTAAGAC
Found at i:43900513 original size:4 final size:4
Alignment explanation
Indices: 43900504--43900539 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
43900494 TCCTATTCTA
43900504 TATT TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT
43900540 AACGTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:43902852 original size:152 final size:153
Alignment explanation
Indices: 43902575--43902879 Score: 587
Period size: 152 Copynumber: 2.0 Consensus size: 153
43902565 TTGGGTCAAT
43902575 GTAAAAATTTTAGATTTGTTTTTCGGGTCCAGACTCGGCTCAACTAAAAAAATGCGCCTAAAATT
1 GTAAAAATTTTAGATTTGTTTTTCGGGTCCAGACTCGGCTCAACTAAAAAAATGCGCCTAAAATT
43902640 TTACTTAAATTCAACTCAGATAAAAATAAACCCGTCCGTATTAAAATTTTTAGATTATTTTTATA
66 TTACTTAAATTCAACTCAGATAAAAATAAACCCGTCCGTATTAAAATTTTTAGATTATTTTTATA
43902705 TAAAAATAAATTTAAAAAATATA
131 TAAAAATAAATTTAAAAAATATA
43902728 GTAAAAA-TTTAGATTTGTTTTTCGGGTCCAGACTCGGCTCAACTAAAAAAATGCGCCTAAAATT
1 GTAAAAATTTTAGATTTGTTTTTCGGGTCCAGACTCGGCTCAACTAAAAAAATGCGCCTAAAATT
43902792 TTACTTAAATTCAACTCAGATAAAAA-ATAACCCGTCCGTATTAAAATTTTTAGATTATTTTTAT
66 TTACTTAAATTCAACTCAGATAAAAATA-AACCCGTCCGTATTAAAATTTTTAGATTATTTTTAT
43902856 ATAAAAATAAATTTAAAAAATATA
130 ATAAAAATAAATTTAAAAAATATA
43902880 ATACATCAAA
Statistics
Matches: 151, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
151 1 0.01
152 143 0.95
153 7 0.05
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (153 bp):
GTAAAAATTTTAGATTTGTTTTTCGGGTCCAGACTCGGCTCAACTAAAAAAATGCGCCTAAAATT
TTACTTAAATTCAACTCAGATAAAAATAAACCCGTCCGTATTAAAATTTTTAGATTATTTTTATA
TAAAAATAAATTTAAAAAATATA
Found at i:43903105 original size:29 final size:29
Alignment explanation
Indices: 43903071--43903129 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
43903061 AATTTTAAAA
* **
43903071 TATTTTT-AAACAACTTTTTTTTATTTTT
1 TATTTTTAAAACAAATTTTTGGTATTTTT
*
43903099 TATTTTTAAAATAAATTTTTGGTATTTTT
1 TATTTTTAAAACAAATTTTTGGTATTTTT
43903128 TA
1 TA
43903130 AAAAATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTTTTAAAACAAATTTTTGGTATTTTT
Found at i:43905462 original size:29 final size:29
Alignment explanation
Indices: 43905428--43905486 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
43905418 AATTTTAAAA
* **
43905428 TATTTTT-AAACAACTTTTTTTTATTTTT
1 TATTTTTAAAACAAATTTTTGGTATTTTT
*
43905456 TATTTTTAAAATAAATTTTTGGTATTTTT
1 TATTTTTAAAACAAATTTTTGGTATTTTT
43905485 TA
1 TA
43905487 AAAAATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTTTTAAAACAAATTTTTGGTATTTTT
Found at i:43913109 original size:14 final size:14
Alignment explanation
Indices: 43913090--43913152 Score: 63
Period size: 14 Copynumber: 4.2 Consensus size: 14
43913080 CTTATTTATT
43913090 AATATTTTAAAAAA
1 AATATTTTAAAAAA
*
43913104 AATATTTTTAAAAA
1 AATATTTTAAAAAA
*
43913118 AATATTAATAAATAAGA
1 AATATT-TTAAA-AA-A
*
43913135 TAATATTTTTAAAAA
1 -AATATTTTAAAAAA
43913150 AAT
1 AAT
43913153 TGGAGTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
14 22 0.55
15 4 0.10
16 4 0.10
17 4 0.10
18 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATATTTTAAAAAA
Found at i:43921065 original size:82 final size:83
Alignment explanation
Indices: 43920927--43921091 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
43920917 ATATGGGTCG
43920927 GGCTTGGGCTTGAATATTCAAGGCTCGATCCTTTTTAAGCTTATAATTTTTGATATTATATTATT
1 GGCTTGGGCTTGAATATTCAAGGCTCGATCCTTTTTAAGCTTATAATTTTTGATATTATATTATT
43920992 TTTATATATTATGTAATT
66 TTTATATATTATGTAATT
43921010 GGCTTGGGC-TGAATATTCAAGGCTCGATCCTTTTTAAGCTTATAATTTTTGATATTATATTATT
1 GGCTTGGGCTTGAATATTCAAGGCTCGATCCTTTTTAAGCTTATAATTTTTGATATTATATTATT
43921074 TTTATATATTATGTAATT
66 TTTATATATTATGTAATT
43921092 TAGAACACCA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 73 0.89
83 9 0.11
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (83 bp):
GGCTTGGGCTTGAATATTCAAGGCTCGATCCTTTTTAAGCTTATAATTTTTGATATTATATTATT
TTTATATATTATGTAATT
Found at i:43921092 original size:18 final size:17
Alignment explanation
Indices: 43921050--43921092 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
43921040 TTTTTAAGCT
43921050 TATAATTTTTGATATTA
1 TATAATTTTTGATATTA
* *
43921067 TATTATTTTTATATATTA
1 TATAATTTTT-GATATTA
*
43921085 TGTAATTT
1 TATAATTT
43921093 AGAACACCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TATAATTTTTGATATTA
Found at i:43921401 original size:23 final size:21
Alignment explanation
Indices: 43921336--43921401 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 21
43921326 ATCACTGCGG
43921336 TTTGCTTTATGTTTCATTTGTCT
1 TTTGC-TTATGTTTCA-TTGTCT
*
43921359 TTT-CTT-T-TTT-ATTGTTT
1 TTTGCTTATGTTTCATTGTCT
43921376 TTTGCTTAATGTTTCACTTGTCT
1 TTTGCTT-ATGTTTCA-TTGTCT
43921399 TTT
1 TTT
43921402 CATTTCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
17 8 0.23
18 4 0.11
19 3 0.09
20 2 0.06
21 5 0.14
22 2 0.06
23 11 0.31
ACGTcount: A:0.09, C:0.12, G:0.11, T:0.68
Consensus pattern (21 bp):
TTTGCTTATGTTTCATTGTCT
Found at i:43922725 original size:14 final size:14
