Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 125 of 144
Found at i:38752664 original size:7 final size:7
Alignment explanation
Indices: 38752644--38752684 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
38752634 AACCTTAAAT
38752644 CCCTAAC
1 CCCTAAC
* *
38752651 TCTTAAC
1 CCCTAAC
38752658 CCCTAAC
1 CCCTAAC
38752665 CCCTAAC
1 CCCTAAC
*
38752672 TCCTAAC
1 CCCTAAC
38752679 CCCTAA
1 CCCTAA
38752685 ACCTTAAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (7 bp):
CCCTAAC
Found at i:38752668 original size:21 final size:21
Alignment explanation
Indices: 38752644--38752684 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38752634 AACCTTAAAT
*
38752644 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCCTAACCCCTAAC
38752665 CCCTAACTCCTAACCCCTAA
1 CCCTAACTCCTAACCCCTAA
38752685 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACTCCTAACCCCTAAC
Found at i:38752700 original size:21 final size:21
Alignment explanation
Indices: 38752655--38752708 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
38752645 CCTAACTCTT
* * *
38752655 AACCCCTAACCCCTAACTCCT
1 AACCCCTAAACCCTAAATCCC
*
38752676 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCCTAAATCCC
*
38752697 AACCCTTAAACC
1 AACCCCTAAACC
38752709 ATAATCCGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCCTAAATCCC
Found at i:38752738 original size:15 final size:15
Alignment explanation
Indices: 38752703--38752740 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
38752693 TCCCAACCCT
*
38752703 TAAA-CCATAATCCG
1 TAAATCCATAATCCC
38752717 T-AATCCATAATCCC
1 TAAATCCATAATCCC
38752731 TAAATCCATA
1 TAAATCCATA
38752741 TATAATCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:38752923 original size:25 final size:24
Alignment explanation
Indices: 38752894--38752950 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
38752884 TATATGAAAT
38752894 TATTTAATATATAAATTAAAAAACA
1 TATTTAATATATAAATTAAAAAA-A
*
38752919 TATTTAAAATATAAATTAAAAAAA
1 TATTTAATATATAAATTAAAAAAA
*
38752943 TAATTAAT
1 TATTTAAT
38752951 CTAAACCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAAAA
Found at i:38753047 original size:21 final size:20
Alignment explanation
Indices: 38753023--38753063 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
38753013 CCTAACCCCT
*
38753023 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
38753044 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
38753064 TAATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:38753072 original size:14 final size:14
Alignment explanation
Indices: 38753054--38753095 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
38753044 AACCCTTAAA
38753054 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
38753068 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
38753083 CCATACTCCCTAA
1 CCATAATCCCTAA
38753096 ACATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:38753092 original size:15 final size:15
Alignment explanation
Indices: 38753050--38753096 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
38753040 TCCCAACCCT
38753050 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
38753064 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
38753078 TAAATCCATACTCCC
1 TAAATCCATAATCCC
38753093 TAAA
1 TAAA
38753097 CATTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:38753332 original size:23 final size:25
Alignment explanation
Indices: 38753305--38753359 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
38753295 TAAATAATAG
**
38753305 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACATGTTAT
*
38753328 TATTTCAAATTATTTCCACATGTTAT
1 TATTT-TAATTATTTCCACATGTTAT
38753354 TATTTT
1 TATTTT
38753360 TTTCTGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.60
Consensus pattern (25 bp):
TATTTTAATTATTTCCACATGTTAT
Found at i:38753501 original size:41 final size:41
Alignment explanation
Indices: 38753444--38753563 Score: 204
Period size: 41 Copynumber: 2.9 Consensus size: 41
38753434 TAAAATGTTT
*
38753444 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCA
*
38753485 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCACCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCA
* *
38753526 TTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCAA
38753564 ATTTGTTAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCA
Found at i:38756079 original size:12 final size:12
Alignment explanation
Indices: 38756062--38756090 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
38756052 CTATTAGATT
38756062 ATAATGCTCGTG
1 ATAATGCTCGTG
38756074 ATAATGCTCGTG
1 ATAATGCTCGTG
38756086 ATAAT
1 ATAAT
38756091 AGTCAGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (12 bp):
ATAATGCTCGTG
Found at i:38763392 original size:16 final size:17
Alignment explanation
Indices: 38763357--38763392 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
38763347 AAAATTACCA
38763357 AAATACCCCTATAAGGT
1 AAATACCCCTATAAGGT
*
38763374 AAATACCCC-ATAGGGT
1 AAATACCCCTATAAGGT
38763390 AAA
1 AAA
38763393 ATGACCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.19
Consensus pattern (17 bp):
AAATACCCCTATAAGGT
Found at i:38763394 original size:17 final size:18
Alignment explanation
Indices: 38763356--38763394 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
38763346 TAAAATTACC
38763356 AAAATACCCCTATAAGGT
1 AAAATACCCCTATAAGGT
*
38763374 -AAATACCCC-ATAGGGT
1 AAAATACCCCTATAAGGT
38763390 AAAAT
1 AAAAT
38763395 GACCGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (18 bp):
AAAATACCCCTATAAGGT
Found at i:38763417 original size:27 final size:26
Alignment explanation
Indices: 38763374--38763449 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
38763364 CCTATAAGGT
*
38763374 AAATACCCCATAGGGTAAAATGACCG
1 AAATACCCCATAGGGTAAAATGACAG
* * *
38763400 AAATACCCTCATAAGGTAAAATAATAG
1 AAATACCC-CATAGGGTAAAATGACAG
38763427 AAATACCCCTATAGGGTAAAATG
1 AAATACCCC-ATAGGGTAAAATG
38763450 GCTGTTTTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.21
27 33 0.79
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (26 bp):
AAATACCCCATAGGGTAAAATGACAG
Found at i:38775948 original size:23 final size:24
Alignment explanation
Indices: 38775904--38775955 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
38775894 TTCTTTTTGT
*
38775904 TTTTCCTTCATTTTCTTCTTTCTC
1 TTTTCCTTCATTTTCTTCTTTCCC
*
38775928 TTTTCTTTC-TTTTCATT-TTTCCC
1 TTTTCCTTCATTTTC-TTCTTTCCC
38775951 TTTTC
1 TTTTC
38775956 ATTTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTCCTTCATTTTCTTCTTTCCC
Found at i:38776484 original size:85 final size:85
Alignment explanation
Indices: 38776333--38776504 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 85
38776323 TTTTCAAACA
*
38776333 ATATTTGCAGTTATTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAATAGCCAC
1 ATATTTGCAGTTACTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAATAGCCAC
* * *
38776398 TTGGTTCGTGATCGAACCAT
66 TTGGTTAGTGAACAAACCAT
* * * * * *
38776418 ATATTTGCAGTTACTGCCACTTGTTGTGGGTGCATAACATATTTGCAGATTAAACAAACTA-TCA
1 ATATTTGCAGTTACTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAA-TAGCCA
38776482 CTTGGTTAGTGAACAAACCAT
65 CTTGGTTAGTGAACAAACCAT
38776503 AT
1 AT
38776505 TTTTTGCAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 74 0.97
86 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (85 bp):
ATATTTGCAGTTACTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAATAGCCAC
TTGGTTAGTGAACAAACCAT
Found at i:38777768 original size:21 final size:22
Alignment explanation
Indices: 38777738--38777790 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
38777728 ACGACACATT
*
38777738 AGTGCTTGAA-ACGACACACAA
1 AGTGCCTGAATACGACACACAA
*
38777759 AGTGCCTGAAATACGACACATAA
1 AGTGCCTG-AATACGACACACAA
38777782 AGTGCCTGA
1 AGTGCCTGA
38777791 TCGGCAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 3 0.11
23 18 0.64
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
AGTGCCTGAATACGACACACAA
Found at i:38778281 original size:17 final size:18
Alignment explanation
Indices: 38778246--38778282 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38778236 TTGAATTTCT
38778246 TTTCAATTTATACCCTAA
1 TTTCAATTTATACCCTAA
*
38778264 TTTCAATTTA-ATCCTAA
1 TTTCAATTTATACCCTAA
38778281 TT
1 TT
38778283 AACTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCAATTTATACCCTAA
Found at i:38778824 original size:19 final size:20
Alignment explanation
Indices: 38778781--38778829 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
38778771 ATTAATAAGC
38778781 AATACATAT-TTTATTACTA
1 AATACATATGTTTATTACTA
*
38778800 AATACATATGTTTATTA-TT
1 AATACATATGTTTATTACTA
*
38778819 ATTACATATGT
1 AATACATATGT
38778830 ATTTACCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (20 bp):
AATACATATGTTTATTACTA
Found at i:38779047 original size:14 final size:17
Alignment explanation
Indices: 38779028--38779065 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
38779018 ATTTATTTCT
38779028 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
38779042 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
38779059 TAATATA
1 TAATATA
38779066 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:38779058 original size:28 final size:27
Alignment explanation
Indices: 38779027--38779091 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 27
38779017 AATTTATTTC
38779027 TTAATATAATA-TTTATAATATAATTAA
1 TTAATATAATACTTTATAAT-TAATTAA
38779054 TTTAATA-ATATACTTTATAATTAATTAA
1 -TTAATATA-ATACTTTATAATTAATTAA
38779082 TTAATTATAA
1 TTAA-TATAA
38779092 AATTGAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
27 5 0.15
28 19 0.58
29 9 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTAATATAATACTTTATAATTAATTAA
Found at i:38787942 original size:9 final size:9
Alignment explanation
Indices: 38787928--38787955 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
38787918 TGTAGTTTGA
38787928 TATTCGAAT
1 TATTCGAAT
38787937 TATTCGAAT
1 TATTCGAAT
38787946 TATTCGAAT
1 TATTCGAAT
38787955 T
1 T
38787956 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38788443 original size:41 final size:39
Alignment explanation
Indices: 38788388--38788471 Score: 150
Period size: 41 Copynumber: 2.1 Consensus size: 39
38788378 TTTCAACAAT
38788388 TACAATGTCCAAACTTTAGTCATTTCTTCATTGAAAATA
1 TACAATGTCCAAACTTTAGTCATTTCTTCATTGAAAATA
38788427 TACAATGACTCCAAACTTTAGTCATTTCTTCATTGAAAATA
1 TACAATG--TCCAAACTTTAGTCATTTCTTCATTGAAAATA
38788468 TACA
1 TACA
38788472 TTTACTAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 7 0.16
41 36 0.84
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (39 bp):
TACAATGTCCAAACTTTAGTCATTTCTTCATTGAAAATA
Found at i:38788512 original size:13 final size:13
Alignment explanation
Indices: 38788494--38788521 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38788484 ATGACTCACG
38788494 TTGCAGGTTGATT
1 TTGCAGGTTGATT
38788507 TTGCAGGTTGATT
1 TTGCAGGTTGATT
38788520 TT
1 TT
38788522 TTTATATTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (13 bp):
TTGCAGGTTGATT
Found at i:38789437 original size:85 final size:85
Alignment explanation
Indices: 38789332--38789487 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 85
38789322 TTTTCAAACA
* * *
38789332 ATATTTGCATTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAAGAAATTGCCAC
1 ATATTTGCAGTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAACAAACTGCCAC
38789397 TTGGTTCGTGGTCGAACCAT
66 TTGGTTCGTGGTCGAACCAT
* * * * *
38789417 ATATTTGCAGTTATTGCCACTTGTTGTGGGTGCATAACATATTTGCAGATTAAACAAACTGTCAC
1 ATATTTGCAGTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAACAAACTGCCAC
38789482 TTGGTT
66 TTGGTT
38789488 TGTGAACAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (85 bp):
ATATTTGCAGTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAACAAACTGCCAC
TTGGTTCGTGGTCGAACCAT
Found at i:38790731 original size:23 final size:22
Alignment explanation
Indices: 38790670--38790733 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
38790660 CTAATCAGTG
38790670 TACGACACATAAGTGCCTGAAA
1 TACGACACATAAGTGCCTGAAA
*
38790692 T--GACACACGAAGTGCCTGAAA
1 TACGACACA-TAAGTGCCTGAAA
*
38790713 TACGATACATAAAGTGCCTGA
1 TACGACACAT-AAGTGCCTGA
38790734 TCGGCAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 6 0.17
21 13 0.37
22 1 0.03
23 15 0.43
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (22 bp):
TACGACACATAAGTGCCTGAAA
Found at i:38794341 original size:27 final size:27
Alignment explanation
Indices: 38794025--38794334 Score: 360
Period size: 27 Copynumber: 11.5 Consensus size: 27
38794015 CCCCAAAATA
*
38794025 GGTAAAATAACT-AGAATACCCCCATAG
1 GGTAAAATGACTGA-AATACCCCCATAG
* *
38794052 GGTAAAATGACCGAAATACTCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
38794079 GGTAAAATGACTGGAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
38794106 GGTAAAAAGA-TCGAAATACGCCCATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
38794133 GGTAAAATGA-TCGAAATACCCCCATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
*
38794160 GGTAAAATGACT-AGAATACCCCTATAG
1 GGTAAAATGACTGA-AATACCCCCATAG
* * *
38794187 GGTAAAATAACTGGAATATCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* * **
38794214 GGTAAAATAACCGAAATACCTTCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
38794241 GGTAAAATGA-TCGGAATACCCTCATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
* **
38794268 GTTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
38794295 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
38794322 GGTAAAATGACTG
1 GGTAAAATGACTG
38794335 TTATACCTCT
Statistics
Matches: 243, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 239 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCCATAG
Found at i:38794359 original size:81 final size:82
Alignment explanation
Indices: 38794039--38794333 Score: 409
Period size: 81 Copynumber: 3.6 Consensus size: 82
38794029 AAATAACTAG
* *
38794039 AATACCCCCATAGGGTAAAATGACCGAAATACTCCCATAGGGTAAAATGACT-GGAATACCCCCA
1 AATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAGGAATACCCTCA
* *
38794103 TAGGGTAAAAAGATCGA
66 TAGGGTAAAATGACCGA
* *
38794120 AATACGCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTA-GAATACCC-CT
1 AATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAGGAATACCCTC-
* * *
38794183 ATAGGGTAAAATAACTGG
65 ATAGGGTAAAATGACCGA
* * ** *
38794201 AATATCCCCATAGGGTAAAATAACCGAAATACCTTCATAGGGTAAAATGA-TCGGAATACCCTCA
1 AATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAGGAATACCCTCA
* *
38794265 TAGGTTAAAATGACCAA
66 TAGGGTAAAATGACCGA
38794282 AATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACT
1 AATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACT
38794334 GTTATACCTC
Statistics
Matches: 185, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.01
81 181 0.98
82 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (82 bp):
AATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTAGGAATACCCTCA
TAGGGTAAAATGACCGA
Found at i:38794759 original size:29 final size:32
Alignment explanation
Indices: 38794733--38794792 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
38794723 TATCTGCACT
*
38794733 GATTAATGAT-TT-TATACTGTT-ACTGCATC
1 GATTAATGATATTGCATACTGTTCACTGCATC
38794762 GATTAATGATATTGCATACTGTTCACTGCAT
1 GATTAATGATATTGCATACTGTTCACTGCAT
38794793 GACTGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.37
30 2 0.07
31 8 0.30
32 7 0.26
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
GATTAATGATATTGCATACTGTTCACTGCATC
Found at i:38795211 original size:38 final size:38
Alignment explanation
Indices: 38795169--38795245 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
38795159 TGAATTTGGG
* *
38795169 TATTTTTATGTAAAAAGGCCTCTTTAAAGTTATAAACT
1 TATTTTTATGTAAAAAGACCTCTTTAAAATTATAAACT
38795207 TATTTTTATGTAAAAAGACCTCTTTAAAATTATAAACT
1 TATTTTTATGTAAAAAGACCTCTTTAAAATTATAAACT
38795245 T
1 T
38795246 TAAATTGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (38 bp):
TATTTTTATGTAAAAAGACCTCTTTAAAATTATAAACT
Found at i:38797066 original size:23 final size:23
Alignment explanation
Indices: 38797023--38797071 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
38797013 TCTTTTTGTT
*
38797023 TTTTCTTCATTTTCTTCTTTCTC
1 TTTTCTTCATTTTCTTCTTTCCC
38797046 TTTTCTTTC-TTTTCATT-TTTCCC
1 TTTTC-TTCATTTTC-TTCTTTCCC
38797069 TTT
1 TTT
38797072 CGTTTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTCTTCATTTTCTTCTTTCCC
Found at i:38798122 original size:29 final size:29
Alignment explanation
Indices: 38798090--38798146 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
38798080 AGGGTATTGT
* *
38798090 GAAGTATTTTGCTCTGAATTAGTGGCTAG
1 GAAGTATTCTGCTCTGAATTAATGGCTAG
38798119 GAAGTATTCTGCTCTGAATTAATGGCTA
1 GAAGTATTCTGCTCTGAATTAATGGCTA
38798147 AGCCTCAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (29 bp):
GAAGTATTCTGCTCTGAATTAATGGCTAG
Found at i:38799294 original size:22 final size:22
Alignment explanation
Indices: 38799234--38799294 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
38799224 TGATGATTAA
38799234 ATTGAATAATAATTTAAGTGTG
1 ATTGAATAATAATTTAAGTGTG
38799256 A-TGATATATATAA-TTAAGTGAT-
1 ATTGA-ATA-ATAATTTAAGTG-TG
*
38799278 ATTGAATAACAATTTAA
1 ATTGAATAATAATTTAA
38799295 TAGTTGATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 6 0.18
22 19 0.58
23 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (22 bp):
ATTGAATAATAATTTAAGTGTG
Found at i:38799370 original size:12 final size:12
Alignment explanation
Indices: 38799353--38799377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38799343 TCATAATAAG
38799353 TGCATCTATTCA
1 TGCATCTATTCA
38799365 TGCATCTATTCA
1 TGCATCTATTCA
38799377 T
1 T
38799378 TAAAATAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TGCATCTATTCA
Found at i:38813092 original size:23 final size:23
Alignment explanation
Indices: 38813065--38813114 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
38813055 ATGCCTATTT
*
38813065 ATAGGCCTGTAAA-CCTTATTCTA
1 ATAGGACTG-AAACCCTTATTCTA
*
38813088 ATAGGAGTGAAACTCCTTATTCTA
1 ATAGGACTGAAAC-CCTTATTCTA
38813112 ATA
1 ATA
38813115 ATATCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 7 0.30
24 13 0.57
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (23 bp):
ATAGGACTGAAACCCTTATTCTA
Found at i:38818147 original size:6 final size:7
Alignment explanation
Indices: 38818107--38818144 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
38818097 AATGAAGAAG
38818107 AAATGAA
1 AAATGAA
38818114 AAATGAA
1 AAATGAA
38818121 AAATGAA
1 AAATGAA
38818128 AAATGAA
1 AAATGAA
38818135 AAAT-AA
1 AAATGAA
38818141 AAAT
1 AAAT
38818145 AAAGAGAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (7 bp):
AAATGAA
Found at i:38824516 original size:20 final size:20
Alignment explanation
Indices: 38824469--38824525 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
38824459 ACCTGACATT
38824469 ATAAAGGAAGAAGAAATAAAA
1 ATAAA-GAAGAAGAAATAAAA
38824490 A-AGAAGAAGCAA-AAATAAAA
1 ATA-AAGAAG-AAGAAATAAAA
38824510 ATAAAG-AG-AGAAATAA
1 ATAAAGAAGAAGAAATAA
38824526 TGTAAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
17 1 0.03
18 6 0.19
19 2 0.06
20 17 0.53
21 6 0.19
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.09
Consensus pattern (20 bp):
ATAAAGAAGAAGAAATAAAA
Found at i:38836943 original size:219 final size:212
Alignment explanation
Indices: 38836448--38837056 Score: 873
Period size: 219 Copynumber: 2.8 Consensus size: 212
38836438 CAGATTTTAC
*
38836448 CTCCCTGAGATTACAGCGGAGCAGATTGAAG-TCAGTAATCCTATTTTCCTGAGATTATAGTGGA
1 CTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCTATTTCCCTGAGATTATAGTGGA
*
38836512 GCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGTGTAGATCGCATCAGGTCTTAT
65 GCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTAT
* **
38836577 CTCCCTGAGATTACAGTAGAATAGACTAAAGAACCTTATCTCCCTGAGGTTACAACAGAGCAGAT
130 CTCCCTGAGATTACAGTGGAATAGACCGAAGAACCTTATCTCCCTGAGGTTACAACAGAGCAGAT
38836642 TGAAGACAGAAATCTTAT
195 TGAAGACAGAAATCTTAT
* * * * *
38836660 CTCCCTGAGATTACAGCGGAGCATATTAAAGCCAGTAATCTTATTTCCCTAAGATTATAGTGGAG
1 CTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTATAGTGGAG
* * *
38836725 TGGATTAAAATAAAGGATCTTATCTCTCTGAAATCACAGTAGAGTAGATCGCATTAGGTCTTATC
66 CGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATC
*
38836790 TCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTGAGGTTACAGTC-G
131 TCCCTGAGATTACAGTGGAATAGACCGAAGAA---C----CTTATCTCCCTGAGGTTACA-ACAG
*
38836854 AGCAGATTGAAG-CCGAAAATCTTAT
188 AGCAGATTGAAGACAG-AAATCTTAT
* * *
38836879 CTCCCTAAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTACAGTGGAG
1 CTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTATAGTGGAG
* *
38836944 CGGATTAAAATAAAGGATCTTATCTTTCTGGAATTACAGTAGAGTAGATCGCATCAGGTCTTATC
66 CGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATC
* * * * *
38837009 ACCCTGAGATTATAGTGGAATAGACCGAAAAATCTTAATCACCCTGAG
131 TCCCTGAGATTACAGTGGAATAGACCGAAGAACCTT-ATCTCCCTGAG
38837057 ATTAAAGCCA
Statistics
Matches: 353, Mismatches: 33, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
212 151 0.43
213 10 0.03
215 1 0.00
218 2 0.01
219 188 0.53
220 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (212 bp):
CTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTATAGTGGAG
CGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGTCTTATC
TCCCTGAGATTACAGTGGAATAGACCGAAGAACCTTATCTCCCTGAGGTTACAACAGAGCAGATT
GAAGACAGAAATCTTAT
Found at i:38836944 original size:44 final size:44
Alignment explanation
Indices: 38836448--38836949 Score: 196
Period size: 44 Copynumber: 11.6 Consensus size: 44
38836438 CAGATTTTAC
* * *
38836448 CTCCCTGAGATTACAGCGGAGCAGATTGAAGTCAG-TAATCCTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAAAATCTTAT
* * * * * *
38836492 TTTCCTGAGATTATAGTGGAGCGGATT-AA-AATAAAGGATCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAA--ATCTTAT
* * * * * * * * *
38836536 CTCTCTGAAATTACAGTAGTGTAGATCGCATCAG---GTCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAAATCTTAT
* ** * *
38836577 CTCCCTGAGATTACAGTAGAATAGACT-AA--AG--AACCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAAATCTTAT
* ***
38836616 CTCCCTGAGGTTACAACAGAGCAGATTGAAGACAG-AAATCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAAAATCTTAT
* * * *
