Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 201 of 207
Found at i:60462997 original size:20 final size:21
Alignment explanation
Indices: 60462972--60463011 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60462962 AGACGAGCAA
*
60462972 TACTCC-ACACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
60462992 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
60463012 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:60469959 original size:23 final size:23
Alignment explanation
Indices: 60469916--60469959 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
60469906 GAAATTAAAT
* *
60469916 TGTAATTTTTATAATAGTAAAAC
1 TGTAATTTTTAAAAGAGTAAAAC
*
60469939 TGTAATTTTTAAAAGATTAAA
1 TGTAATTTTTAAAAGAGTAAA
60469960 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
TGTAATTTTTAAAAGAGTAAAAC
Found at i:60481167 original size:17 final size:17
Alignment explanation
Indices: 60481131--60481163 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60481121 AGAGTGTGTG
*
60481131 ATTTAAATATTTTAAAT
1 ATTTAAATATTATAAAT
60481148 ATTTAAAT-TTATAAAT
1 ATTTAAATATTATAAAT
60481164 TATTGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAAATATTATAAAT
Found at i:60481383 original size:14 final size:15
Alignment explanation
Indices: 60481364--60481401 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
60481354 TGTTTCACTA
60481364 AAAATGACTTTC-GG
1 AAAATGACTTTCTGG
60481378 AAAATGA-TTTCTGG
1 AAAATGACTTTCTGG
60481392 AAAATGACTT
1 AAAATGACTT
60481402 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (15 bp):
AAAATGACTTTCTGG
Found at i:60481987 original size:16 final size:16
Alignment explanation
Indices: 60481949--60481988 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
60481939 AATATGTGAA
60481949 TAATATTATTTAAAAT
1 TAATATTATTTAAAAT
*
60481965 TATTATT-TTTAAAATT
1 TAATATTATTTAAAA-T
60481981 TAATATTA
1 TAATATTA
60481989 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTATTTAAAAT
Found at i:60483137 original size:21 final size:22
Alignment explanation
Indices: 60483094--60483138 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
60483084 CAAATGGCCA
* *
60483094 AATGCCATTTTTTTAATGGTAG
1 AATGCCATTTTTTAAATGATAG
*
60483116 AATGCCA-TTTTTAAATTATAG
1 AATGCCATTTTTTAAATGATAG
60483137 AA
1 AA
60483139 GTAGTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (22 bp):
AATGCCATTTTTTAAATGATAG
Found at i:60495781 original size:44 final size:44
Alignment explanation
Indices: 60495716--60495810 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
60495706 AGCTACAAGT
* ** ** * *
60495716 TACAAATCTTATTTCTCTGAAGTTTCAGTGGAGTAGATTAAAGC
1 TACAAGTCTTATTTCTCTGAAGTTGAAGTGGAACAAATTAAAGA
60495760 TACAAGTCTTATTTC-CGTGAAGTTGAAGTGGAACAAATTAAAGA
1 TACAAGTCTTATTTCTC-TGAAGTTGAAGTGGAACAAATTAAAGA
60495804 TACAAGT
1 TACAAGT
60495811 TATAAATCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (44 bp):
TACAAGTCTTATTTCTCTGAAGTTGAAGTGGAACAAATTAAAGA
Found at i:60495849 original size:95 final size:95
Alignment explanation
Indices: 60495682--60495866 Score: 264
Period size: 95 Copynumber: 1.9 Consensus size: 95
60495672 GCACTAGACC
* * * * * *
60495682 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCTCTGAAGTTTCAGTGG
1 TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGG
*
60495747 AGTAGATTAAAGCTACAAGTCTTATTTCCG
66 AGCAGATTAAAGCTACAAGTCTTATTTCCG
*
60495777 TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTATAAATCTTATCTCCT-TGAAGTTGCAATG
1 TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTACAAATCTTAT-TCCTCTGAAGTTGCAATG
* *
60495841 GAGCAGATTGAAGTTACAAGTCTTAT
65 GAGCAGATTAAAGCTACAAGTCTTAT
60495867 CTCCCTAAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 76 0.96
96 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (95 bp):
TGAAGTTGAAGTGGAACAAATTAAAGATACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGG
AGCAGATTAAAGCTACAAGTCTTATTTCCG
Found at i:60495865 original size:44 final size:44
Alignment explanation
Indices: 60495807--60495896 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
60495797 TTAAAGATAC
* * * *
60495807 AAGTTATAAATCTTATCTCCTTGAAGTTGCAATGGAGCAGATTG
1 AAGTTACAAATCTTATCTCCCTAAAGTAGCAATGGAGCAGATTG
* * *
60495851 AAGTTACAAGTCTTATCTCCCTAAAGTAGCAGTGGAGTAGATTG
1 AAGTTACAAATCTTATCTCCCTAAAGTAGCAATGGAGCAGATTG
60495895 AA
1 AA
60495897 ACTACAATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (44 bp):
AAGTTACAAATCTTATCTCCCTAAAGTAGCAATGGAGCAGATTG
Found at i:60495903 original size:44 final size:44
Alignment explanation
Indices: 60495817--60495930 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
60495807 AAGTTATAAA
* * * **
60495817 TCTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTAGCAATGGAGCAGATTGAAACTACAAG
* * *
60495861 TCTTATCTCCCTAAAGTAGCAGTGGAGTAGATTGAAACTACAAT
1 TCTTATCTCCCTAAAGTAGCAATGGAGCAGATTGAAACTACAAG
* * *
60495905 TCCTATAC-CTCTAAAGTTGCAATGGA
1 TCTTAT-CTCCCTAAAGTAGCAATGGA
60495931 TTAGAACGAG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 56 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTAGCAATGGAGCAGATTGAAACTACAAG
Found at i:60495903 original size:95 final size:95
Alignment explanation
Indices: 60495691--60495903 Score: 250
Period size: 95 Copynumber: 2.2 Consensus size: 95
60495681 CTGAAGTTGT
* * * *
60495691 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTTCTCTGAAGTTTCAGTGGAGTAGATTA
1 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGGAGCAGATTA
* * * *
60495756 AAGCTACAAGTCTTATTTCCGTGAAGTTGA
66 AAGCTACAAGTCTTATCTCCCTAAAGTAGA
* * *
60495786 AGTGGAACAAATTAAAGATACAAGTTATAAATCTTATCTCCT-TGAAGTTGCAATGGAGCAGATT
1 AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTAT-TCCTCTGAAGTTGCAATGGAGCAGATT
* * *
60495850 GAAGTTACAAGTCTTATCTCCCTAAAGTAGC
65 AAAGCTACAAGTCTTATCTCCCTAAAGTAGA
**
60495881 AGTGGAGTAGATTGAAA-CTACAA
1 AGTGGAACAGATT-AAAGCTACAA
60495904 TTCCTATACC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 92 0.94
96 6 0.06
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (95 bp):
AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATTCCTCTGAAGTTGCAATGGAGCAGATTA
AAGCTACAAGTCTTATCTCCCTAAAGTAGA
Found at i:60496450 original size:26 final size:26
Alignment explanation
Indices: 60496420--60496483 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
60496410 AACTTTTGAA
*
60496420 AAATTTAGTTATACCTTTAA-TTTTTT
1 AAATTTA-TTATACCTTCAATTTTTTT
* *
60496446 AAATTTAATTAAATCTTCAATTTTTTT
1 AAATTT-ATTATACCTTCAATTTTTTT
60496473 AAATTTATTAT
1 AAATTTATTAT
60496484 TGAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
AAATTTATTATACCTTCAATTTTTTT
Found at i:60496552 original size:19 final size:18
Alignment explanation
Indices: 60496527--60496576 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
60496517 TTTTTTTTTG
**
60496527 TAAATTTTCATAAATCTC
1 TAAATTTTCATAAAAATC
60496545 TAAAATTTT-A-AAAAATC
1 T-AAATTTTCATAAAAATC
60496562 TAAATTTTCATAAAA
1 TAAATTTTCATAAAA
60496577 TCATTATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 6 0.22
19 7 0.26
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTTTCATAAAAATC
Found at i:60496576 original size:17 final size:17
Alignment explanation
Indices: 60496527--60496578 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
60496517 TTTTTTTTTG
*
60496527 TAAATTTTCATAAATCTC
1 TAAATTTTCATAAA-ATC
*
60496545 TAAAATTTT-AAAAAATC
1 T-AAATTTTCATAAAATC
60496562 TAAATTTTCATAAAATC
1 TAAATTTTCATAAAATC
60496579 ATTATCCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.24
17 10 0.34
18 5 0.17
19 7 0.24
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTTCATAAAATC
Found at i:60497695 original size:30 final size:31
Alignment explanation
Indices: 60497661--60497744 Score: 136
Period size: 30 Copynumber: 2.8 Consensus size: 31
60497651 CCAATATCTC
60497661 GATACCCATATCTTTGACTTTCCAAAT-TTT
1 GATACCCATATCTTTGACTTTCCAAATATTT
* *
60497691 GATACCCATATCTTTGACTTT-CTATTATTT
1 GATACCCATATCTTTGACTTTCCAAATATTT
60497721 GATACCCATATCTTTGACTTTCCA
1 GATACCCATATCTTTGACTTTCCA
60497745 TAAATATGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.06
30 45 0.92
31 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (31 bp):
GATACCCATATCTTTGACTTTCCAAATATTT
Found at i:60497706 original size:15 final size:15
Alignment explanation
Indices: 60497661--60497737 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
60497651 CCAATATCTC
60497661 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
60497676 GACTTTCCAAAT-TTT
1 GA-TACCCATATCTTT
60497691 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
60497706 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
60497721 GATACCCATATCTTT
1 GATACCCATATCTTT
60497736 GA
1 GA
60497738 CTTTCCATAA
Statistics
Matches: 44, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 10 0.23