Alignment explanation
Indices: 43922706--43922733 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43922696 GTTTATCAAT
43922706 TCAAAATATTTAAA
1 TCAAAATATTTAAA
43922720 TCAAAATATTTAAA
1 TCAAAATATTTAAA
43922734 GCTTCTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
TCAAAATATTTAAA
Found at i:43925197 original size:51 final size:51
Alignment explanation
Indices: 43925137--43925255 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
43925127 ACCTTCAAAG
* **
43925137 TTTACACATTTTGTCAATTTGATCTTGATATAACAAATATAACTTATAACA
1 TTTACACATTTTGTCAATTTGATCCTGATATAACAAATATAACCAATAACA
* *** * * * * *
43925188 TTTTCACATTCCATCAATTTGGTCCTGATTTAACAAATTTAGCCAATAATA
1 TTTACACATTTTGTCAATTTGATCCTGATATAACAAATATAACCAATAACA
43925239 TTTACACATTTTGTCAA
1 TTTACACATTTTGTCAA
43925256 CAGTTACGCG
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (51 bp):
TTTACACATTTTGTCAATTTGATCCTGATATAACAAATATAACCAATAACA
Found at i:43927850 original size:20 final size:21
Alignment explanation
Indices: 43927825--43927875 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
43927815 ATATCTTTAT
43927825 AAATTTTA-AATGATTAAATC
1 AAATTTTATAATGATTAAATC
* **
43927845 AAATTTTATATTTTTTAAATC
1 AAATTTTATAATGATTAAATC
43927866 AAATTTTATA
1 AAATTTTATA
43927876 TTTTTAGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATTTTATAATGATTAAATC
Found at i:43927881 original size:20 final size:21
Alignment explanation
Indices: 43927838--43927880 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
43927828 TTTTAAATGA
43927838 TTAAATCAAATTTTATATTTT
1 TTAAATCAAATTTTATATTTT
43927859 TTAAATCAAATTTTATATTTT
1 TTAAATCAAATTTTATATTTT
43927880 T
1 T
43927881 AGGGAGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATCAAATTTTATATTTT
Found at i:43928561 original size:18 final size:17
Alignment explanation
Indices: 43928519--43928561 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
43928509 TTTTTAAGCT
43928519 TATAATTTTTGATATTA
1 TATAATTTTTGATATTA
* *
43928536 TATTATTTTTATATATTA
1 TATAATTTTT-GATATTA
*
43928554 TGTAATTT
1 TATAATTT
43928562 AGAACACAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TATAATTTTTGATATTA
Found at i:43931772 original size:11 final size:11
Alignment explanation
Indices: 43931758--43931787 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43931748 GATTTTACCA
43931758 TTTTCAATGTT
1 TTTTCAATGTT
*
43931769 TTTTTAATGTT
1 TTTTCAATGTT
43931780 TTTTCAAT
1 TTTTCAAT
43931788 TTGTAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (11 bp):
TTTTCAATGTT
Found at i:43932418 original size:31 final size:31
Alignment explanation
Indices: 43932383--43932447 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
43932373 TAAAATTTCA
* * *
43932383 AAAAAGTACATAGACTAAATTTGACCAATTT
1 AAAAAGTACATAGACTAAAATTAACCAAATT
43932414 AAAAAGTACATAGACTAAAATTAACCAAATT
1 AAAAAGTACATAGACTAAAATTAACCAAATT
43932445 AAA
1 AAA
43932448 GTACAATGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (31 bp):
AAAAAGTACATAGACTAAAATTAACCAAATT
Found at i:43934777 original size:15 final size:14
Alignment explanation
Indices: 43934761--43934816 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
43934751 ATTTAAAATA
43934761 AAAATATTAAATTT
1 AAAATATTAAATTT
*
43934775 -AAAT-TTAAAAAGTT
1 AAAATATT--AAATTT
*
43934789 ATAATATTAAATATT
1 AAAATATTAAAT-TT
43934804 AAAATATTAAATT
1 AAAATATTAAATT
43934817 CATTATCGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
12 2 0.06
13 4 0.12
14 9 0.27
15 16 0.48
16 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AAAATATTAAATTT
Found at i:43934803 original size:7 final size:7
Alignment explanation
Indices: 43934762--43934815 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
43934752 TTTAAAATAA
43934762 AAATATT
1 AAATATT
43934769 AAAT-TT
1 AAATATT
43934775 AAAT-TT
1 AAATATT
*
43934781 AAAAAGTT
1 AAATA-TT
43934789 ATAATATT
1 A-AATATT
43934797 AAATATT
1 AAATATT
43934804 AAAATATT
1 -AAATATT
43934812 AAAT
1 AAAT
43934816 TCATTATCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 11 0.27
7 14 0.34
8 13 0.32
9 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:43934810 original size:8 final size:8
Alignment explanation
Indices: 43934753--43934814 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
43934743 TTTAATTTAT
43934753 TTAAAATA
1 TTAAAATA
43934761 --AAAATA
1 TTAAAATA
43934767 TT-AAAT-
1 TTAAAATA
43934773 TT-AAAT-
1 TTAAAATA
43934779 TTAAAA-A
1 TTAAAATA
*
43934786 GTTATAATA
1 -TTAAAATA
43934795 TT-AAATA
1 TTAAAATA
43934802 TTAAAATA
1 TTAAAATA
43934810 TTAAA
1 TTAAA
43934815 TTCATTATCG
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
6 14 0.31
7 13 0.29
8 17 0.38
9 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
TTAAAATA
Found at i:43936926 original size:8 final size:8
Alignment explanation
Indices: 43936896--43936938 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
43936886 CTGTTTTAAA
43936896 AAAATATT
