Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 159 of 344
Found at i:53045055 original size:26 final size:26
Alignment explanation
Indices: 53045026--53045080 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
53045016 AAATCGTAAT
* *
53045026 TAAGG-GAAAATTTACCGAAATACCCC
1 TAAGGAGAAAA-TGACCAAAATACCCC
53045052 TAAGGATGAAAATGACCAAAATACCCC
1 TAAGGA-GAAAATGACCAAAATACCCC
53045079 TA
1 TA
53045081 GTTGTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 15 0.60
28 5 0.20
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (26 bp):
TAAGGAGAAAATGACCAAAATACCCC
Found at i:53047626 original size:16 final size:16
Alignment explanation
Indices: 53047605--53047635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53047595 GTAACGCCCC
*
53047605 AAAAATCCCGAAATCA
1 AAAAATCCCAAAATCA
53047621 AAAAATCCCAAAATC
1 AAAAATCCCAAAATC
53047636 CCGAACTTTC
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:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATCCCAAAATCA
Found at i:53049203 original size:29 final size:29
Alignment explanation
Indices: 53049148--53049263 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
53049138 GTGAGCATGA
* * *
53049148 ATATGAATGTGA-CTGGGCCTAACGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
53049176 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
53049205 ATATGTAGGTGATTTGGGCCCTAATGGGCC
1 ATATGAATGTGATTTGGG-CCTAATGGGCC
* * *
53049235 ATATGAATAT-AATTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
53049263 A
1 A
53049264 GATACAGGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
28 22 0.31
29 33 0.46
30 17 0.24
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:53050348 original size:17 final size:18
Alignment explanation
Indices: 53050316--53050349 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53050306 TTTAAGAAGG
53050316 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
53050334 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
53050350 TTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:53073026 original size:42 final size:42
Alignment explanation
Indices: 53072861--53073025 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
53072851 TACCATACCA
* *
53072861 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
* * * * * *
53072903 ATGCCAATAGT-CCAGCTCTGGTCTTAAATGAAATCTCATATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGTAATCTCATATTG
* * * *
53072946 GTGCCATATCCCAGATACGGTCTTACACGTAGTCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
*
53072988 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCAT
53073026 TAACCCTAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.66
43 33 0.32
44 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
Found at i:53080204 original size:22 final size:22
Alignment explanation
Indices: 53080177--53080218 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
53080167 AGGACCAATT
53080177 TGTAAAA-TGGTTATAAAATGTG
1 TGTAAAAGT-GTTATAAAATGTG
*
53080199 TGTAAAAGTGTTATTAAATG
1 TGTAAAAGTGTTATAAAATG
53080219 AAACATGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (22 bp):
TGTAAAAGTGTTATAAAATGTG
Found at i:53090576 original size:27 final size:27
Alignment explanation
Indices: 53090546--53090600 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
53090536 AGGTGCAAGT
53090546 TGTTCTTCCCTTAGTGCAATGTCTATG
1 TGTTCTTCCCTTAGTGCAATGTCTATG
53090573 TGTTCTTCCCTTAGTGCAATGTCTATG
1 TGTTCTTCCCTTAGTGCAATGTCTATG
53090600 T
1 T
53090601 TCATACAACC
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:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (27 bp):
TGTTCTTCCCTTAGTGCAATGTCTATG
Found at i:53092701 original size:40 final size:39
Alignment explanation
Indices: 53092651--53092835 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 39
53092641 TTGAATGCTG
*
53092651 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-AAGTGAATAAA
* * * *
53092691 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGTTATTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CTTTGTGCAAGTGAATAAA
* * * *
53092731 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG-TTAAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAG-TGAATAAA
* * * ** * *
53092771 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTGAATAAA
* *
53092810 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
53092836 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 32 0.27
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTGAATAAA
Found at i:53092815 original size:39 final size:39
Alignment explanation
Indices: 53092704--53092833 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
53092694 GGACTAAGAT
* *
53092704 CCGAAGGCCTTTGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTATTAAATCCGGGTTATGTC
*
53092744 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTATTAAATCCGGGTTATGTC
* * * *
53092784 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTATTAAATCCGGGTTATGTC
53092823 CCGAAGGCATT
1 CCGAAGGCATT
53092834 TGAACGAGGA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.46
40 44 0.54
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTATTAAATCCGGGTTATGTC
Found at i:53092853 original size:79 final size:79
Alignment explanation
Indices: 53092704--53092868 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
53092694 GGACTAAGAT
* * * * ** ** *
53092704 CCGAAGGCCTTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
53092769 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * *
53092784 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
53092848 TATCCGGTTAAATC
66 AATCCGGTTAAATC
53092862 CCGAAGG
1 CCGAAGG
53092869 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:53100527 original size:40 final size:39
Alignment explanation
Indices: 53100477--53100660 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 39
53100467 TTGAATGCTG
*
53100477 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-AAGTGAATAAA
* * * *
53100517 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGTTATTAAA
1 TCCGGGCTAAG-TCCCGAAGG-CTTTGTGCAAGTGAATAAA
* * * *
53100557 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG-TTAAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAG-TGAATAAA
* * * ** * *
53100597 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTGAATAAA
*
53100636 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
53100661 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
38 20 0.17
39 16 0.13
40 74 0.62
41 10 0.08
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTGAATAAA
Found at i:53100649 original size:38 final size:39
Alignment explanation
Indices: 53100530--53100658 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
53100520 GGACTAAGAT
* *
53100530 CCGAAGGCCTTTGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTATTAAATCCGGGTTATGTC
*
53100570 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTATTAAATCCGGGTTATGTC
* * *
53100610 CCGAAGGCATTGTGTGAGTTACTAAA-CCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTATTAAATCCGGGTTATGTC
53100648 CCGAAGGCATT
1 CCGAAGGCATT
53100659 TGAACGAGGA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 22 0.27
39 15 0.19
40 44 0.54
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTATTAAATCCGGGTTATGTC
Found at i:53100678 original size:78 final size:79
Alignment explanation
Indices: 53100530--53100693 Score: 179
Period size: 78 Copynumber: 2.1 Consensus size: 79
53100520 GGACTAAGAT
* * * ** ** *
53100530 CCGAAGGCCTTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
53100595 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * *
53100610 CCGAAGG-CATTGTGTGAGTTACTAAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
53100673 TATCCGGTTAAATC
66 AATCCGGTTAAATC
53100687 CCGAAGG
1 CCGAAGG
53100694 TACGTGATTT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
77 14 0.20
78 33 0.47
79 16 0.23
80 7 0.10
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:53108474 original size:39 final size:39
Alignment explanation
Indices: 53108392--53108490 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 39
53108382 GATACTAATT
* *
53108392 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTCTAAAC
*
53108431 CCGGGTTAAGTCCCGAAGGCATT-GTATGAGTTACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTCGTACGAGTT-CTA-AAC
* *
53108470 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
53108491 CTTGAACGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
38 7 0.13
39 44 0.83
40 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTCTAAAC
Found at i:53112501 original size:15 final size:16
Alignment explanation
Indices: 53112473--53112502 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53112463 TATTTTGGTT
53112473 TAAATATAATTTTTTA
1 TAAATATAATTTTTTA
53112489 TAAATAT-ATTTTTT
1 TAAATATAATTTTTT
53112503 CTACATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAATATAATTTTTTA
Found at i:53115869 original size:16 final size:17
Alignment explanation
Indices: 53115845--53115878 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
53115835 AGTCTGCCTT
*
53115845 AAAATGAAAATC-TGAA
1 AAAAAGAAAATCTTGAA
53115861 AAAAAGAAAATCTTGAA
1 AAAAAGAAAATCTTGAA
53115878 A
1 A
53115879 GATGCCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAAGAAAATCTTGAA
Found at i:53118255 original size:17 final size:17
Alignment explanation
Indices: 53118233--53118271 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
53118223 GTTTTGCCCC
53118233 TTTTTTTAAGGTTAGGG
1 TTTTTTTAAGGTTAGGG
*
53118250 TTTTTTTAAGTTTAGGG
1 TTTTTTTAAGGTTAGGG
53118267 TTTTT
1 TTTTT
53118272 GGTGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (17 bp):
TTTTTTTAAGGTTAGGG
Found at i:53118280 original size:17 final size:17
Alignment explanation
Indices: 53118260--53118305 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
53118250 TTTTTTTAAG
53118260 TTTAGGGTTTTTGGTGA
1 TTTAGGGTTTTTGGTGA
*
53118277 TTTAGGGTTTTTGGTGG
1 TTTAGGGTTTTTGGTGA
*
53118294 TTTAGGATTTTT
1 TTTAGGGTTTTT
