Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 149 of 259
Found at i:48734793 original size:41 final size:41
Alignment explanation
Indices: 48734717--48734876 Score: 200
Period size: 41 Copynumber: 3.9 Consensus size: 41
48734707 TACTATGTTT
* *
48734717 GGCACTTAGTGTGCGA-A-TCAAAATAGCTTCGGCTATGAAA
1 GGCACTTAGTGTGCGAGACT-GAGATAGCTTCGGCTATGAAA
*
48734757 GGCAATTAGTGTGCGAGACTGAGATAGCTTCGGCTATGAAA
1 GGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGAAA
* *
48734798 GGCACTTAGTGTGCGAGACTGAGATAGTTTTGGCTATGAAA
1 GGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGAAA
* * * *
48734839 GACACTTAGTGTACGAGA-TTATAATAGCTTCGGCTATG
1 GGCACTTAGTGTGCGAGACTGA-GATAGCTTCGGCTATG
48734877 TTTTGGAACT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
40 17 0.16
41 87 0.83
42 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (41 bp):
GGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGAAA
Found at i:48738389 original size:44 final size:45
Alignment explanation
Indices: 48738329--48738424 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
48738319 CATTTCTATT
48738329 TCCATTTTGAGAAAACCACAATAATTT-TCAAATGATTT-CATTTC
1 TCCATTTTGAGAAAACCACAATAATTTCT-AAATGATTTCCATTTC
* * *
48738373 TCCATTTTG-GAGAAACCATAATTATTTCTAAATGTTTTCCATTTC
1 TCCATTTTGAGA-AAACCACAATAATTTCTAAATGATTTCCATTTC
*
48738418 TCTATTT
1 TCCATTT
48738425 CTATTTATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 2 0.04
44 30 0.67
45 13 0.29
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (45 bp):
TCCATTTTGAGAAAACCACAATAATTTCTAAATGATTTCCATTTC
Found at i:48745649 original size:6 final size:6
Alignment explanation
Indices: 48745597--48745661 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
48745587 AATAAATAAA
* * * *
48745597 TTTTAT CTTTAT CTTTAT GTTTAT TTTT-C TTTTATT TTTTATCT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTA--T TTTTAT
*
48745647 TTTTAT TTTGAT TTT
1 TTTTAT TTTTAT TTT
48745662 AATTACATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 4 0.08
6 34 0.69
7 5 0.10
8 6 0.12
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:48745742 original size:18 final size:17
Alignment explanation
Indices: 48745708--48745746 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
48745698 AATAAATGGG
48745708 TAAATAGAAATAATAAT
1 TAAATAGAAATAATAAT
* *
48745725 ATAAATAGAACTACTAAT
1 -TAAATAGAAATAATAAT
48745743 TAAA
1 TAAA
48745747 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAATAGAAATAATAAT
Found at i:48749045 original size:38 final size:38
Alignment explanation
Indices: 48748973--48749198 Score: 265
Period size: 38 Copynumber: 5.9 Consensus size: 38
48748963 CACTCGATAC
* *
48748973 ATATCCGGGTT-AAGCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
** *
48749010 ATATCAGGGTTAAATCCTACAGGTTTCGTGCTGGTAAT
1 ATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
48749048 ATATAAGGTTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
48749086 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAAT
1 ATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * * * *
48749124 ATATCCGGGTTAAATCTCGCGGGCTTAGTGCTAGTACT
1 ATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
48749162 ATATCCGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATATCAG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
48749199 GATTGGATTC
Statistics
Matches: 163, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
37 10 0.06
38 130 0.80
39 6 0.04
40 17 0.10
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
ATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:48754156 original size:21 final size:21
Alignment explanation
Indices: 48754130--48754173 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48754120 AGTTCGCCTA
48754130 CAACAATAGTTTCCAATCGAG
1 CAACAATAGTTTCCAATCGAG
48754151 CAACAATAGTTTCCAATCGAG
1 CAACAATAGTTTCCAATCGAG
48754172 CA
1 CA
48754174 TCAAGATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (21 bp):
CAACAATAGTTTCCAATCGAG
Found at i:48757376 original size:80 final size:79
Alignment explanation
Indices: 48757292--48757463 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
48757282 GGACTAAGAT
*
48757292 CCGAAGGCATTTGTGCGAGA-TA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGA-ATTATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
48757355 TAAATCCGGGTTAAGTC
63 TAAAACCGGGCTAAGTC
* * * * * *
48757372 CCGAAGGCATTCGTGCGAATTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAATTATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
48757437 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
48757451 CCGAAGGCATTTG
1 CCGAAGGCATTTG
48757464 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 39 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAATTATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:48757453 original size:39 final size:39
Alignment explanation
Indices: 48757292--48757461 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
48757282 GGACTAAGAT
* * *
48757292 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
48757332 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
* *
48757372 CCGAAGGCATTCGTGCGAATTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
48757412 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
48757451 CCGAAGGCATT
1 CCGAAGGCATT
48757462 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.32
40 74 0.64
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:48759345 original size:24 final size:24
Alignment explanation
Indices: 48759318--48759364 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48759308 ATATGTTGAC
48759318 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
48759342 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
48759365 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:48759398 original size:24 final size:24
Alignment explanation
Indices: 48759328--48759390 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
48759318 ATTCAAATCA
* * * *
48759328 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
48759352 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
48759376 GCACACATAGTGCCA
1 GCACACATAGTGCCA
48759391 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:48767281 original size:24 final size:24
Alignment explanation
Indices: 48767254--48767300 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48767244 ATATGTTGAC
48767254 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* * *
48767278 ATTCAACTCCGCACGCATAGTGC
1 ATTCAAATCAGCACACATAGTGC
48767301 CATACTACAC
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:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:48767334 original size:24 final size:24
Alignment explanation
Indices: 48767264--48767326 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
48767254 ATTCAAATCA
* * * *
48767264 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
*
48767288 GCACGCATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
48767312 GCACACATAGTGCCA
1 GCACACATAGTGCCA
48767327 ATGTACACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:48775102 original size:24 final size:24
Alignment explanation
Indices: 48775075--48775121 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48775065 ATATGTTGAC
48775075 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* * *
48775099 ATTCAACTCCGCACGCATAGTGC
1 ATTCAAATCAGCACACATAGTGC
48775122 CATACTACAC
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:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:48775155 original size:24 final size:24
Alignment explanation
Indices: 48775085--48775147 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
48775075 ATTCAAATCA
* * * *
48775085 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
*
48775109 GCACGCATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
48775133 GCACACATAGTGCCA
1 GCACACATAGTGCCA
48775148 ATGTACACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:48779774 original size:40 final size:40
Alignment explanation
Indices: 48779726--48779889 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
48779716 CGGGATTTAA
48779726 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
* * * *
48779766 CTGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTATC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
* * *
48779806 CCGGATATAATC-GCT-AGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGTCTTAGC
* * * * * *
48779846 CCGGATATAGCAACTCGCACGAATACCTTCGGATCTTAGT
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
48779886 CCGG
1 CCGG
48779890 TTATCATCCG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGC
Found at i:48791460 original size:29 final size:29
Alignment explanation
Indices: 48791417--48791517 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 29
48791407 TAACTGTCCC
* * **
48791417 TTTTCATGTTTGATGGTCGAAACCATCCT
1 TTTTCATATTCGATGGTCGTCACCATCCT
* *
48791446 TTTTCATATTCGATGGTTGTCACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCT
*
48791475 TTTTCATAGTCGATGGTCGTCACCATCCAT
1 TTTTCATATTCGATGGTCGTCACCATCC-T
*
48791505 TTTT-ATAATCGAT
1 TTTTCATATTCGAT
48791518 AGCCGAAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 57 0.93
30 4 0.07
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGTCACCATCCT
Found at i:48795487 original size:43 final size:43
Alignment explanation
Indices: 48795426--48795620 Score: 198
Period size: 43 Copynumber: 4.6 Consensus size: 43
48795416 GTGCCGCTAA
* *
48795426 ATAAACGCCGCTAAAGAACATGACTTTTAGCAACACTTTTCCC
1 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
*
48795469 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCT
1 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
** * * ***
48795512 A-AAATTTCTGCTAAAGAACATAACCTTTAGCGGTGC-TTTCTCC
1 ATAAA-CGCCGCTAAAGAACATGACCTTTAGCGACACTTTTC-CC
* * * *
48795555 ATAAACGCCGCTAAATAACTTGACCTTTAGTGGCA-TTTTCCC
1 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
* * *
48795597 AAAAATGCCACTAAAGAACATGAC
1 ATAAACGCCGCTAAAGAACATGAC
48795621 TCTTAGTGCT
Statistics
Matches: 123, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
42 28 0.23
43 92 0.75
44 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
