Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 46 of 318
Found at i:12905310 original size:40 final size:41
Alignment explanation
Indices: 12905243--12905367 Score: 125
Period size: 40 Copynumber: 3.1 Consensus size: 41
12905233 TTCGAATGGT
* ** *
12905243 ATCCGGGCTAAGT-CCGAAGGCTTTTGTGCGAGTTACTA-A
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTATA
*
12905282 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTATA
* * * *
12905323 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTAT-
1 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTATA
12905362 ATCCGG
1 ATCCGG
12905368 TTAAATCCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 15 0.21
40 55 0.76
41 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (41 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTATA
Found at i:12908096 original size:46 final size:46
Alignment explanation
Indices: 12908045--12908226 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
12908035 AGTTAAATAT
12908045 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
12908091 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
12908137 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
12908183 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
12908227 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:12908284 original size:47 final size:47
Alignment explanation
Indices: 12908230--12908340 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
12908220 ATGTATGAGA
* * *
12908230 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
12908277 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
12908324 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
12908341 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:12916596 original size:40 final size:40
Alignment explanation
Indices: 12916488--12916597 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
12916478 ATTGAATGAT
* * * * *
12916488 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
12916528 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
12916568 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
12916598 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:12916612 original size:40 final size:39
Alignment explanation
Indices: 12916488--12916637 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
12916478 ATTGAATGAT
* * * * * * *
12916488 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
12916528 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
12916568 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
12916608 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
12916638 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:12918178 original size:64 final size:64
Alignment explanation
Indices: 12918110--12918298 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
12918100 CAACACAAAC
12918110 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
12918174 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
12918231 AC
63 AT
12918233 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
12918297 AT
1 AT
12918299 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:12918239 original size:123 final size:123
Alignment explanation
Indices: 12918020--12918330 Score: 559
Period size: 123 Copynumber: 2.5 Consensus size: 123
12918010 CCCCTCGTGT
* * * * *
12918020 CCGGGTATCATTCAATTGCTCATGCACACATAAATCAATAATCATTACACATCCATATTTCATTT
1 CCGGGTACCATTCAAATACTCATACACACATATATCAATAATCATTACACATCCATATTTCATTT
*
12918085 TCGTTACTAAGGCTCCAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGC
66 TCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGC
12918143 CCGGGTACCATTCAAATACTCATACACACATATATCAATAATCATTACACATCCATATTTCATTT
1 CCGGGTACCATTCAAATACTCATACACACATATATCAATAATCATTACACATCCATATTTCATTT
12918208 TCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGC
66 TCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGC
*
12918266 CCGGGTACCATTCAAATACTCATACACACATATGTCAATAATCATTACACATCCATATTTCATTT
1 CCGGGTACCATTCAAATACTCATACACACATATATCAATAATCATTACACATCCATATTTCATTT
12918331 CACATAATTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 181 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (123 bp):
CCGGGTACCATTCAAATACTCATACACACATATATCAATAATCATTACACATCCATATTTCATTT
TCGTTACTAAGGCTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGC
Found at i:12922988 original size:40 final size:40
Alignment explanation
Indices: 12922933--12923100 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
12922923 TGAATGATAC
* *
12922933 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
12922973 CCGGGCTAAGACCCGAAGGCATTCGTG-TGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATTATAT
* * ** *
12923013 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
12923053 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
12923093 CC-GGCTAA
1 CCGGGCTAA
12923101 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 7 0.07
40 96 0.91
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:12924644 original size:46 final size:48
Alignment explanation
Indices: 12924495--12924810 Score: 187
Period size: 46 Copynumber: 6.7 Consensus size: 48
12924485 TTTGTGCGCT
* * * *
12924495 AGTGTAAGA-CATGTCAGGGACATGCATC-AGCCAC-ATTAT-TAGATCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGA-CCTCGA-GATGTAGAGCC
* * * *
12924541 AGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGTAGAGCC
*
12924589 AGCGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAGAGCC
** * *
12924635 AGTGTAAGA-CATGTCTAAGACATGCAT--ATGCTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGA-CCT-CGAGATGTAGAGCC
* * * * *
12924679 AGGGTAAGACCATGTCTGGGACATGGCATCGGAAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GACCTCGAGATGT-AGAGCC
* * * * * **
12924729 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCAC-A-ATTTTGATAATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGA-TGT-AGAGCC
12924778 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGAC
12924811 TTGATGGATG
Statistics
Matches: 213, Mismatches: 38, Indels: 35
0.74 0.13 0.12
Matches are distributed among these distances:
44 11 0.05
45 14 0.07
46 68 0.32
47 28 0.13
48 21 0.10
49 42 0.20
50 29 0.14
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAGAGCC
Found at i:12924801 original size:49 final size:49
Alignment explanation
Indices: 12924677--12924808 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
12924667 ACGAGATGTG
* * *
12924677 TCAGGGTAAGACCATGTCTGGGACATGGCATCGGAACGGATATGTGAGA
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGAACGAATATGTGAAA
* * * *
12924726 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCAC-AAT-TTTGATAA
1 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGG-AACGAATATGTGA-AA
12924776 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
12924809 ACTTGATGGA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 35 0.49
50 34 0.48
51 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
TCAGTGTAAGACCATGTCTGGGACATGGCATCGGAACGAATATGTGAAA
Found at i:12927674 original size:71 final size:70
Alignment explanation
Indices: 12927590--12927752 Score: 308
Period size: 71 Copynumber: 2.3 Consensus size: 70
12927580 CGATTTGTCT
12927590 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGA-CCAGCTACATTTAT
12927655 CTTTCA
65 CTTTCA
*
12927661 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
12927726 TTTCA
66 TTTCA
12927731 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
12927753 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 42 0.46
71 49 0.54
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCAGCTACATTTATC
TTTCA
Found at i:12929123 original size:45 final size:45
Alignment explanation
Indices: 12929045--12929170 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 45
12929035 GGTTGTCACA
* *
12929045 CAACATCCCAGACGTGGTCTT-CAAC-AAATACACATATATCGATGC
1 CAACGTCCCAGACGTGGTCTTAC-ACGAAA-ACACATATATCGACGC
*
12929090 CAACGTCCCAGACATGGTCTTACACGAAAACACATATATCGACGC
1 CAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGACGC
* *
12929135 CAACGTCCCAAATGTGGTCTTACACGAAAACACATA
1 CAACGTCCCAGACGTGGTCTTACACGAAAACACATA
12929171 GCATAGTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 69 0.95
46 4 0.05
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (45 bp):
CAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGACGC
Found at i:12930711 original size:22 final size:25
Alignment explanation
Indices: 12930685--12930739 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
12930675 TTATTTACTG
* *
12930685 TATTATT-GATAT-T-TGAAATTTT
1 TATTATTAGATATATATAAAATTAT
12930707 TATTATTAGATATATATAAAATTAT
1 TATTATTAGATATATATAAAATTAT
12930732 TATTATTA
1 TATTATTA
12930740 TCGGAAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 1 0.04
25 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (25 bp):
TATTATTAGATATATATAAAATTAT
Found at i:12934343 original size:27 final size:26
Alignment explanation
Indices: 12934299--12934350 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12934289 CTCGCTGCAA
*
12934299 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
12934326 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
12934351 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:12935812 original size:14 final size:15
Alignment explanation
Indices: 12935795--12935823 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12935785 ACACGAAAAT
12935795 TTCACACA-AATAAA
1 TTCACACATAATAAA
12935809 TTCACACATAATAAA
1 TTCACACATAATAAA
12935824 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:12935850 original size:27 final size:27
Alignment explanation
Indices: 12935802--12935874 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
12935792 AATTTCACAC
* * *
12935802 AAATAAATTCACACATAATAAACATAGA
1 AAATAATTTCA-AAATATTAAACATAGA
12935830 AAATAATTTCAAAATATTAAACATAGA
1 AAATAATTTCAAAATATTAAACATAGA
12935857 AAATAATTTCAAAATATT
1 AAATAATTTCAAAATATT
12935875 CTTCTAACTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 32 0.76
28 10 0.24
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (27 bp):