53118306 AGGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.33, T:0.57
Consensus pattern (17 bp):
TTTAGGGTTTTTGGTGA
Found at i:53118473 original size:16 final size:16
Alignment explanation
Indices: 53118432--53118470 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
53118422 TTTCTAATTA
53118432 TTTTAG-GG-TTAGGG
1 TTTTAGTGGTTTAGGG
53118446 TTTTAGTGGTTTAGGG
1 TTTTAGTGGTTTAGGG
53118462 TTTTTAGTG
1 -TTTTAGTG
53118471 TTTTTTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 2 0.09
16 6 0.27
17 8 0.36
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (16 bp):
TTTTAGTGGTTTAGGG
Found at i:53118784 original size:275 final size:276
Alignment explanation
Indices: 53118287--53118986 Score: 996
Period size: 275 Copynumber: 2.5 Consensus size: 276
53118277 TTTAGGGTTT
* * *
53118287 TTGGTGGTTTAGGATTTTTAGGGTTTTTTAAGAGAAAAATTAATGAACATTCAGAGTTGAGGGTT
1 TTGGTGGTTTAGGGTTTTTAGGGTTTTTTAAGGGAAAAATTAATGAACATT-AGAGTTAAGGGTT
*
53118352 AATGAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGGTTTAAGG-TTTTTAAGGG
65 AATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAA-GG
* *
53118416 TTAGGGTTTCTAATTATTTTAGGGTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGG
129 TTAAGGTTTCTAATTATTTTAGGGTTAGGGTTCTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGG
*
53118481 GAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAATTATGAAAATAAG-AAAA
194 GAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAA
53118545 AATCAATTAAATTAGGGC
259 AATCAATTAAATTAGGGC
*
53118563 TTGGCGGTTTAGGGTTTTTAGGG-TTTTTAAGGGAAAAATTAATGAACACTTAGAGTTAAGGGTT
1 TTGGTGGTTTAGGGTTTTTAGGGTTTTTTAAGGGAAAAATTAATGAACA-TTAGAGTTAAGGGTT
*
53118627 AATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGGTATAAGGTTTTTTAAGGT
65 AATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGT
* * *
53118692 TAAGGTTTTTGATTGTTTTAGGGTTAGGGTTCTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGG
130 TAAGGTTTCTAATTATTTTAGGGTTAGGGTTCTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGG
*
53118757 AAAAATTAATGAACACTTAGAGTTGAGGGTTCATTAATTAAATTAACTATGAAAATAAGAAAAAA
195 AAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAA
53118822 ATCAATTAAATTAGGGC
260 ATCAATTAAATTAGGGC
* **
53118839 TTAGTGGTTTAGGGTTTTTTGGTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATTTA
1 TTGGTGGTTTAGGG-----T--T--TTTA-GG------G--TTTTTTAAGGGAAAAATTAATGAA
*
53118904 -ATTAGAGTTCAA-GGTTAATTAATTAAATTAAGTATGAAAATAAAAAAAATCAATTAAATTAGG
48 CATTAGAGTT-AAGGGTTAATTAATTAAATTAACTATGAAAAT-AAAAAAATCAATTAAATTAGG
*
53118967 GTTTAAGGTTTTTTAGGGTT
111 GTTTAAGGTTTTTTAAGGTT
53118987 TATTAATTAA
Statistics
Matches: 380, Mismatches: 20, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
275 208 0.55
276 64 0.17
281 1 0.00
283 1 0.00
285 4 0.01
286 2 0.01
292 1 0.00
293 36 0.09
294 42 0.11
295 21 0.06
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (276 bp):
TTGGTGGTTTAGGGTTTTTAGGGTTTTTTAAGGGAAAAATTAATGAACATTAGAGTTAAGGGTTA
ATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGGTTTAAGGTTTTTTAAGGTT
AAGGTTTCTAATTATTTTAGGGTTAGGGTTCTAGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGA
AAAATTAATGAACACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAGAAAAAAA
TCAATTAAATTAGGGC
Found at i:53118987 original size:132 final size:134
Alignment explanation
Indices: 53118726--53118967 Score: 393
Period size: 134 Copynumber: 1.8 Consensus size: 134
53118716 TAGGGTTCTA
* * * *
53118726 GTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTCAT
1 GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAAGGTTAAT
53118791 TAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTTAGTGGTTTAGGGTTT
66 TAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTTAGTGGTTTAGGGTTT
53118856 TTTG
131 TTTG
**
53118860 GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATTTA-A-TTAGAGTTCAAGGTTAAT
1 GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAAGGTTAAT
*
53118923 TAATTAAATTAAGTATGAAAAT-A-AAAAAAATCAATTAAATTAGGG
66 TAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGG
53118968 TTTAAGGTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
130 22 0.22
131 1 0.01
132 36 0.36
133 1 0.01
134 41 0.41
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (134 bp):
GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTCAAGGTTAAT
TAATTAAATTAACTATGAAAATAAGAAAAAAATCAATTAAATTAGGGCTTAGTGGTTTAGGGTTT
TTTG
Found at i:53119237 original size:126 final size:126
Alignment explanation
Indices: 53119007--53119441 Score: 656
Period size: 126 Copynumber: 3.5 Consensus size: 126
53118997 ATTAACTATT
* * *
53119007 AATTACGGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGTATCTAATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
*
53119072 GAGAAGATGTTTCTGAACAAATAGTGTAAAAAACGCTTCAAGAAAGATGCACTTTCAGAAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTTTCAGAAA
* * **
53119133 AATTACGGGAAAAAGCTCCCACGAGGATACTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * * * *
53119198 GAGAAAATGTTTCTGAACAATTAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTTTCAGAAA
* * * *
53119259 AATTATGGAAAAAAGCTCTCACGTGGACGCTCTTTTGCTATAGTAATATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * * *
53119324 GAGGAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTTTTAGTAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTTTCAGAAA
* *
53119385 AATTACGGAAAAAAGCTCACATGTGGACGCTCTTTTGCTACAGTAGTATCTGA-AAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
53119442 GCCTTAGACT
Statistics
Matches: 277, Mismatches: 32, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
125 4 0.01
126 273 0.99
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTTTCAGAAA
Found at i:53121146 original size:39 final size:38
Alignment explanation
Indices: 53121103--53121230 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 38
53121093 GTCTTTAACT
** *
53121103 CGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGTC
1 CGGATAT-TTTCCAGCATATAGCCTGCGGACCTCATGTC
* * *
53121142 CGGATATATTTCTAGCATATAGCCTGCGAATCTCATGTC
1 CGGATAT-TTTCCAGCATATAGCCTGCGGACCTCATGTC
*
53121181 CTGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTC
1 CGGATA-TTTTCCAGCATATAGCCTGCGGACCTCATGTC
53121220 CGGATATTTTC
1 CGGATATTTTC
53121231 AATCTCATAC
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
38 5 0.07
39 70 0.92
40 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (38 bp):
CGGATATTTTCCAGCATATAGCCTGCGGACCTCATGTC
Found at i:53127819 original size:39 final size:39
Alignment explanation
Indices: 53127766--53127928 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
53127756 TTTAACCCGA
* * *
53127766 ATATTTTTCCAGCATGTAGCCTGCGGACCTCAAGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
* * * *
53127805 ATATATTTCTAGCATATAGCCTGTGGATCTCATGTCCAG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
* *
53127844 ATATTTTTCCAGCATATAGCCTGCGGATCTCATGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
*
53127883 ATATTTTTCCAGCATATAGCCTACGGACCTCATGTCCAG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
53127922 ATATTTT
1 ATATTTT
53127929 CAATCTCATA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (39 bp):
ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
Found at i:53132274 original size:7 final size:7
Alignment explanation
Indices: 53132259--53132312 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
53132249 TTATATAGGT
53132259 AATACTA
1 AATACTA
*
53132266 AATAATA
1 AATACTA
53132273 AATACTA
1 AATACTA
53132280 AATACTA
1 AATACTA
53132287 AATACTA
1 AATACTA
53132294 AATACTA
1 AATACTA
53132301 AATACTA
1 AATACTA
53132308 AATAC
1 AATAC
53132313 GAAACGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:53133492 original size:22 final size:21
Alignment explanation
Indices: 53133460--53133506 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
53133450 ACACAGCTTT
53133460 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
53133480 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
53133502 TTTGA
1 TTTGA
53133507 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:53134772 original size:14 final size:13
Alignment explanation
Indices: 53134749--53134797 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
53134739 AAGAATTCTC
53134749 AATTTATTAAAAT
1 AATTTATTAAAAT
*
53134762 ATATTTGTTAAAAT
1 A-ATTTATTAAAAT
53134776 AATTTATGTAATAAT
1 AATTTAT-TAA-AAT
53134791 AAATTTA
1 -AATTTA
53134798 AAAAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 6 0.20
14 15 0.50
15 3 0.10
16 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:53143718 original size:30 final size:31
Alignment explanation
Indices: 53143684--53143742 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
53143674 GATTCATCCA
53143684 TGGAAAATAAAATAA-AGAAA-ATGATAAAAT
1 TGGAAAATAAAATAATA-AAAGATGATAAAAT
* *
53143714 TGGAAAGTGAAATAATAAAAGATGATAAA
1 TGGAAAATAAAATAATAAAAGATGATAAA
53143743 TGATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (31 bp):
TGGAAAATAAAATAATAAAAGATGATAAAAT
Found at i:53144912 original size:23 final size:23
Alignment explanation
Indices: 53144878--53144922 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
53144868 CCTATTACAT
53144878 GGCTCTTTGTGAGCT-TCCTGATA
1 GGCTCTTTGTGAG-TATCCTGATA
53144901 GGCT-TTTCGTGAGTATCCTGAT
1 GGCTCTTT-GTGAGTATCCTGAT
53144923 TAAAAGTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
GGCTCTTTGTGAGTATCCTGATA
Found at i:53163630 original size:49 final size:49
Alignment explanation
Indices: 53163530--53163715 Score: 203
Period size: 49 Copynumber: 3.8 Consensus size: 49
53163520 CATGTGATAA
* * * *
53163530 GATGCCGATGCAATGTCCCAAACATGGTCTTACATTGACTCTCATCTATC
1 GATGCCGATGCCATGTCCCAGACA-GGTCTTACACTAACTCTCATCTATC
* * * * *
53163580 GATGTCGATGCCATATCCCAGACAGGTTTTACACTAACTTTCATATATC
1 GATGCCGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATCTATC
* * *
53163629 GA-GACCGATGTCGTGTCCCAGACAGGTCTTACACTGACTCTCATCTATC
1 GATG-CCGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATCTATC
* ** *
53163678 GGTGTAGATGCCATGTCCTAGACAGGTCTTACACTAAC