15 24 0.55
16 10 0.23
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:60499436 original size:5 final size:5
Alignment explanation
Indices: 60499426--60499480 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
60499416 TTATGTTTTA
60499426 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
60499476 TATAT
1 TATAT
60499481 AAACTAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:60499707 original size:22 final size:22
Alignment explanation
Indices: 60499668--60499715 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
60499658 AAACAAAAGA
60499668 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
*
60499690 AAAAGAAAC-AGAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
60499712 AAAA
1 AAAA
60499716 CAAGGGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:60500102 original size:22 final size:24
Alignment explanation
Indices: 60500074--60500117 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
60500064 TATGTCAAGA
60500074 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGATAGAAAAGTAAGTATG
60500096 AATTAAGATAGAAAAGTAAGTA
1 AATTAAGATAGAAAAGTAAGTA
60500118 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGATAGAAAAGTAAGTATG
Found at i:60501212 original size:12 final size:12
Alignment explanation
Indices: 60501195--60501230 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
60501185 TACACGAGTC
60501195 ATATATATATGT
1 ATATATATATGT
60501207 ATATATATATGT
1 ATATATATATGT
* *
60501219 AAATATAAATGT
1 ATATATATATGT
60501231 TAAATGATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
ATATATATATGT
Found at i:60501761 original size:15 final size:15
Alignment explanation
Indices: 60501741--60501772 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
60501731 TTAGGGGGTG
60501741 TTACACTATTCCTTC
1 TTACACTATTCCTTC
60501756 TTACACTATTCCTTC
1 TTACACTATTCCTTC
60501771 TT
1 TT
60501773 TCTGAGCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (15 bp):
TTACACTATTCCTTC
Found at i:60504888 original size:30 final size:31
Alignment explanation
Indices: 60504854--60504937 Score: 136
Period size: 30 Copynumber: 2.8 Consensus size: 31
60504844 CCAATATCTC
*
60504854 GATACCCATATCTTTTACTTTCCAATT-TTT
1 GATACCCATATCTTTAACTTTCCAATTATTT
*
60504884 GATACCCATATCTTTGACTTTCC-ATTATTT
1 GATACCCATATCTTTAACTTTCCAATTATTT
60504914 GATACCCATATCTTTAACTTTCCA
1 GATACCCATATCTTTAACTTTCCA
60504938 TAAATATGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
29 3 0.06
30 47 0.94
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (31 bp):
GATACCCATATCTTTAACTTTCCAATTATTT
Found at i:60507487 original size:5 final size:5
Alignment explanation
Indices: 60507477--60507504 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
60507467 TGAAATATAC
60507477 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
60507505 ATATTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:60517176 original size:18 final size:19
Alignment explanation
Indices: 60517153--60517191 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
60517143 TAAAAAGTTG
60517153 AAATAAA-ATCTAAT-TTAA
1 AAATAAATA-CTAATATTAA
60517171 AAATAAATACTAATATTAA
1 AAATAAATACTAATATTAA
60517190 AA
1 AA
60517192 GTATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAAATACTAATATTAA
Found at i:60528151 original size:16 final size:16
Alignment explanation
Indices: 60528117--60528169 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
60528107 ATGGCATCAG
60528117 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
60528133 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
60528149 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
60528165 TCATG
1 TCATG
60528170 AGTATAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:60528484 original size:37 final size:37
Alignment explanation
Indices: 60528388--60528565 Score: 223
Period size: 37 Copynumber: 4.7 Consensus size: 37
60528378 AATTCGAAGT
* *
60528388 AGTAAATTGACACCCAGTGTCTCATCGAATAAATCTGAA
1 AGTAAATTGACACCCAGTGTCTCATCGATTAAA-C-CAA
* *
60528427 GTAGTAAATTGACACACAGTGTCTCATCGGTTAAACCGAA
1 --AGTAAATTGACACCCAGTGTCTCATCGATTAAACC-AA
*
60528467 A-TAAATTGGCACCCAGTGTCTCATCGATTAAACCAA
1 AGTAAATTGACACCCAGTGTCTCATCGATTAAACCAA
*
60528503 AGTAAATTGACACCTAGTGTCTCATCGATTAAACCAA
1 AGTAAATTGACACCCAGTGTCTCATCGATTAAACCAA
* * *
60528540 AGTAAATTGGCACTCAGTGCCTCATC
1 AGTAAATTGACACCCAGTGTCTCATC
60528566 AACTCGAAGT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
36 3 0.02
37 85 0.70
38 1 0.01
40 3 0.02
41 30 0.25
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGATTAAACCAA
Found at i:60529530 original size:2 final size:2
Alignment explanation
Indices: 60529518--60529547 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
60529508 ACTTTATTAT
60529518 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60529548 TTACTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:60532866 original size:66 final size:66
Alignment explanation
Indices: 60532760--60532891 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
60532750 AAGCTCTCAA
*
60532760 CCCAACAAGCATTTTACAAGTGAAATTTGAATATGAGAACAATAAAAGATGAAATCATTCAATGT
1 CCCAACAAGCATTTTACAAGTGAAATTTGAATATGAGAACAACAAAAGATGAAATCATTCAATGT
60532825 T
66 T
60532826 CCCAACAAGCATTTTACAAGTGAAATTTGAATATGAGAACAACAAAAGATGAAATCATTCAATGT
1 CCCAACAAGCATTTTACAAGTGAAATTTGAATATGAGAACAACAAAAGATGAAATCATTCAATGT
60532891 T
66 T
60532892 TGTTCTTTGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (66 bp):
CCCAACAAGCATTTTACAAGTGAAATTTGAATATGAGAACAACAAAAGATGAAATCATTCAATGT
T
Found at i:60533339 original size:14 final size:15
Alignment explanation
Indices: 60533315--60533348 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
60533305 AGCTGGCGGA
60533315 GTTTATAAAATAGTT
1 GTTTATAAAATAGTT
*
60533330 GTTT-TAAAATATTT
1 GTTTATAAAATAGTT
60533344 GTTTA
1 GTTTA
60533349 ACTTTACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTTTATAAAATAGTT
Found at i:60534430 original size:27 final size:28
Alignment explanation
Indices: 60534377--60534430 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
60534367 TAGATATAGG
60534377 AAATATATATAGTTTTATAAAAATATTA
1 AAATATATATAGTTTTATAAAAATATTA
*
60534405 AAATATA-ATA-TTTTAATAAATATATT
1 AAATATATATAGTTTT-ATAAAAATATT
60534431 TATCTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.54
28 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATATATATAGTTTTATAAAAATATTA
Found at i:60536131 original size:37 final size:37
Alignment explanation
Indices: 60536070--60536216 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
60536060 TACGTATGAT
* *
60536070 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
60536105 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
60536142 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
60536179 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
60536216 C
1 C
60536217 GAAGCTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:60536258 original size:52 final size:52
Alignment explanation
Indices: 60536179--60536394 Score: 318
Period size: 52 Copynumber: 4.2 Consensus size: 52
60536169 TAAGTGTAGC
* *
60536179 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
60536232 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
60536284 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
60536336 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
60536382 CACTTTATCACTT
1 CACTTT-TCACTT
60536395 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.29
50 1 0.01
52 93 0.63
53 11 0.07
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:60536366 original size:98 final size:100
Alignment explanation
Indices: 60536190--60536387 Score: 310
Period size: 98 Copynumber: 2.0 Consensus size: 100
60536180 ACTTATCACT
*
60536190 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATC
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TT--CTTGTCACTTGATC
*
60536255 AGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCAC
62 AGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
* *
60536294 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-T-TTGTCACTTGATCAGAT
1 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGAT
60536357 AAGTATAGCCGAAGCTATCACTTATCACTTT
66 AAGTATAGCCGAAGCTATCACTTATCACTTT
60536388 ATCACTTATC
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
98 47 0.52
101 1 0.01
104 42 0.47
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (100 bp):
TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGAT
AAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
Found at i:60542945 original size:21 final size:21
Alignment explanation
Indices: 60542915--60542955 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60542905 ACACCAATAA
* *
60542915 TAAAATAATATTTTAAAAAAG
1 TAAAAAAATAATTTAAAAAAG