Found at i:48795580 original size:86 final size:82
Alignment explanation
Indices: 48795463--48795667 Score: 225
Period size: 82 Copynumber: 2.5 Consensus size: 82
48795453 TAGCAACACT
* * * * **
48795463 TTTC-CCATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCTAAAATTTCTGCTAAA
1 TTTCTCCATAAACGCCGCTAAAGAACTTGACCTTTAGCGACA-TTTTCCCAAAAATGCCACTAAA
48795527 GAACATAAC-CTTTAGCGGTGC
65 GAACATAACTC-TTA---GTGC
* * *
48795548 TTTCTCCATAAACGCCGCTAAATAACTTGACCTTTAGTGGCATTTTCCCAAAAATGCCACTAAAG
1 TTTCTCCATAAACGCCGCTAAAGAACTTGACCTTTAGCGACATTTTCCCAAAAATGCCACTAAAG
*
48795613 AACATGACTCTTAGTGC
66 AACATAACTCTTAGTGC
* * * *
48795630 TCTCTCCACAAACGCTGCTAAAGAACTTGACTTTTAGC
1 TTTCTCCATAAACGCCGCTAAAGAACTTGACCTTTAGC
48795668 AACGCCTTTC
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
82 36 0.35
85 32 0.31
86 34 0.33
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (82 bp):
TTTCTCCATAAACGCCGCTAAAGAACTTGACCTTTAGCGACATTTTCCCAAAAATGCCACTAAAG
AACATAACTCTTAGTGC
Found at i:48796402 original size:23 final size:23
Alignment explanation
Indices: 48796359--48796729 Score: 259
Period size: 23 Copynumber: 16.2 Consensus size: 23
48796349 ACATAAACTA
*
48796359 AATTT-CAGCACCTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
48796381 AATTTGCTGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * * *
48796404 AATTTACAACATTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
48796427 AATTTGCAGCACTTTAACACCTC
1 AATTTGCAGCACTTAAACACTTC
** *
48796450 AATTTATAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
48796473 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
** *
48796496 AATTTATAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
48796519 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * *
48796542 AATTAACAACATTTATAC-TTCTC
1 AATTTGCAGCACTTAAACACT-TC
*
48796565 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
48796588 AATTTGTAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * ** *
48796611 ATTTTACAATATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
48796634 AACTTACAACA-TTCAAACACTTC
1 AATTTGCAGCACTT-AAACACTTC
* * *
48796657 ACTTTGTAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * * *
48796680 AATTTACAACATTTAAGCACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
48796703 AATTTGCTGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
48796726 AATT
1 AATT
48796730 AACAACATTT
Statistics
Matches: 266, Mismatches: 74, Indels: 17
0.75 0.21 0.05
Matches are distributed among these distances:
22 11 0.04
23 251 0.94
24 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTTGCAGCACTTAAACACTTC
Found at i:48796426 original size:46 final size:46
Alignment explanation
Indices: 48796371--48796752 Score: 387
Period size: 46 Copynumber: 8.3 Consensus size: 46
48796361 TTTCAGCACC
* * * *
48796371 TAAACACTTCAATTTGCTGTACTTAAAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * * *
48796417 TAAAAACTTCAATTTGCAGCACTTTAACACCTCAATTTATAGCATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* *
48796463 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTATAGCATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
*
48796509 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
* * * * ** ** *
48796555 TATAC-TTCTCAATTTCCAGCAAC-TAAACACTTCAATTTGTAGTACT
1 TAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAATTTACAACATT
* * ** *
48796601 TAAACACTTCATTTTACAATA-TTTAAACACTTCAACTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATT
* * *
48796647 CAAACACTTCACTTTGTAGCACTTTAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
* * *
48796693 TAAGCACTTCAATTTGCTGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATT
* *
48796739 TATACACCTCAATT
1 TAAACACTTCAATT
48796753 ACAGCGATAA
Statistics
Matches: 275, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
45 5 0.02
46 263 0.96
47 7 0.03
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (46 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATT
Found at i:48796438 original size:69 final size:69
Alignment explanation
Indices: 48796359--48796729 Score: 353
Period size: 69 Copynumber: 5.4 Consensus size: 69
48796349 ACATAAACTA
* * * *
48796359 AATTT-CAGCACCTAAACACTTCAATTTGCT-GTACTTAAAAACTTCAATTTACAACATTTAAAA
1 AATTTACAGCACTTAAACACTTCAATTTG-TAGCACTTAAACACTTCAATTTACAACATTTAAAC
48796422 ACTTC
65 ACTTC
* * * * * * *
48796427 AATTTGCAGCACTTTAACACCTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTT-AAC
1 AATTTACAGCACTTAAACACTTCAATTTGTAGCACTTAAACACTTCAATTTACAACA-TTTAAAC
48796491 ACTTC
65 ACTTC
* * * * * *
48796496 AATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATAC
1 AATTTACAGCACTTAAACACTTCAATTTGTAGCACTTAAACACT-TCAATTTACAACATTTAAAC
*
48796560 -TTCTC
65 ACT-TC
* * * *
48796565 AATTTCCAGCAAC-TAAACACTTCAATTTGTAGTACTTAAACACTTCATTTTACAATATTTAAAC
1 AATTTACAGC-ACTTAAACACTTCAATTTGTAGCACTTAAACACTTCAATTTACAACATTTAAAC
48796629 ACTTC
65 ACTTC
* * * * *
48796634 AACTTACAACA-TTCAAACACTTCACTTTGTAGCACTTTAACACTTCAATTTACAACATTTAAGC
1 AATTTACAGCACTT-AAACACTTCAATTTGTAGCACTTAAACACTTCAATTTACAACATTTAAAC
48796698 ACTTC
65 ACTTC
* * *
48796703 AATTTGCTGCACTTTAACA-TCTCAATT
1 AATTTACAGCACTTAAACACT-TCAATT
48796730 AACAACATTT
Statistics
Matches: 240, Mismatches: 50, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
68 14 0.06
69 218 0.91
70 8 0.03
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (69 bp):
AATTTACAGCACTTAAACACTTCAATTTGTAGCACTTAAACACTTCAATTTACAACATTTAAACA
CTTC
Found at i:48800292 original size:40 final size:40
Alignment explanation
Indices: 48800244--48800388 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
48800234 CTTGCACAAG
* * * * *
48800244 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
48800284 TCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
48800324 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
48800365 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
48800389 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:48803212 original size:47 final size:47
Alignment explanation
Indices: 48803143--48803366 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 47
48803133 GGTAAGGTAC
*
48803143 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGT
* * * *
48803190 CGATGCCATGTACCAGACATGGTCTTACATTAACT-ATCATCTCGTAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-AAGT
* * * *
48803238 CGATGCACGTCCCAAACAT-GTCTTACACTAGCTC-TCGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA-GT
* * * * * * *
48803284 CAATGCATTGTCCCAGACATGGTCTTACAATGGCTCTTATAATGT--GGC
1 CGATGCA-TGTCCCAGACATGGTCTTACACTAGCTC--ATCATCTCAAGT
*
48803332 CGATGCATGTCCTAGACAT-GTCTTACACTAGCTCA
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCA
48803367 CAAACAAATG
Statistics
Matches: 142, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 40 0.28
47 68 0.48
48 29 0.20
51 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGT
Found at i:48810754 original size:63 final size:63
Alignment explanation
Indices: 48810655--48810781 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
48810645 AGGTACCTGT
*
48810655 ACCATTCACCACAGGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCATTGAACC
1 ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCATTGAACC
* *
48810718 ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACATTCACCGTTGAACC
1 ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCATTGAACC
48810781 A
1 A
48810782 TTTGGAACAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.29
Consensus pattern (63 bp):
ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCATTGAACC
Found at i:48810900 original size:47 final size:48
Alignment explanation
Indices: 48810831--48811101 Score: 283
Period size: 47 Copynumber: 5.8 Consensus size: 48
48810821 GGTAAGGTAC
*
48810831 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
48810878 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
* * * * *
48810925 TGATGCCATGTACCAGACATGGTCTTACATTGACT-ATCATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGT
* * *
48810973 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GT
* * *** *
48811019 CAATG-CATTGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGC
1 CGATGCCA-TGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAAGT
* *
48811067 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
48811102 CAAACAAATG
Statistics
Matches: 192, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 40 0.21
47 118 0.61
48 32 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
Found at i:48816927 original size:21 final size:21
Alignment explanation
Indices: 48816902--48816943 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48816892 AATTTGGTAG
48816902 GTGGCATTCTGTACGGAGCTA
1 GTGGCATTCTGTACGGAGCTA
48816923 GTGGCATTCTGTACGGAGCTA
1 GTGGCATTCTGTACGGAGCTA
48816944 TGGATATCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
GTGGCATTCTGTACGGAGCTA
Found at i:48820992 original size:43 final size:43
Alignment explanation
Indices: 48820908--48820992 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
48820898 AAATCGTACA
*
48820908 ATGCCAACGTCCCAGACGCGGTCTTACATGTAACCACATATCG
1 ATGCCAACGTCCCAGACGCGGTCTTACATGTAAACACATATCG
*
48820951 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACATATATC
1 ATGCCAAC-GTCCCAGAC-GCGGTCTTACAT-GTAAACACATATC
48820993 AAAATCACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGCGGTCTTACATGTAAACACATATCG
Found at i:48826815 original size:56 final size:56
Alignment explanation
Indices: 48826729--48826960 Score: 428
Period size: 56 Copynumber: 4.1 Consensus size: 56
48826719 ACAAGGGATG
* *
48826729 ATGGGAAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48826785 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48826841 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
48826897 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
48826953 ATGGGCAA
1 ATGGGCAA
48826961 TAAACTAATA
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:48828324 original size:40 final size:40
Alignment explanation
Indices: 48828093--48828317 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
48828083 TCGAATGATG
* * * * *
48828093 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