1 GATGCCGATGCCATGTCCCAGACAGGTCTTACACTAAC
53163716 ACGCAACAAG
Statistics
Matches: 110, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 88 0.80
50 21 0.19
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (49 bp):
GATGCCGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATCTATC
Found at i:53163738 original size:98 final size:99
Alignment explanation
Indices: 53163543--53163720 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 99
53163533 GCCGATGCAA
* * *
53163543 TGTCCCAAACATGGTCTTACATTGACTCTCATCTATCGATGTCGATGCCATATCCCAGACAGGTT
1 TGTCCCAAACATGGTCTTACACTGACTCTCATCTATCGATGTAGATGCCATATCCCAGACAGGTC
*** * * *
53163608 TTACACTAACTTTCATATATCGAGACCGATGTCG
66 TTACACTAACACGCATAAAGCGAGACCAATGTCG
* * * *
53163642 TGTCCCAGACA-GGTCTTACACTGACTCTCATCTATCGGTGTAGATGCCATGTCCTAGACAGGTC
1 TGTCCCAAACATGGTCTTACACTGACTCTCATCTATCGATGTAGATGCCATATCCCAGACAGGTC
53163706 TTACACTAACACGCA
66 TTACACTAACACGCA
53163721 ACAAGCTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
98 59 0.86
99 10 0.14
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (99 bp):
TGTCCCAAACATGGTCTTACACTGACTCTCATCTATCGATGTAGATGCCATATCCCAGACAGGTC
TTACACTAACACGCATAAAGCGAGACCAATGTCG
Found at i:53166009 original size:35 final size:35
Alignment explanation
Indices: 53165970--53166037 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
53165960 ATCTCATGTA
*
53165970 TAATTTGGGAACCATAACCCTAATATTTATAACCT
1 TAATTTGGAAACCATAACCCTAATATTTATAACCT
53166005 TAATTTGGAAACCATAACCCTAATATTTATAAC
1 TAATTTGGAAACCATAACCCTAATATTTATAAC
53166038 ATTGGCATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (35 bp):
TAATTTGGAAACCATAACCCTAATATTTATAACCT
Found at i:53166097 original size:17 final size:17
Alignment explanation
Indices: 53166075--53166108 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53166065 TAATTAACCC
*
53166075 ATCATTAATTAGAATTT
1 ATCATTAATTACAATTT
53166092 ATCATTAATTACAATTT
1 ATCATTAATTACAATTT
53166109 GATTATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (17 bp):
ATCATTAATTACAATTT
Found at i:53167450 original size:15 final size:15
Alignment explanation
Indices: 53167432--53167477 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
53167422 TTAATTTATT
*
53167432 TTAATATTAAAATTA
1 TTAATATTAAATTTA
* *
53167447 TTAATATTCAATTTT
1 TTAATATTAAATTTA
*
53167462 TTAATTTTAAATTTA
1 TTAATATTAAATTTA
53167477 T
1 T
53167478 CTTTACTCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATATTAAATTTA
Found at i:53167732 original size:24 final size:24
Alignment explanation
Indices: 53167699--53167745 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
53167689 AAAACAGGTT
53167699 TCTTCCCCCAGTAAAACTCTGCTA
1 TCTTCCCCCAGTAAAACTCTGCTA
* * *
53167723 TCTTCTCCCAGTTAAACTTTGCT
1 TCTTCCCCCAGTAAAACTCTGCT
53167746 CTTTTTTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (24 bp):
TCTTCCCCCAGTAAAACTCTGCTA
Found at i:53168782 original size:24 final size:24
Alignment explanation
Indices: 53168755--53168812 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
53168745 CTTCTCTAAT
53168755 TTAAACTCTGCTATCTTCTCCCAG
1 TTAAACTCTGCTATCTTCTCCCAG
* ** * *
53168779 TTAAACTATATTATCTTTTTCCAG
1 TTAAACTCTGCTATCTTCTCCCAG
53168803 TTAAACTCTG
1 TTAAACTCTG
53168813 ATTACTTCAG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (24 bp):
TTAAACTCTGCTATCTTCTCCCAG
Found at i:53170437 original size:11 final size:11
Alignment explanation
Indices: 53170423--53170447 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53170413 CTCTCCTAGG
53170423 ACACACATTAA
1 ACACACATTAA
53170434 ACACACATTAA
1 ACACACATTAA
53170445 ACA
1 ACA
53170448 TATATATTAG
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:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (11 bp):
ACACACATTAA
Found at i:53171362 original size:52 final size:52
Alignment explanation
Indices: 53171300--53171398 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
53171290 AGCTTGTAAA
* *
53171300 AATCAGATATCAAGTTCCCACTGAGTTAGTTCAGCCTATTTCTATTCTAGAG
1 AATCAGATATCAAGTTCCCACCGAGTTAGTTCAACCTATTTCTATTCTAGAG
* *
53171352 AATCAGATATCAAGTTCCCACCGAGTTGGTTCAACCTATTTTTATTC
1 AATCAGATATCAAGTTCCCACCGAGTTAGTTCAACCTATTTCTATTC
53171399 CAGAATGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
AATCAGATATCAAGTTCCCACCGAGTTAGTTCAACCTATTTCTATTCTAGAG
Found at i:53179654 original size:14 final size:14
Alignment explanation
Indices: 53179635--53179661 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53179625 CAAAATCGAT
53179635 AAAATTTTCTTATC
1 AAAATTTTCTTATC
53179649 AAAATTTTCTTAT
1 AAAATTTTCTTAT
53179662 GACATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:53180060 original size:16 final size:16
Alignment explanation
Indices: 53180023--53180069 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
53180013 ATATTATTAT
53180023 TAAATTAA-TTTT-AA
1 TAAATTAATTTTTCAA
*
53180037 TTAATTAATTTTTCAA
1 TAAATTAATTTTTCAA
53180053 TAAATTAATTTTCTCAA
1 TAAATTAATTTT-TCAA
53180070 CCCAATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.25
15 4 0.14
16 13 0.46
17 4 0.14
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTAATTTTTCAA
Found at i:53180753 original size:36 final size:36
Alignment explanation
Indices: 53180706--53180774 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
53180696 GAATGATACT
53180706 ACATATTGCAGAAATTATATATACCTAACACACCAA
1 ACATATTGCAGAAATTATATATACCTAACACACCAA
*
53180742 ACATATTGCAGAAGTTATATATACCTAACACAC
1 ACATATTGCAGAAATTATATATACCTAACACAC
53180775 TAACTTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (36 bp):
ACATATTGCAGAAATTATATATACCTAACACACCAA
Found at i:53185680 original size:13 final size:13
Alignment explanation
Indices: 53185662--53185686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53185652 CCTGGCACTC
53185662 GCCCATGTCCTTG
1 GCCCATGTCCTTG
53185675 GCCCATGTCCTT
1 GCCCATGTCCTT
53185687 CACATGCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.20, T:0.32
Consensus pattern (13 bp):
GCCCATGTCCTTG
Found at i:53191405 original size:36 final size:37
Alignment explanation
Indices: 53191333--53191407 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
53191323 TTACAAGCCA
* *
53191333 AAATCATTATAAGCCATATCTCATGGCTACATACAAC
1 AAATAATTATAAGCCATATCACATGGCTACATACAAC
53191370 AAATAATTATAAGCCA-AT-ACATTGGCTA-ATCACAAC
1 AAATAATTATAAGCCATATCACA-TGGCTACAT-ACAAC
53191406 AA
1 AA
53191408 CATCGATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 4 0.12
36 15 0.44
37 15 0.44
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATAATTATAAGCCATATCACATGGCTACATACAAC
Found at i:53198240 original size:21 final size:21
Alignment explanation
Indices: 53198216--53198260 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
53198206 TGTAGGAAAA
53198216 TTCAACCAACGGTAGATATTT
1 TTCAACCAACGGTAGATATTT
53198237 TTCAACCAACGGTAGATATTT
1 TTCAACCAACGGTAGATATTT
53198258 TTC
1 TTC
53198261 CCACTACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (21 bp):
TTCAACCAACGGTAGATATTT
Found at i:53202764 original size:30 final size:30
Alignment explanation
Indices: 53202730--53202789 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53202720 ATTTAATACG
53202730 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
* * *
53202760 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
53202790 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:53211296 original size:21 final size:21
Alignment explanation
Indices: 53211241--53211296 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
53211231 AATAGGGGTC
* *
53211241 ACACGCCCATGTGGCTTTGGG
1 ACACGCCCGTGTGGCTTTAGG
*
53211262 ACACGCCCGCGTGGCTTTAGG
1 ACACGCCCGTGTGGCTTTAGG
*
53211283 ACACGCCTGTGTGG
1 ACACGCCCGTGTGG
53211297 TTAGGCTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.30, G:0.34, T:0.21
Consensus pattern (21 bp):
ACACGCCCGTGTGGCTTTAGG
Found at i:53214661 original size:19 final size:17
Alignment explanation
Indices: 53214633--53214667 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
53214623 ATATGGAGAA
53214633 AATGATAAAAATTATTTT
1 AATGAT-AAAATTATTTT
53214651 AATGAATAAAATTATTT
1 AATG-ATAAAATTATTT
53214668 AAAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AATGATAAAATTATTTT
Found at i:53214758 original size:7 final size:7
Alignment explanation
Indices: 53214741--53214781 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
53214731 AATTAAGTTA
53214741 TTAATATT
1 TTAA-ATT
53214749 TTAAATT
1 TTAAATT
53214756 TTAAATT
1 TTAAATT
53214763 TTAAATT
1 TTAAATT
53214770 TTAAATT
1 TTAAATT
53214777 TTAAA
1 TTAAA
53214782 ATTATTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 29 0.88
8 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:53215438 original size:40 final size:40
Alignment explanation
Indices: 53215393--53215475 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
53215383 GACGTTATTG
*
53215393 CTTGAAAGTATGAAAGACACGTTTAGTATTGTTTCCTTTT
1 CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
53215433 CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
1 CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
53215473 CTT
1 CTT
53215476 CTGTTAGTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (40 bp):
CTTGAAAGTATGAAAAACACGTTTAGTATTGTTTCCTTTT
Found at i:53218390 original size:21 final size:21
Alignment explanation
Indices: 53218339--53218416 Score: 129
Period size: 22 Copynumber: 3.6 Consensus size: 21
53218329 AAAAATGAAT
53218339 AAATGAATAAATTGTCTATACA
1 AAATGAATAAATTGTCTATA-A
53218361 AAATGAATAAATTGTCTATAA
1 AAATGAATAAATTGTCTATAA
*
53218382 AAATTAATAAATTGTCTATAAA
1 AAATGAATAAATTGTCTAT-AA
53218404 AAATGAATAAATT
1 AAATGAATAAATT
53218417 TGTTAACGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
21 19 0.36
22 34 0.64
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (21 bp):
AAATGAATAAATTGTCTATAA
Found at i:53220705 original size:20 final size:21
Alignment explanation
Indices: 53220667--53220706 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53220657 TTGGAAGGTA
53220667 GATATCACGATACCCAAAGTG
1 GATATCACGATACCCAAAGTG
*