60542936 TAAAAAAATAATTTAAAAAA
1 TAAAAAAATAATTTAAAAAA
60542956 AAAATGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAAAATAATTTAAAAAAG
Found at i:60555821 original size:111 final size:111
Alignment explanation
Indices: 60555694--60555899 Score: 313
Period size: 111 Copynumber: 1.9 Consensus size: 111
60555684 ACATTATGAA
** * *
60555694 CAACAGAGATACTGTTTCTGTCCTCCATGTTTGCAGGCTCAGAAGAAACCTTATCGAGTTCAGGA
1 CAACAGAGATACTGTTTCCATCCTCCATGGTTGCAGGCTCAGAAGAAACCTTATCAAGTTCAGGA
*
60555759 GCAGCTTCTTCTGATCGATTTTCACTATCATCTGAAATGTTATTAG
66 GCAGATTCTTCTGATCGATTTTCACTATCATCTGAAATGTTATTAG
* * * *
60555805 CAACAGAGATATTGTTTCCATCCTCCTTGGTTGCAGGCTCGGAAGAAACGTTATCAAGTTCAGGA
1 CAACAGAGATACTGTTTCCATCCTCCATGGTTGCAGGCTCAGAAGAAACCTTATCAAGTTCAGGA
* *
60555870 GCAGATTCTTCTGATTGATTTTCGCTATCA
66 GCAGATTCTTCTGATCGATTTTCACTATCA
60555900 CGAGTTCCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 84 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (111 bp):
CAACAGAGATACTGTTTCCATCCTCCATGGTTGCAGGCTCAGAAGAAACCTTATCAAGTTCAGGA
GCAGATTCTTCTGATCGATTTTCACTATCATCTGAAATGTTATTAG
Found at i:60562490 original size:15 final size:14
Alignment explanation
Indices: 60562468--60562510 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
60562458 ATTTATCTCA
60562468 TATTATATTTTAAT
1 TATTATATTTTAAT
*
60562482 TATTTATATTTAAAT
1 TA-TTATATTTTAAT
*
60562497 TATTATGTTTTAAT
1 TATTATATTTTAAT
60562511 CACTTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTATATTTTAAT
Found at i:60568450 original size:18 final size:19
Alignment explanation
Indices: 60568429--60568467 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60568419 ACTTTTTAAC
* *
60568429 TTTTA-AATATTTTTTTAT
1 TTTTAGAATATATTTTGAT
60568447 TTTTAGAATATATTTTGAT
1 TTTTAGAATATATTTTGAT
60568466 TT
1 TT
60568468 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTAGAATATATTTTGAT
Found at i:60568854 original size:39 final size:39
Alignment explanation
Indices: 60568800--60568874 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
60568790 AAAGATATCG
60568800 AAAAAAATGAATCGTACAACGATTATGAATTAAACTAAA
1 AAAAAAATGAATCGTACAACGATTATGAATTAAACTAAA
60568839 AAAAAAATGAATCGTACAACGATTATGAATTAAACT
1 AAAAAAATGAATCGTACAACGATTATGAATTAAACT
60568875 TTCTCTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (39 bp):
AAAAAAATGAATCGTACAACGATTATGAATTAAACTAAA
Found at i:60570689 original size:15 final size:17
Alignment explanation
Indices: 60570669--60570706 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
60570659 AATAAATAAC
60570669 ATAAATTT-AA-TAAAA
1 ATAAATTTGAAGTAAAA
60570684 ATAAATTTGAAGTAAAA
1 ATAAATTTGAAGTAAAA
60570701 ATAAAT
1 ATAAAT
60570707 GAAACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 2 0.10
17 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAAATTTGAAGTAAAA
Found at i:60576553 original size:23 final size:24
Alignment explanation
Indices: 60576509--60576553 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
60576499 CAAACCCAAA
* **
60576509 TTTCACCACATGACAATGCAACTC
1 TTTCACCACATGAAAACCCAACTC
60576533 TTTC-CCACATGAAAACCCAAC
1 TTTCACCACATGAAAACCCAAC
60576554 ATTTCTGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.22
Consensus pattern (24 bp):
TTTCACCACATGAAAACCCAACTC
Found at i:60578271 original size:5 final size:6
Alignment explanation
Indices: 60578254--60578278 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60578244 AGAAAGAAAA
60578254 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
60578279 TTCATCTTTA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:60583956 original size:25 final size:24
Alignment explanation
Indices: 60583903--60583956 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
60583893 TTAATATTTG
60583903 ATTTTAATTATTATTTAAAAATTA
1 ATTTTAATTATTATTTAAAAATTA
*
60583927 GTTTTAATT-TTATACTTAAATAA-TA
1 ATTTTAATTATTAT--TTAAA-AATTA
60583952 ATTTT
1 ATTTT
60583957 GTATTGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.16
24 8 0.32
25 11 0.44
26 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTAATTATTATTTAAAAATTA
Found at i:60584877 original size:21 final size:22
Alignment explanation
Indices: 60584853--60584897 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
60584843 TTAGTGAATC
60584853 AAATAAATTTTT-AAATAATTT
1 AAATAAATTTTTAAAATAATTT
**
60584874 AAATATTTTTTTAAAATAATTT
1 AAATAAATTTTTAAAATAATTT
60584896 AA
1 AA
60584898 TAATCATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATAAATTTTTAAAATAATTT
Found at i:60588292 original size:22 final size:22
Alignment explanation
Indices: 60588266--60588316 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
60588256 GTTCGAATAG
*
60588266 TTTAATTACTTAAATAAAAAAA
1 TTTAATTAATTAAATAAAAAAA
* * * *
60588288 TTTAAATAATTTAATGACAAAA
1 TTTAATTAATTAAATAAAAAAA
60588310 TTTAATT
1 TTTAATT
60588317 TTTTAATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTAATTAATTAAATAAAAAAA
Found at i:60588324 original size:13 final size:14
Alignment explanation
Indices: 60588308--60588336 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60588298 TTAATGACAA
60588308 AATT-TAATTTTTT
1 AATTGTAATTTTTT
60588321 AATTGTAATTTTTT
1 AATTGTAATTTTTT
60588335 AA
1 AA
60588337 AATTGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
AATTGTAATTTTTT
Found at i:60592885 original size:31 final size:31
Alignment explanation
Indices: 60592850--60592911 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
60592840 TTACAAAATG
**
60592850 ATCACTAAATTGTTCAAAAGTTTTCATTTAA
1 ATCACTAAATTACTCAAAAGTTTTCATTTAA
* *
60592881 ATCACTAAATTACTCAAAATTTTTTATTTAA
1 ATCACTAAATTACTCAAAAGTTTTCATTTAA
60592912 GTCATTGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
ATCACTAAATTACTCAAAAGTTTTCATTTAA
Found at i:60596469 original size:15 final size:15
Alignment explanation
Indices: 60596451--60596487 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
60596441 CGCAAGCTAC
60596451 TGAAGAATGAAACCG
1 TGAAGAATGAAACCG
*
60596466 TGAAGAATGAAATCG
1 TGAAGAATGAAACCG
60596481 TGGAAGA
1 T-GAAGA
60596488 TGCTTCTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.16
Consensus pattern (15 bp):
TGAAGAATGAAACCG
Found at i:60597019 original size:22 final size:23
Alignment explanation
Indices: 60596985--60597028 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
60596975 CTTTCTTCTC
*
60596985 AAAAAATAAAGAAAAAATAAAAT
1 AAAAAATAAAGAAAAAAAAAAAT
*
60597008 AAAAAA-AGAGAAAAAAAAAAA
1 AAAAAATAAAGAAAAAAAAAAA
60597029 CAGCACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAAATAAAGAAAAAAAAAAAT
Found at i:60602153 original size:22 final size:23
Alignment explanation
Indices: 60602109--60602157 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
60602099 GAAAGATCTA
60602109 AAACAAAGTTGAATCAAAAACTG
1 AAACAAAGTTGAATCAAAAACTG
60602132 AAACAAAGTTGAATC-AAAACTG
1 AAACAAAGTTGAATCAAAAACTG
60602154 AAAC
1 AAAC
60602158 TTTAGATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.16
Consensus pattern (23 bp):
AAACAAAGTTGAATCAAAAACTG
Found at i:60610668 original size:23 final size:23
Alignment explanation
Indices: 60610652--60610704 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
60610642 ATTTTTTAAA
60610652 CAATAAAAAGTATATTTGTAAAAT
1 CAAT-AAAAGTATATTTGTAAAAT
*
60610676 CTATAAAAGTATATTTGTAAAAT
1 CAATAAAAGTATATTTGTAAAAT
*
60610699 CTATAA
1 CAATAA
60610705 TTAAACAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (23 bp):
CAATAAAAGTATATTTGTAAAAT
Found at i:60615576 original size:22 final size:21
Alignment explanation
Indices: 60615548--60615606 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
60615538 AAAACAGCCA
60615548 TTTCTCCCCTCGTTTTTGCTGG
1 TTTCTCCCCT-GTTTTTGCTGG
* * *
60615570 TTTCTCCCTTATTCTTGCTGG
1 TTTCTCCCCTGTTTTTGCTGG
60615591 TTTCTCCCCTGTTTTT
1 TTTCTCCCCTGTTTTT
60615607 TGCTTTGTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.02, C:0.31, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTCTCCCCTGTTTTTGCTGG
Found at i:60618496 original size:15 final size:16
Alignment explanation
Indices: 60618463--60618493 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60618453 TGTAAAACTA
60618463 ATGTATGATATTTTTT
1 ATGTATGATATTTTTT
*
60618479 ATGTTTGATATTTTT
1 ATGTATGATATTTTT
60618494 ATGCTATGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (16 bp):
ATGTATGATATTTTTT
Found at i:60620637 original size:20 final size:20
Alignment explanation
Indices: 60620609--60620646 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60620599 TGCTCTGGGT
60620609 GAGAA-TTTTGCTGGCATGTG
1 GAGAATTTTTG-TGGCATGTG
*
60620629 GAGAGTTTTTGTGGCATG
1 GAGAATTTTTGTGGCATG
60620647 AATCTTGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.18, C:0.08, G:0.37, T:0.37
Consensus pattern (20 bp):
GAGAATTTTTGTGGCATGTG
Found at i:60620960 original size:29 final size:30