48828133 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48828173 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48828212 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
48828252 TCCAGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48828293 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48828318 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48828324 original size:80 final size:79
Alignment explanation
Indices: 48828146--48828350 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 79
48828136 AGACTAAGAT
* * * *
48828146 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCAGGTTAAGTCCCGAAGGCATTGGTACGAGTTACTA
*
48828210 AATCCGGGTTAAGTC
65 AATCCGGGCTAAGTC
*
48828225 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCAGGTTAAGTCCCGAAGGCATTGGTACGAGTTACTA
*
48828290 TAA-CCGGGCTATGTC
65 -AATCCGGGCTAAGTC
** * * *
48828305 CCGAAGGCATTTGAACGAGTAGCTATATCCA-GTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGTA-CTAAATCCAGGTTAAGTCCCGAAGG
48828351 TACGTGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
79 49 0.45
80 59 0.54
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTACTAAATCCAGGTTAAGTCCCGAAGGCATTGGTACGAGTTACTAA
ATCCGGGCTAAGTC
Found at i:48828340 original size:119 final size:119
Alignment explanation
Indices: 48828093--48828350 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
48828083 TCGAATGATG
* *
48828093 TCCGAGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGAGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATTT
* * **
48828158 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * * **
48828212 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGGTTAAG-TCCCGAAGGCAT
1 TCCGAGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCAGACTAAGAT-CCGAAGGCAT
* * * *
48828275 TTGTACGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
48828332 TCC-AGTTAAATTCCGAAGG
1 TCCGAGTTAAGTCCCGAAGG
48828351 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 31 0.27
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGAGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATTT
GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:48831781 original size:24 final size:24
Alignment explanation
Indices: 48831739--48831784 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48831729 TTATAATATA
* * *
48831739 AAAATGACCGTTTTGCCCCTAGCT
1 AAAATGACCATTATACCCCTAGCT
48831763 AAAATGACCATTATACCCCTAG
1 AAAATGACCATTATACCCCTAG
48831785 GGTTTATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGCT
Found at i:48831851 original size:20 final size:20
Alignment explanation
Indices: 48831822--48831868 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
48831812 ATTTTGATAA
*
48831822 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
48831842 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48831862 ACATGAT
1 ACATGAT
48831869 GTAATCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48832039 original size:24 final size:23
Alignment explanation
Indices: 48831919--48832037 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
48831909 AGGAAGTGAA
*
48831919 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48831942 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48831965 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48831988 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
48832011 AAAAGGACTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
48832035 AAA
1 AAA
48832038 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 71 0.77
24 21 0.23
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:48832285 original size:31 final size:31
Alignment explanation
Indices: 48832250--48832310 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
48832240 AGTTTTCAGT
48832250 AAAGGCTTCAGCCTAGTAATATGAAATATGA
1 AAAGGCTTCAGCCTAGTAATATGAAATATGA
* **
48832281 AAAGGCTTCGGCCTAGTGTTATGAAATATG
1 AAAGGCTTCAGCCTAGTAATATGAAATATG
48832311 CAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCTAGTAATATGAAATATGA
Found at i:48837021 original size:47 final size:47
Alignment explanation
Indices: 48836967--48837345 Score: 544
Period size: 47 Copynumber: 8.1 Consensus size: 47
48836957 TTAGGATTTT
** * *
48836967 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
48837014 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
48837061 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48837108 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48837155 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48837202 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
48837249 ATGTGATGAATGAGAACATGTATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * * * * *
48837296 ATGTGACAAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
48837343 ATG
1 ATG
48837346 CGAAATGTGT
Statistics
Matches: 303, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 300 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48837375 original size:46 final size:46
Alignment explanation
Indices: 48837319--48837437 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
48837309 GGAAGTGTAT
*
48837319 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
48837365 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
48837411 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
48837438 TGAGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:48846178 original size:79 final size:80
Alignment explanation
Indices: 48846037--48846293 Score: 308
Period size: 79 Copynumber: 3.2 Consensus size: 80
48846027 TGGATGATAA
* * ** *
48846037 CCGGGCTAAGTCCCGAAGGCATTTGCGCT-AGTGACTAGT-TCCGGGCTAAGTTTCGAAAGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
48846100 TGTGCGAGTTACTATAT
64 TGTGCGAGTTACTATAT
* *
48846117 CCGGGCTAA-TTCCAAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
48846181 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * * * *
48846196 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
48846261 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
48846276 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48846294 TACTTGGCTT
Statistics
Matches: 155, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
78 2 0.01
79 84 0.54
80 69 0.45
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:48846274 original size:40 final size:40
Alignment explanation
Indices: 48846037--48846293 Score: 288
Period size: 40 Copynumber: 6.5 Consensus size: 40
48846027 TGGATGATAA
* * * *
48846037 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
** * *
48846077 CCGGGCTAAGTTTCGAAAGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * * *
48846117 CCGGGCTAA-TTCCAAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
48846156 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
48846196 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * * *
48846236 CCGGGCTATGACCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
48846276 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48846294 TACTTGGCTT
Statistics
Matches: 191, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
39 50 0.26
40 141 0.74
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:48846289 original size:119 final size:119
Alignment explanation
Indices: 48846037--48846293 Score: 306
Period size: 119 Copynumber: 2.2 Consensus size: 119
48846027 TGGATGATAA
* * ** *
48846037 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTTTCGAAAGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAAGCATTGG
* * * **
48846102 TGCGAGTTACTATATCCGGGCTAATTCCAAAGGCATTTGTGTGAGTTACTATAT
66 TGCGAGTTACTATATCCGGGCTAATCCCAAAGGCATTCGAGCAAGTTACTATAT
* * * *
48846156 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAAGCATTG
*
48846220 GTGCGAGTTACTATATCCGGGCT-ATGACCCGAAGGCATTCGAGCAAG-TAGCTATAT
65 GTGCGAGTTACTATATCCGGGCTAAT--CCCAAAGGCATTCGAGCAAGTTA-CTATAT
*
48846276 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAATCCCGAAGG
48846294 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
118 3 0.03
119 94 0.79
120 22 0.18
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAAGCATTGG
TGCGAGTTACTATATCCGGGCTAATCCCAAAGGCATTCGAGCAAGTTACTATAT
Found at i:48854485 original size:80 final size:80
Alignment explanation
Indices: 48854328--48854486 Score: 205
Period size: 80 Copynumber: 2.0 Consensus size: 80
48854318 GGATGATAAC
* * * *
48854328 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTCGA
*
48854393 GCGAGTTACTATATT
66 GCAAGTTACTATATT
** * *
48854408 CGGGCTAAGTCCCGAAGGCATTGGTTCGAGTTACTA-TATCCGGGCTATGTCCCGAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTCG
48854472 AGCAAG-TAGCTATAT
65 AGCAAGTTA-CTATAT
48854487 CCGGTTAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.04
80 65 0.96
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTCGA
GCAAGTTACTATATT
Found at i:48854490 original size:40 final size:40
Alignment explanation
Indices: 48854327--48854469 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
48854317 TGGATGATAA
* * *
48854327 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
48854367 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48854407 TCGGGCTAAGTCCCGAAGGCATTGGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48854447 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
48854470 CGAGCAAGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 93 0.99
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48864648 original size:24 final size:24
Alignment explanation
Indices: 48864596--48864658 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
48864586 TAATTTCCTC
*
48864596 TTAATTTTTAATTTCTTTCAATTAG
1 TTAATTTTTAA-TTCATTCAATTAG
*
48864621 TTAATTTTTCAATTCATTGAATTA-
1 TTAATTTTT-AATTCATTCAATTAG
48864645 TTAATATTTTAATT
1 TTAAT-TTTTAATT
48864659 AAATTTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 9 0.26
25 23 0.68
26 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (24 bp):
TTAATTTTTAATTCATTCAATTAG
Found at i:48884957 original size:93 final size:93
Alignment explanation
Indices: 48884842--48885012 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
48884832 GCCCATAAGT
* * *
48884842 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