38836660 CTCCCTGAGATTACAGCGGAGCATATTAAAGCCAG-TAATCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAAAATCTTAT
* * * ** * *
38836704 TTCCCTAAGATTATAGTGGAGTGGATT-AA-AATAAAGGATCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAA--ATCTTAT
* * * * * * ** **
38836748 CTCTCTGAAATCACAGTAGAGTAGA-T--CGCATTAGGTCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAAATCTTAT
** ** * **
38836789 CTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCA--GAAAATCTTAT
* * *
38836835 CTCCCTGAGGTTACAGTCGAGCAGATTGAAGCCGAAAATCTTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAAATCTTAT
* ** * *
38836879 CTCCCTAAGATTACAACGGAGCAGATTGAAGCTAG-TAATCCTAT
1 CTCCCTGAGATTACAGTGGAGCAGATTGAAGC-AGAAAATCTTAT
* *
38836923 TTCCCTGAGATTACAGTGGAGCGGATT
1 CTCCCTGAGATTACAGTGGAGCAGATT
38836950 AAAATAAAGG
Statistics
Matches: 334, Mismatches: 103, Indels: 42
0.70 0.22 0.09
Matches are distributed among these distances:
38 2 0.01
39 26 0.08
40 3 0.01
41 55 0.16
42 2 0.01
43 10 0.03
44 200 0.60
45 2 0.01
46 34 0.10
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAAAATCTTAT
Found at i:38837181 original size:154 final size:153
Alignment explanation
Indices: 38836901--38837213 Score: 554
Period size: 154 Copynumber: 2.0 Consensus size: 153
38836891 ACAACGGAGC
* * *
38836901 AGATTGAAGCTAGTAATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA
1 AGATTAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA
38836966 TCTTTCTGGAATTACAGTAGAGTAGATCGCATCAGGTCTTATCACCCTGAGATTATAGTGGAATA
66 TCTTTCTGGAATTACAGTAGAGTAGATCGCATCAGGTCTTATCACCCTGAGATTATAGTGGAATA
38837031 GACCGAAAAATCTTAATCACCCTG
131 GACCGAAAAATCTTAAT-ACCCTG
* * *
38837055 AGATTAAAGCCAGTAATCTTATTTCCCTAAGATTATAGTGGAGTGGATTAAAATAAAGGATCTTA
1 AGATTAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA
38837120 TCTTTCTGGAATTACAGTAGAGTAGATCGCATCAGGTCTTATCACCCTGAGATTATAGTGGAATA
66 TCTTTCTGGAATTACAGTAGAGTAGATCGCATCAGGTCTTATCACCCTGAGATTATAGTGGAATA
*
38837185 GACCGAAAAATCTTAATTCCCTG
131 GACCGAAAAATCTTAATACCCTG
38837208 AGATTA
1 AGATTA
38837214 CAGTGGAATA
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
153 11 0.07
154 141 0.93
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (153 bp):
AGATTAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA
TCTTTCTGGAATTACAGTAGAGTAGATCGCATCAGGTCTTATCACCCTGAGATTATAGTGGAATA
GACCGAAAAATCTTAATACCCTG
Found at i:38837210 original size:39 final size:39
Alignment explanation
Indices: 38837164--38837340 Score: 139
Period size: 39 Copynumber: 4.5 Consensus size: 39
38837154 GGTCTTATCA
*
38837164 CCCTGAGATTATAGTGGAATAGACCGAAAAATCTTAATT
1 CCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATT
*
38837203 CCCTGAGATTACAGTGGAATAGACCGAAGAATCTT-A-T
1 CCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATT
* * * * * * *
38837240 CTCTTGAGGTTACAGTGGAGCGGATTGAAGCTAGAAATATT-ATCT
1 C-CCTGAGATTACAGTGGA----ATAG-ACCGAAAAATCTTAAT-T
* *
38837285 CCCTGAGATTACAGTGGAATAGATCGAAGAATCTT-A-T
1 CCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATT
*
38837322 CTCCTGAGGTTACAGTGGA
1 C-CCTGAGATTACAGTGGA
38837341 CCAGATTGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
37 4 0.04
38 32 0.29
39 42 0.38
40 3 0.03
42 3 0.03
43 9 0.08
44 15 0.14
45 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (39 bp):
CCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATT
Found at i:38837292 original size:82 final size:82
Alignment explanation
Indices: 38837202--38837380 Score: 295
Period size: 82 Copynumber: 2.2 Consensus size: 82
38837192 AAATCTTAAT
* * *
38837202 TCCCTGAGATTACAGTGGAATAGACCGAAGAATCTTATCTCTTGAGGTTACAGTGGAGCGGATTG
1 TCCCTGAGATTACAGTGGAATAGACCGAAGAATCTTATCTCCTGAGGTTACAGTGGACCAGATTG
* *
38837267 AAGCTAGAAATATTATC
66 AAGCCAAAAATATTATC
*
38837284 TCCCTGAGATTACAGTGGAATAGATCGAAGAATCTTATCTCCTGAGGTTACAGTGGACCAGATTG
1 TCCCTGAGATTACAGTGGAATAGACCGAAGAATCTTATCTCCTGAGGTTACAGTGGACCAGATTG
*
38837349 AAGCCAAAAATCTTATC
66 AAGCCAAAAATATTATC
38837366 TCCCTGAGATTACAG
1 TCCCTGAGATTACAG
38837381 CGGAGCAGAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (82 bp):
TCCCTGAGATTACAGTGGAATAGACCGAAGAATCTTATCTCCTGAGGTTACAGTGGACCAGATTG
AAGCCAAAAATATTATC
Found at i:38837299 original size:44 final size:44
Alignment explanation
Indices: 38837232--38837429 Score: 212
Period size: 44 Copynumber: 4.7 Consensus size: 44
38837222 TAGACCGAAG
* * * *
38837232 AATCTTATCT-CTTGAGGTTACAGTGGAGCGGATTGAAGCTAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* ** *
38837275 AATATTATCTCCCTGAGATTACAGTGGAATAGATCG-A---AG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
38837314 AATCTTATCT-CCTGAGGTTACAGTGGACCAGATTGAAGCCAAA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
38837357 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
38837401 AATCCTATTTCCCTGAGATTACAGTGGAG
1 AATCTTATCTCCCTGAGATTACAGTGGAG
38837430 TGAATTAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
38 21 0.17
39 10 0.08
40 2 0.02
42 1 0.01
43 20 0.16
44 73 0.57
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:38837416 original size:126 final size:121
Alignment explanation
Indices: 38837159--38837428 Score: 303
Period size: 126 Copynumber: 2.2 Consensus size: 121
38837149 CATCAGGTCT
* *
38837159 TATCACCCTGAGATTATAGTGGAATAGACCGAAAAATCTTAATTCCCTGAGATTACAGTGGAATA
1 TATCTCCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATTCCCTGAGATTACAGTGGAATA
* * * * * * *
38837224 GACCGAAGAATCTTATCTCTTGAGGTTACAGTGGAGCGGATTGAAGCTAGAAATAT
66 GACCGAAAAATCTTATCTCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAAATAC
* * *
38837280 TATCTCCCTGAGATTACAGTGGAATAGATCGAAGAATCTT-A-TCTCCTGAGGTTACAGTGGACC
1 TATCTCCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATTC-CCTGAGATTACAGTGG---
* * *
38837343 AGATTGAAGCC-AAAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCC
62 A-ATAG-A-CCGAAAAATCTTATCT-CCTGAGATTACAGCGGAGCAGATTGAAGCCAGAAATAC
*
38837406 TATTTCCCTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
38837429 GTGAATTAAA
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
119 2 0.02
120 16 0.13
121 36 0.29
123 1 0.01
124 3 0.02
125 13 0.10
126 54 0.43
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (121 bp):
TATCTCCCTGAGATTACAGTGGAATAGACCGAAAAATCTTAATTCCCTGAGATTACAGTGGAATA
GACCGAAAAATCTTATCTCCTGAGATTACAGCGGAGCAGATTGAAGCCAGAAATAC
Found at i:38840749 original size:10 final size:10
Alignment explanation
Indices: 38840736--38840760 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38840726 AAAAAAAATA
38840736 TTTTTTTATT
1 TTTTTTTATT
38840746 TTTTTTTATT
1 TTTTTTTATT
38840756 TTTTT
1 TTTTT
38840761 ATTTCTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:38840775 original size:18 final size:18
Alignment explanation
Indices: 38840734--38840776 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38840724 GTAAAAAAAA
* *
38840734 TATTTTTTTATTTTTTTT
1 TATTTTTTTATTTTTGTG
38840752 TATTTTTTTATTTCTTGTG
1 TATTTTTTTATTT-TTGTG
38840771 T-TTTTT
1 TATTTTT
38840777 ATATATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (18 bp):
TATTTTTTTATTTTTGTG
Found at i:38845145 original size:12 final size:13
Alignment explanation
Indices: 38845111--38845140 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
38845101 AATTTTTATA
38845111 TTTTAAATT-AAT
1 TTTTAAATTAAAT
38845123 TTTTAAATTAAAT
1 TTTTAAATTAAAT
38845136 TTTTA
1 TTTTA
38845141 TTTAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTAAAT
Found at i:38852115 original size:25 final size:25
Alignment explanation
Indices: 38852087--38852142 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
38852077 AAGAATTTCT
* *
38852087 GAGCT-AAATATCGGTAAGCTCCTAC
1 GAGCTGAAA-ATCGATAAGCTCATAC
*
38852112 GAGCTGCAAATCGATAAGCTCATAC
1 GAGCTGAAAATCGATAAGCTCATAC
38852137 GAGCTG
1 GAGCTG
38852143 TGGTGAGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GAGCTGAAAATCGATAAGCTCATAC
Found at i:38856273 original size:107 final size:107
Alignment explanation
Indices: 38856087--38856315 Score: 413
Period size: 107 Copynumber: 2.1 Consensus size: 107
38856077 TAGGTATGGG
38856087 TTGTATCGGTTAATATATATCATTTCAATCTTAAACGAGTACAAAGTAGTATATGTTTTAGTTTG
1 TTGTATCGGTTAATATATATCATTTCAATCTTAAACGAGTACAAAGTAGTATATGTTTTAGTTTG
*
38856152 ATTCAAATTTTGGCATGTTTCAACTATTTCGATGTATCTGAA
66 ATTAAAATTTTGGCATGTTTCAACTATTTCGATGTATCTGAA
* *
38856194 TTGTATCGGTTAATATATATCATTTCAATCTTAAATGAGTACACAGTAGTATATGTTTTAGTTTG
1 TTGTATCGGTTAATATATATCATTTCAATCTTAAACGAGTACAAAGTAGTATATGTTTTAGTTTG
*
38856259 ATTAAAATTTTGGCATGTTTCAACTATTTCGATGTATTTGAA
66 ATTAAAATTTTGGCATGTTTCAACTATTTCGATGTATCTGAA
*
38856301 TTGTTTCGGTTAATA
1 TTGTATCGGTTAATA
38856316 ATCAACTTAT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 117 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (107 bp):
TTGTATCGGTTAATATATATCATTTCAATCTTAAACGAGTACAAAGTAGTATATGTTTTAGTTTG
ATTAAAATTTTGGCATGTTTCAACTATTTCGATGTATCTGAA
Found at i:38856390 original size:12 final size:13
Alignment explanation
Indices: 38856356--38856385 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
38856346 AATTTTGATA
38856356 TTTTAAATT-AAT
1 TTTTAAATTAAAT
38856368 TTTTAAATTAAAT
1 TTTTAAATTAAAT
38856381 TTTTA
1 TTTTA
38856386 TTTAACTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTAAAT
Found at i:38858343 original size:25 final size:26
Alignment explanation
Indices: 38858292--38858379 Score: 85
Period size: 25 Copynumber: 3.5 Consensus size: 26
38858282 GTACATATAG
* * *
38858292 GCTCATACGAG-TGATAAA-CGGTAA
1 GCTCCTACGAGCTGACAAATCGATAA
* *
38858316 GCTCCTCCGAGCTGA-ATATCGATAA
1 GCTCCTACGAGCTGACAAATCGATAA
*
38858341 GCTCCTACGAGCT-ACAAATCGGTAA
1 GCTCCTACGAGCTGACAAATCGATAA
*
38858366 GCTCATACGAGCTG
1 GCTCCTACGAGCTG
38858380 TGGTGAGTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.23
25 40 0.77
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (26 bp):
GCTCCTACGAGCTGACAAATCGATAA
Found at i:38862421 original size:20 final size:20
Alignment explanation
Indices: 38862382--38862421 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
38862372 ATGATGTTGT
* *
38862382 TTATAATATTTTTAATAAAA
1 TTATAATATTGTTAAGAAAA
*
38862402 TTATAATATTGTTGAGAAAA
1 TTATAATATTGTTAAGAAAA
38862422 AAATTGCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TTATAATATTGTTAAGAAAA
Found at i:38867158 original size:20 final size:21
Alignment explanation
Indices: 38867135--38867177 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
38867125 AGCCTATTTT
38867135 CAAAAAAACAACTAAT-TTAA
1 CAAAAAAACAACTAATATTAA
* *
38867155 CAAAAAACCAATTAATATTAA
1 CAAAAAAACAACTAATATTAA
38867176 CA
1 CA
38867178 TTTTTCTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (21 bp):
CAAAAAAACAACTAATATTAA
Found at i:38875899 original size:3 final size:3
Alignment explanation
Indices: 38875891--38875927 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
38875881 TTAACAACCA
*
38875891 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38875928 TTGTAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38884589 original size:43 final size:43
Alignment explanation
Indices: 38884542--38884849 Score: 299
Period size: 43 Copynumber: 7.3 Consensus size: 43
38884532 AATCACTACA
38884542 TAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACT
1 TAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACT
* * ** * *
38884585 TAGCAACCACCTTT-ATATTCAGTGATACAG-GGAATCAGCACA
1 TAGCAACC-CCTTTCACAATCAAAGATACGGTGGAATCAGCACT
* *
38884627 TAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACA
1 TAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACT
* * *
38884670 TAGCAACCCCTTTCACAATCAAATATACGGTGTAATCAGCATT
1 TAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACT
* * ** * * *
38884713 TAGCAACCACCTTT-ATATTCAGTGATATGG-AGAATCAGCACA
1 TAGCAACC-CCTTTCACAATCAAAGATACGGTGGAATCAGCACT
* *
38884755 TAGCAACCCCTTTCACAATTAAATATACGGTGGAATCAGCACT
1 TAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACT
* * ** *
38884798 TAGAAACCACCTTT-AGAATCAATA-AT-TTG-GGAATCAACACT
1 TAGCAACC-CCTTTCACAATCAA-AGATACGGTGGAATCAGCACT
38884839 TAGCAACCCCT
1 TAGCAACCCCT
38884850 CGGGGAATCT
Statistics
Matches: 216, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
40 3 0.01
41 28 0.13
42 55 0.25
43 114 0.53
44 16 0.07
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (43 bp):
TAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACT
Found at i:38884628 original size:85 final size:85
Alignment explanation
Indices: 38884485--38884682 Score: 321
Period size: 85 Copynumber: 2.4 Consensus size: 85
38884475 ATCCGTTACT
* *
38884485 CGGTGGATTCAACACTTAGCAACCACC-TTAAATTCAGTGATACAGGGAATCACTACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCACTACATAGCAAC
38884549 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
*
38884569 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGC-ACATAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCA-CTACATAGCAA
*
38884633 CCCCTTTCACAATCAAATATA
65 CCCCTTTCACAATCAAAGATA
*
38884654 CGGTGGAATCAGCACATAGCAACC-CCTTT
1 CGGTGGAATCAGCACTTAGCAACCACCTTT
38884683 CACAATCAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
84 30 0.28
85 76 0.71
86 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCACTACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:38884748 original size:85 final size:84
Alignment explanation
Indices: 38884573--38884849 Score: 276
Period size: 85 Copynumber: 3.3 Consensus size: 84
38884563 AAGATACGGT
* * * * * * *
38884573 GGAATCAGCACTTAGCAACCACCTTT-ATATTC-AGTGATACAG-GGAATCAGCACATAGCAACC
1 GGAATCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACGGTGGAATCAGCACTTAGAAACC
* *
38884635 -CCTTTCACAATCAA-ATATACGG
64 ACCTTT-AGAATCAATA-ATA-TG
* * *
38884657 TGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGTAATCAGCATTTAGCAACCA
1 -GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGAAACCA
* * * *
38884722 CCTTTATATTCAGTGATATG
65 CCTTTAGAATCAATAATATG
*
38884742 GAGAATCAGCACATAGCAACCCCTTTCACAATTAAATATACGGTGGAATCAGCACTTAGAAACCA
1 G-GAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGAAACCA
*
38884807 CCTTTAGAATCAATAATTTG
65 CCTTTAGAATCAATAATATG
* *
38884827 GGAATCAACACTTAGCAACCCCT
1 GGAATCAGCACATAGCAACCCCT
38884850 CGGGGAATCT
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
84 26 0.16
85 104 0.64
86 27 0.17
87 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (84 bp):
GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGAAACCAC
CTTTAGAATCAATAATATG
Found at i:38884758 original size:128 final size:128
Alignment explanation
Indices: 38884530--38884819 Score: 460
Period size: 128 Copynumber: 2.3 Consensus size: 128
38884520 AGTGATACAG
38884530 GGAATCA-CTACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGAATCAGC-ACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACTTAGCAACCA
38884594 CCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGT
65 CCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGT
* * *
38884658 GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGTAATCAGCATTTAGCAACCAC
1 GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACTTAGCAACCAC
* *
38884723 CTTTATATTCAGTGATA-TGGAGAATCAGCACATAGCAACCCCTTTCACAATTAAATATACGGT
66 CTTTATATTCAGTGATACAGG-GAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGT
* * *
38884786 GGAATCAGCACTTAGAAACCACCTTT-AGAATCAA
1 GGAATCAGCACATAGCAACC-CCTTTCACAATCAA
38884820 TAATTTGGGA
Statistics
Matches: 151, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
127 2 0.01
128 143 0.95
129 6 0.04
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (128 bp):
GGAATCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGTGGAATCAGCACTTAGCAACCAC
CTTTATATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGT
Found at i:38884855 original size:26 final size:26
Alignment explanation
Indices: 38884826--38884875 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
38884816 TCAATAATTT
38884826 GGGAATCAACACTTAGCAACCCCTCG
1 GGGAATCAACACTTAGCAACCCCTCG
**
38884852 GGGAATCTGCACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
38884876 TTTTATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCG
Found at i:38886777 original size:85 final size:85
Alignment explanation
Indices: 38886634--38886916 Score: 473
Period size: 85 Copynumber: 3.4 Consensus size: 85
38886624 ATCCGTTACT
* * *
38886634 CGGTGGATTCAACACTTAGCAACCACC-TTAAATTCAGTGATACAGGGAATCA-CTACATAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGC-ACATAGCAA
38886697 CCCCTTTCACAATCAAAGATA
65 CCCCTTTCACAATCAAAGATA
*
38886718 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATAAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAAC
*
38886783 CCCTTTCACAATCAAAGATT
66 CCCTTTCACAATCAAAGATA
38886803 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAAC
*
38886868 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGATA
*
38886888 CGGTGGAATCAGCACATAGCAACC-CCTTT
1 CGGTGGAATCAGCACTTAGCAACCACCTTT
38886917 CACAATCAAA
Statistics
Matches: 188, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
84 30 0.16
85 157 0.84
86 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:38886896 original size:128 final size:126
Alignment explanation
Indices: 38886722--38887080 Score: 460
Period size: 128 Copynumber: 2.8 Consensus size: 126
38886712 AAGATACGGT
* * * * * *
38886722 GGAATCAGCACTTAGCAACCACCTTT-ATATTC-AGTGATACAG-GGAATAAGCACATAGCAACC
1 GGAATCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACGGTGGAATCAGCACATAGCAACC
38886784 CCTTTCACAATCAAAGATTCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACAG
64 CCTTTCACAATCAAA-ATTCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATA-AG
38886849 GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACATAGCAACCCC
1 GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACATAGCAACCCC
* * * *
38886914 TTTCACAATCAAATATACGGTGTAATCAGCATTTAGCAACCACCTTTATATTCAGTGATATG
66 TTTCACAATCAAA-ATTCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATAAG
* * *
38886976 GAGAATCAGCACATAGCAACCCCTTTCACAATTAAATATACGGTGGAATCAGCACTTAGAAACCA
1 G-GAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACATAGCAACC-
* * *
38887041 CCTTT-AGAATCAATAATT-TG-GGAATCAACACTTAGCAACC
64 CCTTTCACAATCAA-AATTCGGTGGAATCAGCACTTAGCAACC
38887081 CCTCGGGGAA
Statistics
Matches: 206, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
126 22 0.11
127 31 0.15
128 147 0.71
129 6 0.03
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (126 bp):
GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACATAGCAACCCC
TTTCACAATCAAAATTCGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATAAG
Found at i:38886982 original size:85 final size:84
Alignment explanation
Indices: 38886807--38887083 Score: 276
Period size: 85 Copynumber: 3.3 Consensus size: 84
38886797 AAGATTCGGT
* * * * * * *
38886807 GGAATCAGCACTTAGCAACCACCTTT-ATATTC-AGTGATACAG-GGAATCAGCACATAGCAACC
1 GGAATCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACGGTGGAATCAGCACTTAGAAACC
* *
38886869 -CCTTTCACAATCAA-ATATACGG
64 ACCTTT-AGAATCAATA-ATA-TG
* * *
38886891 TGGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGTAATCAGCATTTAGCAACCA
1 -GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGAAACCA
* * * *
38886956 CCTTTATATTCAGTGATATG
65 CCTTTAGAATCAATAATATG
*
38886976 GAGAATCAGCACATAGCAACCCCTTTCACAATTAAATATACGGTGGAATCAGCACTTAGAAACCA
1 G-GAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGAAACCA
*
38887041 CCTTTAGAATCAATAATTTG
65 CCTTTAGAATCAATAATATG
* *
38887061 GGAATCAACACTTAGCAACCCCT
1 GGAATCAGCACATAGCAACCCCT
38887084 CGGGGAATCT
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
84 26 0.16
85 104 0.64
86 27 0.17
87 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (84 bp):
GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGTGGAATCAGCACTTAGAAACCAC
CTTTAGAATCAATAATATG
Found at i:38887089 original size:26 final size:26
Alignment explanation
Indices: 38887060--38887109 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
38887050 TCAATAATTT
38887060 GGGAATCAACACTTAGCAACCCCTCG
1 GGGAATCAACACTTAGCAACCCCTCG
**
38887086 GGGAATCTGCACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
38887110 TTTTATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCG
Found at i:38895642 original size:11 final size:11
Alignment explanation
Indices: 38895626--38895657 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38895616 AAAAATAAAT
38895626 TTGGTAATACA
1 TTGGTAATACA
*
38895637 TTGGTAATGCA
1 TTGGTAATACA
38895648 TTGGTAATAC
1 TTGGTAATAC
38895658 GTAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (11 bp):
TTGGTAATACA
Found at i:38904755 original size:14 final size:14
Alignment explanation
Indices: 38904732--38904762 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38904722 TGTCGCGTTC
*
38904732 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
38904746 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
38904760 TTA
1 TTA
38904763 AAAAATCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:38907711 original size:30 final size:30
Alignment explanation
Indices: 38907675--38907740 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
38907665 GAGACATGGC
*
38907675 CGTGTGATCCACATAGCCTGGCCACACGGG
1 CGTGTGACCCACATAGCCTGGCCACACGGG
*
38907705 CGTGTGACCCACATGGCCTGGCCACACGGG
1 CGTGTGACCCACATAGCCTGGCCACACGGG
*
38907735 CTTGTG
1 CGTGTG
38907741 GGATCTCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.17, C:0.33, G:0.32, T:0.18
Consensus pattern (30 bp):
CGTGTGACCCACATAGCCTGGCCACACGGG
Found at i:38908181 original size:16 final size:15
Alignment explanation
Indices: 38908168--38908234 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 15
38908158 TTTTATTTTA
38908168 TTTATTTA-TTATTT
1 TTTATTTATTTATTT
*
38908182 GTTATATTATTTA-TT
1 TTTAT-TTATTTATTT
*
38908197 TTTATTT-TCCTAATTT
1 TTTATTTAT--TTATTT
38908213 TTTATTCTATTTATTT
1 TTTATT-TATTTATTT
38908229 TTTATT
1 TTTATT
38908235 CTTATATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 1 0.02
14 6 0.14
15 11 0.26
16 22 0.52
17 1 0.02
18 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTATTTATTTATTT
Found at i:38908191 original size:23 final size:22
Alignment explanation
Indices: 38908160--38908203 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
38908150 GCTACCCCTT
*
38908160 TTATTTTATTTATTTATTATTTG
1 TTATATTATTTATTT-TTATTTG