Alignment explanation
Indices: 60620928--60620985 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
60620918 TTAATCCAAT
*
60620928 GTACAATATC-ATATACA-AACTTTGATTTG
1 GTACAAT-TCTATATACACAACTTTAATTTG
*
60620957 GTACAATTCTATATATACAACTTTAATTT
1 GTACAATTCTATATACACAACTTTAATTT
60620986 CGATTCAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.52
30 10 0.40
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (30 bp):
GTACAATTCTATATACACAACTTTAATTTG
Found at i:60625578 original size:19 final size:20
Alignment explanation
Indices: 60625542--60625583 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
60625532 AAATTTACTA
*
60625542 TAAAATAAATTGATTTTTTT
1 TAAAATAAATTGATTTTTAT
60625562 TAAAA-AAATT-ATGTTTTAT
1 TAAAATAAATTGAT-TTTTAT
60625581 TAA
1 TAA
60625584 CAAGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TAAAATAAATTGATTTTTAT
Found at i:60636425 original size:20 final size:21
Alignment explanation
Indices: 60636400--60636438 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60636390 ATATAATTTC
*
60636400 ATTTAAT-GAATATTATTTTT
1 ATTTAATAAAATATTATTTTT
60636420 ATTTAATAAAATATTATTT
1 ATTTAATAAAATATTATTT
60636439 ATACAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTTAATAAAATATTATTTTT
Found at i:60636624 original size:18 final size:18
Alignment explanation
Indices: 60636597--60636635 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60636587 TATTTTAGTT
* *
60636597 TTGAAAACTGTTGTTTTC
1 TTGAAAACTGTGGGTTTC
*
60636615 TTGAAGACTGTGGGTTTC
1 TTGAAAACTGTGGGTTTC
60636633 TTG
1 TTG
60636636 CATGCATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (18 bp):
TTGAAAACTGTGGGTTTC
Found at i:60637643 original size:28 final size:28
Alignment explanation
Indices: 60637606--60637669 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
60637596 GATTTAGTTA
*
60637606 ATTAAATTAGT-TTCTTTATTATTAAATT
1 ATTAAATTAGTCTT-TATATTATTAAATT
* *
60637634 ATTAATTTAGTCTTTATATTATTAAATAA
1 ATTAAATTAGTCTTTATATTATTAAAT-T
60637663 ATTAAAT
1 ATTAAAT
60637670 ATTTACTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTAAATTAGTCTTTATATTATTAAATT
Found at i:60646370 original size:10 final size:10
Alignment explanation
Indices: 60646357--60646391 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
60646347 ATAAAATGAC
*
60646357 TAAAAAGTCA
1 TAAAAAGTTA
60646367 TAAAAAGTTA
1 TAAAAAGTTA
60646377 TAAAAA-TTA
1 TAAAAAGTTA
60646386 TAAAAA
1 TAAAAA
60646392 ATTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (10 bp):
TAAAAAGTTA
Found at i:60646402 original size:17 final size:18
Alignment explanation
Indices: 60646377--60646418 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
60646367 TAAAAAGTTA
*
60646377 TAAAAATTATAAAAA-AT
1 TAAAAATTAGAAAAACAT
*
60646394 TAAATATTAGAAAAACAT
1 TAAAAATTAGAAAAACAT
60646412 TAAAAAT
1 TAAAAAT
60646419 ATTAAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAATTAGAAAAACAT
Found at i:60646483 original size:19 final size:19
Alignment explanation
Indices: 60646446--60646505 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
60646436 CTTATTAAAC
60646446 TTAT-AAAA-TATAAAAAAA
1 TTATAAAAACTAT-AAAAAA
* *
60646464 TTATAAAAATTATAATAAA
1 TTATAAAAACTATAAAAAA
*
60646483 TCTA-ATAAACTATAAAAAA
1 T-TATAAAAACTATAAAAAA
60646502 TTAT
1 TTAT
60646506 GGAACTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 6 0.18
19 23 0.68
20 5 0.15
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TTATAAAAACTATAAAAAA
Found at i:60646914 original size:19 final size:17
Alignment explanation
Indices: 60646890--60646926 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
60646880 CATCCAGTTC
60646890 AATTAAATAAAATATTAAA
1 AATTAAA-AAAA-ATTAAA
60646909 AATTAAAAAAAATTAAA
1 AATTAAAAAAAATTAAA
60646926 A
1 A
60646927 TCGGTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATTAAAAAAAATTAAA
Found at i:60653578 original size:20 final size:20
Alignment explanation
Indices: 60653553--60653602 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60653543 TGGCTTAAAA
60653553 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60653573 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60653590 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60653603 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:60658207 original size:20 final size:20
Alignment explanation
Indices: 60658182--60658231 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60658172 TGGCTTAAAA
60658182 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60658202 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60658219 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60658232 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:60665806 original size:17 final size:17
Alignment explanation
Indices: 60665764--60665810 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
60665754 AATTCAATTT
60665764 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
60665780 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
60665798 TAATATAAATAAT
1 TAATATAAATAAT
60665811 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:60666110 original size:30 final size:31
Alignment explanation
Indices: 60666071--60666130 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
60666061 GGAGGTGAGA
*
60666071 TGGGAAGGGAATAAAAGTTTTAGG-GGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGAGGAAAAG
*
60666102 TGGG-AGGGAGTAAAAATTTTGGAGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGAGGAAAA
60666131 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGAGGAAAAG
Found at i:60666239 original size:5 final size:5
Alignment explanation
Indices: 60666229--60666253 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60666219 ATTGGGGGTT
60666229 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
60666254 TAAAAGTTTT
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:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:60666370 original size:9 final size:9
Alignment explanation
Indices: 60666353--60666398 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
60666343 TATAGTTTGA
60666353 TATTCGAAT
1 TATTCGAAT
*
60666362 TATTTGAAT
1 TATTCGAAT
*
60666371 TATTCGAGT
1 TATTCGAAT
*
60666380 TATTCGAGT
1 TATTCGAAT
60666389 TATTCGAAT
1 TATTCGAAT
60666398 T
1 T
60666399 CGAAAATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60676915 original size:21 final size:21
Alignment explanation
Indices: 60676889--60676957 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
60676879 AGCATAAATA
60676889 ATTTAAAATTTTTTATTATAT
1 ATTTAAAATTTTTTATTATAT
** **
60676910 ATTT--AATTTCCATAAAATAT
1 ATTTAAAATTT-TTTATTATAT
60676930 AATTTAAACA-TTTTTATTATAT
1 -ATTTAAA-ATTTTTTATTATAT
60676952 ATTTAA
1 ATTTAA
60676958 TTTCCATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 5 0.14
20 6 0.17
21 14 0.40
22 6 0.17
23 3 0.09
24 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTAAAATTTTTTATTATAT
Found at i:60676933 original size:42 final size:42
Alignment explanation
Indices: 60676886--60676976 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
60676876 TTAAGCATAA
60676886 ATAATTTAAA-ATTTTTTATTATATATTTAATTTCCATAAAAT
1 ATAATTTAAACA-TTTTTATTATATATTTAATTTCCATAAAAT
60676928 ATAATTTAAACATTTTTATTATATATTTAATTTCCATAAAAT
1 ATAATTTAAACATTTTTATTATATATTTAATTTCCATAAAAT
60676970 ATAATTT
1 ATAATTT
60676977 TCAATCCGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (42 bp):
ATAATTTAAACATTTTTATTATATATTTAATTTCCATAAAAT
Found at i:60679110 original size:52 final size:52
Alignment explanation
Indices: 60679048--60679186 Score: 235
Period size: 52 Copynumber: 2.7 Consensus size: 52
60679038 TTGTCTCTTA
** *
60679048 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATTTATTCTTATCTCT
1 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
60679100 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
1 GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
60679152 GTGAAGCATGCATATGGTGTTTGTA-ATTCCATAGG
1 GTGAAGCATGCATATGGTGTTTG-ACATTCCATAGG
60679187 TGTGTTTTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
52 82 0.99
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (52 bp):
GTGAAGCATGCATATGGTGTTTGACATTCCATAGGCATGAATTCTTATCCCT
Found at i:60685493 original size:50 final size:51
Alignment explanation
Indices: 60685374--60685508 Score: 209
Period size: 51 Copynumber: 2.7 Consensus size: 51
60685364 TGTCTGCGAA
* * * * *
60685374 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGAACCGGAAGGCCTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCCTTGAT
*
60685425 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAG-CTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCCTTGAT
60685475 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