48884907 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
48884935 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
48885000 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48885013 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:48885009 original size:46 final size:46
Alignment explanation
Indices: 48884834--48885009 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
48884824 TGTAACCCGC
* * * *
48884834 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
* * *
48884880 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAT-TCGA-AT
* * *
48884926 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
48884973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48885010 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 67 0.62
47 31 0.29
48 4 0.04
49 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
Found at i:48891193 original size:28 final size:29
Alignment explanation
Indices: 48891160--48891260 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
48891150 TATAGTAAGT
* * *
48891160 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
48891188 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
48891217 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
48891246 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48891261 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:48897863 original size:44 final size:42
Alignment explanation
Indices: 48897810--48897953 Score: 148
Period size: 42 Copynumber: 3.4 Consensus size: 42
48897800 TGTGTTTTCT
*
48897810 TGTAGGACCATGTCTGGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACG
* * *
48897854 TGTAAGACCATGTCTGGGACATCGACGTCGAATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACG
* * * *
48897896 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATTTACG
*
48897939 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
48897954 AGGATGTTGG
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.34
43 26 0.31
44 28 0.34
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACG
Found at i:48897911 original size:42 final size:43
Alignment explanation
Indices: 48897805--48897953 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
48897795 TGATATGTGT
* * * * *
48897805 TTTCTTGTAGGACCATGTCTGGGACATTGGCATCGACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATCGACATCGAATTATGA
*
48897848 TTTACGTGTAAGACCATGTCTGGGACATCGACGTCGAATT-TGA
1 TTT-CGTGTAAGACCATGTCTGGGACATCGACATCGAATTATGA
* * *
48897891 TTTCGTGTAAGACCCTGTCTGGGATAGT-GGCATCGATATT-TGA
1 TTTCGTGTAAGACCATGTCTGGGACA-TCGACATCGA-ATTATGA
* * *
48897934 TTACATGTAAGACCACGTCT
1 TTTCGTGTAAGACCATGTCT
48897954 AGGATGTTGG
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
42 27 0.30
43 32 0.36
44 30 0.34
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGACATCGACATCGAATTATGA
Found at i:48899655 original size:13 final size:13
Alignment explanation
Indices: 48899637--48899669 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
48899627 CTTGAAGTTT
48899637 ATCAACGCTTCAC
1 ATCAACGCTTCAC
48899650 ATCAACGCTTCAC
1 ATCAACGCTTCAC
48899663 ATCAACG
1 ATCAACG
48899670 TTCTGATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.21
Consensus pattern (13 bp):
ATCAACGCTTCAC
Found at i:48900789 original size:38 final size:38
Alignment explanation
Indices: 48900746--48900876 Score: 136
Period size: 38 Copynumber: 3.2 Consensus size: 38
48900736 TTTCAAATTA
48900746 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
48900784 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
48900825 GAATCAATATATGTAACCGTGGCAAATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
48900869 ACATGTAT
1 ACATGTAT
48900877 CAATATGTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
38 34 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:48900902 original size:48 final size:48
Alignment explanation
Indices: 48900796--48900972 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
48900786 ATGTTTAACT
* * * *
48900796 GTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACC
1 GTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
*
48900843 GTGGCAAATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
1 GTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
* * * *
48900891 GTGGTATATCCACTTAGCACTATGTTTCATGTATCAATATGTGTAATC
1 GTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
*
48900939 GTGGCATATCCACTTAGCACCACGTTACACGTAT
1 GTGGCATATCCACTTAGCACCACGTTACATGTAT
48900973 AACCGTGGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
47 25 0.22
48 89 0.78
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
GTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
Found at i:48903577 original size:14 final size:14
Alignment explanation
Indices: 48903558--48903612 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
48903548 CAAAGATAAC
*
48903558 AAGAAAACCAAGTA
1 AAGAAATCCAAGTA
48903572 AAGAAATCCAAGATA
1 AAGAAATCCAAG-TA
* * *
48903587 GAGAAACCCAGAATA
1 AAGAAATCCA-AGTA
48903602 AAGAAATCCAA
1 AAGAAATCCAA
48903613 AATACGATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 12 0.36
15 20 0.61
16 1 0.03
ACGTcount: A:0.60, C:0.16, G:0.15, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAGTA
Found at i:48903616 original size:15 final size:15
Alignment explanation
Indices: 48903570--48903616 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
48903560 GAAAACCAAG
*
48903570 TAAAGAAATCCAAGA
1 TAAAGAAATCCAAAA
* * *
48903585 TAGAGAAACCCAGAA
1 TAAAGAAATCCAAAA
48903600 TAAAGAAATCCAAAA
1 TAAAGAAATCCAAAA
48903615 TA
1 TA
48903617 CGATACTATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.60, C:0.15, G:0.13, T:0.13
Consensus pattern (15 bp):
TAAAGAAATCCAAAA
Found at i:48906571 original size:38 final size:38
Alignment explanation
Indices: 48906512--48906588 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
48906502 TTTCAAATTA
*
48906512 ACATGTATAACCATGGCATATCCAATTGGCACCACGTT
1 ACATGTATAACCATGGCATATCCAATTAGCACCACGTT
* * * *
48906550 ACATGTTTAA-CAGTGGTATATCCACTTAGCACCATGTT
1 ACATGTATAACCA-TGGCATATCCAATTAGCACCACGTT
48906588 A
1 A
48906589 ATGAATCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCAATTAGCACCACGTT
Found at i:48906668 original size:46 final size:48
Alignment explanation
Indices: 48906562--48906736 Score: 212
Period size: 48 Copynumber: 3.7 Consensus size: 48
48906552 ATGTTTAACA
** * * * * *
48906562 GTGGTATATCCACTTAGCACCATGTTA-ATGAATCGATATATGTAACC
1 GTGGTATATCCACTTAGCACCACATTACACGTATCAATATGTGTAATC
* * * *
48906609 ATGGCATATCCACTTAGCATCACATTACATGTATC-A-ATGTGTAATC
1 GTGGTATATCCACTTAGCACCACATTACACGTATCAATATGTGTAATC
* *
48906655 GTGGTATATCCACTTAGCAGCACGTTACACGTATCAATATGTGTAATC
1 GTGGTATATCCACTTAGCACCACATTACACGTATCAATATGTGTAATC
48906703 GTGGTATATCCACTTAGCACCACATTACACGTAT
1 GTGGTATATCCACTTAGCACCACATTACACGTAT
48906737 AACAGTGGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
46 38 0.35
47 24 0.22
48 48 0.44
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
GTGGTATATCCACTTAGCACCACATTACACGTATCAATATGTGTAATC
Found at i:48906727 original size:94 final size:93
Alignment explanation
Indices: 48906562--48906736 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 93
48906552 ATGTTTAACA
* * *
48906562 GTGGTATATCCACTTAGCACCATGTTAATGAATCGATATATGTAACCATGGCATATCCACTTAGC
1 GTGGTATATCCACTTAGCACCACGTTAACGAATCAATATATGTAACCATGGCATATCCACTTAGC
* *
48906627 ATCACATTACATGTATCAATGTGTAATC
66 ACCACATTACACGTATCAATGTGTAATC
* * * * * *
48906655 GTGGTATATCCACTTAGCAGCACGTTACACGTATCAATATGTGTAATCGTGGTATATCCACTTAG
1 GTGGTATATCCACTTAGCACCACGTTA-ACGAATCAATATATGTAACCATGGCATATCCACTTAG
48906720 CACCACATTACACGTAT
65 CACCACATTACACGTAT
48906737 AACAGTGGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
93 25 0.36
94 45 0.64
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (93 bp):
GTGGTATATCCACTTAGCACCACGTTAACGAATCAATATATGTAACCATGGCATATCCACTTAGC
ACCACATTACACGTATCAATGTGTAATC
Found at i:48911071 original size:67 final size:67
Alignment explanation
Indices: 48910943--48911075 Score: 203
Period size: 67 Copynumber: 2.0 Consensus size: 67
48910933 AGCATATATT
* *** *
48910943 ACAGGGGATTTAGCCTGGACTGGTAATCCTACTGTAAGAAATGAGGTTCGTTGGAGTGTGCTCTC
1 ACAGGGGATTTAGCCTGGACTGGTAATCCTACTGTAAGAAATAAGGTTCACGGGAGCGTGCTCTC
48911008 TC
66 TC
* *
48911010 ACAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTGAGAAATAAGGTTCACGGGAGCGTGCTCTC
1 ACAGGGGATTTAGCCTGGACTGGTAATCCTACTGTAAGAAATAAGGTTCACGGGAGCGTGCTCTC
48911075 T
66 T
48911076 GAAATGGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (67 bp):
ACAGGGGATTTAGCCTGGACTGGTAATCCTACTGTAAGAAATAAGGTTCACGGGAGCGTGCTCTC
TC
Found at i:48911223 original size:20 final size:22
Alignment explanation
Indices: 48911198--48911237 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
48911188 AAATGGTAAG
48911198 AACTTGAAAT-CA-AGAAATAA
1 AACTTGAAATACATAGAAATAA
48911218 AACTTGAAATACATAGAAAT
1 AACTTGAAATACATAGAAAT
48911238 GATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
AACTTGAAATACATAGAAATAA
Found at i:48912050 original size:4 final size:4
Alignment explanation
Indices: 48912043--48912068 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48912033 TACAAAAAAA
48912043 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
48912069 GTGATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:48912345 original size:25 final size:25
Alignment explanation
Indices: 48912310--48912368 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
48912300 GGGGCCTTAG
48912310 CACGTTAGTACCCTCTGAA-TATTAC
1 CACGTTAGTACCCTCT-AATTATTAC
* *
48912335 CACGTTCGTACTCTCTAATTATTAC
1 CACGTTAGTACCCTCTAATTATTAC
*
48912360 CACATTAGT
1 CACGTTAGT
48912369 TCTCTCCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (25 bp):
CACGTTAGTACCCTCTAATTATTAC
Found at i:48919098 original size:28 final size:28
Alignment explanation
Indices: 48919067--48919121 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
48919057 GTTACAAGTT
* *
48919067 CAGTCTGGGCCAAAGCCCTATACAGTAG
1 CAGTCTGAGCCAAAGCCCAATACAGTAG
* * *
48919095 CAGTGTGAGCCTAAGCCCAATGCAGTA
1 CAGTCTGAGCCAAAGCCCAATACAGTA
48919122 ACAATACAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.18
Consensus pattern (28 bp):