38908183 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTTTTATTT
38908204 TCCTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (22 bp):
TTATATTATTTATTTTTATTTG
Found at i:38908367 original size:10 final size:10
Alignment explanation
Indices: 38908341--38908417 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 10
38908331 TATCATTGAA
38908341 TTTATTTT-T
1 TTTATTTTCT
*
38908350 TTTGTTTTCT
1 TTTATTTTCT
38908360 TTTATTTT-T
1 TTTATTTTCT
38908369 ATTTATCTTTCTT
1 -TTTAT-TTTC-T
*
38908382 TTTAATTTTGT
1 TTT-ATTTTCT
* *
38908393 TTTAGTTGC-
1 TTTATTTTCT
38908402 TTTATTTTCT
1 TTTATTTTCT
38908412 TTTATT
1 TTTATT
38908418 ATTTATTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
9 15 0.28
10 22 0.42
11 7 0.13
12 6 0.11
13 3 0.06
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (10 bp):
TTTATTTTCT
Found at i:38908377 original size:17 final size:16
Alignment explanation
Indices: 38908348--38908429 Score: 76
Period size: 17 Copynumber: 4.8 Consensus size: 16
38908338 GAATTTATTT
*
38908348 TTTTTGTTTTCTTTTA
1 TTTTTATTTTCTTTTA
38908364 TTTTTATTTATCTTTCT-
1 TTTTTATTT-TCTTT-TA
* *
38908381 TTTTAATTTTGTTTTA
1 TTTTTATTTTCTTTTA
38908397 GTTGCTTTATTTTCTTTTA
1 -TT--TTTATTTTCTTTTA
38908416 TTATTTATTTTCTT
1 TT-TTTATTTTCTT
38908430 AAACTTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
15 1 0.02
16 12 0.22
17 26 0.48
18 3 0.06
19 12 0.22
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTCTTTTA
Found at i:38915743 original size:14 final size:14
Alignment explanation
Indices: 38915724--38915751 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38915714 CCTTTAACAC
38915724 CCACTAAGAAAGAT
1 CCACTAAGAAAGAT
38915738 CCACTAAGAAAGAT
1 CCACTAAGAAAGAT
38915752 TCAGTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
CCACTAAGAAAGAT
Found at i:38920021 original size:14 final size:12
Alignment explanation
Indices: 38919982--38920025 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
38919972 AATAATAATT
*
38919982 GAAAAAAACGAAA
1 GAAAAAAA-GGAA
38919995 GAAAAAAAGGAA
1 GAAAAAAAGGAA
38920007 GAAAAAAGAGAGAA
1 GAAAAAA-AG-GAA
38920021 GAAAA
1 GAAAA
38920026 CTGAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 10 0.36
13 10 0.36
14 8 0.29
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGGAA
Found at i:38920034 original size:23 final size:22
Alignment explanation
Indices: 38919981--38920036 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
38919971 TAATAATAAT
*
38919981 TGAAAAAAACGAAAGAAAAAAA
1 TGAAAAAAAAGAAAGAAAAAAA
* * *
38920003 GGAAGAAAAAAGAGAGAAGAAAAC
1 TGAA-AAAAAAGAAAGAA-AAAAA
38920027 TGAAAAAAAA
1 TGAAAAAAAA
38920037 TATGTATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.11
23 17 0.63
24 7 0.26
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.04
Consensus pattern (22 bp):
TGAAAAAAAAGAAAGAAAAAAA
Found at i:38924297 original size:22 final size:22
Alignment explanation
Indices: 38924231--38924304 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
38924221 AGTGTTGTTG
38924231 ATCAGTGGTACTTCGGCTACAT
1 ATCAGTGGTACTTCGGCTACAT
* * * *
38924253 TTCAATGGTTGCTACGGCTACAT
1 ATCAGTGG-TACTTCGGCTACAT
38924276 ATCAGTGGTAACTTC-GCTACAT
1 ATCAGTGGT-ACTTCGGCTACAT
38924298 ATCAGTG
1 ATCAGTG
38924305 TGACACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 21 0.50
23 21 0.50
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (22 bp):
ATCAGTGGTACTTCGGCTACAT
Found at i:38925668 original size:31 final size:31
Alignment explanation
Indices: 38925609--38925693 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
38925599 TGTATCATTT
* * *
38925609 AGATTTGCATA-TCATACCATGTGATCTATC
1 AGATTTACATATTTATACCATGTAATCTATC
* * *
38925639 ATATTTACATATTTGTACCTTGTAATCTATC
1 AGATTTACATATTTATACCATGTAATCTATC
*
38925670 AGATTTGCATATTTATACCATGTA
1 AGATTTACATATTTATACCATGTA
38925694 CTATCACATA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 9 0.20
31 35 0.80
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (31 bp):
AGATTTACATATTTATACCATGTAATCTATC
Found at i:38934894 original size:25 final size:24
Alignment explanation
Indices: 38934861--38935189 Score: 90
Period size: 25 Copynumber: 13.2 Consensus size: 24
38934851 CTTCAATAAT
38934861 CTTTCCATACAATACGCCACAATAG
1 CTTTCCATACAATACGCCACAA-AG
38934886 CTTTCCATA-AGATTA-GCCACAAAGG
1 CTTTCCATACA-A-TACGCCACAAA-G
*
38934911 CTTTCCAGACAATACGCCACAAAAG
1 CTTTCCATACAATACGCCAC-AAAG
*
38934936 C-TTCTCTTA-ATAGTA-GCCACAAAGG
1 CTTTC-CATACA-A-TACGCCACAAA-G
* * * * *
38934961 CTTTCTAGATACTATGCCACAAAG
1 CTTTCCATACAATACGCCACAAAG
* * *
38934985 TTTTTTCATAAAATTA-GCCACAAAGG
1 -CTTTCCATACAA-TACGCCACAAA-G
* * *
38935011 ATTTCCAGATAATACGCCACAAAG
1 CTTTCCATACAATACGCCACAAAG
* *
38935035 TCTTTTCATA-AGATTA-GCCATAAAGG
1 -CTTTCCATACA-A-TACGCCACAAA-G
* *
38935061 CTTTCCAAATAATA-GCCACAAATG
1 CTTTCCATACAATACGCCACAAA-G
* *
38935085 TTTTTCATA-AGATTA-GCCACAAAGG
1 CTTTCCATACA-A-TACGCCACAAA-G
* * * *
38935110 TTTTCTAGACAATACGCCACAAAAT
1 CTTTCCATACAATACGCCAC-AAAG
* *
38935135 CTTTTCATA-AGATTA-ACCACAAAGG
1 CTTTCCATACA-A-TACGCCACAAA-G
* * *
38935160 CTTTCCATATATTACGACACAAAGG
1 CTTTCCATACAATACGCCACAAA-G
38935185 CTTTC
1 CTTTC
38935190 TAATTAATTC
Statistics
Matches: 229, Mismatches: 43, Indels: 64
0.68 0.13 0.19
Matches are distributed among these distances:
23 1 0.00
24 43 0.19
25 159 0.69
26 26 0.11
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (24 bp):
CTTTCCATACAATACGCCACAAAG
Found at i:38935124 original size:99 final size:100
Alignment explanation
Indices: 38934891--38935166 Score: 378
Period size: 99 Copynumber: 2.8 Consensus size: 100
38934881 AATAGCTTTC
* * * * *
38934891 CATAAGATTAGCCACAAAGGCTTTCCAGACAATACGCCACAAAAG-CTTCTCTTAATAGTAGCCA
1 CATAAGATTAGCCACAAAGGATTTCCAGACAATACGCCAC-AAAGTCTTTTCATAAGATTAGCCA
* * *
38934955 CAAAGGCTTTCTAGATACTATGCCACAAAGTTTTTT
65 CAAAGGCTTTCCAAATAATATGCCACAAAGTTTTTT
* * *
38934991 CATAAAATTAGCCACAAAGGATTTCCAGATAATACGCCACAAAGTCTTTTCATAAGATTAGCCAT
1 CATAAGATTAGCCACAAAGGATTTCCAGACAATACGCCACAAAGTCTTTTCATAAGATTAGCCAC
38935056 AAAGGCTTTCCAAATAATA-GCCACAAA-TGTTTTT
66 AAAGGCTTTCCAAATAATATGCCACAAAGT-TTTTT
* * * *
38935090 CATAAGATTAGCCACAAAGGTTTTCTAGACAATACGCCACAAAATCTTTTCATAAGATTAACCAC
1 CATAAGATTAGCCACAAAGGATTTCCAGACAATACGCCACAAAGTCTTTTCATAAGATTAGCCAC
38935155 AAAGGCTTTCCA
66 AAAGGCTTTCCA
38935167 TATATTACGA
Statistics
Matches: 156, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
98 1 0.01
99 87 0.56
100 68 0.44
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (100 bp):
CATAAGATTAGCCACAAAGGATTTCCAGACAATACGCCACAAAGTCTTTTCATAAGATTAGCCAC
AAAGGCTTTCCAAATAATATGCCACAAAGTTTTTT
Found at i:38935181 original size:50 final size:50
Alignment explanation
Indices: 38934861--38935182 Score: 360
Period size: 50 Copynumber: 6.5 Consensus size: 50
38934851 CTTCAATAAT
* * * * *
38934861 CTTTCCATACAATACGCCACAATAGCTTTCCATAAGATTAGCCACAAAGG
1 CTTTCCAGATAATACGCCACAAAATCTTTTCATAAGATTAGCCACAAAGG
* * * * * *
38934911 CTTTCCAGACAATACGCCACAAAAGCTTCTCTTAATAGTAGCCACAAAGG
1 CTTTCCAGATAATACGCCACAAAATCTTTTCATAAGATTAGCCACAAAGG
* * * * * *
38934961 CTTTCTAGATACTATGCCACAAAGTTTTTTCATAAAATTAGCCACAAAGG
1 CTTTCCAGATAATACGCCACAAAATCTTTTCATAAGATTAGCCACAAAGG
* * *
38935011 ATTTCCAGATAATACGCCACAAAGTCTTTTCATAAGATTAGCCATAAAGG
1 CTTTCCAGATAATACGCCACAAAATCTTTTCATAAGATTAGCCACAAAGG
* *
38935061 CTTTCCAAATAATA-GCCAC-AAATGTTTTTCATAAGATTAGCCACAAAGG
1 CTTTCCAGATAATACGCCACAAAAT-CTTTTCATAAGATTAGCCACAAAGG