60685509 TATCGAATGA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 38 0.49
51 40 0.51
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGGAAAGCCTTGAT
Found at i:60689076 original size:11 final size:13
Alignment explanation
Indices: 60689060--60689091 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
60689050 ATTTCATGAA
60689060 AAAATTTCG-T-G
1 AAAATTTCGTTCG
60689071 AAAATTTCGTTCG
1 AAAATTTCGTTCG
60689084 AAAATTTC
1 AAAATTTC
60689092 AATGTTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:60690224 original size:33 final size:33
Alignment explanation
Indices: 60690155--60690383 Score: 175
Period size: 33 Copynumber: 6.6 Consensus size: 33
60690145 ATATAAAGGG
*
60690155 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
60690182 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
60690215 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGA-TTCCCCG-AA--T-CAT-TG---GT
60690257 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
60690290 GGTTGCTAAGTGCTGATTCCACC-ATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC----AT-TG---GT
* *
60690332 GGTTGCTAAGTGCTGATTCCTCAAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
60690365 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
60690384 TACCATATCT
Statistics
Matches: 166, Mismatches: 10, Indels: 46
0.75 0.05 0.21
Matches are distributed among these distances:
27 22 0.13
31 2 0.01
32 2 0.01
33 58 0.35
34 11 0.07
35 2 0.01
36 4 0.02
37 5 0.03
38 5 0.03
39 4 0.02
40 2 0.01
41 10 0.06
42 39 0.23
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:60690274 original size:42 final size:42
Alignment explanation
Indices: 60690215--60690349 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 42
60690205 AATCATTGGT
60690215 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
* * *
60690257 GGTTGCTAAGTGCTGA-TTCCCCG-AA--T-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
* * *
60690290 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
60690332 GGTTGCTAAGTGCTGATT
1 GGTTGCTAAGTGCTGATT
60690350 CCTCAAATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
33 17 0.23
34 4 0.05
35 1 0.01
36 2 0.03
37 3 0.04
38 3 0.04
39 2 0.03
40 2 0.03
41 6 0.08
42 35 0.47
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTTCACCGTAACTTGAATGTGAAAGG
Found at i:60690301 original size:75 final size:75
Alignment explanation
Indices: 60690178--60690456 Score: 445
Period size: 75 Copynumber: 3.7 Consensus size: 75
60690168 TGATTCCCCC
* *
60690178 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCGTAAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCATATC
60690243 TTGAATGTGA
66 TTGAATGTGA
*
60690253 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCATATC
60690318 TTGAATGTGA
66 TTGAATGTGA
* *
60690328 AAGGGGTTGCTAAGTGCTGATTCCTCAAATCATTGGTGGTTGCTAAGTGCTGA-TTCTACCATAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTC-ACCATAT
60690392 CTTTGAATGTGA
65 C-TTGAATGTGA
* **
60690404 AAGGGGTTGCTAAGTG-TCGATTCCCCGAATCACTGGTGACTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGCT-GATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGA
60690457 ATCTATTGAG
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
74 2 0.01
75 132 0.69
76 56 0.29
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTTCACCATATC
TTGAATGTGA
Found at i:60690350 original size:42 final size:42
Alignment explanation
Indices: 60690290--60690427 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
60690280 AATCATTGGT
60690290 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
* * *
60690332 GGTTGCTAAGTGCTGATTCC-TCAAATC----AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
*
60690365 GGTTGCTAAGTGCTGATTCTACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATC-TTGAATGTGAAAGG
60690408 GGTTGCTAAGTG-TCGATTCC
1 GGTTGCTAAGTGCT-GATTCC
60690428 CCGAATCACT
Statistics
Matches: 77, Mismatches: 8, Indels: 21
0.73 0.08 0.20
Matches are distributed among these distances:
33 20 0.26
34 5 0.06
36 2 0.03
37 2 0.03
39 2 0.03
40 2 0.03
41 5 0.06
42 21 0.27
43 18 0.23
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCATATCTTGAATGTGAAAGG
Found at i:60694303 original size:15 final size:15
Alignment explanation
Indices: 60694283--60694313 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60694273 CCTTCCCAGG
*
60694283 TCTGAAAATTATTTC
1 TCTGAAAAGTATTTC
60694298 TCTGAAAAGTATTTC
1 TCTGAAAAGTATTTC
60694313 T
1 T
60694314 TTGTTGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (15 bp):
TCTGAAAAGTATTTC
Found at i:60696417 original size:18 final size:18
Alignment explanation
Indices: 60696394--60696428 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60696384 TTTAAATACA
60696394 TGTATATTTATTTTTATG
1 TGTATATTTATTTTTATG
*
60696412 TGTATATTTGTTTTTAT
1 TGTATATTTATTTTTAT
60696429 ATATATACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TGTATATTTATTTTTATG
Found at i:60696435 original size:18 final size:18
Alignment explanation
Indices: 60696396--60696435 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60696386 TAAATACATG
* *
60696396 TATATTTATTTTTATGTG
1 TATATTTATTTTTATATA
*
60696414 TATATTTGTTTTTATATA
1 TATATTTATTTTTATATA
60696432 TATA
1 TATA
60696436 CGCATACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TATATTTATTTTTATATA
Found at i:60697895 original size:18 final size:18
Alignment explanation
Indices: 60697872--60697913 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
60697862 TTAAGTGGGA
60697872 GTGAGGAGCTATGCCTTC
1 GTGAGGAGCTATGCCTTC
*
60697890 GTGAGGAGCTATGCTTTC
1 GTGAGGAGCTATGCCTTC
60697908 GTGAGG
1 GTGAGG
60697914 TTTTCACCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.29
Consensus pattern (18 bp):
GTGAGGAGCTATGCCTTC
Found at i:60704063 original size:44 final size:44
Alignment explanation
Indices: 60703957--60704632 Score: 202
Period size: 44 Copynumber: 15.5 Consensus size: 44
60703947 GAAGATGGCA
* * * *
60703957 AATCTTATCTCTCTGAAGTCGCAGTAGAGCAGATTAAAAGCCGAT-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * *
60704002 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
* * *
60704046 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT--C--CCATTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCA-TG
* * * * ** *
60704086 AGTTTTATC-CTCCTGAAGTTGCAGTGGGGCAAAT-TGAA-GATG
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATCACAACCATG
** *
60704128 ACAAATCTTATCTC-CTTGAAGTCCCAGTGGAGCAGATTA-AAGCCGAT-
1 ---AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * *
60704175 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
* * *
60704219 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT--C--CCATTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCA-TG
* ** *
60704259 AATCTTATC-CTCCTGAAGTTGCAGTGGGGCAGAT-TGAA-GATGG
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATCACAACCAT-G
* *
60704302 CAAGTCTTATCT-TCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGA-C
1 -AA-TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * * *
60704348 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA-G
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAA-C-CATG
* * * ** * * *
60704393 -ATCTTATCTTTTTGAAGTTGTAG-AAAGTAGATCGC-ATC-T-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
* * * * * *
60704432 AGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAGCA--
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TCA-CAACCATG
* * * ** *
60704476 AGTCTTATC-CTTTTGAAGTTGCAGTGGGGCAGAT-TGAA-GATGG
1 AATCTTATCTC-TCTGAAGTTGCAGTGGAGCAGATCACAACCAT-G
* *
60704519 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCAAT-
1 -AA-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAA-CC-ATG
* * * * * * * * *
60704565 AATCCTATCTCCCTAAAGTTACAGTGGAACGGATTAAAACC-TT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
60704608 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCTCTGAAGTTGCAG
60704633 AGAGTAGATC
Statistics
Matches: 466, Mismatches: 108, Indels: 115
0.68 0.16 0.17
Matches are distributed among these distances:
39 8 0.02
40 59 0.13
41 22 0.05
42 5 0.01
43 26 0.06
44 206 0.44
45 132 0.28
46 3 0.01
48 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCACAACCATG
Found at i:60704237 original size:173 final size:173
Alignment explanation
Indices: 60703940--60704550 Score: 784
Period size: 173 Copynumber: 3.5 Consensus size: 173
60703930 CGATAGCGAA
* * * *
60703940 GCAGATCGAAGATGGCAAATCTTATCT-CTCTGAAGTCGCAGTAGAGCAGATTAAAAGCCGATAA
1 GCAGATTGAAGATGACAAATCTTATCTCCT-TGAAGTCGCAGTGGAGCAGATT-AAAGCCGACAA
60704004 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCA
64 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCA
*
60704069 GAGAGCAGATCCCATTTAGTTTTATCCTCCTGAAGTTGCAGTGGG
129 GAGAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGCAGTGGG
* * *
60704114 GCAAATTGAAGATGACAAATCTTATCTCCTTGAAGTCCCAGTGGAGCAGATTAAAGCCGATAATC
1 GCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAATC
60704179 CTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
66 CTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
*
60704244 GAGCAGATCCCATTTAATCTTATCCTCCTGAAGTTGCAGTGGG
131 GAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGCAGTGGG
* * *
60704287 GCAGATTGAAGATGGCAAGTCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGACAAT
1 GCAGATTGAAGATGACAAATCTTATC-TCCTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAAT
* * * ** * * *
60704351 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTTTTTGAAGTTGTAG
65 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAG
* * * * * *
60704416 AAAGTAGATCGCATCTAGTCTTAT-CTCCCTGAGGTTGCAGTGGA
130 AGAGCAGATCCCATTTAGTCTTATCCT-CCTGAAGTTGCAGTGGG
* * * * * * * ** *
60704460 GCAGACT-AAG-TAAGCAAGTCTTATC-CTTTTGAAGTTGCAGTGGGGCAGATTGAAGATGGCAA
1 GCAGATTGAAGATGA-CAAATCTTATCTC-CTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAA
*
60704522 GTCTTATCTCCCTGAAGTTGCAGTGGAGC
64 -TCCTATCTCCCTGAAGTTGCAGTGGAGC
60704551 AGATTAAAGC
Statistics
Matches: 392, Mismatches: 38, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
170 1 0.00
171 1 0.00
172 44 0.11
173 297 0.76
174 47 0.12
175 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
GCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTCGCAGTGGAGCAGATTAAAGCCGACAATC
CTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
GAGCAGATCCCATTTAGTCTTATCCTCCTGAAGTTGCAGTGGG
Found at i:60704285 original size:84 final size:84
Alignment explanation
Indices: 60704013--60704285 Score: 270
Period size: 84 Copynumber: 3.2 Consensus size: 84
60704003 ATCCTATCTC
60704013 CCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
1 CCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* *
60704078 TCCCATTTAGTTTTATCCT
66 TCCCATTTAATCTTATCCT
* ** ** ** * ** *
60704097 CCTGAAGTTGCAGTGGGGCAAAT-TGAA-GATGACAAATCTTATCTC-CTTGAAGTCCCAGTGGA
1 CCTGAAGTTGCAGTGGAGCGGATCACAACCTTG---GATCTTATCTCTC-TGAAGTTGCAG-AGA
* *
60704159 GCAGATTAAAGCCGA--TAATCCTAT-CT
61 GCAGA-T----CCCATTTAATCTTATCCT
60704185 CCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
1 -CCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
60704250 ATCCCATTTAATCTTATCCT
65 ATCCCATTTAATCTTATCCT
60704270 CCTGAAGTTGCAGTGG
1 CCTGAAGTTGCAGTGG
60704286 GGCAGATTGA
Statistics
Matches: 144, Mismatches: 28, Indels: 34
0.70 0.14 0.17
Matches are distributed among these distances:
82 5 0.03
83 2 0.01
84 45 0.31
85 21 0.15
86 8 0.06
87 8 0.06
88 21 0.15
89 27 0.19
90 2 0.01
91 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (84 bp):
CCTGAAGTTGCAGTGGAGCGGATCACAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
TCCCATTTAATCTTATCCT
Found at i:60704375 original size:217 final size:215
Alignment explanation
Indices: 60704090--60704769 Score: 688
Period size: 217 Copynumber: 3.1 Consensus size: 215
60704080 CCATTTAGTT
* * * * ** * * **
60704090 TTATCCTCCTGAAGTTGCAGTGGGGCAAATTGAAGATGACAAATCTTATCTCCTTGAAGTCCCAG
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC-AATCCTATCTCCCTGAAGTTACAG
* * * * ** * *
60704155 TGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCACAACCTTGG
65 TGGAGCGGATTAAAACC-ATAATCTTATCTCTCTGAAGTTGCAG-AAAGCAGATCAC-ACC-TAG
* * **
60704220 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCCCA-T-TTAA-TCTTATCCTCCTGAAGTTGC
126 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-CCAAGTAGCAAGTCTTATCCTCCTGAAGTTGC
60704281 AGTGGGGCAGATTGAAGATGGCAAGTC
189 AGTGGGGCAGATTGAAGATGGCAAGTC
*
60704308 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTACAGT
* * * * * * *
60704373 GGAGCGGATTAAAATCTCA-GATCTTATCTTTTTGAAGTTGTAGAAAGTAGATCGCATCTAGTCT
66 GGAGCGGATTAAAA-C-CATAATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACACCTAGTCT
* * * **
60704437 TATCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTTTGAAGTTGCAGTG
129 TATCTCCCTGAAGTTGCAGTAGAGCAGACCAAGT-AGCAAGTCTTATCCTCCTGAAGTTGCAGTG
60704502 GGGCAGATTGAAGATGGCAAGTC
193 GGGCAGATTGAAGATGGCAAGTC
* * * *
60704525 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTACAGT
* * * * * * *
60704590 GGAACGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCCCATCTAGTTTT
66 GGAGCGGATTAAAACCATA-ATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACACCTAGTCTT
* * * * * * *
60704655 ATCTCCCAGAAGTTGCAGTGGAGTAGACTAAATAAGCAAGTCTTATCCTCTTGAAGTTGCAGTGA
130 ATCTCCCTGAAGTTGCAGTAGAGCAGACCAAGT-AGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
*
60704720 GGCAGATTGAAGATAGCGAA-TC
194 GGCAGATTGAAGATGGC-AAGTC
* * *
60704742 TTATCTCCCTGAAGTTGTAGTAGAGCAG
1 TTATCTTCCTGAAGTTGCAGTGGAGCAG
60704770 GATAACAGAT
Statistics
Matches: 395, Mismatches: 57, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
213 22 0.06
214 10 0.03
215 3 0.01
216 10 0.03
217 311 0.79
218 38 0.10
219 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (215 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTACAGT
GGAGCGGATTAAAACCATAATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACACCTAGTCTTA
TCTCCCTGAAGTTGCAGTAGAGCAGACCAAGTAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGG
CAGATTGAAGATGGCAAGTC
Found at i:60706318 original size:26 final size:25
Alignment explanation
Indices: 60706279--60706327 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
60706269 TATTTTTATG
** *
60706279 TGCATATTTGTTTTTATATATATATA
1 TGCATATTCATTTTT-TAAATATATA
60706305 TGCATATTCATTTTTTAAATATA
1 TGCATATTCATTTTTTAAATATA
60706328 ATGTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TGCATATTCATTTTTTAAATATATA
Found at i:60710025 original size:23 final size:23
Alignment explanation
Indices: 60709980--60710025 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
60709970 TGCAGCTTTC
* **
60709980 TTTTTACTATTTTCTTATTATTT
1 TTTTTACTATTTTATTACCATTT
*
60710003 TTTTTACTGTTTTATTACCATTT
1 TTTTTACTATTTTATTACCATTT
60710026 CACGATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTACTATTTTATTACCATTT
Found at i:60710071 original size:25 final size:25
Alignment explanation
Indices: 60710038--60710096 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
60710028 CGATTATATT
*
60710038 ACTACTATTTTATTG-TTATTGTATA
1 ACTA-TATTTAATTGTTTATTGTATA
* *
60710063 ACTTATATTTAATTGTTTATTTTATT
1 AC-TATATTTAATTGTTTATTGTATA
60710089 ACTATATT
1 ACTATATT
60710097 AGAGACACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (25 bp):
ACTATATTTAATTGTTTATTGTATA
Found at i:60718613 original size:60 final size:60
Alignment explanation
Indices: 60718526--60718686 Score: 146
Period size: 60 Copynumber: 2.7 Consensus size: 60
60718516 GAAAATCAAG
* * * * * * * *
60718526 TTTAAGTATCAATTTGAACC-AATAAGCCAAGTTTAGGTA-TCTAATTAGACCAAAATAAAT
1 TTTAAGTACCAAATTGAACCTTA-AAGCCAAGTTCAAGTACT-TAATTAGACAAAAAAAAAC
* ** * *
60718586 TTTAGGTACCAAATTGAAGGTTAAAGCCAAATTCAAGTACTTAATTTGACAAAAAAAAAC
1 TTTAAGTACCAAATTGAACCTTAAAGCCAAGTTCAAGTACTTAATTAGACAAAAAAAAAC
* * *
60718646 TTTAAGTACCAATTTGAACCTTAAAACCAAGTCCAAGTACT
1 TTTAAGTACCAAATTGAACCTTAAAGCCAAGTTCAAGTACT
60718687 GAAATGTATA
Statistics
Matches: 79, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
60 77 0.97
61 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (60 bp):
TTTAAGTACCAAATTGAACCTTAAAGCCAAGTTCAAGTACTTAATTAGACAAAAAAAAAC
Found at i:60722007 original size:21 final size:21
Alignment explanation
Indices: 60721983--60722027 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
60721973 CACGTTAATC
*
60721983 ATTCTAAAATTAGGATAAATT
1 ATTCTAAAATAAGGATAAATT
60722004 ATTCTAAAATAAGGATAAATT
1 ATTCTAAAATAAGGATAAATT
60722025 ATT
1 ATT
60722028 TTTCTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTCTAAAATAAGGATAAATT
Found at i:60723035 original size:13 final size:14
Alignment explanation
Indices: 60723003--60723035 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
60722993 TTTGGGGTCA
60723003 AAGTTCGAGATTTG
1 AAGTTCGAGATTTG
*
60723017 AAGTTCGAG-TTTT
1 AAGTTCGAGATTTG
60723030 AAGTTC
1 AAGTTC
60723036 ATGATTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (14 bp):
AAGTTCGAGATTTG
Found at i:60724797 original size:19 final size:17
Alignment explanation
Indices: 60724762--60724805 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
60724752 GTTAAAATTG
60724762 TGTTAAATACTTATTTTCT
1 TGTTAAATACTTA-TTT-T
* *
60724781 TGTTAAATAGTTGTTTT
1 TGTTAAATACTTATTTT
60724798 TGTTAAAT
1 TGTTAAAT
60724806 CTCACATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 3 0.13
19 11 0.48
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (17 bp):
TGTTAAATACTTATTTT
Found at i:60738110 original size:69 final size:69
Alignment explanation
Indices: 60738002--60738137 Score: 263
Period size: 69 Copynumber: 2.0 Consensus size: 69