AAATAATTTCAAAATATTAAACATAGA
Found at i:12937150 original size:21 final size:20
Alignment explanation
Indices: 12937126--12937176 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
12937116 CCACACAAGA
*
12937126 GTGTTGTCCTTTCACACGAGC
1 GTGTTGCCCTTTCACAC-AGC
*
12937147 GTGTTGCCCTTTTACACAGGC
1 GTGTTGCCCTTTCACACA-GC
12937168 GTG-TGCCCT
1 GTGTTGCCCT
12937177 GTTTCAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.12, C:0.29, G:0.25, T:0.33
Consensus pattern (20 bp):
GTGTTGCCCTTTCACACAGC
Found at i:12940379 original size:30 final size:29
Alignment explanation
Indices: 12940285--12940386 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
12940275 TATAGTGAAT
* * *
12940285 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
12940314 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
12940342 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
12940372 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
12940387 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:12947817 original size:46 final size:47
Alignment explanation
Indices: 12947671--12947931 Score: 202
Period size: 46 Copynumber: 5.6 Consensus size: 47
12947661 TTATTTATGC
* *
12947671 GCCAGTGTAAGACATGTCTGGGACATG-ATCGGCCAC-ATTAT-TAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGA
* * *
12947716 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGA
* *
12947764 GCTAGTGTAAGACATG-CTTGGGACATGCATCGACCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTC-TGGGACATGCATCGGCCTCGAGATGTAGA
* * *
12947810 GCCAGTGTAAGATATGTCTGGGATACGCATCGG-CTACGAGATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGA
* * * * *
12947854 GTCAATGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-AGA
* *
12947904 GCTAGTGTAAGACATTGTCTGGAACATG
1 GCCAGTGTAAGACA-TGTCTGGGACATG
12947932 ACGTCAACCT
Statistics
Matches: 170, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.06
45 24 0.14
46 76 0.45
47 15 0.09
48 22 0.13
49 4 0.02
50 19 0.11
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
Found at i:12948155 original size:26 final size:26
Alignment explanation
Indices: 12948126--12948180 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
12948116 AACGAGAAAA
12948126 GTATAACAATGTTTTAAGTGGTACAG
1 GTATAACAATGTTTTAAGTGGTACAG
*
12948152 GTATAATAATGTTTTAAGTGGTACAG
1 GTATAACAATGTTTTAAGTGGTACAG
12948178 GTA
1 GTA
12948181 CCTATTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
GTATAACAATGTTTTAAGTGGTACAG
Found at i:12951316 original size:13 final size:13
Alignment explanation
Indices: 12951298--12951322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12951288 ACAAACAATA
12951298 AAATTTTCACACG
1 AAATTTTCACACG
12951311 AAATTTTCACAC
1 AAATTTTCACAC
12951323 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:12955765 original size:22 final size:22
Alignment explanation
Indices: 12955733--12955774 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12955723 CCCAAAAATT
12955733 TTTGAGCGTTGTTTGCTAAAAA
1 TTTGAGCGTTGTTTGCTAAAAA
* *
12955755 TTTGAGTGTTGTTTGGTAAA
1 TTTGAGCGTTGTTTGCTAAA
12955775 TTCTAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (22 bp):
TTTGAGCGTTGTTTGCTAAAAA
Found at i:12958587 original size:10 final size:10
Alignment explanation
Indices: 12958572--12958614 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
12958562 TGTGTGATCC
12958572 ATGTTTATGA
1 ATGTTTATGA
12958582 ATGTTTATGA
1 ATGTTTATGA
12958592 ATGGTTTTGTATGA
1 AT-G--TT-TATGA
12958606 ATGTTTATG
1 ATGTTTATG
12958615 TTTGAGTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 16 0.55
11 3 0.10
13 3 0.10
14 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (10 bp):
ATGTTTATGA
Found at i:12963120 original size:40 final size:40
Alignment explanation
Indices: 12963034--12963288 Score: 338
Period size: 40 Copynumber: 6.4 Consensus size: 40
12963024 AAGCCAAGTA
* * * *
12963034 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCAAA-G
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
12963072 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
12963112 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
12963152 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
12963192 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
12963232 CCTTCGGGACTTAGCCCGGA-ACCAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
12963272 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
12963289 AGTTATCATC
Statistics
Matches: 193, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 19 0.10
40 162 0.84
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:12971218 original size:40 final size:40
Alignment explanation
Indices: 12971171--12971313 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
12971161 CTACTTGCTC
* *
12971171 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
12971211 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * * *
12971251 AATGCCTTCGAGACTTAGCCCGGA-ACCAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
12971291 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
12971314 TTATCATCCG
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:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:12975763 original size:43 final size:43
Alignment explanation
Indices: 12975627--12975765 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 43
12975617 TGTGTTATCG
* * * * * *
12975627 TGTAAGACTACGTCTCGGACATTGGCATCGAT-TTGTGACTTACG
1 TGTAAGACCATGTCTAGGACACTGGCATCAATATT-TGA-TTACA
* ** * *
12975671 TGTAAGACCATGTCTGGGACACTGGCAT-TGTATATGATTTCA
1 TGTAAGACCATGTCTAGGACACTGGCATCAATATTTGATTACA
* * *
12975713 TGTAAGACCCTGTGTAGGACAGTGGCATCAATATTTGATTACA
1 TGTAAGACCATGTCTAGGACACTGGCATCAATATTTGATTACA
12975756 TGTAAGACCA
1 TGTAAGACCA
12975766 CATCTGGGAC
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 27 0.36
43 23 0.31
44 25 0.33
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACACTGGCATCAATATTTGATTACA
Found at i:12975782 original size:43 final size:43
Alignment explanation
Indices: 12975627--12975783 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
12975617 TGTGTTATCG
* * * *
12975627 TGTAAGACTACGTCTCGGACATTGGCATCGAT-TTGTGACTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCAATATT-TGA-TTACA
* * ** * *
12975671 TGTAAGACCATGTCTGGGACACTGGCAT-TGTATATGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATTACA
* * *
12975713 TGTAAGACC-CTGTGTAGGACAGTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCAATATTTGATTACA
* *
12975756 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
12975784 TGTAGAGCTT
Statistics
Matches: 87, Mismatches: 22, Indels: 9
0.74 0.19 0.08
Matches are distributed among these distances:
42 26 0.30
43 35 0.40
44 26 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATTACA
Found at i:12976413 original size:43 final size:43
Alignment explanation
Indices: 12976352--12976438 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
12976342 AAATTGAAAG
12976352 TATGATTTATATGTTCACTGATAAATAAGCCCAATGAATTTAC
1 TATGATTTATATGTTCACTGATAAATAAGCCCAATGAATTTAC
12976395 TATGATTTATATGTTCACTGATAAATAAGCCCAATGAATTTAC
1 TATGATTTATATGTTCACTGATAAATAAGCCCAATGAATTTAC
12976438 T
1 T
12976439 TAAAATGGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (43 bp):
TATGATTTATATGTTCACTGATAAATAAGCCCAATGAATTTAC
Found at i:12978761 original size:168 final size:168
Alignment explanation
Indices: 12978483--12978818 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
12978473 TGCATACATG
12978483 AATGAATAGATAGCTTGGTGTTGCATGTATTCGGTCATAACGGTGCACATGAGGAAATGTTAGAT
1 AATGAATAGATAGCTTGGTGTTGCATGTATTCGGTCATAACGGTGCACATGAGGAAATGTTAGAT
12978548 TAATTGTATTAAATTGCTCAATGTGATTAAAAATGCGTATGACCATTTTGTGTTTGAACTAAAGG
66 TAATTGTATTAAATTGCTCAATGTGATTAAAAATGCGTATGACCATTTTGTGTTTGAACTAAAGG
12978613 TGGCCATATGACCTATCAAACTCCTTGTCATATTCGGC
131 TGGCCATATGACCTATCAAACTCCTTGTCATATTCGGC
12978651 AATGAATAGATAGCTTGGTGTTGCATGTATTCGGTCATAACGGTGCACATGAGGAAATGTTAGAT
1 AATGAATAGATAGCTTGGTGTTGCATGTATTCGGTCATAACGGTGCACATGAGGAAATGTTAGAT
12978716 TAATTGTATTAAATTGCTCAATGTGATTAAAAATGCGTATGACCATTTTGTGTTTGAACTAAAGG
66 TAATTGTATTAAATTGCTCAATGTGATTAAAAATGCGTATGACCATTTTGTGTTTGAACTAAAGG
12978781 TGGCCATATGACCTATCAAACTCCTTGTCATATTCGGC
131 TGGCCATATGACCTATCAAACTCCTTGTCATATTCGGC
12978819 CATAAGCTAG
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (168 bp):
AATGAATAGATAGCTTGGTGTTGCATGTATTCGGTCATAACGGTGCACATGAGGAAATGTTAGAT
TAATTGTATTAAATTGCTCAATGTGATTAAAAATGCGTATGACCATTTTGTGTTTGAACTAAAGG
TGGCCATATGACCTATCAAACTCCTTGTCATATTCGGC
Found at i:12980006 original size:47 final size:47
Alignment explanation
Indices: 12979952--12980499 Score: 925
Period size: 47 Copynumber: 11.6 Consensus size: 47
12979942 TATTTGAATA
*
12979952 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12979999 AATGTGAAAGTGTATATATGTTATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
12980046 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
12980093 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
12980140 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
12980187 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
12980236 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12980283 AATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
12980330 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
12980379 AATGTGAAAGTGTATATATGTGATAAAGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
12980426 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
12980473 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
12980500 TCCCGAAGGG
Statistics
Matches: 478, Mismatches: 19, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
47 386 0.81
49 92 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:12980250 original size:143 final size:143
Alignment explanation
Indices: 12979952--12980499 Score: 942
Period size: 143 Copynumber: 3.9 Consensus size: 143
12979942 TATTTGAATA
*
12979952 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
12980017 TGTTATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
12980080 GGCCGATGTGATG