CAGTCTGAGCCAAAGCCCAATACAGTAG
Found at i:48919319 original size:27 final size:27
Alignment explanation
Indices: 48919282--48919368 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
48919272 AACATAGCTG
* *
48919282 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* *
48919309 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* * *
48919336 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
48919363 CCAGTA
1 CCAGTA
48919369 CAGAACTTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCATAGCCA
Found at i:48919539 original size:27 final size:27
Alignment explanation
Indices: 48919509--48919562 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48919499 GGGCATAATC
*
48919509 GTCA-TTTCACCATACAGGGGTATTACG
1 GTCACTTT-ACCATACAGGGGCATTACG
*
48919536 GTCACTTTACCCTACAGGGGCATTACG
1 GTCACTTTACCATACAGGGGCATTACG
48919563 ATTGTTCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCATTACG
Found at i:48919656 original size:27 final size:27
Alignment explanation
Indices: 48919626--48919838 Score: 150
Period size: 27 Copynumber: 7.9 Consensus size: 27
48919616 GGTAAATCTA
*
48919626 CAAACCAAGGGTATTTTAGCAATTTTG
1 CAAACCAAGGGTATTTTAGTAATTTTG
*
48919653 CAAACCAATGGTATTTCTA-TAATTTTTG
1 CAAACCAAGGGTATTT-TAGTAA-TTTTG
* * *
48919681 -AAAGTCAATGGTATTTTTGTAATTTTG
1 CAAA-CCAAGGGTATTTTAGTAATTTTG
* * * *
48919708 TAAATCAGGGGTATTTCTA-TAATTTTC
1 CAAACCAAGGGTATTT-TAGTAATTTTG
* * *
48919735 CAAATCAAGGGTATTTTGGTAATTTTT
1 CAAACCAAGGGTATTTTAGTAATTTTG
** * * **
48919762 CAAATTAGGGGTA-TTTCGATAATTTCA
1 CAAACCAAGGGTATTTTAG-TAATTTTG
* *
48919789 CAAACCAAGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
48919816 CAAACC-AGGGT-TTTTCAGTAATT
1 CAAACCAAGGGTATTTT-AGTAATT
48919839 CTACCCTCGG
Statistics
Matches: 153, Mismatches: 23, Indels: 21
0.78 0.12 0.11
Matches are distributed among these distances:
25 4 0.03
26 16 0.10
27 104 0.68
28 29 0.19
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
CAAACCAAGGGTATTTTAGTAATTTTG
Found at i:48919772 original size:54 final size:54
Alignment explanation
Indices: 48919626--48919825 Score: 215
Period size: 54 Copynumber: 3.7 Consensus size: 54
48919616 GGTAAATCTA
* * * * ** *
48919626 CAAACCAAGGGTATTTTAGCAATTTTGCAAACCAATGGTATTTCTATAATTTTT
1 CAAACCAAGGGTATTTTGGTAATTTTTCAAATCAGGGGTATTTCTATAATTTTC
* * * *
48919680 GAAAGTCAATGGTATTTTTGTAATTTTGT-AAATCAGGGGTATTTCTATAATTTTC
1 CAAA-CCAAGGGTATTTTGGTAATTTT-TCAAATCAGGGGTATTTCTATAATTTTC
* * *
48919735 CAAATCAAGGGTATTTTGGTAATTTTTCAAATTAGGGGTATTTCGATAA-TTTC
1 CAAACCAAGGGTATTTTGGTAATTTTTCAAATCAGGGGTATTTCTATAATTTTC
* *
48919788 ACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGG
1 -CAAACCAAGGGTATTTTGGTAATTTTTCAAATCAGGG
48919826 TTTTTCAGTA
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.04
54 75 0.61
55 43 0.35
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (54 bp):
CAAACCAAGGGTATTTTGGTAATTTTTCAAATCAGGGGTATTTCTATAATTTTC
Found at i:48919836 original size:26 final size:27
Alignment explanation
Indices: 48919578--48919838 Score: 115
Period size: 27 Copynumber: 9.7 Consensus size: 27
48919568 TCTACCTATT
* **
48919578 AAGGGTATTTTAGTCATTTCACCCTA-C
1 AAGGGTATTTTAGTAATTTCA-CAAACC
* * *
48919605 AAGGGTGTTTTGGTAA-ATCTACAAACC
1 AAGGGTATTTTAGTAATTTC-ACAAACC
* **
48919632 AAGGGTATTTTAGCAATTTTGCAAACC
1 AAGGGTATTTTAGTAATTTCACAAACC
* *** *
48919659 AATGGTATTTCTA-TAATTTTTGAAAGTC
1 AAGGGTATTT-TAGTAATTTCACAAA-CC
* * *** *
48919687 AATGGTATTTTTGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTCACAAACC
* *
48919714 AGGGGTATTTCTA-TAATTTTC-CAAATC
1 AAGGGTATTT-TAGTAA-TTTCACAAACC
* ** **
48919741 AAGGGTATTTTGGTAATTTTTCAAATT
1 AAGGGTATTTTAGTAATTTCACAAACC
* *
48919768 AGGGGTA-TTTCGATAATTTCACAAACC
1 AAGGGTATTTTAG-TAATTTCACAAACC
* *
48919795 AAGGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTAGTAATTTCACAAACC
48919822 -AGGGT-TTTTCAGTAATT
1 AAGGGTATTTT-AGTAATT
48919839 CTACCCTCGG
Statistics
Matches: 182, Mismatches: 39, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
25 4 0.02
26 23 0.13
27 123 0.68
28 32 0.18
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTCACAAACC
Found at i:48921791 original size:60 final size:60
Alignment explanation
Indices: 48921698--48921817 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
48921688 TTGACGGTAC
48921698 AAAGGATCTAGCCCGGACAGGTGATCCTAATGATATAGCCCT-CTCGAAGAATATGTGTGA
1 AAAGGATCTAGCCCGGACAGGTGATCCTAATGATATAGCCCTCCT-GAAGAATATGTGTGA
** **
48921758 AAAGGATCTAGCTTGGATGGGTGATCCTAATGATATAGCCCTCCTGAAGAATATGTGTGA
1 AAAGGATCTAGCCCGGACAGGTGATCCTAATGATATAGCCCTCCTGAAGAATATGTGTGA
48921818 GTCTGGATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 53 0.96
61 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (60 bp):
AAAGGATCTAGCCCGGACAGGTGATCCTAATGATATAGCCCTCCTGAAGAATATGTGTGA
Found at i:48922038 original size:67 final size:67
Alignment explanation
Indices: 48921930--48922060 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
48921920 CATATGTTAC
* * * * *
48921930 AGGGGATTTAGCCTGGAATGGTAATCCTGCTGTAAGAAATGAGGTTCGCAGGAGTGTGCTCTCTC
1 AGGGGATTTAGCCTGGAATGGTAACCCTACTATAAGAAATGAGGTTCACAGGAATGTGCTCTCTC
48921995 AT
66 AT
*
48921997 AGGGGATTTAGCCTGGACA-GGTAACCCTACTATAAGAAATGAGGTTCACGGGAATGTGCTCTCT
1 AGGGGATTTAGCCTGGA-ATGGTAACCCTACTATAAGAAATGAGGTTCACAGGAATGTGCTCTCT
48922061 GAAATGGAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 56 0.98
68 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (67 bp):
AGGGGATTTAGCCTGGAATGGTAACCCTACTATAAGAAATGAGGTTCACAGGAATGTGCTCTCTC
AT
Found at i:48923333 original size:46 final size:46
Alignment explanation
Indices: 48923203--48923368 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 46
48923193 TGTGAGCTAG
* ** *
48923203 TGTAAGACATGTCTGGGACATGCATCGGCCA-C-A-TTATGACAGCCAG
1 TGTAAGACATGTCTGGGACATGCTTCGG-CATCGAGACAT-A-AGCCAA
* * * * *
48923249 TGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGA-ATGCTAA
1 TGTAAGA-CATGTCTGGGACAT-GCTTCGGCATCGAGAC-ATAAGCCAA
* * * *
48923297 TGTACGATATGTCTGGGACATGCTTCGGCCTCGAGACATAAGCCAG
1 TGTAAGACATGTCTGGGACATGCTTCGGCATCGAGACATAAGCCAA
48923343 TGTAAGACATGTCTGGGACATGCTTC
1 TGTAAGACATGTCTGGGACATGCTTC
48923369 AACTACGAGA
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 48 0.51
47 27 0.28
48 16 0.17
49 2 0.02
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCTTCGGCATCGAGACATAAGCCAA
Found at i:48929497 original size:79 final size:78
Alignment explanation
Indices: 48929394--48929618 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
48929384 GCTCCTCGTT
**
48929394 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-TTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
48929459 ATTTAGTAACTAGCA
64 AATTAGTAACTAGCA
* *
48929474 CAAATGCCTTCGGGTTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGGTTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCGG
* *
48929538 AATTAGTATCTCGCA
64 AATTAGTAACTAGCA
* * * * * * *
48929553 CAAAGGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGT-TTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCG
48929617 GA
63 GA
48929619 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.02
79 66 0.54
80 44 0.36
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGTTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTAACTAGCA
Found at i:48929605 original size:119 final size:120
Alignment explanation
Indices: 48929394--48929618 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
48929384 GCTCCTCGTT
* * *
48929394 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAATTCGCACAAAGGCCTTCGGGACTTAACCCGG
* *
48929459 ATTTAGTAACTAGCACAAATGCCTTCGGG-TTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
48929513 CAAATGCCTTTGGGACTTAACCCGGA-ATTAGT-ATCTCGCACAAAGGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAACCCGGATA-TAGTAAT-TCGCACAAAGGCCTTCGGGA-CTTAACC
* *
48929575 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
48929619 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 6 0.07
119 65 0.72
120 19 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGATATAGTAATTCGCACAAAGGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:48929618 original size:40 final size:39
Alignment explanation
Indices: 48929394--48929618 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 39
48929384 GCTCCTCGTT
* *
48929394 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * * *
48929434 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
*
48929474 CAAATGCCTTCGGG-TTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
48929513 CAAATGCCTTTGGGACTTAACCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* * * *
48929553 CAAAGGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
48929594 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48929619 CATCATTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.21
40 108 0.69
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:48939299 original size:34 final size:34
Alignment explanation
Indices: 48939248--48939341 Score: 86
Period size: 34 Copynumber: 2.8 Consensus size: 34
48939238 ACATGTTGAA
*
48939248 CAGTCTGGG-CTTAAGCCCACATTAGTAGCAATAT
1 CAGTGTGGGCCTT-AGCCCACATTAGTAGCAATAT
* * * *
48939282 TAGTGTGGGCCTTAG-CC-CATTACAGTGGTAGTAT
1 CAGTGTGGGCCTTAGCCCACATT--AGTAGCAATAT
*
48939316 CAGTGTGGGCCTTAGCCCAAATTAGT
1 CAGTGTGGGCCTTAGCCCACATTAGT
48939342 GCAGAATCAG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
32 4 0.08
33 2 0.04
34 34 0.71
35 5 0.10
36 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCACATTAGTAGCAATAT
Found at i:48944305 original size:40 final size:40
Alignment explanation
Indices: 48944210--48944432 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
48944200 TGGATGATAA
*
48944210 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
48944251 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48944291 CCGGGCTAAGTCCCGAAGGCATTTATGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
48944331 CCGGGCTAAGTCCCGAAGGCATTTGTATGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48944371 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48944411 -CGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
48944433 CGAGCAAGTA
Statistics
Matches: 167, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 21 0.13