60737992 ACTCTATTAG
*
60738002 ATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCTTATATTAGGTGTCAAATTATAT
1 ATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTATAT
60738067 TTAT
66 TTAT
60738071 ATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTATAT
1 ATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTATAT
60738136 TT
66 TT
60738138 TTCCCCTCTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (69 bp):
ATATATATATATAAACTTTCGGTAAAAATATCATAGAGACTCCTATATTAGGTGTCAAATTATAT
TTAT
Found at i:60745755 original size:17 final size:17
Alignment explanation
Indices: 60745733--60745767 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60745723 GGTGACTAGC
60745733 AGCCCACCAGTGAGAGG
1 AGCCCACCAGTGAGAGG
60745750 AGCCCACCAGTGAGAGG
1 AGCCCACCAGTGAGAGG
60745767 A
1 A
60745768 CATGCTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.29, G:0.34, T:0.06
Consensus pattern (17 bp):
AGCCCACCAGTGAGAGG
Found at i:60746160 original size:48 final size:48
Alignment explanation
Indices: 60746089--60746185 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
60746079 TAAACATCAG
60746089 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
1 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
60746137 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
1 TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
60746185 T
1 T
60746186 ATGCAGAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (48 bp):
TTAAAACATAAATCATTTAACTGGACAAGAAATCCAAGTAAATGAAAC
Found at i:60746480 original size:6 final size:6
Alignment explanation
Indices: 60746471--60746498 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
60746461 AACAAAAATC
60746471 AGAATG AGAATG AGAATG AGAATG AGAA
1 AGAATG AGAATG AGAATG AGAATG AGAA
60746499 AGCAGTGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (6 bp):
AGAATG
Found at i:60759697 original size:41 final size:40
Alignment explanation
Indices: 60759652--60759753 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 40
60759642 TGATTCAGTA
*
60759652 CACCGACACTTAGCCTGCTAGACATATAGTCTGAAA-TATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCT-AAAGTATTT
* *
60759693 CACCGGCATTAAGCTTGCTAGACATATAGTCTAAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTAAAGTATTT
*
60759734 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
60759754 AGCGCTATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 5 0.09
41 46 0.87
42 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTAAAGTATTT
Found at i:60760557 original size:17 final size:17
Alignment explanation
Indices: 60760531--60760674 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
60760521 CGAGATTTTT
60760531 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
60760549 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
60760566 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
60760584 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
60760602 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
60760619 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
60760636 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
60760652 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
60760669 TTTTTA
1 TTTTTA
60760675 GAAGACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:60760559 original size:39 final size:38
Alignment explanation
Indices: 60760442--60760570 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 38
60760432 GATCCGATTG
* *
60760442 AAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTA
1 AAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTA
* * * *
60760482 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTT-TA
60760516 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTT-A
*
60760555 AAACACCGAAATTTTT
1 AAACA-CGAGATTTTT
60760571 GAAAACAAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 6 0.09
36 16 0.23
37 8 0.11
38 2 0.03
39 13 0.19
40 13 0.19
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (38 bp):
AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTA
Found at i:60760577 original size:35 final size:35
Alignment explanation
Indices: 60760531--60760693 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
60760521 CGAGATTTTT
**
60760531 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
60760566 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
60760601 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
60760636 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* * *
60760669 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
60760694 GAAAATGGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
33 27 0.26
34 6 0.06
35 60 0.57
36 12 0.11
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:60760911 original size:20 final size:19
Alignment explanation
Indices: 60760873--60760919 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
60760863 AATATATTTT
60760873 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
60760893 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
60760912 -TTTTGAAA
1 TTTTTGAAA
60760920 AATAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:60761292 original size:11 final size:11
Alignment explanation
Indices: 60761276--60761334 Score: 73
Period size: 11 Copynumber: 5.3 Consensus size: 11
60761266 GAATTGAACC
60761276 TCTTTTTTTTT
1 TCTTTTTTTTT
*
60761287 TCTTTTTTTCCT
1 TCTTTTTTT-TT
* *
60761299 TCTCTTTTTCT
1 TCTTTTTTTTT
*
60761310 TCTTTTTCTTT
1 TCTTTTTTTTT
60761321 TCTTTTTTTTT
1 TCTTTTTTTTT
60761332 TCT
1 TCT
60761335 GCTGGGCCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 32 0.78
12 9 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:60761308 original size:20 final size:19
Alignment explanation
Indices: 60761283--60761332 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
60761273 ACCTCTTTTT
60761283 TTTTTCTTTTTTTCCTTCTC
1 TTTTTCTTTTTTT-CTTCTC
*
60761303 TTTTTCTTCTTTTTCTTTTC
1 TTTTTCTT-TTTTTCTTCTC
60761323 TTTTT-TTTTT
1 TTTTTCTTTTT
60761333 CTGCTGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
20 18 0.64
21 5 0.18
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTCTC
Found at i:60761322 original size:14 final size:14
Alignment explanation
Indices: 60761283--60761329 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
60761273 ACCTCTTTTT
*
60761283 TTTTTCTTTTTTTC
1 TTTTTCTTTTCTTC
* *
60761297 CTTCTCTTTTTCTTC
1 TTTTTC-TTTTCTTC
60761312 TTTTTCTTTTCTT-
1 TTTTTCTTTTCTTC
60761325 TTTTT
1 TTTTT
60761330 TTTCTGCTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.19
14 11 0.41
15 11 0.41
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTCTTC
Found at i:60761626 original size:24 final size:24
Alignment explanation
Indices: 60761606--60761665 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
60761596 CTTTTCTTTT
*
60761606 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
60761630 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
60761654 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
60761666 AAAGTTTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:60761628 original size:3 final size:3
Alignment explanation
Indices: 60761594--60761665 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
60761584 TTTTTATTAT
* *
60761594 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
60761637 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
60761666 AAAGTTTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:60761633 original size:13 final size:13
Alignment explanation
Indices: 60761617--60761665 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
60761607 CTTTTTTCTT
60761617 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
60761630 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
60761643 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
60761654 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
60761666 AAAGTTTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:60761649 original size:10 final size:10
Alignment explanation
Indices: 60761634--60761662 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
60761624 TCTTCCTCTT
60761634 TTCTTCTTCC
1 TTCTTCTTCC
60761644 TTCTTCTTCC
1 TTCTTCTTCC
60761654 TTCTTCTTC
1 TTCTTCTTC
60761663 TTCAAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:60762060 original size:29 final size:29
Alignment explanation
Indices: 60762027--60762143 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
60762017 TGTAATTTTT
*
60762027 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
60762056 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
60762086 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
60762115 GGAAAAGTTTAGGGGTCAAAATGTAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