1 AAAATATT
43936904 AAAAT-TT
1 AAAATATT
43936911 AAAA-ATT
1 AAAATATT
43936918 AAAATATT
1 AAAATATT
* *
43936926 AAAGTAAT
1 AAAATATT
43936934 AAAAT
1 AAAAT
43936939 TTCTCCCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 12 0.40
8 18 0.60
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:43937823 original size:18 final size:18
Alignment explanation
Indices: 43937783--43937823 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43937773 TTAATCTTTG
43937783 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
43937800 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
43937819 -TTTAT
1 ATTTAT
43937824 CTAATTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:43946951 original size:67 final size:67
Alignment explanation
Indices: 43946842--43946978 Score: 249
Period size: 67 Copynumber: 2.0 Consensus size: 67
43946832 CTAGCATATT
*
43946842 TAAATTTAGATAAACTTAAGGAAATTTTTTGAGGAATATATTTGGGTAATTTGAATTAGAATTTT
1 TAAATTTAGATAAACTTAAGGAAATTTTTTGAGGAATATATTTGGGTAATTTGAATAAG-ATTTT
43946907 ATA
65 ATA
43946910 TAAATTTAGA-AAACTTAAGGAAATTTTTTGAGGAATATATTTGGGTAATTTGAATAAGATTTTA
1 TAAATTTAGATAAACTTAAGGAAATTTTTTGAGGAATATATTTGGGTAATTTGAATAAGATTTTA
43946974 TA
66 TA
43946976 TAA
1 TAA
43946979 TTTTTTAAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 11 0.16
67 47 0.69
68 10 0.15
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (67 bp):
TAAATTTAGATAAACTTAAGGAAATTTTTTGAGGAATATATTTGGGTAATTTGAATAAGATTTTA
TA
Found at i:43954808 original size:19 final size:20
Alignment explanation
Indices: 43954767--43954808 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
43954757 TTTTTTGTAT
* *
43954767 TTTTGAATTTTTAATATATA
1 TTTTAAATTTTTAATATACA
*
43954787 TTTTAAATTTTTTAT-TACA
1 TTTTAAATTTTTAATATACA
43954806 TTT
1 TTT
43954809 ATAATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAAATTTTTAATATACA
Found at i:43957210 original size:10 final size:10
Alignment explanation
Indices: 43957197--43957224 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
43957187 AAGCAGTTAG
43957197 TCAGTTAGTA
1 TCAGTTAGTA
43957207 TCAGTTAGTA
1 TCAGTTAGTA
43957217 TCAGTTAG
1 TCAGTTAG
43957225 CTGTTATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (10 bp):
TCAGTTAGTA
Found at i:43959331 original size:10 final size:10
Alignment explanation
Indices: 43959318--43959345 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
43959308 AAGCAGTTAG
43959318 TCAGTTAGTA
1 TCAGTTAGTA
43959328 TCAGTTAGTA
1 TCAGTTAGTA
43959338 TCAGTTAG
1 TCAGTTAG
43959346 CTGTTATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (10 bp):
TCAGTTAGTA
Found at i:43960524 original size:3 final size:3
Alignment explanation
Indices: 43960516--43960604 Score: 99
Period size: 3 Copynumber: 28.7 Consensus size: 3
43960506 TAAGTGGGTA
* * * *
43960516 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
43960564 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43960605 AGGATTAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
2 1 0.01
3 66 0.88
4 5 0.07
5 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:43961616 original size:17 final size:17
Alignment explanation
Indices: 43961596--43961630 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43961586 GTTTAGGTTG
43961596 TGGGCTT-GTTGGGTATT
1 TGGGCTTGGTT-GGTATT
43961613 TGGGCTTGGTTGGTATT
1 TGGGCTTGGTTGGTATT
43961630 T
1 T
43961631 CGGTTAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.06, C:0.06, G:0.40, T:0.49
Consensus pattern (17 bp):
TGGGCTTGGTTGGTATT
Found at i:43962186 original size:95 final size:95
Alignment explanation
Indices: 43962015--43962209 Score: 309
Period size: 95 Copynumber: 2.1 Consensus size: 95
43962005 AGAATTACAG
*
43962015 TCTTCGATCTATTCCACTGCCAACTAGAGAGATAAAATCATCGGCTTCAATGTACTCCACTGTAG
1 TCTTCAATCTATTCCACTGCCAACTAGAGAGATAAAATCATCGGCTTCAATGTACTCCACTGTAG
* * *
43962080 TCATAGGGAGGTAAAATCTGCCATCTTTGA
66 TCACAGGGAGGTAAAATCTGCCATCCTCGA
* * *
43962110 TCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAG
1 TCTTCAATCTATTCCACTGCCAACTAGAGAGATAAAATCATCGGCTTCAATGTACTCCACTGTAG
* *
43962175 TCACCGTGAGGTAAAATCTGCCATCCTCGA
66 TCACAGGGAGGTAAAATCTGCCATCCTCGA
43962205 TCTTC
1 TCTTC
43962210 TCCACTACTG
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (95 bp):
TCTTCAATCTATTCCACTGCCAACTAGAGAGATAAAATCATCGGCTTCAATGTACTCCACTGTAG
TCACAGGGAGGTAAAATCTGCCATCCTCGA
Found at i:43962434 original size:132 final size:132
Alignment explanation
Indices: 43962109--43962421 Score: 475
Period size: 132 Copynumber: 2.4 Consensus size: 132
43962099 GCCATCTTTG
* *
43962109 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATA
* * * *
43962174 GTCACCGTGAGGTAAAATCTGCCATCCTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATATG
66 GTCACAGTGAGGTAAAATCTGCCATACTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATATG
*
43962239 TA
131 AA
* *** * *
43962241 ATCTTCAATCTATTCCACTACTGTCCAGAGAGATAGAATTATCAGCTTCAATGTACTCCACTATA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATA
*
43962306 GTCACAGTGAGGTAAAATCTGCCATTACTCGACCTGCTCCACTACTGCTTAGGGAGA-AAGATCT
66 GTCACAGTGAGGTAAAATCTGCCA-TACTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATAT
43962370 GAA
130 GAA
*
43962373 ATCTTCAATCTATTCCACTGCCAACCAGGGAGGTAGAATTATCGGCTTC
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTC
43962422 TGTCTGCTCC
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 130 0.82
133 29 0.18
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATA
GTCACAGTGAGGTAAAATCTGCCATACTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATATG
AA
Found at i:43962562 original size:50 final size:49
Alignment explanation
Indices: 43962503--43962761 Score: 188
Period size: 50 Copynumber: 5.2 Consensus size: 49
43962493 ATCTGTGATT
* *
43962503 TTCAATCTGTTTAACTGCAATGTCGGGGAAATAAGATTCGCCGTTGTAGC
1 TTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGT-GC
** * * ** * *
43962553 TTCAATCTGTTCCACTG-TATCGCCTAGG-AGTAAAATTCACTGTTGTGGC
1 TTCAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGT-GC
* * ** *
43962602 TTCAATCT-TTTAAATTGCAATGTTGGGGAAGCGAGATTCGCCGTTGTGAC
1 TTCAATCTGTTT-AACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTG-C
*** ** *
43962652 TTCAATCTGTTCCTCTGC-ATCG-CCTGGAAGTAAGATTCACCATTGTGGC
1 TTCAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGT-GC
* *
43962701 TTCAATCT-TTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTGAC
1 TTCAATCTGTTT-AACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTG-C
43962751 TTCAATCTGTT
1 TTCAATCTGTT
43962762 CCGCTGCATC
Statistics
Matches: 153, Mismatches: 43, Indels: 25
0.69 0.19 0.11
Matches are distributed among these distances:
48 4 0.03
49 66 0.43
50 79 0.52
51 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (49 bp):
TTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTGC
Found at i:43962674 original size:99 final size:99
Alignment explanation
Indices: 43962503--43962820 Score: 435
Period size: 99 Copynumber: 3.2 Consensus size: 99
43962493 ATCTGTGATT
* * *
43962503 TTCAATCTGTTT-AACTGCAATGTCGGGGAAATAAGATTCGCCGTTGT-AGCTTCAATCTGTTCC
1 TTCAATCT-TTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTGA-CTTCAATCTGTTCC
* *
43962566 ACTGTATCGCCTAGGAGTAAAATTCACTGTTGTGGC
64 ACTGCATCGCCTAGGAGTAAGATTCACTGTTGTGGC
* * *
43962602 TTCAATCTTTTAAATTGCAATGTTGGGGAAGCGAGATTCGCCGTTGTGACTTCAATCTGTTCCTC
1 TTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTGACTTCAATCTGTTCCAC
**
43962667 TGCATCGCCT-GGAAGTAAGATTCACCATTGTGGC
66 TGCATCGCCTAGG-AGTAAGATTCACTGTTGTGGC
* *
43962701 TTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTGACTTCAATCTGTTCCGC
1 TTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTGACTTCAATCTGTTCCAC
* ** *
43962766 TGCATCGCCTGAGAAGTAAGATTCGTTGCTGTGGC
66 TGCATCGCCT-AGGAGTAAGATTCACTGTTGTGGC
43962801 TTCAATCTTTTAAATTGCAA
1 TTCAATCTTTTAAATTGCAA
43962821 ACTATGGTTT
Statistics
Matches: 194, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
98 5 0.03
99 151 0.78
100 37 0.19
101 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (99 bp):
TTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTGACTTCAATCTGTTCCAC
TGCATCGCCTAGGAGTAAGATTCACTGTTGTGGC
Found at i:43962782 original size:50 final size:49
Alignment explanation
Indices: 43962529--43962789 Score: 190
Period size: 50 Copynumber: 5.3 Consensus size: 49
43962519 GCAATGTCGG
* * *
43962529 GGAAATAAGATTCGCCGTTGT-AGCTTCAATCTGTTCCACTGTATCGCCT
1 GGAAGTAAGATTCACCGTTGTGA-CTTCAATCTGTTCCACTGCATCGCCT
* * * * ** * *
43962578 AGG-AGTAAAATTCACTGTTGTGGCTTCAATCTTTTAAATTGCAAT-G-TT
1 -GGAAGTAAGATTCACCGTTGTGACTTCAATCTGTTCCACTGC-ATCGCCT
** * *
43962626 GGGGAAGCGAGATTCGCCGTTGTGACTTCAATCTGTTCCTCTGCATCGCCT
1 --GGAAGTAAGATTCACCGTTGTGACTTCAATCTGTTCCACTGCATCGCCT
* * * ** * **
43962677 GGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTAAATTGCAAT-GTCGG
1 GGAAGTAAGATTCACCGTTGTGACTTCAATCTGTTCCACTGC-ATCG-CCT
* *
43962727 GGAAGTGAGATTCACCGTTGTGACTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGATTCACCGTTGTGACTTCAATCTGTTCCACTGCATCGCCT
43962776 GAGAAGTAAGATTC
1 G-GAAGTAAGATTC
43962790 GTTGCTGTGG
Statistics
Matches: 154, Mismatches: 47, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
48 1 0.01
49 70 0.45
50 82 0.53
51 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (49 bp):
GGAAGTAAGATTCACCGTTGTGACTTCAATCTGTTCCACTGCATCGCCT
Found at i:43962952 original size:45 final size:46
Alignment explanation
Indices: 43962902--43963011 Score: 111
Period size: 45 Copynumber: 2.4 Consensus size: 46
43962892 CCAGCATAGG
*
43962902 AAGGCATGATCTGCTATCTTC-AGTCTACTTCAC-TGTCAGTACAGA
1 AAGGCATGATCTGCTATCTTCGA-TCTACTTCACTTGCCAGTACAGA
* * * * * *
43962947 AAGGCAAG-GCTTG-TGTCTTCGATCTGCTTCGCTTGCCAGTACAGG
1 AAGGCATGATC-TGCTATCTTCGATCTACTTCACTTGCCAGTACAGA
43962992 AAGGCATGATCTGCTATCTT
1 AAGGCATGATCTGCTATCTT
43963012 TAACCAGTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