40 118 0.71
41 24 0.14
42 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48944463 original size:39 final size:39
Alignment explanation
Indices: 48944213--48944465 Score: 203
Period size: 40 Copynumber: 6.4 Consensus size: 39
48944203 ATGATAACCG
* * * *
48944213 GGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCC
1 GGCTAAGTCCCGAAGGCA-TTAGAGCAAGTTACTA-TATCC
* * * * *
48944253 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCC
1 -GGCTAAGTCCCGAAGGCATTAGAGCAAGTTACTATATCC
*
48944293 GGGCTAAGTCCCGAAGGCATTTATGTG--AGTTACTATATCC
1 -GGCTAAGTCCCGAAGGCA-TTA-GAGCAAGTTACTATATCC
*
48944333 GGGCTAAGTCCCGAAGGCATTTGTATG--AGTTACTATATCC
1 -GGCTAAGTCCCGAAGGCATTAG-A-GCAAGTTACTATATCC
* * *
48944373 GGGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATATCG
1 -GGCTAAGTCCCGAAGGCATTAGAGCAAGTTACTATATCC
* *
48944413 GGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCC
1 GGCTAAGTCCCGAAGGCATTAGAGCAAGTTA-CTATATCC
* *
48944452 GGTTAAATCCCGAA
1 GGCTAAGTCCCGAA
48944466 CGTACTTGGC
Statistics
Matches: 183, Mismatches: 21, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
38 4 0.02
39 44 0.24
40 112 0.61
41 20 0.11
42 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTAGAGCAAGTTACTATATCC
Found at i:48947269 original size:29 final size:30
Alignment explanation
Indices: 48947211--48947267 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48947201 GCCTTATAAG
* *
48947211 TATTTACAAAAAGAGGCATCTAATTTTTAA
1 TATTTACAAAAAGAGGCACCGAATTTTTAA
48947241 TATTTACAAAAAGA-GCAACCGAATTTT
1 TATTTACAAAAAGAGGC-ACCGAATTTT
48947268 AAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCACCGAATTTTTAA
Found at i:48962632 original size:22 final size:22
Alignment explanation
Indices: 48962607--48962650 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48962597 GAACATGATC
*
48962607 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
* *
48962629 AAAATTATTTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
48962651 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:48962934 original size:33 final size:32
Alignment explanation
Indices: 48962892--48962962 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
48962882 TGAGTGAGCA
* *
48962892 CACATGCCTAAATTGCCCTTGCCCGTGTGGGCC
1 CACACGCCTAAATTGCCCTAGCCCGTGT-GGCC
* * *
48962925 CACACGCCTAACTTGGCCTAGCCCGTGTGGTC
1 CACACGCCTAAATTGCCCTAGCCCGTGTGGCC
48962957 CACACG
1 CACACG
48962963 ACCACATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.17, C:0.38, G:0.24, T:0.21
Consensus pattern (32 bp):
CACACGCCTAAATTGCCCTAGCCCGTGTGGCC
Found at i:48967867 original size:37 final size:37
Alignment explanation
Indices: 48967808--48967916 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
48967798 AGCTCAGACG
* *
48967808 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48967845 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
48967882 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48967917 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48968186 original size:48 final size:48
Alignment explanation
Indices: 48968062--48968246 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
48968052 GCACATCGCC
*
48968062 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
48968112 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
48968160 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48968208 TACACATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
48968247 TGCATGTTCA
Statistics
Matches: 127, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
48 83 0.65
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48968251 original size:98 final size:97
Alignment explanation
Indices: 48968062--48968245 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 97
48968052 GCACATCGCC
* *
48968062 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACACATTTCACATT
48968127 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
48968160 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACACATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
48968223 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
48968246 ATGCATGTTC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.43
98 46 0.56
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:48968336 original size:22 final size:22
Alignment explanation
Indices: 48968309--48968427 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
48968299 GCTCACATTC
48968309 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
48968331 ATCACATAGATG-CATGTTC-ACATT
1 ATCACATTG--GCCA--TTCGGCCTT
48968355 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
48968378 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
48968402 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48968425 ATC
1 ATC
48968428 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 24 0.34
23 13 0.18
24 13 0.18
25 21 0.30
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48968446 original size:47 final size:47
Alignment explanation
Indices: 48968216--48968435 Score: 341
Period size: 47 Copynumber: 4.7 Consensus size: 47
48968206 CATACACATT
* * * *
48968216 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
48968263 CCACATCGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
48968310 TCACATTGGCCATTCGGCCTTATCACATAGATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
48968357 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
48968404 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
48968436 ACACATTCAC
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 156 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:48977039 original size:12 final size:12
Alignment explanation
Indices: 48977018--48977047 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48977008 TTGTGTCTGG
48977018 CACACGACCAAC
1 CACACGACCAAC
*
48977030 CACACTACCAAC
1 CACACGACCAAC
48977042 CACACG
1 CACACG
48977048 CCCGGTGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.50, G:0.07, T:0.03
Consensus pattern (12 bp):
CACACGACCAAC
Found at i:48979465 original size:17 final size:20
Alignment explanation
Indices: 48979443--48979480 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
48979433 GCCCTACTTC
48979443 AATAATT-AAT-TAGG-TAA
1 AATAATTGAATCTAGGCTAA
48979460 AATAATTGAATCTAGGCTAA
1 AATAATTGAATCTAGGCTAA
48979480 A
1 A
48979481 TGTAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 4 0.22
20 4 0.22
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
AATAATTGAATCTAGGCTAA
Found at i:48986832 original size:26 final size:26
Alignment explanation
Indices: 48986803--48986853 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
48986793 TTATACTAAT
*
48986803 TACTGGCAGTTTTGCTGCGATACTGC
1 TACTGGCAGTTTTACTGCGATACTGC
48986829 TACTGGCAGTTTTACTGCGATACTG
1 TACTGGCAGTTTTACTGCGATACTG
48986854 ATATTGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
TACTGGCAGTTTTACTGCGATACTGC
Found at i:48990543 original size:13 final size:13
Alignment explanation
Indices: 48990525--48990555 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
48990515 TATTACAGAC
48990525 GTTTTGTTGAAGG
1 GTTTTGTTGAAGG
48990538 GTTTTGTTGAAGG
1 GTTTTGTTGAAGG
48990551 GTTTT
1 GTTTT
48990556 CTTTGATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.35, T:0.52
Consensus pattern (13 bp):
GTTTTGTTGAAGG
Found at i:49012194 original size:40 final size:40
Alignment explanation
Indices: 49012148--49012372 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
49012138 CTTGCGCAAG
* * *
49012148 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
49012188 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
49012228 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
49012268 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
49012308 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAG
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
49012349 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49012373 CATTCGAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:49012243 original size:80 final size:80
Alignment explanation
Indices: 49012112--49012372 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
49012102 ACTAAGTAAT
* * * * * * * *
49012112 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
49012175 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * * *
49012190 CTTCGGGACTTAGCCTGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
49012254 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
49012270 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
49012335 CACCTAGCACAAAGGC
66 CA-CTAGCACAAATGC
49012351 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
49012373 CATTCGAATA
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 12 0.08
79 14 0.09
80 93 0.61
81 33 0.22
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:49023856 original size:27 final size:27
Alignment explanation
Indices: 49023818--49024215 Score: 422
Period size: 27 Copynumber: 14.8 Consensus size: 27
49023808 AATCGATAAC
* * *
49023818 ATGACTGTTTTGCCTTTACGTGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * * *
49023845 ATGACTGTTTTGCCCTAAT-TGATTAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* *
49023871 ATGACTATTTTGCCCTAAT-TGATAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * *
49023897 ATAACTATTTTTCCCTTATGTGCTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * * * **
49023924 ATGACTGTTTTTCTCTTATATATTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
*
49023951 ATGACTATTTTGCCCTTATATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
49023978 ATGACTATTTTGCCCTTATGTGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* *
49024005 ATGACTATTTTTCCCTTATGTGGAAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
**
49024032 ATGACTATTTTGCCCTTAAATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* *
49024059 ATGACTATTTTGCCCTTCTATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* **
49024086 ATGACTATTTTGCCTTTATGTGAAAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * * * *
49024113 ATAATTGTTTTGGCCTTAAGTGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* *