60762144 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:60762082 original size:30 final size:30
Alignment explanation
Indices: 60762042--60762143 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
60762032 ATTTAGGATT
*
60762042 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
60762072 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
60762102 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
60762132 AAAATGTAATTT
1 AAAATGAAATTT
60762144 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:60762143 original size:60 final size:59
Alignment explanation
Indices: 60762014--60762143 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 59
60762004 TTCTGGGGCT
** * * *
60762014 AAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTAGGGGTCT
1 AAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
* * * *
60762073 AAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCA
60762133 AAATGTAATTT
1 AAATGTAATTT
60762144 TTATTTTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 19 0.33
60 39 0.67
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:60762164 original size:14 final size:15
Alignment explanation
Indices: 60762139--60762173 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
60762129 GTCAAAATGT
60762139 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
60762154 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
60762168 AATTTT
1 AATTTT
60762174 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:60762596 original size:52 final size:52
Alignment explanation
Indices: 60762414--60762615 Score: 309
Period size: 52 Copynumber: 3.8 Consensus size: 52
60762404 CACGTGAGCC
* * *
60762414 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAATT--AA
*
60762469 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGA--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAAATTAA
*
60762520 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTAA
60762572 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
60762616 CAGAAATTGA
Statistics
Matches: 137, Mismatches: 7, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
50 14 0.10
51 34 0.25
52 45 0.33
55 34 0.25
56 10 0.07
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (52 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTAA
Found at i:60762627 original size:14 final size:14
Alignment explanation
Indices: 60762608--60762642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
60762598 GAGTTGATTT
60762608 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
60762622 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
60762636 TTGAAAA
1 TTGAAAA
60762643 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:60762875 original size:85 final size:86
Alignment explanation
Indices: 60762731--60762977 Score: 306
Period size: 85 Copynumber: 2.8 Consensus size: 86
60762721 AACAGAAATT
* * *
60762731 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
60762796 TTGATTTGAAAAG-TAGAATT-A
65 TTGATTTGAAAAGATAG-ATTGA
* * * *
60762817 GTAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAA
1 -AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGA
60762880 GTTGATTTTTGAAAAGCATAGATTGA
64 GTTGA--TTTGAAAAG-ATAGATTGA
*
60762906 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
60762970 GTTGATTT
64 GTTGATTT
60762978 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 30 0.22
89 4 0.03
90 33 0.24
92 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGA
Found at i:60762965 original size:90 final size:88
Alignment explanation
Indices: 60762731--60762984 Score: 324
Period size: 90 Copynumber: 2.9 Consensus size: 88
60762721 AACAGAAATT
* * *
60762731 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
60762796 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAG
* * * *
60762818 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
60762881 TTGATTTTTGAAAAGCATAG-ATT-G
65 TTGATTTTTGAAAAG--TAGAATTAG
*
60762905 AAAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATG
1 -AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATG
60762969 AGTTGATTTTTGAAAA
63 AGTTGATTTTTGAAAA
60762985 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 33 0.23
88 27 0.19
89 3 0.02
90 43 0.30
92 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAG
Found at i:60763128 original size:123 final size:123
Alignment explanation
Indices: 60762907--60763225 Score: 548
Period size: 123 Copynumber: 2.6 Consensus size: 123
60762897 ATAGATTGAA
* * * ** * *
60762907 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
60762972 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
64 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
60763032 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
60763097 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
60763155 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
60763220 ATTTTT
66 ATTTTT
60763226 TTTAAAAAAT
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 162 0.88
125 23 0.12
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (123 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:60763340 original size:193 final size:192
Alignment explanation
Indices: 60763065--60764444 Score: 2621
Period size: 191 Copynumber: 7.2 Consensus size: 192
60763055 GGCGTGCCCC
60763065 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
60763130 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
60763195 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAGCGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
60763259 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
60763324 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* *
60763389 ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAAAGTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
60763451 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
60763516 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
60763580 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
60763642 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
60763707 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
60763772 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
60763833 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
60763898 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
60763963 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
60764026 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
60764091 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
60764155 ACTCACTTCT-GCAATATGAGTTGATTTTTTAAAAAAATTT-AAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
60764215 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
60764280 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACT-AAAATA-CTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
60764343 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTT---AAAAAATTTAAAAATACCTCAACGTGTCTT
60764408 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
60764445 CCTTGGAAAG
Statistics
Matches: 1170, Mismatches: 7, Indels: 19
0.98 0.01 0.02
Matches are distributed among these distances:
187 9 0.01
188 27 0.02
189 141 0.12
190 15 0.01
191 394 0.34
192 218 0.19
193 333 0.28
194 33 0.03
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:60763891 original size:122 final size:122
Alignment explanation
Indices: 60763765--60763991 Score: 305
Period size: 122 Copynumber: 1.9 Consensus size: 122
60763755 GCGTGCCCCG
* * * * **
60763765 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCAACGT
* ** *
60763828 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* **
60763887 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
60763952 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
60763992 TTTTAAAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
120 6 0.07
121 3 0.03
122 81 0.90
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:60772097 original size:85 final size:87
Alignment explanation
Indices: 60771940--60772098 Score: 259
Period size: 85 Copynumber: 1.9 Consensus size: 87
60771930 GAAGACAAAA
60771940 AGATCTTGCCTTCCTACATTAACAGCGAAAGCAGATCGAAAACAAAGCCTTGCATCCATCGATTG
1 AGATCTTGCCTTCCTACATTAACAGCGAAAGCAGATCGAAAACAAAGCCTTGCATCCATCGATTG
60772005 CAGTGGAGCTAGTTAAAGAAGT
66 CAGTGGAGCTAGTTAAAGAAGT
* * * *
60772027 AGATCTTGCCTTCCTGCATTAACAGCG-AAGCAGATC-AAGACAAAGCCTTGCCTCCATCGGTTG
1 AGATCTTGCCTTCCTACATTAACAGCGAAAGCAGATCGAAAACAAAGCCTTGCATCCATCGATTG
*
60772090 CATTGGAGC
66 CAGTGGAGC
60772099 AGATTGAAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
85 32 0.48
86 9 0.13
87 26 0.39
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (87 bp):
AGATCTTGCCTTCCTACATTAACAGCGAAAGCAGATCGAAAACAAAGCCTTGCATCCATCGATTG
CAGTGGAGCTAGTTAAAGAAGT
Done.