131 GGCCGATGTGATG
12980093 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
12980158 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
12980223 GGCCGATGTGATG
131 GGCCGATGTGATG
12980236 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
12980301 TGTGACAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
12980366 GGCCGATGTGATG
131 GGCCGATGTGATG
* * *
12980379 AATGTGAAAGTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
12980444 TGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
12980500 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 113 0.29
142 1 0.00
143 275 0.71
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:12983055 original size:48 final size:48
Alignment explanation
Indices: 12982979--12983121 Score: 214
Period size: 48 Copynumber: 3.0 Consensus size: 48
12982969 GGGTTATGTT
* *
12982979 TGATCCCATGTAAAACCATGTCTAGGACATGGCATTGGCATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
* * *
12983027 TGATCCCATGTAAGACCACGTCTGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
* * *
12983075 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCTATAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATAT
12983122 AAGACATCGT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
Found at i:12989809 original size:31 final size:31
Alignment explanation
Indices: 12989774--12989837 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
12989764 TAAGGAAGAT
12989774 AGCACTTTGACTGTCACAAAATACTGTACTA
1 AGCACTTTGACTGTCACAAAATACTGTACTA
12989805 AGCACTTTGACTGTCACAAAATACTGTACTA
1 AGCACTTTGACTGTCACAAAATACTGTACTA
12989836 AG
1 AG
12989838 TTGAAGGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (31 bp):
AGCACTTTGACTGTCACAAAATACTGTACTA
Found at i:12998533 original size:23 final size:23
Alignment explanation
Indices: 12998507--12998561 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
12998497 CTCATCTGCT
*
12998507 ACACACCATCTCCATCCATCCCA
1 ACACACCATCTCCAACCATCCCA
* *
12998530 ACACACCATCTCCAACCTTCTCA
1 ACACACCATCTCCAACCATCCCA
*
12998553 ACATACCAT
1 ACACACCAT
12998562 GTGGGATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (23 bp):
ACACACCATCTCCAACCATCCCA
Found at i:13015571 original size:7 final size:7
Alignment explanation
Indices: 13015561--13015592 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
13015551 AGTCATTTCA
13015561 TATTTAG
1 TATTTAG
13015568 TATTTAG
1 TATTTAG
13015575 TATTTAG
1 TATTTAG
13015582 TATTTAG
1 TATTTAG
13015589 TATT
1 TATT
13015593 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:13016125 original size:30 final size:30
Alignment explanation
Indices: 13016089--13016146 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13016079 TGATGGTACG
13016089 GGCCCATCAACAGTGCCCAAACAATCACTT
1 GGCCCATCAACAGTGCCCAAACAATCACTT
** *
13016119 GGCCCATTGACAGTGCCCACACAATCAC
1 GGCCCATCAACAGTGCCCAAACAATCAC
13016147 CGAGCCCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.16
Consensus pattern (30 bp):
GGCCCATCAACAGTGCCCAAACAATCACTT
Found at i:13016154 original size:30 final size:30
Alignment explanation
Indices: 13016089--13016154 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
13016079 TGATGGTACG
** *
13016089 GGCCCATCAACAGTGCCCAAACAATCACTT
1 GGCCCATTGACAGTGCCCAAACAATCACTC
*
13016119 GGCCCATTGACAGTGCCCACACAATCAC-C
1 GGCCCATTGACAGTGCCCAAACAATCACTC
13016148 GAGCCCA
1 G-GCCCA
13016155 ATGCCTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.14
Consensus pattern (30 bp):
GGCCCATTGACAGTGCCCAAACAATCACTC
Found at i:13016521 original size:21 final size:21
Alignment explanation
Indices: 13016497--13016537 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13016487 CCCACAACCG
13016497 GAGCAACCACAACCCCAGCCA
1 GAGCAACCACAACCCCAGCCA
13016518 GAGCAACCACAACCCCAGCC
1 GAGCAACCACAACCCCAGCC
13016538 CGTAAGGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.49, G:0.15, T:0.00
Consensus pattern (21 bp):
GAGCAACCACAACCCCAGCCA
Found at i:13031761 original size:26 final size:26
Alignment explanation
Indices: 13031732--13031783 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13031722 TGACAATTAC
13031732 TTTAATTAAACTCAAATTATTATCAA
1 TTTAATTAAACTCAAATTATTATCAA
13031758 TTTAATTAAACTCAAATTATTATCAA
1 TTTAATTAAACTCAAATTATTATCAA
13031784 CATGCTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTAATTAAACTCAAATTATTATCAA
Found at i:13033538 original size:41 final size:41
Alignment explanation
Indices: 13033486--13033591 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
13033476 GATATATGTT
*
13033486 TTCGTGTAAGACCACGTCTGGGACA-TCGGCATC-TTATTTGA
1 TTCGTGTAAGACCACGTCTGGGACAGT-GGCATCAATA-TTGA
*
13033527 TCTCGTG-AAGACC-CTGTCTGAGACAGTGGCATCAATATTGA
1 T-TCGTGTAAGACCAC-GTCTGGGACAGTGGCATCAATATTGA
*
13033568 TTACATGTAAGACCACGTCTGGGA
1 TT-CGTGTAAGACCACGTCTGGGA
13033592 TGTTTGCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
40 2 0.04
41 30 0.56
42 21 0.39
43 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
TTCGTGTAAGACCACGTCTGGGACAGTGGCATCAATATTGA
Found at i:13034366 original size:21 final size:22
Alignment explanation
Indices: 13034335--13034375 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13034325 TATGTTTTGG
13034335 TATGTCTTTGACTTATGAATGT
1 TATGTCTTTGACTTATGAATGT
* *
13034357 TATGT-TTTGATTTGTGAAT
1 TATGTCTTTGACTTATGAAT
13034376 TATGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (22 bp):
TATGTCTTTGACTTATGAATGT
Found at i:13034774 original size:66 final size:65
Alignment explanation
Indices: 13034635--13034774 Score: 149
Period size: 66 Copynumber: 2.1 Consensus size: 65
13034625 GCGTGTGGTC
* * * **
13034635 AGCCGTGTGGCCAAGTCAATAGCCTCCCTAATTTTCACACGGCCTGGCAAACGGGCGTGTCTTGT
1 AGCCGTGTGGACAAGTCAATAGCATCCCTAATTTTCACACGGCCTGACAAACGGGCGTGTCTTAA
* * * * *
13034700 GGCCGTGTGGACAAGTCAATATGTATGCCCT-GTTTTGACACGGCCTAGACACACGGGCGTGTC-
1 AGCCGTGTGGACAAGTCAATA-GCAT-CCCTAATTTTCACACGGCCT-GACAAACGGGCGTGTCT
13034763 TAA
63 TAA
13034766 AGCCGTGTG
1 AGCCGTGTG
13034775 AGGCACACGG
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
65 19 0.31
66 24 0.39
67 18 0.30
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (65 bp):
AGCCGTGTGGACAAGTCAATAGCATCCCTAATTTTCACACGGCCTGACAAACGGGCGTGTCTTAA
Found at i:13036668 original size:95 final size:95
Alignment explanation
Indices: 13036490--13036765 Score: 340
Period size: 95 Copynumber: 2.9 Consensus size: 95
13036480 CTAGGGAGAT
* * * *
13036490 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATATGTGTCAATGTAAGACC
1 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCTTGATTTGTGTCAATGTAAGACC
* **
13036555 ATGACTGGGACACAGCATCGGCGC-CGATAG
66 ATGTCTGGGACATGGCATCGGC-CTCGATAG
* *
13036585 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGGGTCAGCTTGATTTGTGTCAGTGTAAGACC
1 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCTTGATTTGTGTCAATGTAAGACC
* * *
13036650 ATGTCTGAGACATGGCATCGGCCTTGATAT
66 ATGTCTGGGACATGGCATCGGCCTCGATAG
* * * * *
13036680 ACGAGAGTCAATGTAAGACCATGTCTGGGACATGGCGTC-GACTTTGATGTGTGAGCCAATGTAA
1 ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCAG-C-TTGAT-T-TGTGTCAATGTAA
13036744 GACCATGTCTGGGACATGGCAT
62 GACCATGTCTGGGACATGGCAT
13036766 TGGCACCTTA
Statistics
Matches: 156, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
94 2 0.01
95 117 0.75
96 5 0.03
97 1 0.01
98 31 0.20
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (95 bp):
ATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCTTGATTTGTGTCAATGTAAGACC
ATGTCTGGGACATGGCATCGGCCTCGATAG
Found at i:13036701 original size:50 final size:48
Alignment explanation
Indices: 13036487--13036765 Score: 241
Period size: 50 Copynumber: 5.9 Consensus size: 48
13036477 ATGCTAGGGA
* **
13036487 GATATGAGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATC-AACTT
1 GATATGAGAGTC-AATGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * ** *
13036534 GATAT--GTGTCAATGTAAGACCATGACTGGGACACAGCATCGGCGC-C
1 GATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGC-CTT
* * ** *
13036580 GATAGATGAGAGTTAGTGTAAGACCATGTCTGGGACATGGGGTCAG-CTT
1 GAT--ATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * * *
13036629 GAT-T-TGTGTCAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTT
1 GATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * *
13036675 GATATACGAGAGTCAATGTAAGACCATGTCTGGGACATGGCGTCGACTTT
1 GATAT--GAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTT
* * *
13036725 GATGTGTGAGCCAATGTAAGACCATGTCTGGGACATGGCAT
1 GATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCAT
13036766 TGGCACCTTA
Statistics
Matches: 183, Mismatches: 36, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
45 59 0.32
46 11 0.06
47 7 0.04
48 36 0.20
49 3 0.02
50 67 0.37
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GATATGAGAGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTT
Found at i:13040056 original size:46 final size:46
Alignment explanation
Indices: 13040003--13040126 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
13039993 TATGTGTACT
*
13040003 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC-CATTGAAGAGAGCC
* *
13040049 AGTGTAAGACATGTCTAGGACATGCATTGG--CATTGAGAAGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCCATT--GAAGAGAGCC
* *
13040095 AGTGTAAGACATGTATGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCC
13040127 TCGAGATATA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
43 4 0.06
46 63 0.94
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCCATTGAAGAGAGCC
Found at i:13040244 original size:49 final size:49
Alignment explanation
Indices: 13040186--13040358 Score: 181
Period size: 49 Copynumber: 3.6 Consensus size: 49
13040176 TATTGTGTGT
*
13040186 CAGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCGATAGATGAAAGC
* ** * * *
13040235 CAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * **
13040284 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* *
13040331 CAGTGTAAAACCATCTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
13040359 GTCGGCATCT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
47 15 0.14
48 15 0.14
49 76 0.72