53220688 GATATCGCGATA-CCAAAGT
1 GATATCACGATACCCAAAGT
53220707 AAGTGGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
GATATCACGATACCCAAAGTG
Found at i:53224373 original size:54 final size:54
Alignment explanation
Indices: 53224291--53224400 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
53224281 TGACAAAGTT
53224291 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACATTAGAAAAAAGCTAGA
1 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACATTAGAAAAAAGCTAGA
53224345 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACATTAGAAAAAAGCTAGA
1 GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACATTAGAAAAAAGCTAGA
53224399 GG
1 GG
53224401 TTATTTCGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.18
Consensus pattern (54 bp):
GGGGGCAAGTGCACTGTGAGGGGTAAGCGACTGTTACATTAGAAAAAAGCTAGA
Found at i:53231948 original size:24 final size:25
Alignment explanation
Indices: 53231902--53231954 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
53231892 TGCTTTAATA
* *
53231902 TTTTTAAAATTAATTATTCAATTAT
1 TTTTTAAAATAAAATATTCAATTAT
*
53231927 TTTTTAAAGTAAAATATT-AATTAT
1 TTTTTAAAATAAAATATTCAATTAT
53231951 TTTT
1 TTTT
53231955 ATTATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTTAAAATAAAATATTCAATTAT
Found at i:53237126 original size:44 final size:45
Alignment explanation
Indices: 53237038--53237142 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 45
53237028 TGTAATATTG
* *
53237038 TTGTTGTTGTCT-AAATGAAAAATCTAACTTATGTGATAGCTGGTA
1 TTGTTGTTGT-TGAAATGAAAAATCCAACTTATATGATAGCTGGTA
*
53237083 TTGTTGTTGTTGAAATGGAAAA-CCAACTTATATGACT-GCTGGTA
1 TTGTTGTTGTTGAAATGAAAAATCCAACTTATATGA-TAGCTGGTA
**
53237127 TTGAGGTTGTTGAAAT
1 TTGTTGTTGTTGAAAT
53237143 TGATCAATTC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 33 0.62
45 20 0.38
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (45 bp):
TTGTTGTTGTTGAAATGAAAAATCCAACTTATATGATAGCTGGTA
Found at i:53237249 original size:20 final size:19
Alignment explanation
Indices: 53237171--53237251 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 19
53237161 TATAAATTGT
*
53237171 TTGTTGTTTTAAATCGATTCT
1 TTGTTG-TTT-AATCGATTCA
* *
53237192 TTGCTTATTTAATAGATTCA
1 TTG-TTGTTTAATCGATTCA
* *
53237212 TTATTGTTTGAATTGATTCA
1 TTGTTGTTT-AATCGATTCA
53237232 TTGTTGTTTAACTCGATTCA
1 TTGTTGTTTAA-TCGATTCA
53237252 GACTCCAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
19 7 0.14
20 34 0.69
21 6 0.12
22 2 0.04
ACGTcount: A:0.23, C:0.10, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTTGTTTAATCGATTCA
Found at i:53237624 original size:16 final size:17
Alignment explanation
Indices: 53237608--53237640 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53237598 ACTAAGGATG
53237608 CAATTTTCTATGAATGC
1 CAATTTTCTATGAATGC
*
53237625 CCATTTTCTATGAATG
1 CAATTTTCTATGAATG
53237641 TCCTTCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (17 bp):
CAATTTTCTATGAATGC
Found at i:53261757 original size:16 final size:16
Alignment explanation
Indices: 53261738--53261769 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53261728 TATATAATTT
53261738 TGTTGTTATAGACCTC
1 TGTTGTTATAGACCTC
53261754 TGTTGTTATAGACCTC
1 TGTTGTTATAGACCTC
53261770 AAGGAACAAA
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:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
TGTTGTTATAGACCTC
Found at i:53262994 original size:36 final size:36
Alignment explanation
Indices: 53262945--53263013 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
53262935 TAGGCCGTGT
* *
53262945 GTGACACATGGTTCCTTCCTATGGGCGTGGGCTTGC
1 GTGACACACGGTTCCTTCCCATGGGCGTGGGCTTGC
53262981 GTGACACACGGTTCCTTCCCATGGGCGTGGGCT
1 GTGACACACGGTTCCTTCCCATGGGCGTGGGCT
53263014 ATGGCCGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.12, C:0.28, G:0.33, T:0.28
Consensus pattern (36 bp):
GTGACACACGGTTCCTTCCCATGGGCGTGGGCTTGC
Found at i:53267029 original size:140 final size:140
Alignment explanation
Indices: 53266777--53267059 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
53266767 CAAAATCAAA
53266777 GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTCCTTCAAATTAATCAAATTGTGATT
1 GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTCCTTCAAATTAATCAAATTGTGATT
53266842 TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
66 TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
*
53266907 TATGTGTAAT
131 GATGTGTAAT
* *
53266917 GTAGTGTCTTCGTAGGAATTGATGTTACAATTCTGTCATTTCTTCAAATTAATCAAATTGTGATT
1 GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTCCTTCAAATTAATCAAATTGTGATT
*
53266982 TTGCTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
66 TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
53267047 GATGTGTAAT
131 GATGTGTAAT
53267057 GTA
1 GTA
53267060 CTTCCCATCA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (140 bp):
GTAGTGTCTCCGTAGGAATTGATGTTACAATTCTGTCATTCCTTCAAATTAATCAAATTGTGATT
TTACTTTTACACAGAAAGTTTATAGCAAAAACAACTACAAAACCAGACAAAATTTACTTTAAGAA
GATGTGTAAT
Found at i:53272985 original size:29 final size:29
Alignment explanation
Indices: 53272953--53273140 Score: 180
Period size: 29 Copynumber: 6.4 Consensus size: 29
53272943 GACTATCGGT
* *
53272953 TATGAAAAGGGATGGAGACAACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
53272982 TATGAAAAGGTATGGTGACGACCATCAAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * *** * *
53273011 TAGGAAAAGGAATAGTTTTGACTATCGAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
53273040 TATCAAAAGGGATAGTGACGACTATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
53273069 TATGAAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
**
53273098 TAATGAAAAGGGATGGTTTCGACCATCGAA-
1 T-ATGAAAAGGGATGGTGACGACCATC-AAC
53273128 TATGAAAAGGGAT
1 TATGAAAAGGGAT
53273141 AGTTTTGACC
Statistics
Matches: 129, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
29 104 0.81
30 24 0.19
31 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:53273050 original size:87 final size:88
Alignment explanation
Indices: 53272927--53273142 Score: 281
Period size: 87 Copynumber: 2.5 Consensus size: 88
53272917 ATCGACCAAT
* ** *
53272927 GAAAAGGGATAGCTTCGACTATCGGTTATGAAAAGGGATGGAGACAACCATCAACTATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATAGAGACAACCATCAACTATGAAAAGG
*
53272992 TATGGTGACGACCATCAATT-AG
66 GATGGTGACGACCATCAATTAAG
* * * * * * *
53273014 GAAAAGGAATAGTTTTGACTATCGACTATCAAAAGGGATAGTGACGACTATCAACTATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATAGAGACAACCATCAACTATGAAAAGG
* *
53273079 GATGGTGACGACCATCGATTAAT
66 GATGGTGACGACCATCAATTAAG
* *
53273102 GAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATAG
1 GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATAG
53273143 TTTTGACCAT
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 73 0.67
88 36 0.33
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (88 bp):
GAAAAGGGATAGTTTCGACTATCGAATATGAAAAGGGATAGAGACAACCATCAACTATGAAAAGG
GATGGTGACGACCATCAATTAAG
Found at i:53273145 original size:29 final size:29
Alignment explanation
Indices: 53272925--53273143 Score: 158
Period size: 29 Copynumber: 7.5 Consensus size: 29
53272915 TCATCGACCA
* * **
53272925 ATGAAAAGGGATAGCT-TCGACTATCGGTT
1 ATGAAAAGGGATAG-TGACGACCATCGAAT
* * *
53272954 ATGAAAAGGGATGGAGACAACCATC-AACT
1 ATGAAAAGGGATAGTGACGACCATCGAA-T
* *
53272983 ATGAAAAGGTATGGTGACGACCATC-AATT
1 ATGAAAAGGGATAGTGACGACCATCGAA-T
* * *** * *
53273012 AGGAAAAGGAATAGTTTTGACTATCGACT
1 ATGAAAAGGGATAGTGACGACCATCGAAT
* *
53273041 ATCAAAAGGGATAGTGACGACTATC-AACT
1 ATGAAAAGGGATAGTGACGACCATCGAA-T
* *
53273070 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATAGTGACGACCATCGAAT
* **
53273099 AATGAAAAGGGATGGTTTCGACCATCGAAT
1 -ATGAAAAGGGATAGTGACGACCATCGAAT
53273129 ATGAAAAGGGATAGT
1 ATGAAAAGGGATAGT
53273144 TTTGACCATC
Statistics
Matches: 150, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.01
29 121 0.81
30 28 0.19
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
ATGAAAAGGGATAGTGACGACCATCGAAT
Found at i:53273889 original size:38 final size:39
Alignment explanation
Indices: 53273821--53273895 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
53273811 AAATGGAAAG
53273821 TAAGTAAATAAAAAGATATATATAATCTTATAAAAAGTAT
1 TAAGTAAATAAAAAGA-ATATATAATCTTATAAAAAGTAT
53273861 TAAGTAAATAAAAAG-ATATATAATCTTATAAAAAG
1 TAAGTAAATAAAAAGAATATATAATCTTATAAAAAG
53273896 GTTGATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 20 0.57
40 15 0.43
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (39 bp):
TAAGTAAATAAAAAGAATATATAATCTTATAAAAAGTAT
Found at i:53287875 original size:40 final size:40
Alignment explanation
Indices: 53287844--53288015 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
53287834 GGACTATGAT
*
53287844 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTATGTC
* * *
53287883 CTCGAAGGCCTTTGTGCGAGATACTAAATTCGGGTTAAGTC
1 C-CGAAGGCATTTGTGCGAGATACTAAATCCGGGTTATGTC
* * *
53287924 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTATGTC
* * * *
53287964 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTATGTC
53288003 CCGAAGGCATTTG
1 CCGAAGGCATTTG
53288016 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.30
40 76 0.66
41 5 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTATGTC
Found at i:53287931 original size:80 final size:79
Alignment explanation
Indices: 53287844--53288015 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
53287834 GGACTATGAT
*
53287844 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAG-CCTCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGTCC-CGAAGG-CATTGTGCGAGATAC
** *
53287907 TAAATTCGGGTTAAGTC
63 TAAAACCGGGCTAAGTC
* * * * * *
53287924 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAA
*
53287989 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
53288003 CCGAAGGCATTTG
1 CCGAAGGCATTTG
53288016 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 37 0.47
80 36 0.46
81 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:53294979 original size:20 final size:21
Alignment explanation