44 15 0.30
45 29 0.58
46 6 0.12
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (46 bp):
AAGGCATGATCTGCTATCTTCGATCTACTTCACTTGCCAGTACAGA
Found at i:43963288 original size:45 final size:44
Alignment explanation
Indices: 43963223--43963529 Score: 130
Period size: 45 Copynumber: 6.9 Consensus size: 44
43963213 AAGGCTTGTG
* * * *
43963223 TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTACTTCACTGTCAATACAGGAAGGCAAGATCTG-TA
* * * * *
43963268 TCTTC-AGTCTACTTCACTGTCAGTACAGAAAGGTAAG-GCTTGTG
1 TCTTCGA-TCTACTTCACTGTCAATACAGGAAGGCAAGATC-TGTA
* * *
43963312 TCTTCGATCTGCTTCACT-TACCAGTACAGGAAGGCATGATCTGCTA
1 TCTTCGATCTACTTCACTGT--CAATACAGGAAGGCAAGATCTG-TA
* * * * * * * *
43963358 TCTT-TAACCAGTTCCACTG-CAA-CCGATGAAGGCAAGGTTTTGT-
1 TCTTCGATCTACTT-CACTGTCAATAC-AGGAAGGCAA-GATCTGTA
* ** * *
43963401 T-TTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTA
1 TCTTCGATCTACTTCACTGTCAATACAGGAAGGCAAGATCTG-TA
* * * * *
43963445 TCTTC-AGTCTACTTCACTGTCAGTACAGAAAGGTAAG-GCTTGTG
1 TCTTCGA-TCTACTTCACTGTCAATACAGGAAGGCAAGATC-TGTA
* * * *
43963489 TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 TCTTCGATCTACTTCACTGTCAATACAGGAAGGCAAGATCT
43963530 ACTTCTTTAA
Statistics
Matches: 185, Mismatches: 56, Indels: 43
0.65 0.20 0.15
Matches are distributed among these distances:
42 9 0.05
43 19 0.10
44 63 0.34
45 84 0.45
46 10 0.05
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTACTTCACTGTCAATACAGGAAGGCAAGATCTGTA
Found at i:43963463 original size:87 final size:87
Alignment explanation
Indices: 43962858--43963617 Score: 724
Period size: 87 Copynumber: 8.7 Consensus size: 87
43962848 GTCAGCACAG
** * *
43962858 GAAGGCAAGGCTACTGTCTTC-ATCTGCTTCGCTG-CCA-GCATAGGAAGGCATGATCTGCTATC
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGC--AGGAAGGCAAGATCTGCTATC
* * * *
43962920 TTCAGTCTACTTCACTGTCAGTACAGA-
64 TTTA-ACCACTTCACTG-CA--ACCGAT
* * * *
43962947 -AAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTTGCCAGTACAGGAAGGCATGATCTGCTATCT
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGC-TGTCAATGCAGGAAGGCAAGATCTGCTATCT
*
43963011 TTAACCAGTTCCACTGCAACCGAT
65 TTAACCACTT-CACTGCAACCGAT
* * * * *
43963035 GAAGGCAAGG-TTTTATTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCT-TCTT
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
* *
43963098 TAACCAGCTCCACTGCAACCAAT
66 TAACCA-CTTCACTGCAACCGAT
* * * *
43963121 GAAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAATACAGGAAGGCAAGATCTACT-TCTT
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
* * *
43963184 TAACCAGCTCCATTGCAACCAAT
66 TAACCA-CTTCACTGCAACCGAT
* *
43963207 AAAGGCAAGGCTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
* * * *
43963272 CAGTCTACTTCACTGTCAGTACAGA-
66 TA-ACCACTTCACTG-CA--ACCGAT
* * * * *
43963297 -AAGGTAAGGCTTGTGTCTTCGATCTGCTTCACT-TACCAGTACAGGAAGGCATGATCTGCTATC
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGT--CAATGCAGGAAGGCAAGATCTGCTATC
*
43963360 TTTAACCAGTTCCACTGCAACCGAT
64 TTTAACCACTT-CACTGCAACCGAT
* * * *
43963385 GAAGGCAAGG-TTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
* * * *
43963449 CAGTCTACTTCACTGTCAGTACAGA-
66 TA-ACCACTTCACTG-CA--ACCGAT
* * *
43963474 -AAGGTAAGGCTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACT-TCTT
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
* * *
43963537 TAACCAGCTCCATTGCAACCAAT
66 TAACCA-CTTCACTGCAACCGAT
*
43963560 GAAGGCAAGGCTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
1 GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
43963618 TTGTCTTCAC
Statistics
Matches: 561, Mismatches: 81, Indels: 60
0.80 0.12 0.09
Matches are distributed among these distances:
85 3 0.01
86 112 0.20
87 164 0.29
88 92 0.16
89 118 0.21
90 67 0.12
91 4 0.01
92 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
GAAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
TAACCACTTCACTGCAACCGAT
Found at i:43965707 original size:6 final size:7
Alignment explanation
Indices: 43965690--43965728 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
43965680 ACTTCGATTT
*
43965690 TTTTTTA
1 TTTTTGA
43965697 TTTTTGA
1 TTTTTGA
43965704 TTTTTGA
1 TTTTTGA
43965711 TTTTTGA
1 TTTTTGA
43965718 -TTTTGA
1 TTTTTGA
43965724 TTTTT
1 TTTTT
43965729 TGTTTTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (7 bp):
TTTTTGA
Found at i:43965743 original size:14 final size:14
Alignment explanation
Indices: 43965697--43965741 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
43965687 TTTTTTTTTA
43965697 TTTTTGATTTTTGA-
1 TTTTTGA-TTTTGAT
43965711 TTTTTGATTTTGAT
1 TTTTTGATTTTGAT
43965725 TTTTTG-TTTTG-T
1 TTTTTGATTTTGAT
43965737 TTTTT
1 TTTTT
43965742 TTCCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.20
13 11 0.37
14 13 0.43
ACGTcount: A:0.09, C:0.00, G:0.13, T:0.78
Consensus pattern (14 bp):
TTTTTGATTTTGAT
Found at i:43972692 original size:4 final size:4
Alignment explanation
Indices: 43972683--43973044 Score: 724