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:13042264 original size:29 final size:29
Alignment explanation
Indices: 13042222--13042280 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13042212 CATAAAATAG
13042222 AATGTGTACATGGCATAATGAGCTTATCT
1 AATGTGTACATGGCATAATGAGCTTATCT
13042251 AATGTGTACATGGCATAATGAGCTTATCT
1 AATGTGTACATGGCATAATGAGCTTATCT
13042280 A
1 A
13042281 TGATTGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (29 bp):
AATGTGTACATGGCATAATGAGCTTATCT
Found at i:13044943 original size:25 final size:25
Alignment explanation
Indices: 13044913--13044961 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
13044903 TCAGGTACGT
13044913 TTGAAA-TTGTATATCATATTTGATG
1 TTGAAAGTT-TATATCATATTTGATG
13044938 TTGAAAGTTTATATCATATTTGAT
1 TTGAAAGTTTATATCATATTTGAT
13044962 CAAGTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (25 bp):
TTGAAAGTTTATATCATATTTGATG
Found at i:13051974 original size:42 final size:41
Alignment explanation
Indices: 13051891--13051989 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
13051881 GATATGTGTT
* * *
13051891 TTCGTGTAAGACCACGTCTGGGACATCGGCATCGTTTTTGA
1 TTCGTGTAAGACCACGTCTGGGACATCGGCATAGATATTGA
13051932 TCTCGTGTAAGACC-CTGTCTGGGACAGT-GGCATAGATATTGA
1 T-TCGTGTAAGACCAC-GTCTGGGACA-TCGGCATAGATATTGA
*
13051974 TTACATGTAAGACCAC
1 TT-CGTGTAAGACCAC
13051990 ACCTGGGATG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 3 0.06
42 44 0.90
43 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
TTCGTGTAAGACCACGTCTGGGACATCGGCATAGATATTGA
Found at i:13063722 original size:21 final size:22
Alignment explanation
Indices: 13063691--13063731 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13063681 TATGTTTTGG
13063691 TATGTCTTTGACTTATGAATGT
1 TATGTCTTTGACTTATGAATGT
* *
13063713 TATGT-TTTGATTTGTGAAT
1 TATGTCTTTGACTTATGAAT
13063732 TATGAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (22 bp):
TATGTCTTTGACTTATGAATGT
Found at i:13064760 original size:126 final size:127
Alignment explanation
Indices: 13064535--13065028 Score: 681
Period size: 126 Copynumber: 3.9 Consensus size: 127
13064525 CAATTATAGA
* * *
13064535 AAAAGAGCGTCCACGTGGGAGCTTTTTTT-AAAAATTTTGATGACATTGCATCCTGCTTGAAGCG
1 AAAAGAGCGTCCACGTGGTAGCTTTTTTTCAGAAATTTTGATGACATTGCATCCTGCTTGAAGCA
* * *
13064599 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTAGGAACTACTGCAGT
66 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
* *
13064661 AAAAGAGCGTCCACGTGAG-AGC-TTTTTTCAGAAATTTTGATGACATTGCATCTTACTTGAAGC
1 AAAAGAGCGTCCACGTG-GTAGCTTTTTTTCAGAAATTTTGATGACATTGCATCCTGCTTGAAGC
*
13064724 ATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCGGGAACTACTGTAGC
65 ATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
* * * * * * * * *
13064787 AAAAAAGTGTCCACGTGGTAGCTTTTTTTCTGTATTTTTGCTGACAATGCATCATGCTTGAAGCG
1 AAAAGAGCGTCCACGTGGTAGCTTTTTTTCAGAAATTTTGATGACATTGCATCCTGCTTGAAGCA
*
13064852 TTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAGGAACTACTGTAGC
66 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
* * * * * * *
13064913 AAAAGAGCATCCACGTGGTAGCCTTTTTTTCTGTATTTTTGCTGACAGTGCATCCTGCTTGAGGC
1 AAAAGAGCGTCCACGTGGTAG-CTTTTTTTCAGAAATTTTGATGACATTGCATCCTGCTTGAAGC
* * *
13064978 ATTTTTTACACTATTTGTTCAAAAACGTCTTCTCAAAATTATCTTTTCAGG
65 ATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
13065029 GTAAAAATAG
Statistics
Matches: 331, Mismatches: 31, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
125 7 0.02
126 165 0.50
127 151 0.46
128 8 0.02
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (127 bp):
AAAAGAGCGTCCACGTGGTAGCTTTTTTTCAGAAATTTTGATGACATTGCATCCTGCTTGAAGCA
TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGC
Found at i:13064941 original size:253 final size:254
Alignment explanation
Indices: 13064534--13065025 Score: 704
Period size: 254 Copynumber: 1.9 Consensus size: 254
13064524 ACAATTATAG
* *
13064534 AAAAAGAGCGTCCACGTGGGAGCTTTTTTTAAAAATTTTGATGACATTGCATCCTGCTTGAAGCG
1 AAAAAGAGCGTCCACGTGGGAGCTTTTTTTAAAAATTTTGATGACAATGCATCATGCTTGAAGCG
* * *
13064599 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTAGGAACTACTGCAGTAAA
66 TTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGCAGCAAA
* * *
13064664 AGAGCGTCCACGTGAGAGC-TTTTTTCAGAAATTTTGATGACATTGCATCTTACTTGAAGCATTT
131 AGAGCATCCACGTGAGAGCTTTTTTTCAGAAATTTTGATGACAGTGCATCCTACTTGAAGCATTT
* *
13064728 TTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCGGGAACTACTGTAGC
196 TTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATCTTTTCGGGAACTACTGTAGC
* * *** * *
13064787 AAAAA-AGTGTCCACGTGGTAGCTTTTTTTCTGTATTTTTGCTGACAATGCATCATGCTTGAAGC
1 AAAAAGAGCGTCCACGTGGGAGCTTTTTTT-AAAAATTTTGATGACAATGCATCATGCTTGAAGC
*
13064851 GTTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAGGAACTACTGTAGCAA
65 GTTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGCAGCAA
* * * * * *
13064915 AAGAGCATCCACGTG-GTAGCCTTTTTTTCTGTATTTTTGCTGACAGTGCATCCTGCTTGAGGCA
130 AAGAGCATCCACGTGAG-AG-CTTTTTTTCAGAAATTTTGATGACAGTGCATCCTACTTGAAGCA
*
13064979 TTTTTTACACTATTTGTTCAAAAACGTCTTCTCAAAATTATCTTTTC
193 TTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATCTTTTC
13065026 AGGGTAAAAA
Statistics
Matches: 210, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
251 1 0.00
252 58 0.28
253 73 0.35
254 78 0.37
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (254 bp):
AAAAAGAGCGTCCACGTGGGAGCTTTTTTTAAAAATTTTGATGACAATGCATCATGCTTGAAGCG
TTTTTGACACAATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGCAGCAAA
AGAGCATCCACGTGAGAGCTTTTTTTCAGAAATTTTGATGACAGTGCATCCTACTTGAAGCATTT
TTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATCTTTTCGGGAACTACTGTAGC
Found at i:13065183 original size:34 final size:32
Alignment explanation
Indices: 13065135--13065736 Score: 174
Period size: 34 Copynumber: 19.0 Consensus size: 32
13065125 AGACCCTAAT
* * *
13065135 TTAATTTATCTAAAACCTTAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
* *
13065168 CTTAATCTATTTAAAAACCATAAACCCGTAGAATCCTAA
1 -TTAATCTATTT-AAAACCCTAAACCC-T--AAT--TTA
* *
13065207 TTTAAT-TAATTT-TAACCCAAAACCCTAA--T-
1 -TTAATCT-ATTTAAAACCCTAAACCCTAATTTA
* * *
13065236 TTAATGTATCTAAAACCCTAGAACCTTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
*
13065269 CTTAATCTATTTAAAAACCCTAAACCTTAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
* * * *
13065300 TTAATTTATCTAACACCCTAGAACCTTAATTTAA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTT-A
13065334 TTAA--T-TTT--AACCC-AAACCCTAATTTA
1 TTAATCTATTTAAAACCCTAAACCCTAATTTA
*
13065360 --AATC-ATCTAAAACCCTAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
13065390 CTTAATCTATTTAAAAACCCTAAACCCTAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
* * * *
13065421 TTAATTTATCTAAAACTCTAGAACCTTAATTTAA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTT-A
*
13065455 TTAA--T-TCT--AACCC-AAACCCTAATTTAA
1 TTAATCTATTTAAAACCCTAAACCCTAATTT-A
* ** * ** * *
13065482 TTTATCTTAATTTAATTAA-TTTTAACCGAAACACTAA
1 TTAATC-T-ATTTAA--AACCCTAAACC-CTA-ATTTA
* * *
13065519 CTTAATTTATCTAAGACCCTAGAACCCTAATTTA
1 -TTAATCTATTTAAAACCCTA-AACCCTAATTTA
* *
13065553 CTTAATCTATTTAAAAACCATAAACCATAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
*
13065584 TTAATTTATTT-------TAAACCCTAA--T-
1 TTAATCTATTTAAAACCCTAAACCCTAATTTA
* *
13065606 TTAATTTATCTAAAACCCTAAAACCCTAATTTA
1 TTAATCTATTTAAAACCCT-AAACCCTAATTTA
* * *
13065639 CTTAATCTATTTAAAAAACATAAACCATAA--T-
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
*
13065670 TTAATTTATTTAAAACCCTAGAACCCTAATTTA
1 TTAATCTATTTAAAACCCTA-AACCCTAATTTA
* * *
13065703 CTTAATCTATTTAAAAATCATAAACTCTAATTTA
1 -TTAATCTATTT-AAAACCCTAAACCCTAATTTA
13065737 AATATTTTTT
Statistics
Matches: 426, Mismatches: 70, Indels: 144
0.67 0.11 0.22
Matches are distributed among these distances:
22 20 0.05
24 2 0.00
26 3 0.01
27 25 0.06
28 15 0.04
29 40 0.09
30 89 0.21
31 5 0.01
32 13 0.03
33 4 0.01
34 111 0.26
35 49 0.12
36 16 0.04
37 16 0.04
38 7 0.02
39 11 0.03
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.37
Consensus pattern (32 bp):
TTAATCTATTTAAAACCCTAAACCCTAATTTA
Found at i:13065268 original size:30 final size:29
Alignment explanation
Indices: 13065189--13065488 Score: 190
Period size: 30 Copynumber: 10.0 Consensus size: 29
13065179 TAAAAACCAT
* *
13065189 AAACCCGTAGAATCCTAATTTAATTAAT-TT
1 AAACCC-TAGAACCCTAATTTAATT-ATCTA
* *
13065219 TAACCC-AAAACCCTAATTTAATGTATCTA
1 AAACCCTAGAACCCTAATTTAAT-TATCTA
* *
13065248 AAACCCTAGAACCTTAATTTACTTAATCTATTTAA
1 AAACCCTAGAACCCTAA--T--TTAAT-TATCT-A
*
13065283 AAACCCTA-AACCTTAATTTAATTTATCTA
1 AAACCCTAGAACCCTAATTTAA-TTATCTA
* * *
13065312 ACACCCTAGAACCTTAATTTAATTAAT-TT
1 AAACCCTAGAACCCTAATTTAATT-ATCTA
* *
13065341 TAACCC-A-AACCCTAATTTAAATCATCTA
1 AAACCCTAGAACCCTAATTT-AATTATCTA
*
13065369 AAACCCTAGAACCCTAATTTACTTAATCTATTTAA
1 AAACCCTAGAACCCTAA--T--TTAAT-TATCT-A
13065404 AAACCCTA-AACCCTAATTTAATTTATCTA
1 AAACCCTAGAACCCTAATTTAA-TTATCTA
* *
13065433 AAACTCTAGAACCTTAATTTAATTAATTCT-
1 AAACCCTAGAACCCTAATTTAATT-A-TCTA
13065463 -AACCC-A-AACCCTAATTTAATTTATCT
1 AAACCCTAGAACCCTAATTTAA-TTATCT
13065489 TAATTTAATT
Statistics
Matches: 219, Mismatches: 25, Indels: 56
0.73 0.08 0.19
Matches are distributed among these distances:
26 3 0.01
27 25 0.11
28 29 0.13
29 37 0.17
30 65 0.30
31 5 0.02
32 4 0.02
33 3 0.01
34 30 0.14
35 18 0.08
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.35
Consensus pattern (29 bp):
AAACCCTAGAACCCTAATTTAATTATCTA
Found at i:13065294 original size:64 final size:63
Alignment explanation
Indices: 13065189--13065737 Score: 364
Period size: 64 Copynumber: 8.9 Consensus size: 63
13065179 TAAAAACCAT
* * * *
13065189 AAACCCGTAGAATCCTAATTTAATTAA--T-TTT--AACCCAAAACCCTAATTTAATGTATCTA
1 AAACCC-TAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATCTA
* *
13065248 AAACCCTAGAACCTTAATTTACTTAATCTATTTAAAAACCCTAAACCTTAATTTAATTTATCTA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAATTTATCTA
* * * * *
13065312 ACACCCTAGAACCTTAATTTAATTAA--T-TTT--AACCC-AAACCCTAATTTAAATCATCTA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATCTA
13065369 AAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAATTTATCTA
* * * *