Indices: 53294954--53294993 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
53294944 CTTATAATGA
53294954 TAAAAAATA-TTTAAATTTAT
1 TAAAAAATATTTTAAATTTAT
53294974 TAAAAAATATTTTAAATTTA
1 TAAAAAATATTTTAAATTTA
53294994 ACTTAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAATATTTTAAATTTAT
Found at i:53297649 original size:23 final size:23
Alignment explanation
Indices: 53297623--53297666 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
53297613 CGCAAAAATA
* *
53297623 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
53297646 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
53297667 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:53298952 original size:48 final size:48
Alignment explanation
Indices: 53298876--53299023 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
53298866 TTGATGTCCA
* *
53298876 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
53298924 AGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
** **
53298972 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
53299020 AGAT
1 AGAT
53299024 GTGTATATAT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
Found at i:53299921 original size:31 final size:31
Alignment explanation
Indices: 53299886--53299947 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
53299876 TTTTAAATTT
53299886 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
1 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
53299917 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
1 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
53299948 CTCTGTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (31 bp):
GCTTAAGACTTACTAAGCTTATAAAAGCTTA
Found at i:53309990 original size:42 final size:42
Alignment explanation
Indices: 53309933--53310096 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
53309923 TAGGGTTATG
* *
53309933 TGTGATTTCATGTAAGACCATATTTGGGATATGGTATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
53309975 TGTGATTTCATGTAAGACCATGTCTGGGAAATGGCATCAATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* ** * * *
53310017 TGAGACATCATGTAAGACCATAACTAGGCTATCGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATAT-GGCATCGATA
** * * *
53310060 TGTGATCCCATGTAAGACTATATCTCGAATATGGCAT
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCAT
53310097 TGGCATCTTA
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:53310094 original size:85 final size:84
Alignment explanation
Indices: 53309940--53310096 Score: 199
Period size: 85 Copynumber: 1.9 Consensus size: 84
53309930 ATGTGTGATT
** * * ** * *
53309940 TCATGTAAGACCATATTTGGGATATGGTATCGATATGTGATTTCATGTAAGACCATGTCTGGGAA
1 TCATGTAAGACCATAACTAGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGCGAA
53310005 ATGGCATCAATATGAGACA
66 ATGGCATCAATATGAGACA
* *
53310024 TCATGTAAGACCATAACTAGGCTATCGGCATCGATATGTGATCCCATGTAAGACTATATCT-CGA
1 TCATGTAAGACCATAACTAGGATAT-GGCATCGATATGTGATCCCATGTAAGACCATATCTGCGA
53310088 ATATGGCAT
65 A-ATGGCAT
53310097 TGGCATCTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 24 0.39
85 37 0.61
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (84 bp):
TCATGTAAGACCATAACTAGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGCGAA
ATGGCATCAATATGAGACA
Found at i:53317893 original size:22 final size:23
Alignment explanation
Indices: 53317828--53317909 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
53317818 CTAAGTTGAT
* * *
53317828 AAACAGTAAGTTCTATTGAGCTG
1 AAACAGTAAGCTCCAATGAGCTG
* *
53317851 AAACGGTAAGC-CCTATCGAGCTG
1 AAACAGTAAGCTCCAAT-GAGCTG
*
53317874 -AACAGTAAGCTCCAATGAGCTAA
1 AAACAGTAAGCTCCAATGAGCT-G
*
53317897 AAATAGTAAGCTC
1 AAACAGTAAGCTC
53317910 TTACGAGCTG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
22 16 0.35
23 19 0.41
24 11 0.24
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (23 bp):
AAACAGTAAGCTCCAATGAGCTG
Found at i:53321109 original size:42 final size:42
Alignment explanation
Indices: 53321062--53321142 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
53321052 CCATTGAAGT
53321062 TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTTATA
1 TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTTATA
*
53321104 TAGTGATGGACGGTCATGACGTTAATATATATAGGTTTT
1 TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTT
53321143 GTATTAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (42 bp):
TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTTATA
Found at i:53323537 original size:94 final size:93
Alignment explanation
Indices: 53323343--53323613 Score: 262
Period size: 94 Copynumber: 2.8 Consensus size: 93
53323333 AGGTTATTGT
* * * *
53323343 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGAGCCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGATAAT--GAGCCAGTGTAAGACCAT
**
53323407 GTCTGGGACATGGCATCAGCATTGAGACGA
64 GTCTGGGACATGGCATCAGCACAGAGACGA
* * * *
53323437 GTGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGA-AATGTGTCAATGTAAGACCATGT
1 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGATAATGAGCCAGTGTAAGACCATGT
* * * * * *
53323501 CTGGCACATGGCGTCGGTACAGATATGTGA
66 CTGGGACATGGCATCAGCACAGAGA--CGA
* *
53323531 GAGCTAGTATAAGACCATGT-TTGGGACATGGCATCAGCTTCAGTGATAAT-AGCCAGTGTAAGA
1 GAGCTAGTGTAAGA-CATGTCTT-GGACAT-GCATCGGC-T-A-TGATAATGAGCCAGTGTAAGA
53323594 CCATGTCTGGGACATGGCAT
60 CCATGTCTGGGACATGGCAT
53323614 TGGTAATTTT
Statistics
Matches: 143, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
92 35 0.24
94 53 0.37
95 12 0.08
96 7 0.05
97 1 0.01
98 1 0.01
99 31 0.22
100 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGATAATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAGCACAGAGACGA
Found at i:53333988 original size:13 final size:13
Alignment explanation
Indices: 53333972--53333999 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53333962 CCTTGAGCAT
53333972 GGGAGCGGTTGAA
1 GGGAGCGGTTGAA
53333985 GGGAGCGGTTGAA
1 GGGAGCGGTTGAA
53333998 GG
1 GG
53334000 CAGCTTATAA
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:0.21, C:0.07, G:0.57, T:0.14
Consensus pattern (13 bp):
GGGAGCGGTTGAA
Found at i:53334856 original size:27 final size:27
Alignment explanation
Indices: 53334826--53335472 Score: 688
Period size: 27 Copynumber: 24.0 Consensus size: 27
53334816 AAAGTACTCC
53334826 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
53334853 CGATTTACAGAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* ** * *
53334880 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
53334907 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
53334934 C-AGTTTATAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* **
53334961 CGATTTACATAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
53334988 -AAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
53335015 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* ** *
53335042 CAATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
53335069 CGGTTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
53335096 C-AGGTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
**
53335123 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
53335150 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
53335177 CGATTTACAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* ** *
53335204 CAATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
53335231 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACTGTTTTACCCT
**
53335258 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
53335285 CGATTTACAGAATTA-TCATTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
53335312 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
53335339 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** *
53335366 CGATTTGTAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* * *
53335393 CGATTTATAGAATTATTGGTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
53335420 C-AGTTTACAAAATTA-TCGTTTTACCCT
1 CGA-TTTACAGAATTACT-GTTTTACCCT
*
53335447 CGATTTACAAAATTACTGTTTTACCC
1 CGATTTACAGAATTACTGTTTTACCC
53335473 CCAATTGTGA
Statistics
Matches: 537, Mismatches: 59, Indels: 48
0.83 0.09 0.07
Matches are distributed among these distances:
26 10 0.02
27 516 0.96
28 11 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:53334894 original size:54 final size:54
Alignment explanation
Indices: 53334836--53335478 Score: 770
Period size: 54 Copynumber: 11.9 Consensus size: 54
53334826 CGATTTACAG
* *
53334836 AATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTTTAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* * *
53334890 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
** * * * *
53334944 AATTACCATTTTACCCTCGATTTACATAATTACCATTTTACCCT-AAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAA-TTTATAA
* ** *
53334998 AATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* ** * *
53335052 AATTACTGTTTTACCCTCGGTTTACAGAATTACCGTTTTACCCTCAGGTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
** * * * *
53335106 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* * * *
53335160 AATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCAATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* * * *
53335214 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCTTCAGTTTACAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
** * * * *
53335268 AATTACCATTTTACCCTCGATTTACAGAATTATCATTTTACCCTCAGTTTATAG
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* * *
53335322 AATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* ** * * *
53335376 AATTA-TCGTTTTACCCTCGATTTATAGAATTATTGGTTTACCCTCAGTTTACAA
1 AATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
* * *
53335430 AATTA-TCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCCCAATT
1 AATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT
53335479 GTGAAATTAC
Statistics
Matches: 512, Mismatches: 74, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
53 2 0.00
54 508 0.99
55 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAA
Found at i:53335096 original size:162 final size:162