Period size: 4 Copynumber: 90.5 Consensus size: 4
43972673 CATGTGTTTT
43972683 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43972731 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43972779 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43972827 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43972875 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43972923 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43972971 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43973019 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
43973045 AGGTTATTTC
Statistics
Matches: 358, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 358 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:43975824 original size:11 final size:11
Alignment explanation
Indices: 43975808--43975834 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43975798 TGATTGAAAT
43975808 AATATTTTAAA
1 AATATTTTAAA
43975819 AATATTTTAAA
1 AATATTTTAAA
43975830 AATAT
1 AATAT
43975835 GGGAGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATTTTAAA
Found at i:43976106 original size:53 final size:52
Alignment explanation
Indices: 43976034--43976290 Score: 197
Period size: 53 Copynumber: 5.3 Consensus size: 52
43976024 ATTTTGTTGC
* *
43976034 AACAATTAATAAAATTAACAACTAATAATTTGATATAATTTGATAATTTTACT
1 AACAATTAATACAATTAACAA-TAATAATTTGATATAATTTGATAATTTTAGT
* * *
43976087 AACAATTAATACAATTAACAATTAATAATTTTACTACAA----A-AATGTTAGT
1 AACAATTAATACAATTAACAA-TAATAATTTGA-TATAATTTGATAATTTTAGT
*
43976136 AACAATTAAT--AA-T-----TAATAATTTAATATAATTTGATAATTTTAGT
1 AACAATTAATACAATTAACAATAATAATTTGATATAATTTGATAATTTTAGT
* * * *
43976180 AACAATTAATACAATTAACAATTAAAAATTT--TACTAA---CAAAATGTTAGT
1 AACAATTAATACAATTAACAA-TAATAATTTGATA-TAATTTGATAATTTTAGT
43976229 AACAATTAAT--AA-T-----TAATAATTTGATATAATTTGATAATTTTAGT
1 AACAATTAATACAATTAACAATAATAATTTGATATAATTTGATAATTTTAGT
43976273 AACAATTAATACAATTAA
1 AACAATTAATACAATTAA
43976291 TAATTTTACT
Statistics
Matches: 161, Mismatches: 17, Indels: 56
0.69 0.07 0.24
Matches are distributed among these distances:
39 4 0.02
40 18 0.11
41 3 0.02
42 2 0.01
43 1 0.01
44 37 0.23
46 6 0.04
47 6 0.04
49 36 0.22
50 1 0.01
51 2 0.01
52 3 0.02
53 38 0.24
54 4 0.02
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (52 bp):
AACAATTAATACAATTAACAATAATAATTTGATATAATTTGATAATTTTAGT
Found at i:43976156 original size:93 final size:93
Alignment explanation
Indices: 43976046--43976295 Score: 430
Period size: 93 Copynumber: 2.7 Consensus size: 93
43976036 CAATTAATAA
* * *
43976046 AATTAACAACTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTA
1 AATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATTA
*
43976111 ATAATTTTACT-ACAAAAATGTTAGTAAC
66 AAAATTTTACTAAC-AAAATGTTAGTAAC
*
43976139 AATTAATAATTAATAATTTAATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATTA
1 AATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATTA
43976204 AAAATTTTACTAACAAAATGTTAGTAAC
66 AAAATTTTACTAACAAAATGTTAGTAAC
*
43976232 AATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAATAATT
1 AATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATT
43976296 TTACTAACAA
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
93 147 0.99
94 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (93 bp):
AATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATTA
AAAATTTTACTAACAAAATGTTAGTAAC
Found at i:43976186 original size:44 final size:45
Alignment explanation
Indices: 43976131--43976296 Score: 189
Period size: 44 Copynumber: 3.6 Consensus size: 45
43976121 TACAAAAATG
43976131 TTAGTAACAATTAAT-AATTAATAATTTAATATAATTTGATAATT
1 TTAGTAACAATTAATAAATTAATAATTTAATATAATTTGATAATT
* * *
43976175 TTAGTAACAATTAATACAATTAACAA-TTAA-A-AATTTTACTAACAAAATG
1 TTAGTAACAATTAATA-AATTAATAATTTAATATAATTTGA-T-----AATT
*
43976224 TTAGTAACAATTAAT-AATTAATAATTTGATATAATTTGATAATT
1 TTAGTAACAATTAATAAATTAATAATTTAATATAATTTGATAATT
43976268 TTAGTAACAATTAATACAATTAATAATTT
1 TTAGTAACAATTAATA-AATTAATAATTT
43976297 TACTAACAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
43 6 0.06
44 35 0.34
45 4 0.04
46 20 0.20
47 8 0.08
48 3 0.03
49 20 0.20
50 6 0.06
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (45 bp):
TTAGTAACAATTAATAAATTAATAATTTAATATAATTTGATAATT
Found at i:43976338 original size:17 final size:17
Alignment explanation
Indices: 43976302--43976341 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
43976292 AATTTTACTA
*
43976302 ACAAAATGTTAGATTTT
1 ACAAAATGTTAGATTGT
43976319 ACAAAATGTT-GATTGGT
1 ACAAAATGTTAGATT-GT
43976336 ACAAAA
1 ACAAAA
43976342 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (17 bp):
ACAAAATGTTAGATTGT
Found at i:43976378 original size:16 final size:16
Alignment explanation
Indices: 43976359--43976415 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
43976349 AATTTGATAC
*
43976359 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
43976375 AATTTTGATAACAATT