13065433 AAACTCTAGAACCTTAATTTAATTAA--T-TCT--AACCC-AAACCCTAATTTAATTTATCTTA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATC-TA
*** ** ** * * * * *
13065491 ATTTAATTAATTTTAACCGAAACACTAACTTAATTTATCTAAGACCCTAGAACCCTAATTTACTT
1 A---AA--CCCTAGAACC-CTA-ATTTACTTAATCTATTTAAAACCCTA-AACCCTAA--T--TT
* *
13065556 AATCTATTTAA
54 AATTTATCT-A
* * *
13065567 AAACCATA-AACCATAA--T--TTAATTTATTT-------TAAACCCTAATTTAATTTATCTA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATCTA
* * * * *
13065618 AAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCATAATTTAATTTATTTA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAATTTATCTA
* * *
13065682 AAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAATCATAAACTCTAATTTAA
1 AAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAACCCTAAACCCTAATTTAA
13065738 ATATTTTTTA
Statistics
Matches: 393, Mismatches: 51, Indels: 87
0.74 0.10 0.16
Matches are distributed among these distances:
51 8 0.02
52 16 0.04
54 2 0.01
56 18 0.05
57 64 0.16
58 30 0.08
59 7 0.02
60 4 0.01
61 10 0.03
62 2 0.01
63 10 0.03
64 176 0.45
65 7 0.02
67 1 0.00
68 4 0.01
69 2 0.01
70 8 0.02
71 2 0.01
72 8 0.02
73 2 0.01
74 1 0.00
75 1 0.00
76 10 0.03
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (63 bp):
AAACCCTAGAACCCTAATTTACTTAATCTATTTAAAACCCTAAACCCTAATTTAATTTATCTA
Found at i:13065387 original size:121 final size:121
Alignment explanation
Indices: 13065189--13065708 Score: 527
Period size: 121 Copynumber: 4.2 Consensus size: 121
13065179 TAAAAACCAT
13065189 AAACCCGTAGAATCC-TAATTTAATTAATTTTAACCCAAAACCCTAATTT-AATGTATCTAAAAC
1 AAACCC-TAGAA-CCTTAATTTAATTAATTTTAACCC-AAACCCTAATTTAAAT-TATCTAAAAC
* *
13065252 CCTAGAACCTTAATTTACTTAATCTATTTAAAAACCCTAAACCTTAATTTAATTTATCTA
62 CCTAGAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTA
* *
13065312 ACACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATCATCTAAAACCCTA
1 AAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATTATCTAAAACCCTA
13065377 GAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTA
66 GAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTA
* * *
13065433 AAACTCTAGAACCTTAATTTAATTAATTCTAACCCAAACCCTAATTTAATTTATCTTAATTTAAT
1 AAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATTATC-TAA---AA-
*** ** ** * * * * * *
13065498 TAATTTTAACCGAAACACTAACTTAATTTATCT-AAGACCCTAGAACCCTAATTTACTTAATCTA
61 -CCCTAGAACC-CTA-ATTTACTTAATCTATTTAAAAACCCTA-AACCCTAA--T--TTAATTTA
*
13065562 TTTAA
118 TCT-A
* * * *
13065567 AAACCATA-AACCATAATTTAATTTATTTT-----AAACCCTAATTTAATTTATCTAAAACCCTA
1 AAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATTATCTAAAACCCTA
* * * * *
13065626 AAACCCTAATTTACTTAATCTATTTAAAAAACATAAACCATAATTTAATTTATTTA
66 GAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTA
* *
13065682 AAACCCTAGAACCCTAATTTACTTAAT
1 AAACCCTAGAACCTTAATTTAATTAAT
13065709 CTATTTAAAA
Statistics
Matches: 331, Mismatches: 48, Indels: 43
0.78 0.11 0.10
Matches are distributed among these distances:
115 8 0.02
116 25 0.08
118 1 0.00
120 20 0.06
121 138 0.42
122 37 0.11
123 5 0.02
124 2 0.01
125 2 0.01
127 8 0.02
128 29 0.09
129 21 0.06
131 1 0.00
133 27 0.08
134 7 0.02
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.36
Consensus pattern (121 bp):
AAACCCTAGAACCTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATTATCTAAAACCCTA
GAACCCTAATTTACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTA
Found at i:13065492 original size:42 final size:42
Alignment explanation
Indices: 13065445--13065530 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
13065435 ACTCTAGAAC
* *
13065445 CTTAATTTAATTAATTCTAACCCAAACCCTAATTTAATTTAT
1 CTTAATTTAATTAATTCTAACCCAAACACTAACTTAATTTAT
* *
13065487 CTTAATTTAATTAATTTTAACCGAAACACTAACTTAATTTAT
1 CTTAATTTAATTAATTCTAACCCAAACACTAACTTAATTTAT
13065529 CT
1 CT
13065531 AAGACCCTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.43
Consensus pattern (42 bp):
CTTAATTTAATTAATTCTAACCCAAACACTAACTTAATTTAT
Found at i:13065506 original size:163 final size:156
Alignment explanation
Indices: 13065324--13065737 Score: 497
Period size: 163 Copynumber: 2.6 Consensus size: 156
13065314 ACCCTAGAAC
* *
13065324 CTTAATTTAATTAATTTTAACCCAAACCCTAATTTAAATCATCTAAAACCCTAGAACCCTAATTT
1 CTTAATTTAATTAATTTTAACCCAAACCCTAATTTAATTTATCTAAAACCCTAGAACCCTAATTT
* *
13065389 ACTTAATCTATTTAAAAACCCTAAACCCTAATTTAATTTATCTAAAACTCTAGAACCTTAATTTA
66 ACTTAATCTATTTAAAAACCATAAACCCTAATTTAATTTAT-T-----T-TA-AACCCTAATTTA
*
13065454 ATTAATTCT-AACCC-AAACCCTAATTTAATTTAT
123 ATTAA-TCTAAACCCAAAACCCTAATTTAATTAAT
* * * *
13065487 CTTAATTTAATTAATTTTAACCGAAACACTAACTTAATTTATCTAAGACCCTAGAACCCTAATTT
1 CTTAATTTAATTAATTTTAACCCAAACCCTAATTTAATTTATCTAAAACCCTAGAACCCTAATTT
* *
13065552 ACTTAATCTATTTAAAAACCATAAACCATAATTTAATTTATTTTAAACCCTAATTTAATTTATCT
66 ACTTAATCTATTTAAAAACCATAAACCCTAATTTAATTTATTTTAAACCCTAATTTAATTAATCT
*
13065617 AAAACCCTAAAACCCTAATTTACTTAAT
131 -AAACCC-AAAACCCTAATTTAATTAAT
** * *
13065645 C-T-ATTTAA--AA----AACATAAACCATAATTTAATTTATTTAAAACCCTAGAACCCTAATTT
1 CTTAATTTAATTAATTTTAACCCAAACCCTAATTTAATTTATCTAAAACCCTAGAACCCTAATTT
* *
13065702 ACTTAATCTATTTAAAAATCATAAACTCTAATTTAA
66 ACTTAATCTATTTAAAAACCATAAACCCTAATTTAA
13065738 ATATTTTTTA
Statistics
Matches: 225, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
150 73 0.32
154 5 0.02
155 15 0.07
156 13 0.06
157 2 0.01
158 18 0.08
162 1 0.00
163 98 0.44
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.37
Consensus pattern (156 bp):
CTTAATTTAATTAATTTTAACCCAAACCCTAATTTAATTTATCTAAAACCCTAGAACCCTAATTT
ACTTAATCTATTTAAAAACCATAAACCCTAATTTAATTTATTTTAAACCCTAATTTAATTAATCT
AAACCCAAAACCCTAATTTAATTAAT
Found at i:13065588 original size:30 final size:29
Alignment explanation
Indices: 13065554--13065737 Score: 103
Period size: 30 Copynumber: 6.1 Consensus size: 29
13065544 CCTAATTTAC
*
13065554 TTAATCTATTTAAAAACCATAAACCATAAT
1 TTAATCTATTT-AAAACCATAAACCCTAAT
*
13065584 TTAATTTATTT-------TAAACCCTAAT
1 TTAATCTATTTAAAACCATAAACCCTAAT
* * *
13065606 TTAATTTATCTAAAACCCTAAAACCCTAATTT
1 TTAATCTATTTAAAACCAT-AAACCCTAA--T
* *
13065638 ACTTAATCTATTTAAAAAACATAAACCATAAT
1 --TTAATCTATTT-AAAACCATAAACCCTAAT
* *
13065670 TTAATTTATTTAAAACCCTAGAACCCTAATTT
1 TTAATCTATTTAAAACCATA-AACCCTAA--T
* *
13065702 ACTTAATCTATTTAAAAATCATAAACTCTAAT
1 --TTAATCTATTT-AAAACCATAAACCCTAAT
13065734 TTAA
1 TTAA
13065738 ATATTTTTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
22 20 0.17
29 8 0.07
30 40 0.34
32 4 0.03
34 34 0.29
35 13 0.11
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.38
Consensus pattern (29 bp):
TTAATCTATTTAAAACCATAAACCCTAAT
Found at i:13065617 original size:86 final size:86
Alignment explanation
Indices: 13065510--13065689 Score: 306
Period size: 86 Copynumber: 2.1 Consensus size: 86
13065500 ATTTTAACCG
* * * *
13065510 AAACACTAACTTAATTTATCTAAGACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACCATA
1 AAACCCTAACTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACATA
*
13065575 AACCATAATTTAATTTATTTT
66 AACCATAATTTAATTTATTTA
*
13065596 AAACCCTAATTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACATA
1 AAACCCTAACTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACATA
13065661 AACCATAATTTAATTTATTTA
66 AACCATAATTTAATTTATTTA
13065682 AAACCCTA
1 AAACCCTA
13065690 GAACCCTAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (86 bp):
AAACCCTAACTTAATTTATCTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACATA
AACCATAATTTAATTTATTTA
Found at i:13065621 original size:22 final size:22
Alignment explanation
Indices: 13065574--13065626 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
13065564 TAAAAACCAT
* * *
13065574 AAACCATAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATCTA
13065596 AAACCCTAATTTAATTTATCTA
1 AAACCCTAATTTAATTTATCTA
13065618 AAACCCTAA
1 AAACCCTAA
13065627 AACCCTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATCTA
Found at i:13068576 original size:16 final size:17
Alignment explanation
Indices: 13068544--13068589 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
13068534 AACAAAAGAA
13068544 ATAAATTTAAATTTTAT
1 ATAAATTTAAATTTTAT
*
13068561 ATAAATTT-ATTTTTAT
1 ATAAATTTAAATTTTAT
*
13068577 ATTAATATTAAAT
1 ATAAAT-TTAAAT
13068590 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.50
17 10 0.42
18 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAAATTTAAATTTTAT
Found at i:13069185 original size:8 final size:8
Alignment explanation
Indices: 13069174--13069204 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
13069164 AATATTTATG
13069174 TATTTTTA
1 TATTTTTA
13069182 TATTTTTA
1 TATTTTTA
13069190 TATTTTTA
1 TATTTTTA
13069198 TATTTTT
1 TATTTTT
13069205 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTTA
Found at i:13069186 original size:16 final size:16
Alignment explanation
Indices: 13069165--13069202 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13069155 ATTTTAAAAA
*
13069165 ATATTTATGTATTTTT
1 ATATTTATATATTTTT
*
13069181 ATATTTTTATATTTTT
1 ATATTTATATATTTTT
13069197 ATATTT
1 ATATTT
13069203 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATATTTATATATTTTT
Found at i:13075490 original size:6 final size:6
Alignment explanation
Indices: 13075479--13075503 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13075469 ACAAATAAAC
13075479 GCCACA GCCACA GCCACA GCCACA G
1 GCCACA GCCACA GCCACA GCCACA G
13075504 GATCCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.48, G:0.20, T:0.00
Consensus pattern (6 bp):
GCCACA
Found at i:13075922 original size:22 final size:22
Alignment explanation
Indices: 13075894--13075942 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
13075884 GGATGAATTG
*
13075894 TTTTTTTTAAATCTTAATTGTA
1 TTTTTTTTAAAGCTTAATTGTA
13075916 TTTTTTTTAAAGCTTAATTGTA
1 TTTTTTTTAAAGCTTAATTGTA
13075938 TTTTT
1 TTTTT
13075943 ACTTTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTTTTTAAAGCTTAATTGTA
Found at i:13076412 original size:31 final size:31
Alignment explanation
Indices: 13076371--13076434 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
13076361 TTTTTTGTCC
13076371 AATTTCGTACCCAAACTTAACACTTTTTCTT