Alignment explanation
Indices: 53334829--53335472 Score: 1015
Period size: 162 Copynumber: 4.0 Consensus size: 162
53334819 GTACTCCCGA
* *
53334829 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTTTAAAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTGTAAAATT
* *
53334894 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACCATTTTACC
66 ACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
* *
53334959 CTCGATTTACATAATTACCATTTTACCCTAAG
131 CTCGATTTACAGAATTACCATTTTACCCTCAG
*
53334991 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTA-CTATTTTACCCTCAATTTGTAAAAT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTCAATTTGTAAAAT
* *
53335055 TACTGTTTTACCCTCGGTTTACAGAATTACCGTTTTACCCTCAGGTTACAGAATTACCATTTTAC
65 TACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTAC
53335120 CCTCGATTTACAGAATTACCATTTTACCCTCAG
130 CCTCGATTTACAGAATTACCATTTTACCCTCAG
*
53335153 TTTACAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCAATTTGTAAAATT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTGTAAAATT
*
53335218 ACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCTTCAGTTTACAGAATTACCATTTTACC
66 ACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
*
53335283 CTCGATTTACAGAATTATCATTTTACCCTCAG
131 CTCGATTTACAGAATTACCATTTTACCCTCAG
* * *
53335315 TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTGTAAAAT
1 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTCAATTTGTAAAAT
* ** * * * *
53335379 TA-TCGTTTTACCCTCGATTTATAGAATTATTGGTTTACCCTCAGTTTACAAAATTATCGTTTTA
65 TACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTA
* **
53335443 CCCTCGATTTACAAAATTACTGTTTTACCC
129 CCCTCGATTTACAGAATTACCATTTTACCC
53335473 CCAATTGTGA
Statistics
Matches: 447, Mismatches: 31, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
161 3 0.01
162 443 0.99
163 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (162 bp):
TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTGTAAAATT
ACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
CTCGATTTACAGAATTACCATTTTACCCTCAG
Found at i:53335515 original size:27 final size:27
Alignment explanation
Indices: 53335483--53335679 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
53335473 CCAATTGTGA
*
53335483 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
53335510 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
53335537 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
53335564 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
53335591 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
53335618 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * ** * *
53335645 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
53335672 AATTACCA
1 AATTACCA
53335680 TTTTGCCCCT
Statistics
Matches: 146, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:53335551 original size:54 final size:54
Alignment explanation
Indices: 53335483--53335678 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
53335473 CCAATTGTGA
* * *
53335483 AATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
53335537 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
53335591 AATTA-TCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * * * *
53335645 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACC
53335679 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:53335915 original size:27 final size:26
Alignment explanation
Indices: 53335877--53335959 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
53335867 CGGAGGAAGC
* *
53335877 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGTCAC-AATATCT
53335904 GTTCTGGTGGCTCTGTCACAATATCT
1 GTTCTGGTGGCTCTGTCACAATATCT
* *
53335930 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGTCACAATATCT
53335957 GTT
1 GTT
53335960 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGTCACAATATCT
Found at i:53336292 original size:27 final size:27
Alignment explanation
Indices: 53336270--53336338 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
53336260 TAGGTGGGTT
*
53336270 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
53336297 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
53336324 TGTCACGATATCTGT
1 TGCCACAATATCTGT
53336339 TTTGGCAGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:53336470 original size:6 final size:6
Alignment explanation
Indices: 53336461--53336550 Score: 80
Period size: 6 Copynumber: 14.8 Consensus size: 6
53336451 TTGCATTCAC
* * *
53336461 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
53336510 ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
53336551 CATTTTGGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
5 6 0.09
6 56 0.81
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:53336517 original size:24 final size:24
Alignment explanation
Indices: 53336461--53336550 Score: 137
Period size: 24 Copynumber: 3.7 Consensus size: 24
53336451 TTGCATTCAC
*
53336461 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTA-CTA
53336486 ATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGTTACTA
*
53336510 ATAT-TGATTCTGATTCTGTTACTG
1 AT-TCTGATTCTGATTCTGTTACTA
53336534 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
53336551 CATTTTGGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
23 1 0.02
24 39 0.64
25 21 0.34
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTTACTA
Found at i:53339894 original size:29 final size:28
Alignment explanation
Indices: 53339837--53339938 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 28
53339827 TACCTATATC
* *
53339837 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
*
53339865 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
53339894 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
**
53339923 TGGCCTGTTAGGCCCA
1 TGGCCCATTAGGCCCA
53339939 GTCACGTTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
28 14 0.22
29 49 0.75
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:53339934 original size:58 final size:57
Alignment explanation
Indices: 53339828--53339938 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
53339818 AAATTCACAT
* *
53339828 ACCTATATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * **
53339885 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCTGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
53339939 GTCACGTTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:53349622 original size:55 final size:54
Alignment explanation
Indices: 53349483--53349689 Score: 245
Period size: 53 Copynumber: 3.8 Consensus size: 54
53349473 TTTCCTTTTT
* * *
53349483 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
53349536 AACTCACCATTGCCATGCCTTGTCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
53349590 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
53349645 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
53349690 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.37
54 38 0.30
55 42 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:53357088 original size:55 final size:54
Alignment explanation
Indices: 53356979--53357131 Score: 173
Period size: 55 Copynumber: 2.8 Consensus size: 54
53356969 CGTGGTATCA
* * *
53356979 TTGCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCT
1 TTGCCTTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCT
** * * * **
53357032 TTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCT
1 TTGCCTTATAG-AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCT
* * *
53357087 TTTCCTTGTAGAACTTACCAATGCGATGCCTTGGCATGGTCTTAC
1 TTGCCTTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
53357132 TTAGTATCCT
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 9 0.11
54 29 0.36
55 42 0.52
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (54 bp):
TTGCCTTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCT
Found at i:53364611 original size:53 final size:52
Alignment explanation
Indices: 53364422--53364617 Score: 162
Period size: 53 Copynumber: 3.7 Consensus size: 52
53364412 TTTCCTTTTT
* * * * *
53364422 GAACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTG-CTTTA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACGTGAT-TTCTTGCCTTTA
* * * *** *
53364474 TGAACTCACCATTGTCATGCCTTGGTGTGGTCTTACGTGGGATCT-TTGCCTTATA
1 -GAACTTACCAATGCCATGCCTTGACATGGTCTTACGT--GATTTCTTGCCTT-TA
** * *
53364529 GTAGTTTATCAATGCCATGCCTTGACATGGTCTTACATGATTTCTTGCCTTGTA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACGTGATTTCTTGCCTT-TA
*
53364583 GAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTAC
53364618 TTGGTATCCT
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
53 67 0.60
54 14 0.13
55 30 0.27
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (52 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACGTGATTTCTTGCCTTTA
Found at i:53369799 original size:23 final size:23
Alignment explanation
Indices: 53369773--53369827 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
53369763 CCAGGGACAC
*
53369773 GGGCGTGTGCATTGCCTTTACAA
1 GGGCGTGTGCATTGCCTCTACAA
*
53369796 GGGCGTGTGCATTGCCTCTACAC
1 GGGCGTGTGCATTGCCTCTACAA
53369819 GGGCGTGTG
1 GGGCGTGTG
53369828 AGGCTTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.13, C:0.24, G:0.36, T:0.27
Consensus pattern (23 bp):
GGGCGTGTGCATTGCCTCTACAA
Found at i:53382500 original size:31 final size:31
Alignment explanation
Indices: 53382462--53382524 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
53382452 CCTTTTCATA
*
53382462 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTT
**
53382493 TTCATATTTCATATTACTAGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTT
53382524 T
1 T
53382525 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCGAAGCCTT
Found at i:53382728 original size:25 final size:25
Alignment explanation
Indices: 53382709--53382856 Score: 227
Period size: 25 Copynumber: 6.2 Consensus size: 25
53382699 AGCATAGCTG
*
53382709 CTTTATCATAACTGAGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
53382734 CTTTATCGTAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