49024140 ACGACTATTTTGCCCTTATGTGGAAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
** * *
49024167 ATGACTATTTCACCTTTATATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
*
49024194 TTGACTATTTTGCCCTTATGTG
1 ATGACTATTTTGCCCTTATGTG
49024216 AGATATGATT
Statistics
Matches: 308, Mismatches: 62, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
26 45 0.15
27 263 0.85
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (27 bp):
ATGACTATTTTGCCCTTATGTGGTAAA
Found at i:49029019 original size:27 final size:27
Alignment explanation
Indices: 49028989--49029109 Score: 181
Period size: 27 Copynumber: 4.5 Consensus size: 27
49028979 ATTACCAAAG
49028989 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
49029016 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
*
49029043 TACACTCGATTTATAGAATTA-CTGTTT
1 TACCCTCGATTTATAGAATTATC-GTTT
* * *
49029070 TACTCTTGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
49029097 TACCCTCGATTTA
1 TACCCTCGATTTA
49029110 CAAAATTACT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.99
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTATCGTTT
Found at i:49029127 original size:27 final size:27
Alignment explanation
Indices: 49029097--49029290 Score: 164
Period size: 27 Copynumber: 7.2 Consensus size: 27
49029087 ATTATTGTTT
*
49029097 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
49029124 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
49029151 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * * *
49029178 TACCCTAGTATGT--AAAATTGCTAAAA
1 TACCCTCG-ATTTACAAAATTACCAAAA
* * ** *
49029204 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
49029231 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
49029258 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
49029285 TACCCT
1 TACCCT
49029291 TGACTTTCTA
Statistics
Matches: 135, Mismatches: 24, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
25 2 0.01
26 23 0.17
27 109 0.81
28 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:49029144 original size:54 final size:54
Alignment explanation
Indices: 49029016--49029144 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
49029006 ATTATCGTTT
* * ****
49029016 TACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTACAAAATTACTAAAA
* * * * *
49029070 TACTCTTGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTACAAAATTACTAAAA
* *
49029124 TACCCTCGGTTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
49029145 CCAAAATACC
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTACAAAATTACTAAAA
Found at i:49029144 original size:81 final size:81
Alignment explanation
Indices: 49028996--49029145 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
49028986 AAGTACCCTC
* ** * *
49028996 GATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTATAGAA
1 GATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTATCGTAATACACTCGATTTACAAAA
49029061 TTACTGTTTTACTCTT
66 TTACTGTTTTACTCTT
* * *
49029077 GATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTA-C-TAAAATACCCTCGGTTTACAA
1 GATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTATCGT--AATACACTCGATTTACAA
49029140 AATTAC
64 AATTAC
49029146 CAAAATACCC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.02
80 1 0.02
81 57 0.97
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (81 bp):
GATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTATCGTAATACACTCGATTTACAAAA
TTACTGTTTTACTCTT
Found at i:49029208 original size:80 final size:80
Alignment explanation
Indices: 49029111--49029262 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
49029101 CTCGATTTAC
*
49029111 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
49029176 AATACCCTAGTATGT
66 AATACCCTAGTATGT
* * ** * **
49029191 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
49029256 AATACCC
66 AATACCC
49029263 CTGATTTACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
AATACCCTAGTATGT
Found at i:49029340 original size:27 final size:27
Alignment explanation
Indices: 49029301--49029352 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
49029291 TGACTTTCTA
49029301 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
49029328 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
49029353 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:49029447 original size:27 final size:27
Alignment explanation
Indices: 49029406--49029492 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
49029396 ACCCCTATTA
* *
49029406 GGTAAAAAGATCGTAAAGCCCTTGTAG
1 GGTAAAGAGATCGTAAAGCCCCTGTAG
*
49029433 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGATCGTAAAGCCCCTGTAG
* *
49029460 GGTAAAGTGATCGTAATA-CCCCTGTAT
1 GGTAAAGAGATCGTAA-AGCCCCTGTAG
49029487 GGTAAA
1 GGTAAA
49029493 ATGACGAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAGAGATCGTAAAGCCCCTGTAG
Found at i:49030325 original size:26 final size:26
Alignment explanation
Indices: 49030296--49030445 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
49030286 GAGGAAGTGC
**
49030296 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
49030322 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
49030348 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
49030374 AAAAGGGATTATGGCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
49030400 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
49030426 GAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
49030446 ATTAAAAGAG
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 10 0.09
26 99 0.91
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:49030694 original size:31 final size:31
Alignment explanation
Indices: 49030656--49030732 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
49030646 CGTTTACAGT
*
49030656 AAAGGCTTCGGCTCAATAATATGATTTATGA
1 AAAGGCTTCGGCCCAATAATATGATTTATGA
* *
49030687 AAAGGCTTCGGCCCAGTTATATGATTTATGA
1 AAAGGCTTCGGCCCAATAATATGATTTATGA
* *
49030718 AAAGGATTCAGCCCA
1 AAAGGCTTCGGCCCA
49030733 GTAACTGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGATTTATGA
Found at i:49048349 original size:27 final size:27
Alignment explanation
Indices: 49048319--49048468 Score: 131
Period size: 27 Copynumber: 5.6 Consensus size: 27
49048309 ATATTGAGTC
* * *
49048319 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
49048346 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* ** ** *
49048373 CGTACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
49048400 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * * *
49048427 CGCAGACTTAGGGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
49048454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49048469 GTACAATTTA
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
27 96 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:49059337 original size:26 final size:26
Alignment explanation
Indices: 49059211--49059321 Score: 156
Period size: 25 Copynumber: 4.3 Consensus size: 26
49059201 TGTAATTGCT
49059211 AAAATACCCTCAATTTGTAAAATTACC
1 AAAATACCCTC-ATTTGTAAAATTACC
*
49059238 AAAATACCCT-AGTTGTAAAATT-CC
1 AAAATACCCTCATTTGTAAAATTACC
* **
49059262 AAAATACACTGGTTTGT-AAATTACC
1 AAAATACCCTCATTTGTAAAATTACC
49059287 AAAATACCCTCATTTGTAAAATTACC
1 AAAATACCCTCATTTGTAAAATTACC
49059313 AAAATACCC
1 AAAATACCC
49059322 CTGATTTACA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.22
25 31 0.42
26 17 0.23
27 10 0.14
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAATACCCTCATTTGTAAAATTACC
Found at i:49059486 original size:23 final size:25
Alignment explanation
Indices: 49059460--49059513 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
49059450 ACCCCTATTA
49059460 GGTAAAAGA-CGTAAAGCCCTGT-G
1 GGTAAAAGACCGTAAAGCCCTGTAG
*
49059483 GGTAAGAGACCGTAAAGCCCTGTAG
1 GGTAAAAGACCGTAAAGCCCTGTAG
49059508 GGTAAA
1 GGTAAA
49059514 GTGACCGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 13 0.48
25 6 0.22
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (25 bp):
GGTAAAAGACCGTAAAGCCCTGTAG
Found at i:49060351 original size:49 final size:48
Alignment explanation
Indices: 49060255--49060396 Score: 221
Period size: 49 Copynumber: 2.9 Consensus size: 48
49060245 AGGAAGTGTA
*
49060255 AAAGGGCTTTGCCCCAGTTTATTGAAAGGGCTTTGCCCCAGTTTACCG
1 AAAGGGCTATGCCCCAGTTTATTGAAAGGGCTTTGCCCCAGTTTACCG
* *
49060303 AAAGGGCTATGCCCTAGTTTATTGAAAAGGCTTATGCCCCAGTTTACCG
1 AAAGGGCTATGCCCCAGTTTATTGAAAGGGCTT-TGCCCCAGTTTACCG
**
49060352 AAAGGGCTTATGCCCCAGTTTACCGAAAGGGCTTTGCCCCAGTTT
1 AAAGGGC-TATGCCCCAGTTTATTGAAAGGGCTTTGCCCCAGTTT
49060397 TAAAAGAGGC
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
48 30 0.35
49 33 0.39
50 22 0.26
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (48 bp):
AAAGGGCTATGCCCCAGTTTATTGAAAGGGCTTTGCCCCAGTTTACCG
Found at i:49060398 original size:25 final size:24
Alignment explanation
Indices: 49060255--49060396 Score: 203
Period size: 24 Copynumber: 5.8 Consensus size: 24
49060245 AGGAAGTGTA
**
49060255 AAAGGGCTTTGCCCCAGTTTATTG
1 AAAGGGCTTTGCCCCAGTTTACCG
49060279 AAAGGGCTTTGCCCCAGTTTACCG
1 AAAGGGCTTTGCCCCAGTTTACCG
* * **
49060303 AAAGGGCTATGCCCTAGTTTATTG
1 AAAGGGCTTTGCCCCAGTTTACCG
*
49060327 AAAAGGCTTATGCCCCAGTTTACCG
1 AAAGGGCTT-TGCCCCAGTTTACCG
49060352 AAAGGGCTTATGCCCCAGTTTACCG
1 AAAGGGCTT-TGCCCCAGTTTACCG
49060377 AAAGGGCTTTGCCCCAGTTT
1 AAAGGGCTTTGCCCCAGTTT
49060397 TAAAAGAGGC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 60 0.57
25 45 0.43
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTTGCCCCAGTTTACCG
Found at i:49070776 original size:6 final size:6
Alignment explanation
Indices: 49070754--49070813 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
49070744 AAGGTGAATT
* * * *
49070754 AATAAA AACATAA AATAAA AATAAA AATGAT AATAAA AATAAA TAT-AA
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
49070802 AATAAA ATTAAA
1 AATAAA AATAAA
49070814 CATCATCATT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 4 0.09
6 34 0.79
7 5 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:49072831 original size:55 final size:55
Alignment explanation
Indices: 49072701--49072840 Score: 136
Period size: 55 Copynumber: 2.5 Consensus size: 55
49072691 TTCTCCCACA
* * ** *
49072701 CCCGTGTTGTTTTGGCAGGTTCGCCCATGGTTGCTTGGCACAGACGTGTCGTACG