1 AATTTCGTACCCAAACTTAACACTTTTTCTT
* * * **
13076402 AATTTGGTACCTAAACTTGACTTTTTTTCTT
1 AATTTCGTACCCAAACTTAACACTTTTTCTT
13076433 AA
1 AA
13076435 GTTGATACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.45
Consensus pattern (31 bp):
AATTTCGTACCCAAACTTAACACTTTTTCTT
Found at i:13077619 original size:19 final size:19
Alignment explanation
Indices: 13077595--13077634 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13077585 ACCAATAAGT
13077595 GAGCGTATGTCACTTTTCA
1 GAGCGTATGTCACTTTTCA
13077614 GAGCGTATGTCACTTTTCA
1 GAGCGTATGTCACTTTTCA
13077633 GA
1 GA
13077635 AGTAGTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (19 bp):
GAGCGTATGTCACTTTTCA
Found at i:13078124 original size:29 final size:29
Alignment explanation
Indices: 13078082--13078144 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
13078072 CTGTGTGGGT
** *
13078082 ACACGGTTGTGTGGCTCACATGGTCTGGC
1 ACACGGTCATGTGGCTCACACGGTCTGGC
*
13078111 ACACGGTCATGTGGCTCATACGGTCTGGC
1 ACACGGTCATGTGGCTCACACGGTCTGGC
13078140 ACACG
1 ACACG
13078145 ACCGTCGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (29 bp):
ACACGGTCATGTGGCTCACACGGTCTGGC
Found at i:13079551 original size:46 final size:46
Alignment explanation
Indices: 13079484--13079609 Score: 200
Period size: 46 Copynumber: 2.7 Consensus size: 46
13079474 AACCCGCCCC
* *
13079484 TAAGTGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCA
*
13079530 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
*
13079576 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13079610 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 74 0.97
47 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
Found at i:13079628 original size:46 final size:45
Alignment explanation
Indices: 13079486--13079628 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
13079476 CCCGCCCCTA
* * *
13079486 AGTGAACTCAGACTCAACTCAACGAGCTC-GA-GCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC--TCACCATCC-T
*** *
13079531 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
13079577 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
13079624 AGTGA
1 AGTGA
13079629 CATGTCACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
46 77 0.91
47 3 0.04
48 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:13082614 original size:31 final size:31
Alignment explanation
Indices: 13082576--13082638 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
13082566 ACATACCAAG
13082576 TATACCAAGATAAGGCATATAAAGCCTTGGT
1 TATACCAAGATAAGGCATATAAAGCCTTGGT
13082607 TATACCAAGATAAGGCATATAAAGCCTTGGT
1 TATACCAAGATAAGGCATATAAAGCCTTGGT
13082638 T
1 T
13082639 GATGGTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (31 bp):
TATACCAAGATAAGGCATATAAAGCCTTGGT
Found at i:13084061 original size:5 final size:5
Alignment explanation
Indices: 13084053--13084077 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13084043 TTTTACTTTC
13084053 CATCA CATCA CATCA CATCA CATCA
1 CATCA CATCA CATCA CATCA CATCA
13084078 TCTGCCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CATCA
Found at i:13087736 original size:40 final size:40
Alignment explanation
Indices: 13087681--13087759 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
13087671 ATAGGTATAA
13087681 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAAT
1 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAAT
13087721 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAA
1 GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAA
13087760 CATCAAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (40 bp):
GTTTGATTCTCTTTCACGAAACCAGTTTTCCTCTCTAAAT
Found at i:13089569 original size:8 final size:9
Alignment explanation
Indices: 13089544--13089676 Score: 78
Period size: 9 Copynumber: 14.7 Consensus size: 9
13089534 ATTATTTTAG
13089544 AAAATTTTT
1 AAAATTTTT
13089553 AAAATTTTT
1 AAAATTTTT
13089562 AAAA-TTTT
1 AAAATTTTT
**
13089570 AATTTTTTT
1 AAAATTTTT
* *
13089579 ATATTTTTT
1 AAAATTTTT
*
13089588 AGAATTTTT
1 AAAATTTTT
13089597 ATAATATTTTT
1 A-AA-ATTTTT
* *
13089608 AAAA-ATAT
1 AAAATTTTT
13089616 AAAA--TTT
1 AAAATTTTT
*
13089623 GAAATTTTT
1 AAAATTTTT
13089632 ATAAATATTTT
1 A-AAAT-TTTT
* *
13089643 GAAA-TTTA
1 AAAATTTTT
13089651 AAAATTATTTT
1 AAAA-T-TTTT
*
13089662 AAAATTTTG
1 AAAATTTTT
13089671 AAAATT
1 AAAATT
13089677 ATTTTAATTT
Statistics
Matches: 97, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
7 5 0.05
8 18 0.19
9 45 0.46
10 11 0.11
11 18 0.19
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:13089606 original size:55 final size:54
Alignment explanation
Indices: 13089537--13089690 Score: 134
Period size: 55 Copynumber: 2.8 Consensus size: 54
13089527 TAAAATTATT
* *
13089537 ATTTTAGAAA-ATTTTTAAAATTTTTAAAATTTTAATTTTTTTATATTTTTTAGAA
1 ATTTTA-AAATATTTTTAAAATTTTTAAAATTTTAATTTTTTTAAATATTTT-GAA
* * * * * *
13089592 TTTTTATAATATTTTTAAAA-ATATAAAATTTGAAATTTTTATAAATATTTTGAA
1 ATTTTAAAATATTTTTAAAATTTTTAAAATTT-TAATTTTTTTAAATATTTTGAA
* *
13089646 ATTTAAAAAT-TATTTTAAAATTTTGAAAATTATTTTAATTTTTTT
1 ATTTTAAAATAT-TTTTAAAATTTT-TAAA--ATTTTAATTTTTTT
13089691 GCAATTTTTA
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
53 1 0.01
54 29 0.38
55 31 0.41
56 3 0.04
57 8 0.11
58 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (54 bp):
ATTTTAAAATATTTTTAAAATTTTTAAAATTTTAATTTTTTTAAATATTTTGAA
Found at i:13089676 original size:20 final size:20
Alignment explanation
Indices: 13089628--13089683 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
13089618 AATTTGAAAT
* *
13089628 TTTTATAAA-TATTTTGAAA
1 TTTTAAAAATTATTTTAAAA
13089647 -TTTAAAAATTATTTTAAAA
1 TTTTAAAAATTATTTTAAAA
*
13089666 TTTTGAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
13089684 TTTTTTTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.22
19 9 0.28
20 16 0.50
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATTATTTTAAAA
Found at i:13090292 original size:6 final size:6
Alignment explanation
Indices: 13090275--13090303 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
13090265 ATTGTAGGTG
13090275 AAAATT -AAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
13090304 TTATGCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAAATT
Found at i:13095097 original size:18 final size:18
Alignment explanation
Indices: 13095074--13095117 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
13095064 AGGGTTAACT
13095074 GAAAGTGACAGACAAATA
1 GAAAGTGACAGACAAATA
13095092 GAAAGTGACAGACAAATA
1 GAAAGTGACAGACAAATA
13095110 GAAAGTGA
1 GAAAGTGA
13095118 GTTTTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.11
Consensus pattern (18 bp):
GAAAGTGACAGACAAATA
Found at i:13097479 original size:16 final size:16
Alignment explanation
Indices: 13097458--13097491 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13097448 GATGGATAAA
13097458 GGATGTCAATTGGCAT
1 GGATGTCAATTGGCAT
13097474 GGATGTCAATTGGCAT
1 GGATGTCAATTGGCAT
13097490 GG
1 GG
13097492 TCATAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (16 bp):
GGATGTCAATTGGCAT
Found at i:13098626 original size:18 final size:19
Alignment explanation
Indices: 13098603--13098642 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
13098593 GAGATAAACT
*
13098603 AATTAATTAATT-TATCAA
1 AATTAATTAATTAAATCAA
13098621 AATTAATTAATTAAATCAA
1 AATTAATTAATTAAATCAA
13098640 AAT
1 AAT
13098643 AAAACCATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAATTAATTAAATCAA
Found at i:13098875 original size:3 final size:3
Alignment explanation
Indices: 13098869--13098914 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13098859 TTTAGGGGTT
13098869 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13098915 GGTATTTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13100219 original size:15 final size:16
Alignment explanation
Indices: 13100186--13100219 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13100176 AAAATATTTG
13100186 AAAATAATTTCATGAA
1 AAAATAATTTCATGAA
* *
13100202 AAAATGATTTCGTGAA
1 AAAATAATTTCATGAA
13100218 AA
1 AA
13100220 CGGCTCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAATAATTTCATGAA
Found at i:13102903 original size:2 final size:2
Alignment explanation
Indices: 13102896--13102937 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13102886 ACCACTTAAT
13102896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13102938 AAGCTAGCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13105057 original size:19 final size:19
Alignment explanation
Indices: 13105029--13105066 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13105019 GCCTCAAAGC
*
13105029 TTCCAGGAATCTATTTTTT
1 TTCCAAGAATCTATTTTTT
13105048 TTCCAAGAATCTATTTTTT
1 TTCCAAGAATCTATTTTTT
13105067 CCAACAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.53
Consensus pattern (19 bp):
TTCCAAGAATCTATTTTTT
Found at i:13105066 original size:17 final size:18
Alignment explanation
Indices: 13105029--13105075 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
13105019 GCCTCAAAGC
*
13105029 TTCCAGGAATCTATTTTTT
1 TTCCAAGAATCTA-TTTTT
13105048 TTCCAAGAATCTA-TTTT
1 TTCCAAGAATCTATTTTT
*
13105065 TTCCAACAATC
1 TTCCAAGAATC
13105076 CCCCACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 14 0.54
19 12 0.46
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (18 bp):
TTCCAAGAATCTATTTTT
Found at i:13108165 original size:56 final size:56
Alignment explanation
Indices: 13108101--13108223 Score: 210
Period size: 56 Copynumber: 2.2 Consensus size: 56
13108091 AGGAATATGC
*
13108101 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATGTCTGAGCCTACCATG
1 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATATCTGAGCCTACCATG
*
13108157 TCTAAATTAATTAATCTGCATAAAATATCATAATTAACATATCTGAGCCTACCATG
1 TCTAAATTAATTAATCTACATAAAATATCATAATTAACATATCTGAGCCTACCATG
*
13108213 CCATAAATTAA
1 TC-TAAATTAA
13108224 ATGACTTAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
56 55 0.87
57 8 0.13
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (56 bp):
TCTAAATTAATTAATCTACATAAAATATCATAATTAACATATCTGAGCCTACCATG
Found at i:13109971 original size:78 final size:77
Alignment explanation