53382759 CTTCATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53382784 C-TTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53382808 CTTTA--ATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53382831 CTTTA--ATAACT-GGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53382853 CTTT
1 CTTT
53382857 TGCACTTCCT
Statistics
Matches: 117, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.13
23 29 0.25
24 23 0.20
25 50 0.43
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:53382931 original size:20 final size:20
Alignment explanation
Indices: 53382903--53382974 Score: 117
Period size: 20 Copynumber: 3.5 Consensus size: 20
53382893 GCATTTATGA
*
53382903 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
53382923 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
53382943 ACATGTCATGTGCATCATCAT
1 ACATATCATGTGCAT-ATCAT
53382964 ACATATCATGT
1 ACATATCATGT
53382975 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 33 0.69
21 15 0.31
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:53395879 original size:29 final size:29
Alignment explanation
Indices: 53395839--53395898 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
53395829 TATATTCGGT
*
53395839 TAATACAATGAAATAAATGACCATATGAA
1 TAATACAATGAAATAAATGACCATATAAA
*
53395868 TAATACAATGAAATAGATGACCATATAAA
1 TAATACAATGAAATAAATGACCATATAAA
53395897 TA
1 TA
53395899 GTGGATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (29 bp):
TAATACAATGAAATAAATGACCATATAAA
Found at i:53401204 original size:23 final size:23
Alignment explanation
Indices: 53401177--53401277 Score: 118
Period size: 22 Copynumber: 4.4 Consensus size: 23
53401167 GTTGATAAAT
53401177 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
* *
53401200 GGTAAGCTCTATCGAGCTG-AAC
1 AGTAAGCTCTATTGAGCTGAAAC
*
53401222 AGTAAGCTCCATTGAGCTGAAA-
1 AGTAAGCTCTATTGAGCTGAAAC
* *
53401244 AGTAAGCTCT-TACGAGTTGATAAC
1 AGTAAGCTCTAT-TGAGCTGA-AAC
53401268 AGTAAGCTCT
1 AGTAAGCTCT
53401278 TACGAGCTGA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
21 1 0.02
22 34 0.52
23 21 0.32
24 10 0.15
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:53401274 original size:24 final size:24
Alignment explanation
Indices: 53401177--53401300 Score: 104
Period size: 22 Copynumber: 5.4 Consensus size: 24
53401167 GTTGATAAAT
*
53401177 AGTAAGCTC-TATTGAGCTGA-AAC
1 AGTAAGCTCTTA-CGAGCTGATAAC
*
53401200 GGTAAGCTC-TATCGAGCTG--AAC
1 AGTAAGCTCTTA-CGAGCTGATAAC
53401222 AGTAAGCTCCATT--GAGCTGA-AA-
1 AGTAAGCT-C-TTACGAGCTGATAAC
*
53401244 AGTAAGCTCTTACGAGTTGATAAC
1 AGTAAGCTCTTACGAGCTGATAAC
*
53401268 AGTAAGCTCTTACGAGCTGATATC
1 AGTAAGCTCTTACGAGCTGATAAC
*
53401292 GGTAAGCTC
1 AGTAAGCTC
53401301 AAGTGAGTTG
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 30 0.35
23 22 0.26
24 30 0.35
25 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGATAAC
Found at i:53401285 original size:46 final size:46
Alignment explanation
Indices: 53401165--53401287 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 46
53401155 AGCTCCTCTT
* * *
53401165 GAGTTGATAAATAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATC
1 GAGTTGAT-AACAGTAAGCTCT-TAGAGCTGAAACAGTAAGCTCTATC
*
53401213 GAGCTG--AACAGTAAGCTCCATT-GAGCTGAAA-AGTAAGCTCT-TAC
1 GAGTTGATAACAGTAAGCT-C-TTAGAGCTGAAACAGTAAGCTCTAT-C
53401257 GAGTTGATAACAGTAAGCTCTTACGAGCTGA
1 GAGTTGATAACAGTAAGCTCTTA-GAGCTGA
53401288 TATCGGTAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
43 1 0.02
44 17 0.27
45 20 0.31
46 20 0.31
47 1 0.02
48 5 0.08
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (46 bp):
GAGTTGATAACAGTAAGCTCTTAGAGCTGAAACAGTAAGCTCTATC
Found at i:53405038 original size:20 final size:20
Alignment explanation
Indices: 53405015--53405075 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
53405005 CTTATCTGCT
53405015 CCTATTTGTACTTCGATACC
1 CCTATTTGTACTTCGATACC
* * *
53405035 CCTAATTGCACTTGCG-TGCC
1 CCTATTTGTACTT-CGATACC
53405055 CCTATTTGTACTTCGATACC
1 CCTATTTGTACTTCGATACC
53405075 C
1 C
53405076 TGAATGCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (20 bp):
CCTATTTGTACTTCGATACC
Found at i:53405096 original size:39 final size:40
Alignment explanation
Indices: 53404991--53405075 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
53404981 ACAAATTTAG
* *
53404991 TACCCCTAATTGCACTTATC-TGCTCCTATTTGTACTTCGA
1 TACCCCTAATTGCACTT-GCGTGCCCCTATTTGTACTTCGA
53405031 TACCCCTAATTGCACTTGCGTGCCCCTATTTGTACTTCGA
1 TACCCCTAATTGCACTTGCGTGCCCCTATTTGTACTTCGA
53405071 TACCC
1 TACCC
53405076 TGAATGCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (40 bp):
TACCCCTAATTGCACTTGCGTGCCCCTATTTGTACTTCGA
Found at i:53405125 original size:40 final size:40
Alignment explanation
Indices: 53405081--53405156 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
53405071 TACCCTGAAT
* * *
53405081 GCACATTTGTGCCCCTGTTTGCCCTTTGGTGCCCCTGGTC
1 GCACATTCGTGCCCCTGATTGCACTTTGGTGCCCCTGGTC
**
53405121 GCACATTCGTGCTTCTGATTGCACTTTGGTGCCCCT
1 GCACATTCGTGCCCCTGATTGCACTTTGGTGCCCCT
53405157 ATTATCCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.08, C:0.33, G:0.24, T:0.36
Consensus pattern (40 bp):
GCACATTCGTGCCCCTGATTGCACTTTGGTGCCCCTGGTC
Found at i:53405132 original size:20 final size:20
Alignment explanation
Indices: 53405081--53405132 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
53405071 TACCCTGAAT
* * *
53405081 GCACATTTGTGCCCCTGTTT
1 GCACATTCGTGCCCCTGGTC
* * *
53405101 GCCCTTTGGTGCCCCTGGTC
1 GCACATTCGTGCCCCTGGTC
53405121 GCACATTCGTGC
1 GCACATTCGTGC
53405133 TTCTGATTGC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.08, C:0.35, G:0.25, T:0.33
Consensus pattern (20 bp):
GCACATTCGTGCCCCTGGTC
Found at i:53407871 original size:42 final size:42
Alignment explanation
Indices: 53407712--53407873 Score: 179
Period size: 42 Copynumber: 3.9 Consensus size: 42
53407702 TACCGTACCA
* * *
53407712 ATGCCATATCCCAGATATGG-TCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGATCTTACACGTAGTCTCATAT-G
* * *
53407754 ATGCCAATAGCCCAGCTATGGAT-TTACACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGATCTTACACGTAGTCTCATA-TG
*
53407797 ATGCCATATCCCAGATAT-GTTCTTACACGTAGTCTCATAGTG
1 ATGCCATATCCCAGATATGGATCTTACACGTAGTCTCATA-TG
* *
53407839 ATGCCATATCCCAGATATAG-TCTTACAAGTAGTCT
1 ATGCCATATCCCAGATATGGATCTTACACGTAGTCT
53407874 TAGTAACCCT
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 66 0.64
43 33 0.32
44 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGATCTTACACGTAGTCTCATATG
Found at i:53408016 original size:11 final size:11
Alignment explanation
Indices: 53407988--53408038 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 11
53407978 GATTCATACA
53407988 ATAA-TAAAAC
1 ATAATTAAAAC
53407998 AT--TTAAAAC
1 ATAATTAAAAC
53408007 ATAATTAAAAC
1 ATAATTAAAAC
53408018 AT--TTAAAAC
1 ATAATTAAAAC
53408027 ATAATTAAAAC
1 ATAATTAAAAC
53408038 A
1 A
53408039 ATGCATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 17 0.47
10 2 0.06
11 17 0.47
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATTAAAAC
Found at i:53408017 original size:20 final size:20
Alignment explanation
Indices: 53407988--53408038 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
53407978 GATTCATACA
53407988 ATAA-TAAAACATTTAAAAC
1 ATAATTAAAACATTTAAAAC
53408007 ATAATTAAAACATTTAAAAC
1 ATAATTAAAACATTTAAAAC
53408027 ATAATTAAAACA
1 ATAATTAAAACA
53408039 ATGCATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAATTAAAACATTTAAAAC
Found at i:53410979 original size:43 final size:44
Alignment explanation
Indices: 53410896--53411009 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 44
53410886 ATATCGTACA
* * *
53410896 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCTACCACAATATCG
** *
53410939 ATGCCATTGTCCCAGACATGGTCTTACACG-TAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCT-ACCACA-ATATCG
*
53410984 ATGCCAACATCCCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
53411010 TACGAGAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 1 0.02
43 29 0.50
45 28 0.48
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCTACCACAATATCG
Found at i:53411022 original size:45 final size:45
Alignment explanation
Indices: 53410933--53411024 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
53410923 ATGCTATCTC
*** *
53410933 ATATCGATGCCATTGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACATCCCAGACATGGTCTTACACGTAAACACAT
* *
53410978 ATATCGATGCCAACATCCCAGACGTGGTCTTATACG-AGAACACAT
1 ATATCGATGCCAACATCCCAGACATGGTCTTACACGTA-AACACAT
53411023 AT
1 AT
53411025 TAGAAATCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
ATATCGATGCCAACATCCCAGACATGGTCTTACACGTAAACACAT
Found at i:53411767 original size:18 final size:19
Alignment explanation
Indices: 53411744--53411783 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
53411734 ACTGCAACAA
*
53411744 TATTAAAAA-TGTAAAAAT
1 TATTAAAAACTGAAAAAAT
53411762 TATTAAAAACTGAAAAAAT
1 TATTAAAAACTGAAAAAAT
53411781 TAT
1 TAT
53411784 CGGGCCGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (19 bp):
TATTAAAAACTGAAAAAAT
Found at i:53414205 original size:29 final size:29
Alignment explanation
Indices: 53414163--53414221 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
53414153 AAAGCAAACA
*
53414163 AAGTCTTTCTACTCAATGCATCTGCGACT
1 AAGTCTTTCTACTCAACGCATCTGCGACT
*
53414192 AAGTCTTTCTACTCAACGCATCTGTGACT
1 AAGTCTTTCTACTCAACGCATCTGCGACT
53414221 A
1 A
53414222 CATTTTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (29 bp):
AAGTCTTTCTACTCAACGCATCTGCGACT
Found at i:53416389 original size:43 final size:43
Alignment explanation
Indices: 53416299--53416400 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
53416289 ATCCAGATGA
* * * * *
53416299 GATTACATATAAGACCATGTCTGGGACATTGGCATTGTATTAT
1 GATTACGTCTAAGACCATGTCTGAGACATTGGCATCGTATAAT
*
53416342 GATTATGTCTAAGACCATGTCTGAGACATTGGCATCGT-TAAT
1 GATTACGTCTAAGACCATGTCTGAGACATTGGCATCGTATAAT
*
53416384 CGATTACGTGTAAGACC
1 -GATTACGTCTAAGACC
53416401 CTGCTTGGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 3 0.06