1 AATTTTAATAACAATT
43976391 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
43976407 AGTTTTAAT
1 AATTTTAAT
43976416 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:43976399 original size:22 final size:23
Alignment explanation
Indices: 43976389--43976450 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
43976379 TTGATAACAA
* *
43976389 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
43976411 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
43976434 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
43976451 ACGGACCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:43976912 original size:27 final size:27
Alignment explanation
Indices: 43976874--43976928 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
43976864 GATTCTAGAA
43976874 TAATCTGATGCTCCACCTGCTTTTGAT
1 TAATCTGATGCTCCACCTGCTTTTGAT
43976901 TAATCTGATGCTCCACCTGCTTTTGAT
1 TAATCTGATGCTCCACCTGCTTTTGAT
43976928 T
1 T
43976929 TTCTTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (27 bp):
TAATCTGATGCTCCACCTGCTTTTGAT
Found at i:43986947 original size:2 final size:2
Alignment explanation
Indices: 43986940--43986973 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
43986930 TTAAACACTA
43986940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43986974 GCCCCATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44002441 original size:77 final size:76
Alignment explanation
Indices: 44002311--44002466 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 76
44002301 TTTAACCTGT
*
44002311 AATAATTACACATTCTATCAACATTTACGCAAAATATATAATCATCAAGGATTAAATTTGTTTTT
1 AATAATTACACATTCTATCAACATTTACGCAAAATATATAATCATCAAGGATTAAATTT-ATTTT
44002376 TATACTAATCAA
65 TATACTAATCAA
*
44002388 AATAATTACACATTCTATCAACATTTACGCAAAATATATAATCATCAATGATTAAATTTATTTTT
1 AATAATTACACATTCTATCAACATTTACGCAAAATATATAATCATCAAGGATTAAATTTATTTTT
44002453 ATACTAATCAA
66 ATACTAATCAA
44002464 AAT
1 AAT
44002467 TATGTATAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 19 0.25
77 58 0.75
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (76 bp):
AATAATTACACATTCTATCAACATTTACGCAAAATATATAATCATCAAGGATTAAATTTATTTTT
ATACTAATCAA
Found at i:44004944 original size:30 final size:28
Alignment explanation
Indices: 44004910--44004971 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
44004900 AAAAGCCGTT
44004910 TTTTTTTCAAAATTTACCAAAATGGGCCGA
1 TTTTTTT-AAAATTTACCAAAATGGGCC-A
** **
44004940 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCAAAATGGGCCA
44004968 TTTT
1 TTTT
44004972 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.18
29 16 0.57
30 7 0.25
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCAAAATGGGCCA
Found at i:44006649 original size:25 final size:26
Alignment explanation
Indices: 44006569--44006651 Score: 71
Period size: 29 Copynumber: 3.0 Consensus size: 26
44006559 TTAATATCCA
*
44006569 AATAAGTAATAAATAATAAAATAAAATG
1 AATAA-TAATAAATAAGAAAA-AAAATG
44006597 AAGTAATACATAAAGTAAAGAAAGAAAAAT-
1 AA-TAATA-ATAAA-T-AAGAAA-AAAAATG
44006627 AATAATAATAAATAA-AAATAAAAAT
1 AATAATAATAAATAAGAAA-AAAAAT
44006652 TGGGTTGCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
25 9 0.19
26 2 0.04
27 1 0.02
28 9 0.19
29 13 0.27
30 3 0.06
31 10 0.21
32 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (26 bp):
AATAATAATAAATAAGAAAAAAAATG
Found at i:44008730 original size:17 final size:16
Alignment explanation
Indices: 44008701--44008734 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
44008691 TTTGCAATCA
44008701 ATTTTTTTATATTTTT
1 ATTTTTTTATATTTTT
*
44008717 ATTTTTGTTTTATTTTT
1 ATTTTT-TTATATTTTT
44008734 A
1 A
44008735 AACAACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
ATTTTTTTATATTTTT
Found at i:44009288 original size:3 final size:3
Alignment explanation
Indices: 44009280--44009308 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44009270 ACAAATTTCA
44009280 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44009309 CTTTTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44009579 original size:25 final size:27
Alignment explanation
Indices: 44009551--44009619 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
44009541 TATACACGTC
44009551 TTTTTACATATATATTTT-TAT-TACTT
1 TTTTTACATATAT-TTTTATATATACTT
*
44009577 TTTTTTCATA-ATTTTTATATATAC-T
1 TTTTTACATATATTTTTATATATACTT
*
44009602 TATTTACATAT-TTTTTAT
1 TTTTTACATATATTTTTAT
44009620 TTATTTTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.11
25 21 0.57
26 12 0.32
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTACATATATTTTTATATATACTT
Found at i:44009735 original size:200 final size:207
Alignment explanation
Indices: 44009323--44009741 Score: 667
Period size: 200 Copynumber: 2.0 Consensus size: 207
44009313 TATATATATA
*
44009323 TATA-TATACACGTATTTTTACATATATATATATTTGTTACTTTTTTATATAATTTTTATATATA
1 TATACTATACACGTATTTTTACATATATATATATTTATTACTTTTTTATATAATTTTTATATATA