1 CCCGTGTTGTTTTGACAGGTTCGCCCACGGTTGCAAGGCACAGACGTGTCGCACG
** ** * * * * *
49072756 TTCGTGTTAATTTGATAGGTTCGGCCACGGTTTCAAGGCACGGGCGTGTCGCACG
1 CCCGTGTTGTTTTGACAGGTTCGCCCACGGTTGCAAGGCACAGACGTGTCGCACG
* *
49072811 CCCGTGTTGTTTTGCCAGGTTTGCCCACGG
1 CCCGTGTTGTTTTGACAGGTTCGCCCACGG
49072841 CCATGTCATA
Statistics
Matches: 63, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (55 bp):
CCCGTGTTGTTTTGACAGGTTCGCCCACGGTTGCAAGGCACAGACGTGTCGCACG
Found at i:49107575 original size:46 final size:46
Alignment explanation
Indices: 49107521--49107691 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
49107511 TGGTTGAGCA
*
49107521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAACG
* * * * *
49107567 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAA--A--CG
* * *
49107614 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAACG
* *
49107660 -CCTGAGCTCGTTGAGTTGAGTCCCAGTTCACT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACT
49107692 TAGGGCGGGT
Statistics
Matches: 102, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 55 0.54
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAACG
Found at i:49107677 original size:93 final size:93
Alignment explanation
Indices: 49107518--49107688 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
49107508 GGATGGTTGA
*
49107518 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAACGTCCAAACTCGTTGAGT
*
49107583 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCCAGTTCGTGAGATGTAACTAG
* * * * *
49107611 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAACGTCC-AAACTCGTTGAG
49107675 TTGAGTCCCAGTTC
65 TTGAGTCCCAGTTC
49107689 ACTTAGGGCG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCAAACGTCCAAACTCGTTGAGT
TGAGTCCCAGTTCGTGAGATGTAACTAG
Found at i:49111930 original size:27 final size:27
Alignment explanation
Indices: 49111866--49112002 Score: 78
Period size: 27 Copynumber: 5.4 Consensus size: 27
49111856 TGGATAAGTT
* *
49111866 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTCTAGG
* *
49111893 GCA-AAATTACCGAAATAGCCCTCTA-G
1 GTAGAAA-TACCGAAATACCCCTCTAGG
*
49111919 G--G---TA--GAAATA-CCCTGTAGG
1 GTAGAAATACCGAAATACCCCTCTAGG
* * *
49111938 GTAGAATTATCGAAATACCCCTTTAGG
1 GTAGAAATACCGAAATACCCCTCTAGG
* * * * *
49111965 ATAGAATTACCGAAATACACTTGTAGG
1 GTAGAAATACCGAAATACCCCTCTAGG
49111992 GTAGAAATACC
1 GTAGAAATACC
49112003 CCTGTAGGGT
Statistics
Matches: 86, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
18 6 0.07
19 8 0.09
21 3 0.03
24 2 0.02
26 10 0.12
27 57 0.66
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
GTAGAAATACCGAAATACCCCTCTAGG
Found at i:49111937 original size:18 final size:19
Alignment explanation
Indices: 49111904--49111943 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
49111894 CAAAATTACC
49111904 GAAATAGCCCTCTAGGGTA
1 GAAATAGCCCTCTAGGGTA
*
49111923 GAAATA-CCCTGTAGGGTA
1 GAAATAGCCCTCTAGGGTA
49111941 GAA
1 GAA
49111944 TTATCGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (19 bp):
GAAATAGCCCTCTAGGGTA
Found at i:49111946 original size:45 final size:45
Alignment explanation
Indices: 49111877--49111975 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
49111867 TAGAATTACC
* *
49111877 GAAATACCCCTGTAGGGCAAAATTACCGAAATAGCCCTCTAGGGTA
1 GAAATA-CCCTGTAGGGCAAAATTACCGAAATACCCCTCTAGGATA
* * * *
49111923 GAAATACCCTGTAGGGTAGAATTATCGAAATACCCCTTTAGGATA
1 GAAATACCCTGTAGGGCAAAATTACCGAAATACCCCTCTAGGATA
*
49111968 GAATTACC
1 GAAATACC
49111976 GAAATACACT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 40 0.87
46 6 0.13
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (45 bp):
GAAATACCCTGTAGGGCAAAATTACCGAAATACCCCTCTAGGATA
Found at i:49111952 original size:26 final size:26
Alignment explanation
Indices: 49111923--49112046 Score: 102
Period size: 27 Copynumber: 5.0 Consensus size: 26
49111913 CTCTAGGGTA
*
49111923 GAAATACCCTGTAGGGTAGAATTATC
1 GAAATACCCTGTAGGGTAGAATTACC
* *
49111949 GAAATACCCCTTTAGGATAGAATTACC
1 GAAATA-CCCTGTAGGGTAGAATTACC
* *
49111976 GAAATACACTTGTAGGGTAGAAATA-C
1 GAAATAC-CCTGTAGGGTAGAATTACC
49112002 ------CCCTGTAGGGTAGAATTACC
1 GAAATACCCTGTAGGGTAGAATTACC
* * *
49112022 GAGATACCTTGT-GGGTAAAATTACC
1 GAAATACCCTGTAGGGTAGAATTACC
49112047 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
19 15 0.19
20 2 0.03
25 12 0.15
26 13 0.17
27 36 0.46
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (26 bp):
GAAATACCCTGTAGGGTAGAATTACC
Found at i:49111992 original size:72 final size:73
Alignment explanation
Indices: 49111866--49112029 Score: 233
Period size: 72 Copynumber: 2.3 Consensus size: 73
49111856 TGGATAAGTT
*
49111866 GTAGAATTACCGAAATACCCCTGTAGGGCAAAATTACCGAAATAGCCCTCTAGGGTAGAAATA-C
1 GTAGAATTACCGAAATACCCCTGTAGGACAAAATTACCGAAATAGCCCTCTAGGGTAGAAATACC
49111930 CCTGTAGG
66 CCTGTAGG
* * * * * *
49111938 GTAGAATTATCGAAATACCCCTTTAGGATAGAATTACCGAAATA-CACTTGTAGGGTAGAAATAC
1 GTAGAATTACCGAAATACCCCTGTAGGACAAAATTACCGAAATAGC-CCTCTAGGGTAGAAATAC
49112002 CCCTGTAGG
65 CCCTGTAGG
*
49112011 GTAGAATTACCGAGATACC
1 GTAGAATTACCGAAATACC
49112030 TTGTGGGTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.01
72 54 0.67
73 26 0.32
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (73 bp):
GTAGAATTACCGAAATACCCCTGTAGGACAAAATTACCGAAATAGCCCTCTAGGGTAGAAATACC
CCTGTAGG
Found at i:49112000 original size:19 final size:19
Alignment explanation
Indices: 49111976--49112016 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
49111966 TAGAATTACC
*
49111976 GAAATACACTTGTAGGGTA
1 GAAATACACCTGTAGGGTA
*
49111995 GAAATACCCCTGTAGGGTA
1 GAAATACACCTGTAGGGTA
49112014 GAA
1 GAA
49112017 TTACCGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (19 bp):
GAAATACACCTGTAGGGTA
Found at i:49112002 original size:46 final size:44
Alignment explanation
Indices: 49111949--49112042 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 44
49111939 TAGAATTATC
*
49111949 GAAATACCCCTTTAGGATAGAATTACCGAAATACACTTGTAGGGTA
1 GAAATACCCCTGTAGGATAGAATTACCGAAATAC-CTTGT-GGGTA
* *
49111995 GAAATACCCCTGTAGGGTAGAATTACCGAGATACCTTGTGGGTA
1 GAAATACCCCTGTAGGATAGAATTACCGAAATACCTTGTGGGTA
49112039 -AAAT
1 GAAAT
49112043 TACCATTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 4 0.09
44 5 0.11
45 5 0.11
46 31 0.69
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (44 bp):
GAAATACCCCTGTAGGATAGAATTACCGAAATACCTTGTGGGTA
Found at i:49112731 original size:27 final size:26
Alignment explanation
Indices: 49112687--49112737 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
49112677 CTCGCTGCAA
*
49112687 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
49112714 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
49112738 TGCAGCCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:49113807 original size:27 final size:27
Alignment explanation
Indices: 49113780--49113990 Score: 187
Period size: 27 Copynumber: 7.9 Consensus size: 27
49113770 GGCAAATCAA
* * *
49113780 TCATTTTACCTTACAGGGGTATTACAA
1 TCATTTTACCCTATAGGGGTATTACAG
* * * *
49113807 TTATTTTACCCTACAAGGGTATTATAG
1 TCATTTTACCCTATAGGGGTATTACAG
* *
49113834 TCA-TTTACCCTATAAGGGTATTATAG
1 TCATTTTACCCTATAGGGGTATTACAG
* * *
49113860 TCATTTTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTACAG
***
49113887 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTACAG
* *
49113914 TCATTTTACCCTAT-GGAGGTATTTCGG
1 TCATTTTACCCTATAGG-GGTATTACAG
* * *
49113941 TCATTTTATCCTAT-GGGGTGTTTC-G
1 TCATTTTACCCTATAGGGGTATTACAG
49113966 ATCATTTTACCCTATAGGGGGTATT
1 -TCATTTTACCCTATA-GGGGTATT
49113991 TCGATCATTT
Statistics
Matches: 160, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
25 1 0.01
26 47 0.29
27 105 0.66
28 7 0.04
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACAG
Found at i:49113917 original size:54 final size:54
Alignment explanation
Indices: 49113809--49114002 Score: 225
Period size: 54 Copynumber: 3.6 Consensus size: 54
49113799 TATTACAATT
* * * * * *
49113809 ATTTTACCCTACAAGGGTATTAT-AGTCA-TTTACCCTATAAGGGTATTATAGTC
1 ATTTTACCCTATAGGGGTATT-TCGGTCATTTTACCCTATAGGGGTATTTTGGTC
*
49113862 ATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTC
* * * *
49113916 ATTTTACCCTAT-GGAGGTATTTCGGTCATTTTATCCTAT-GGGGTGTTTCGATC
1 ATTTTACCCTATAGG-GGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTC
*
49113969 ATTTTACCCTATAGGGGGTATTTCGATCATTTTA
1 ATTTTACCCTATA-GGGGTATTTCGGTCATTTTA
49114003 GACCACAAAT
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.01
53 47 0.38
54 73 0.59
55 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTC
Found at i:49113917 original size:80 final size:80
Alignment explanation
Indices: 49113780--49114000 Score: 243
Period size: 80 Copynumber: 2.8 Consensus size: 80
49113770 GGCAAATCAA
* * * * * * * *
49113780 TCATTTTACCTTACAGGGGTATTACAATTATTTTACCCTACAAGGGTATTATAGTCATTTACCCT
1 TCATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGGTCATTTACCCT
49113845 ATA-AGGGTATTAT-AG
66 ATAGA-GGTATT-TCAG
*
49113860 TCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGGTCA-TTTACCC
* *
49113925 TATGGAGGTATTTCGG
65 TATAGAGGTATTTCAG
* * *
49113941 TCATTTTATCC-TAT-GGGGTGTTTCGATCATTTTACCCTATAGGGGGTATTTCGATCATTT
1 TCATTTTA-CCTTATAGGGGTATTTCGATCATTTTACCCTATA-GGGGTATTTTGGTCATTT
49114001 TAGACCACAA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
80 77 0.64
81 41 0.34
82 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (80 bp):
TCATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGGTCATTTACCCT
ATAGAGGTATTTCAG
Found at i:49114432 original size:7 final size:7
Alignment explanation
Indices: 49114422--49114514 Score: 59
Period size: 7 Copynumber: 12.9 Consensus size: 7
49114412 TGATATAAAA
49114422 TATATAT
1 TATATAT
49114429 TATATAT
1 TATATAT
49114436 TATATTAACT
1 TATA-T-A-T
49114446 TCATAT-T
1 T-ATATAT
49114453 TA-AGTAT
1 TATA-TAT
49114460 TAATATAT
1 T-ATATAT
*
49114468 AATATAT
1 TATATAT
*
49114475 AATATA-
1 TATATAT
49114481 T-TATAT
1 TATATAT
49114487 TATTATAT
1 TA-TATAT
49114495 TATATAT
1 TATATAT
* *
49114502 AATATAA
1 TATATAT
49114509 TATATA
1 TATATA
49114515 AAACATAAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.07
6 3 0.04
7 42 0.60
8 12 0.17
9 2 0.03
10 3 0.04
11 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (7 bp):
TATATAT
Done.