43 47 0.94
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
GATTACGTCTAAGACCATGTCTGAGACATTGGCATCGTATAAT
Found at i:53421871 original size:33 final size:34
Alignment explanation
Indices: 53421834--53421923 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
53421824 TCGGGGCTTA
*
53421834 AGCCCATATCAGTAGCAACATCAGTGTG-GCCAT
1 AGCCCATATCAGTAGCAATATCAGTGTGAGCCAT
* * *
53421867 AGCCCAT-TACAGTAGCAGTAACAGTGTGAGCCTT
1 AGCCCATAT-CAGTAGCAATATCAGTGTGAGCCAT
53421901 AGCCCA-ATTCAGTA-CAATATCAG
1 AGCCCATA-TCAGTAGCAATATCAG
53421924 ACATGCATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
32 1 0.02
33 30 0.64
34 15 0.32
35 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (34 bp):
AGCCCATATCAGTAGCAATATCAGTGTGAGCCAT
Found at i:53433454 original size:40 final size:40
Alignment explanation
Indices: 53433399--53433567 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
53433389 TGGTCTTAAC
* *
53433399 TGCTAGTGATGTATCCAGGCTAAGTCCCGAAGAGCATTCA
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
* *
53433439 TGCTAGTGATGTATCCGGGCTAAG-CTCCGAAGAGCATTCG
1 TGCTAGTGATATATCCGGGCTAAGTC-CCGAAGAGCATTCA
* ** *
53433479 TGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCG
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
* * * * *
53433519 TGCTGGTGTTATATCCGGGCTAGGTCCCAAAGAGCAATCA
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
*
53433559 TGCTGGTGA
1 TGCTAGTGA
53433568 CGTGTATTCG
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 110 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
Found at i:53437078 original size:49 final size:47
Alignment explanation
Indices: 53436994--53437498 Score: 803
Period size: 47 Copynumber: 10.6 Consensus size: 47
53436984 TATTTGAATA
* *
53436994 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53437041 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53437090 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53437137 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53437186 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53437235 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53437282 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53437331 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53437378 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53437425 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53437472 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53437499 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
47 246 0.57
49 184 0.43
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53437102 original size:96 final size:94
Alignment explanation
Indices: 53436994--53437498 Score: 803
Period size: 96 Copynumber: 5.3 Consensus size: 94
53436984 TATTTGAATA
* *
53436994 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
53437059 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53437090 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
53437155 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
53437186 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
53437251 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
53437282 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53437347 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
53437378 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
53437443 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
53437472 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53437499 TCCCGAAGGG
Statistics
Matches: 391, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
94 100 0.26
96 246 0.63
98 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53440055 original size:38 final size:38
Alignment explanation
Indices: 53439948--53440038 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
53439938 GACTATATGA
53439948 AGAGATTATG-CCAGGGTAAAGACCTGATGGCTATGTAC
1 AGAGATTATGTCC-GGGTAAAGACCTGATGGCTATGTAC
53439986 AGAGATTATGTCCGGGTAAAGACCTGATGGCTATGTAC
1 AGAGATTATGTCCGGGTAAAGACCTGATGGCTATGTAC
53440024 AGAGATTATGTCCGG
1 AGAGATTATGTCCGG
53440039 ATTAAAATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 50 0.96
39 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (38 bp):
AGAGATTATGTCCGGGTAAAGACCTGATGGCTATGTAC
Found at i:53440385 original size:159 final size:160
Alignment explanation
Indices: 53440092--53440438 Score: 581
Period size: 159 Copynumber: 2.2 Consensus size: 160
53440082 AGGTCTCGAC
53440092 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
* *
53440156 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATGTATCCG
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
***
53440221 GGCT-AAGTTCGAAGAGCATTCGTGCTAGT
131 GGCTAAACCCCGAAGAGCATTCGTGCTAGT
*
53440250 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
53440315 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
* *
53440380 TGCTAAACCCCGAAGAGCATTCGTGCTGGT
131 GGCTAAACCCCGAAGAGCATTCGTGCTAGT
* * *
53440410 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
53440439 ATCATGCTGG
Statistics
Matches: 175, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
158 4 0.02
159 125 0.71
160 46 0.26
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (160 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
GGCTAAACCCCGAAGAGCATTCGTGCTAGT
Found at i:53440450 original size:40 final size:40
Alignment explanation
Indices: 53440092--53440438 Score: 545
Period size: 40 Copynumber: 8.7 Consensus size: 40
53440082 AGGTCTCGAC
53440092 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53440131 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
53440171 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53440211 GATGTATCCGGGCTAAGT-TCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53440250 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53440290 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53440330 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
53440370 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
53440410 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
53440439 ATCATGCTGG
Statistics
Matches: 284, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 41 0.14
40 243 0.86
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:53443883 original size:47 final size:47
Alignment explanation
Indices: 53443829--53444332 Score: 794
Period size: 47 Copynumber: 10.6 Consensus size: 47
53443819 TATTTGAATA
* *
53443829 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53443876 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53443925 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53443972 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
53444021 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53444070 AATGTGAAAGTGTATATATATGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53444116 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53444165 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53444212 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53444259 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53444306 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53444333 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 22, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
46 20 0.05
47 225 0.53
48 24 0.06
49 159 0.37
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53443937 original size:96 final size:96
Alignment explanation
Indices: 53443829--53444332 Score: 797
Period size: 96 Copynumber: 5.3 Consensus size: 96
53443819 TATTTGAATA
* *
53443829 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
53443894 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53443925 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
53443990 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
53444021 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53444086 TATA--TGATAAGGCCGAATGGCC-ATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
53444116 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53444179 TATATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
53444212 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
53444275 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53444306 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
53444333 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
93 6 0.02
94 100 0.26
95 85 0.22
96 145 0.37
98 53 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53446817 original size:38 final size:38
Alignment explanation
Indices: 53446775--53446860 Score: 163
Period size: 38 Copynumber: 2.3 Consensus size: 38
53446765 GACTATATGA
53446775 AGAGATTATGTCAGGGTAAAGACCTGATGGCTATGTAC
1 AGAGATTATGTCAGGGTAAAGACCTGATGGCTATGTAC
*
53446813 AGAGATTATGTCCGGGTAAAGACCTGATGGCTATGTAC
1 AGAGATTATGTCAGGGTAAAGACCTGATGGCTATGTAC
53446851 AGAGATTATG
1 AGAGATTATG
53446861 CCCGGATTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (38 bp):
AGAGATTATGTCAGGGTAAAGACCTGATGGCTATGTAC
Found at i:53447278 original size:40 final size:40
Alignment explanation
Indices: 53446919--53447266 Score: 518
Period size: 40 Copynumber: 8.7 Consensus size: 40
53446909 AGGTCTCGAC
53446919 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
53446958 GATGTATTCGGGCTAAGTCCCGAAGAGCATGCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
53446998 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53447038 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
** *
53447078 GATGTATCCGGGCTAAGTTTCGGAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53447118 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
53447158 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
53447198 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
53447238 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
53447267 ATCATGCTGG
Statistics
Matches: 280, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 276 0.99
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Done.