Indices: 13109798--13110012 Score: 283
Period size: 78 Copynumber: 2.8 Consensus size: 77
13109788 ACAGAAGTCG
* * * * * * *
13109798 AACAAATCCTGCTAAATGAAAGGAATAAAATCTTGAAACATAATTATTCAATTGA-TTTTGTTTG
1 AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACAAAATTGTTCAGTTGATTTTTGTTTG
*
13109862 AAACAAAAATTA
66 AAACAAAAATCA
13109874 AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACAAAATTGCTT-AGTTGATTTTTGTTT
1 AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACAAAATTG-TTCAGTTGATTTTTGTTT
13109938 GAAACAAAAAATCA
65 GAAAC-AAAAATCA
* * * *
13109952 AACAAATCCTGTTAAACGACAAGAATAAAATCGTGAAATAGAATTGTTCAGTTG-TTTTTGT
1 AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACAAAATTGTTCAGTTGATTTTTGT
13110013 ATTTACAAAG
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
76 45 0.37
77 24 0.20
78 54 0.44
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (77 bp):
AACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAACAAAATTGTTCAGTTGATTTTTGTTTG
AAACAAAAATCA
Found at i:13113294 original size:27 final size:27
Alignment explanation
Indices: 13113216--13113327 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
13113206 AGCATGGCTG
* *
13113216 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* ** *
13113242 CCAGATATAGATAATCATGGCAGAGCTA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
13113270 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
13113297 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
13113324 CCAG
1 CCAG
13113328 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 8 0.11
27 46 0.66
28 16 0.23
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:13113317 original size:54 final size:54
Alignment explanation
Indices: 13113216--13113327 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
13113206 AGCATGGCTG
* * * *
13113216 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCATGGCAGAGCTA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* ** *
13113270 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
13113324 CCAG
1 CCAG
13113328 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:13115872 original size:75 final size:76
Alignment explanation
Indices: 13115757--13115942 Score: 311
Period size: 75 Copynumber: 2.4 Consensus size: 76
13115747 TGGTAACCCG
* *
13115757 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
13115822 GTATCATAGCT-
65 GTATCATAGCTC
* *
13115833 CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
13115898 TATCATAGCTC
66 TATCATAGCTC
13115909 GCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 -CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
13115943 TCGAACATTC
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
75 56 0.54
76 15 0.15
77 32 0.31
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (76 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
TATCATAGCTC
Found at i:13115911 original size:38 final size:39
Alignment explanation
Indices: 13115755--13115941 Score: 301
Period size: 38 Copynumber: 4.9 Consensus size: 39
13115745 TATGGTAACC
* * * *
13115755 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
13115795 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
13115833 --CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
13115870 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
13115908 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
13115942 CTCGAACATT
Statistics
Matches: 139, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
36 26 0.19
37 10 0.07
38 46 0.33
39 40 0.29
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:13123292 original size:40 final size:40
Alignment explanation
Indices: 13123248--13123465 Score: 173
Period size: 38 Copynumber: 5.7 Consensus size: 40
13123238 GTTCAAAACA
* ***
13123248 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
* * * *
13123288 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
* * * *
13123328 CCTTCGGG-CTTAGCCCGG-TATCA-TA-GCTCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
* * * * *
13123364 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
* * * * *
13123403 CCTTCGGG-CTTAGCCCGG-TATCATAGCTCTCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
*
13123441 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGTTATCAC
13123466 TCGAACATTC
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
36 27 0.17
37 6 0.04
38 42 0.27
39 41 0.26
40 40 0.26
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
Found at i:13123395 original size:75 final size:76
Alignment explanation
Indices: 13123280--13123465 Score: 311
Period size: 75 Copynumber: 2.4 Consensus size: 76
13123270 TGGTAACCCG
* *
13123280 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCG
13123345 GTATCATAG-CT
65 GTATCATAGCCT
* *
13123356 CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
13123421 TATCATAGCTCT
66 TATCATAGC-CT
13123433 CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
13123466 TCGAACATTC
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
75 54 0.52
76 15 0.15
77 34 0.33
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (76 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
TATCATAGCCT
Found at i:13123437 original size:38 final size:39
Alignment explanation
Indices: 13123278--13123464 Score: 292
Period size: 38 Copynumber: 4.9 Consensus size: 39
13123268 TATGGTAACC
* * * *
13123278 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
13123318 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
13123356 --CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
13123393 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
13123431 CTCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
13123465 CTCGAACATT
Statistics
Matches: 138, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
36 26 0.19
37 10 0.07
38 45 0.33
39 40 0.29
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:13126820 original size:10 final size:10
Alignment explanation
Indices: 13126793--13126847 Score: 76
Period size: 10 Copynumber: 5.5 Consensus size: 10
13126783 TTAAACTCTA
13126793 AAAGATAAAT
1 AAAGATAAAT
13126803 ACAA-ATAAAT
1 A-AAGATAAAT
*
13126813 AAAGATAATT
1 AAAGATAAAT
*
13126823 AAAGATAATT
1 AAAGATAAAT
13126833 AAAGATAAAT
1 AAAGATAAAT
13126843 AAAGA
1 AAAGA
13126848 AAAAAGCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13127922 original size:13 final size:13
Alignment explanation
Indices: 13127904--13127928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13127894 GGGTTAACTC
13127904 TATTAATCATAAT
1 TATTAATCATAAT
13127917 TATTAATCATAA
1 TATTAATCATAA
13127929 CTAACTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAATCATAAT
Found at i:13131592 original size:2 final size:2
Alignment explanation
Indices: 13131585--13131612 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13131575 TTAGTCATTA
13131585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13131613 TGCCGAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13133449 original size:47 final size:47
Alignment explanation
Indices: 13133412--13134060 Score: 895
Period size: 47 Copynumber: 13.5 Consensus size: 47
13133402 GTGAATGTAT
13133412 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
*
13133459 ACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
*
13133506 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
* ** *
13133553 ACATATGTGACTTCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
1 ATATATGTGA--T---A-A-G-G---CCG-A--ATGGCCAATGTGACGAATGTGAACATGC
*
13133614 ATATATGTGATAAGGCCGAATGGCCGATGTGACGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
*
13133661 ATATATGTGATAAGGCCGAATGGCCGATGTGACGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
* *
13133708 AGATATGTGATAAGGCCGAATGGCCGATGTGACGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
*
13133755 ACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
*
13133802 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
* **
13133849 ACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
* * *
13133896 ATATGTGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
* * **
13133943 ACATATGTGATAAGGCCGAATGGCTAATGTGATAAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
* * * * *
13133990 ATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGT
1 ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGT-GAACATGC
* *
13134037 ATATATGTGGTAAAGCCGAATGGC
1 ATATATGTGATAAGGCCGAATGGC
13134061 TAATACGAAA
Statistics
Matches: 548, Mismatches: 39, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
47 497 0.91
48 3 0.01
49 1 0.00
50 1 0.00
52 1 0.00
53 2 0.00
54 2 0.00
55 2 0.00
56 1 0.00
58 1 0.00
59 1 0.00
61 36 0.07
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGC
Found at i:13133584 original size:61 final size:61
Alignment explanation
Indices: 13133508--13133623 Score: 214
Period size: 61 Copynumber: 1.9 Consensus size: 61
13133498 GAACATGCAT
*
13133508 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATATGTGACTTCAC
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGACTTCAC
*
13133569 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATATGTGA
1 ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGA
13133624 TAAGGCCGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (61 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCACATATGTGACTTCAC
Found at i:13133833 original size:22 final size:22
Alignment explanation
Indices: 13133806--13133977 Score: 79
Period size: 22 Copynumber: 7.4 Consensus size: 22
13133796 ACATGCATAT
13133806 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
13133828 ATGTGATGAATG-TGAACAT-GCACA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
13133852 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
13133875 ATGTGATAAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
*
13133897 TATGTGTGATAAAGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
* *
13133922 ATGTGATGAATG-TGAACAT-GCACA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
13133946 TATGTGATAAGGCCGAATGGCTA
1 -ATGTGATAAGGCCGAATGGCCA
13133969 ATGTGATAA