44009387 CTTATTTACATATTTTTTATTTTTTATTTTCATGAATACATACACATACTTATATGTTTTTTTAT
66 CTTATTTACATATTTTTTA--TTTTATTTTCATGAATACATACACATACTTATA-GTTTTTTTA-
44009452 TTAGGTATATATTTCCATATAATTTACATATACATACAAACTCATATTTTTATATATTTTATAAT
127 TTA-GTATATATTTCCATATAATTTACA-ATA-ATACAAACTCATATTTTTATATATTTTATAAT
44009517 TCATAAATGTACATATTTG
189 TCATAAATGTACATATTTG
* *
44009536 TATACTATACACGTCTTTTTACATATATAT-T-TTTATTACTTTTTTTTCATAATTTTTATATAT
1 TATACTATACACGTATTTTTACATATATATATATTTATTACTTTTTTAT-ATAATTTTTATATAT
44009599 ACTTATTTACATATTTTTTA-TTTATTTTCATGAATACATACACATACTTATA-TTTTTTTA-T-
65 ACTTATTTACATATTTTTTATTTTATTTTCATGAATACATACACATACTTATAGTTTTTTTATTA
*
44009660 GTATATATTTCCATATAATTTAC-AT-ATACAAACTCATATTTTTATATATTTTATAATTCATAC
130 GTATATATTTCCATATAATTTACAATAATACAAACTCATATTTTTATATATTTTATAATTCATAA
44009723 ATGTACATATTTG
195 ATGTACATATTTG
44009736 TATACT
1 TATACT
44009742 TTATAGCTTA
Statistics
Matches: 200, Mismatches: 4, Indels: 17
0.90 0.02 0.08
Matches are distributed among these distances:
200 56 0.28
202 2 0.01
204 23 0.12
206 1 0.00
208 8 0.04
210 32 0.16
212 14 0.07
213 40 0.20
214 24 0.12
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.53
Consensus pattern (207 bp):
TATACTATACACGTATTTTTACATATATATATATTTATTACTTTTTTATATAATTTTTATATATA
CTTATTTACATATTTTTTATTTTATTTTCATGAATACATACACATACTTATAGTTTTTTTATTAG
TATATATTTCCATATAATTTACAATAATACAAACTCATATTTTTATATATTTTATAATTCATAAA
TGTACATATTTG
Found at i:44012653 original size:20 final size:20
Alignment explanation
Indices: 44012628--44012665 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44012618 GCCTTGGGTT
44012628 CAATCCTCGGCTTTTAGACA
1 CAATCCTCGGCTTTTAGACA
*
44012648 CAATCCTCTGCTTTTAGA
1 CAATCCTCGGCTTTTAGA
44012666 TGATCCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (20 bp):
CAATCCTCGGCTTTTAGACA
Found at i:44014047 original size:16 final size:16
Alignment explanation
Indices: 44014026--44014056 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44014016 CAATAAAATA
44014026 TTAAAAAATATATATT
1 TTAAAAAATATATATT
*
44014042 TTAAAATATATATAT
1 TTAAAAAATATATAT
44014057 ATGTTAATTT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAAAATATATATT
Found at i:44014670 original size:13 final size:13
Alignment explanation
Indices: 44014652--44014680 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44014642 TTTAATTTAA
44014652 TGATCTGTAAAAT
1 TGATCTGTAAAAT
44014665 TGATCTGTAAAAT
1 TGATCTGTAAAAT
44014678 TGA
1 TGA
44014681 AAAGTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (13 bp):
TGATCTGTAAAAT
Found at i:44018718 original size:22 final size:23
Alignment explanation
Indices: 44018672--44018722 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
44018662 TTTTAATTAT
* * *
44018672 AATTAAAATTATATTTTTATTAA
1 AATTAAAACTATATTGTTATCAA
44018695 AATTAAAACTA-ATTGTTATCAA
1 AATTAAAACTATATTGTTATCAA
44018717 AATTAA
1 AATTAA
44018723 TTGTTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTAAAACTATATTGTTATCAA
Found at i:44018723 original size:16 final size:16
Alignment explanation
Indices: 44018699--44018736 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44018689 TATTAAAATT
*
44018699 AAAACTAATTGTTATC
1 AAAATTAATTGTTATC
*
44018715 AAAATTAATTGTTATT
1 AAAATTAATTGTTATC
44018731 AAAATT
1 AAAATT
44018737 GTATCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AAAATTAATTGTTATC
Found at i:44018869 original size:83 final size:83
Alignment explanation
Indices: 44018776--44019106 Score: 617
Period size: 83 Copynumber: 4.0 Consensus size: 83
44018766 TTTGTAAAAT
44018776 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
44018841 ATTAATTATTAATTTTTA
66 ATTAATTATTAATTTTTA
44018859 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
44018924 ATTAATTATTAATTTTTA
66 ATTAATTATTAATTTTTA
44018942 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
44019007 ATTAATTATTAATTTTTA
66 ATTAATTATTAATTTTTA
*
44019025 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATC
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAAT-
*
44019090 ATATCAAATTATTAATT
65 -TAT-TAATTATTAATT
44019107 GTTAATTGTA
Statistics
Matches: 243, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
83 229 0.94
85 3 0.01
86 11 0.05
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (83 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
ATTAATTATTAATTTTTA
Found at i:44022961 original size:31 final size:30
Alignment explanation
Indices: 44022882--44022963 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
44022872 TTTTAAACAG
44022882 GTTAAATTTTGATA-TTAGTCCCTATATTTT
1 GTTAAATTTT-ATATTTAGTCCCTATATTTT
*
44022912 GTTAAA-GTTATGAATTTAGTCCCTATATTTT
1 GTTAAATTTTAT--ATTTAGTCCCTATATTTT
44022943 -TTAAATTTTAATATTTTAGTC
1 GTTAAATTTT-ATA-TTTAGTC
44022964 TTTATTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
28 2 0.05
29 2 0.05
30 13 0.30
31 25 0.57
32 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.52
Consensus pattern (30 bp):
GTTAAATTTTATATTTAGTCCCTATATTTT
Done.