1 ATGTGATAA
13133978 ATGTGAACAT
Statistics
Matches: 114, Mismatches: 13, Indels: 46
0.66 0.08 0.27
Matches are distributed among these distances:
22 34 0.30
23 27 0.24
24 28 0.25
25 25 0.22
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:13135529 original size:17 final size:17
Alignment explanation
Indices: 13135507--13135596 Score: 71
Period size: 17 Copynumber: 5.3 Consensus size: 17
13135497 CTTAGTGGTG
13135507 AACCCTATGGTATGTGA
1 AACCCTATGGTATGTGA
*
13135524 AACCCT-TCGTAGTGGTG-
1 AACCCTATGGTA-T-GTGA
**
13135541 AACCCTATGGTATACGA
1 AACCCTATGGTATGTGA
*
13135558 AATCCCT-T-GTAGTGTCA
1 AA-CCCTATGGTA-TGTGA
*
13135575 AACCCTATGGTATGGGA
1 AACCCTATGGTATGTGA
13135592 AACCC
1 AACCC
13135597 CCTGTAGTGG
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
16 12 0.21
17 30 0.54
18 14 0.25
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (17 bp):
AACCCTATGGTATGTGA
Found at i:13135630 original size:34 final size:33
Alignment explanation
Indices: 13135490--13135651 Score: 152
Period size: 34 Copynumber: 4.8 Consensus size: 33
13135480 GATAACATAC
13135490 GAAA-CCCCT-TAGTGGTGAACCCTATGGTATG
1 GAAACCCCCTGTAGTGGTGAACCCTATGGTATG
* *
13135521 TGAAA-CCCTTCGTAGTGGTGAACCCTATGGTATAC
1 -GAAACCCCCT-GTAGTGGTGAACCCTATGGTAT-G
* * *
13135556 GAAATCCCTTGTAGT-GTCAAACCCTATGGTATGG
1 GAAACCCCCTGTAGTGGT-GAACCCTATGGTAT-G
*
13135590 GAAACCCCCTGTAGTGGTGAACCCTATGATATG
1 GAAACCCCCTGTAGTGGTGAACCCTATGGTATG
* * **
13135623 CAGAACCCCCTATAGTGGCAAACCCTATG
1 GA-AACCCCCTGTAGTGGTGAACCCTATG
13135652 TTGTATGCGG
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
32 8 0.07
33 4 0.04
34 91 0.83
35 7 0.06
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (33 bp):
GAAACCCCCTGTAGTGGTGAACCCTATGGTATG
Found at i:13135639 original size:68 final size:68
Alignment explanation
Indices: 13135486--13135651 Score: 196
Period size: 68 Copynumber: 2.5 Consensus size: 68
13135476 AGTAGATAAC
** * *
13135486 ATACGAAA-CCCCT-TAGTGGTGAACCCTATGGTATGTGAAACCCTTCGTAGTGGTGAACCCTAT
1 ATACGAAACCCCCTATAGTGGCAAACCCTATGGTATGGGAAACCCCTCGTAGTGGTGAACCCTAT
*
13135549 GGT
66 GAT
* * * *
13135552 ATACGAAATCCCTTGTAGTGTCAAACCCTATGGTATGGGAAACCCC-CTGTAGTGGTGAACCCTA
1 ATACGAAACCCCCTATAGTGGCAAACCCTATGGTATGGGAAACCCCTC-GTAGTGGTGAACCCTA
13135616 TGAT
65 TGAT
*
13135620 ATGC-AGAACCCCCTATAGTGGCAAACCCTATG
1 ATACGA-AACCCCCTATAGTGGCAAACCCTATG
13135652 TTGTATGCGG
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
66 8 0.10
67 6 0.07
68 70 0.83
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (68 bp):
ATACGAAACCCCCTATAGTGGCAAACCCTATGGTATGGGAAACCCCTCGTAGTGGTGAACCCTAT
GAT
Found at i:13136341 original size:23 final size:23
Alignment explanation
Indices: 13136315--13136377 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
13136305 GCGAGCCTTA
13136315 GTTAATACATGTAAACCTAAATT
1 GTTAATACATGTAAACCTAAATT
*
13136338 GTTAATAAATGTGAAA-CTAAATT
1 GTTAATACATGT-AAACCTAAATT
* * *
13136361 GCTAATGCATGTGAACC
1 GTTAATACATGTAAACC
13136378 CTAGGTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 2 0.06
23 28 0.85
24 3 0.09
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (23 bp):
GTTAATACATGTAAACCTAAATT
Found at i:13141373 original size:21 final size:21
Alignment explanation
Indices: 13141344--13141402 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
13141334 CATTAACAAG
*
13141344 TACAAGTCTTGGGACATAGCA
1 TACACGTCTTGGGACATAGCA
*
13141365 TACACGTCTTGGGATATAGCA
1 TACACGTCTTGGGACATAGCA
* *
13141386 TACACGTTTTGAGACAT
1 TACACGTCTTGGGACAT
13141403 GGTAGGTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (21 bp):
TACACGTCTTGGGACATAGCA
Found at i:13143110 original size:26 final size:26
Alignment explanation
Indices: 13143064--13143116 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13143054 TCAAACATGC
*
13143064 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
13143090 ATTTTGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
13143116 A
1 A
13143117 AAACTGTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:13151198 original size:25 final size:27
Alignment explanation
Indices: 13151161--13151213 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
13151151 TCAAACATGC
13151161 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
13151187 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
13151213 A
1 A
13151214 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:13153148 original size:39 final size:39
Alignment explanation
Indices: 13153093--13153217 Score: 153
Period size: 39 Copynumber: 3.2 Consensus size: 39
13153083 TTACACATCG
* * *
13153093 GCACATAGCCTGCTAGGCACAAAGCCTGAATAATCACCA
1 GCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCA
*
13153132 GCACAAAGCCTACTAGGCACATAGCCCGAATAATC-CCTA
1 GCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC-A
* * * **
13153171 GCACAAAGCTTGCTAGGAACTTAGCCCGAATAATCACTG
1 GCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCA
13153210 GCACAAAG
1 GCACAAAG
13153218 TGTAATATCC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.03
39 71 0.96
40 1 0.01
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (39 bp):
GCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCA
Found at i:13154556 original size:46 final size:46
Alignment explanation
Indices: 13154506--13154681 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13154496 TGGTTGAGCA
13154506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13154552 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
13154597 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13154645 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13154682 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13154662 original size:93 final size:93
Alignment explanation
Indices: 13154503--13154674 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13154493 GGATGGTTGA
* *
13154503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13154568 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
13154596 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13154661 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
13154675 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13157033 original size:22 final size:22
Alignment explanation
Indices: 13157008--13157049 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
13156998 CAATTTAGCC
13157008 ATTTTTTCTTTAATTAACTACA
1 ATTTTTTCTTTAATTAACTACA
13157030 ATTTTTTCTTTAATTAACTA
1 ATTTTTTCTTTAATTAACTA
13157050 TCTAATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTTCTTTAATTAACTACA
Found at i:13163297 original size:27 final size:28
Alignment explanation
Indices: 13163266--13163322 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
13163256 TATAAATAAT
13163266 TAAATAAAGTATT-AAATAATATAACAA
1 TAAATAAAGTATTAAAATAATATAACAA
13163293 TAAATAAAGTATTAAAATAATATAACAA
1 TAAATAAAGTATTAAAATAATATAACAA
13163321 TA
1 TA
13163323 TATTATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (28 bp):
TAAATAAAGTATTAAAATAATATAACAA
Found at i:13167775 original size:22 final size:22
Alignment explanation
Indices: 13167749--13167793 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13167739 ATTGAGGTCC
13167749 ATAGCTCACCTCCCTTTTCCTT
1 ATAGCTCACCTCCCTTTTCCTT
13167771 ATAGCTCACCTCCCTTTTCCTT
1 ATAGCTCACCTCCCTTTTCCTT
13167793 A
1 A
13167794 CATCTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.40, G:0.04, T:0.40
Consensus pattern (22 bp):
ATAGCTCACCTCCCTTTTCCTT
Found at i:13168436 original size:45 final size:45
Alignment explanation
Indices: 13168372--13168462 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
13168362 TTATTTGAGT
13168372 TATTTCTTTTTATACTTCTAATAGAACCAATAAAAAACTTACATA
1 TATTTCTTTTTATACTTCTAATAGAACCAATAAAAAACTTACATA
13168417 TATTTCTTTTTATACTTCTAATAGAACCAATAAAAAACTTACATA
1 TATTTCTTTTTATACTTCTAATAGAACCAATAAAAAACTTACATA
13168462 T
1 T
13168463 GGTGAGGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (45 bp):
TATTTCTTTTTATACTTCTAATAGAACCAATAAAAAACTTACATA
Found at i:13173334 original size:20 final size:20
Alignment explanation
Indices: 13173309--13173353 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13173299 AGGGACTAAA
* *
13173309 ATGAAAAGTTGTAAAATTTT
1 ATGAAAAATTCTAAAATTTT
*
13173329 ATGAAAAATTCTGAAATTTT
1 ATGAAAAATTCTAAAATTTT
13173349 ATGAA
1 ATGAA
13173354 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTT
Found at i:13182367 original size:27 final size:28
Alignment explanation
Indices: 13182311--13182380 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
13182301 AAACTTGTAC
13182311 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13182339 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
13182366 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
13182381 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:13182391 original size:27 final size:27
Alignment explanation
Indices: 13182311--13182392 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
13182301 AAACTTGTAC
* *
13182311 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
13182339 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
13182366 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
13182393 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:13190385 original size:27 final size:28
Alignment explanation
Indices: 13190329--13190398 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
13190319 AAACTTGTAC
13190329 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13190357 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
13190384 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
13190399 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:13190409 original size:27 final size:27
Alignment explanation
Indices: 13190329--13190410 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
13190319 AAACTTGTAC
* *
13190329 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
13190357 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
13190384 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
13190411 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Done.