* * * *
38935110 TTTTCTAGACAATACGCCACAAAATCTTTTCATAAGATTAACCACAAAGG
1 CTTTCCAGATAATACGCCACAAAATCTTTTCATAAGATTAGCCACAAAGG
* * *
38935160 CTTTCCATATATTACGACACAAA
1 CTTTCCAGATAATACGCCACAAA
38935183 GGCTTTCTAA
Statistics
Matches: 227, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
48 3 0.01
49 38 0.17
50 182 0.80
51 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (50 bp):
CTTTCCAGATAATACGCCACAAAATCTTTTCATAAGATTAGCCACAAAGG
Found at i:38943491 original size:39 final size:37
Alignment explanation
Indices: 38943424--38943516 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
38943414 ACCAGAATGG
* *
38943424 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
38943463 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
38943500 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
38943517 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:38944672 original size:19 final size:18
Alignment explanation
Indices: 38944639--38944674 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38944629 TTTGTTTTGT
38944639 TTTTATTTCTGTACTTTC
1 TTTTATTTCTGTACTTTC
*
38944657 TTTTATTTACTTTACTTT
1 TTTTATTT-CTGTACTTT
38944675 ATTTCTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATTTCTGTACTTTC
Found at i:38944838 original size:5 final size:5
Alignment explanation
Indices: 38944830--38944879 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
38944820 TATTTAATTT
*
38944830 ATATA ATATA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA ATATA
38944879 A
1 A
38944880 AACATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.21
5 25 0.66
7 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:38944853 original size:22 final size:21
Alignment explanation
Indices: 38944828--38944879 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
38944818 TCTATTTAAT
*
38944828 TTATATAATATAATATAATATA
1 TTATATAATATAATAAAATA-A
*
38944850 TTATATTATATAATAAAATAA
1 TTATATAATATAATAAAATAA
38944871 TATATATAA
1 T-TATATAA
38944880 AACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATATAATATAATAAAATAA
Found at i:38944855 original size:17 final size:17
Alignment explanation
Indices: 38944829--38944879 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
38944819 CTATTTAATT
38944829 TATATAATATAATATAA
1 TATATAATATAATATAA
* *
38944846 TATATTATATTATATAA
1 TATATAATATAATATAA
*
38944863 TAAAATAATAT-ATATAA
1 T-ATATAATATAATATAA
38944880 AACATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATAATATAATATAA
Found at i:38956983 original size:20 final size:20
Alignment explanation
Indices: 38956955--38957018 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
38956945 GCTGAAAGTC
* *
38956955 AGCTAATTTGAGCTTAAATG
1 AGCTGATTTGAGCTCAAATG
* *
38956975 AGCTGATTTAAGCTCAAGTG
1 AGCTGATTTGAGCTCAAATG
* * * *
38956995 AACTGATTGGAGCTGAAACG
1 AGCTGATTTGAGCTCAAATG
38957015 AGCT
1 AGCT
38957019 AAAGGAGCTG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (20 bp):
AGCTGATTTGAGCTCAAATG
Found at i:38957438 original size:12 final size:12
Alignment explanation
Indices: 38957421--38957445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38957411 TTTGATTACA
38957421 AAATTCAAATTT
1 AAATTCAAATTT
38957433 AAATTCAAATTT
1 AAATTCAAATTT
38957445 A
1 A
38957446 TTTAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTCAAATTT
Found at i:38962291 original size:22 final size:22
Alignment explanation
Indices: 38962266--38962307 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
38962256 AATGGTAAGT
38962266 AAAATGGTAAATAAGCATGAGA
1 AAAATGGTAAATAAGCATGAGA
*
38962288 AAAATGGTAAATATGCATGA
1 AAAATGGTAAATAAGCATGA
38962308 TTTTTGCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAATGGTAAATAAGCATGAGA
Found at i:38964052 original size:12 final size:12
Alignment explanation
Indices: 38964037--38964066 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
38964027 AATAATTAAA
38964037 TAAATTGGAAAT
1 TAAATTGGAAAT
38964049 TAAATTGGAAAT
1 TAAATTGGAAAT
38964061 TAAATT
1 TAAATT
38964067 CGGATTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (12 bp):
TAAATTGGAAAT
Found at i:38987530 original size:12 final size:12
Alignment explanation
Indices: 38987513--38987537 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38987503 TTTTTTTTTT
38987513 ACTTTATATCCA
1 ACTTTATATCCA
38987525 ACTTTATATCCA
1 ACTTTATATCCA
38987537 A
1 A
38987538 TTGCTGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
ACTTTATATCCA
Found at i:38989779 original size:3 final size:3
Alignment explanation
Indices: 38989771--38989813 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
38989761 TGTTTTGCAG
38989771 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38989814 GGTAAACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38990229 original size:29 final size:28
Alignment explanation
Indices: 38990168--38990227 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
38990158 ACAATAATTC
38990168 TATA-AAAATAAATTTAAAATAATTAAA
1 TATATAAAATAAATTTAAAATAATTAAA
* *
38990195 TTTATAAAATAAATTCT-AAA-AATTATA
1 TATATAAAATAAATT-TAAAATAATTAAA
38990222 TATATA
1 TATATA
38990228 TATATAATCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 14 0.50
28 13 0.46
29 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
TATATAAAATAAATTTAAAATAATTAAA
Found at i:38990760 original size:32 final size:30
Alignment explanation
Indices: 38990675--38990760 Score: 75
Period size: 32 Copynumber: 2.8 Consensus size: 30
38990665 TAGATTATAA
*
38990675 ATATGTATGAAAAATATTT-AAATGGATAT
1 ATATATATGAAAAATATTTAAAATGGATAT
* ** * * *
38990704 ATAATTTACCAAAAAAACTAAAAATGAGACTAT
1 AT-ATATATGAAAAATATTTAAAATG-GA-TAT
38990737 ATATATATGAAAAATATTTAAAAT
1 ATATATATGAAAAATATTTAAAAT
38990761 ATTGATAAAC
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
29 2 0.05
30 11 0.27
31 5 0.12
32 18 0.44
33 5 0.12
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (30 bp):
ATATATATGAAAAATATTTAAAATGGATAT
Found at i:38994432 original size:27 final size:28
Alignment explanation
Indices: 38994379--38994432 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
38994369 AAAAATAATT
*
38994379 AAAATTAAATATGTTAATAATTTAAGTG
1 AAAATTAAATATGTTAATAATTAAAGTG
* *
38994407 AAAATTAATTAT-TTTATAATTAAAGT
1 AAAATTAAATATGTTAATAATTAAAGT
38994433 ATGAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (28 bp):
AAAATTAAATATGTTAATAATTAAAGTG
Found at i:38997702 original size:57 final size:62
Alignment explanation
Indices: 38997635--38997803 Score: 159
Period size: 68 Copynumber: 2.6 Consensus size: 62
38997625 CTAAAAATAA
* * *
38997635 TATTATTTTAAT-AGATTTAATATTAAATTAAATTTAATATTTATC-T-TA-AT-AGTATTT
1 TATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTT
*
38997692 TATTAATTTAATATTAAAGTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATA
1 TATTAATTT-A-A-T-AA--G---AT-TTAATATTAAATTTAATTTAATATTTATCTTGTAGATA
38997757 AATATTT
56 AATATTT
* *
38997764 TATTACTTTAATAAGATTTAATATTAAATTTAATCTAATA
1 TATTAATTTAATAAGATTTAATATTAAATTTAATTTAATA
38997804 GTATTAGATT
Statistics
Matches: 90, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
57 8 0.09
58 1 0.01
59 1 0.01
60 1 0.01
62 22 0.24
63 2 0.02
64 1 0.01
66 1 0.01
67 2 0.02
68 29 0.32
69 2 0.02
70 3 0.03
71 3 0.03
72 14 0.16
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (62 bp):
TATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTT
Found at i:39004606 original size:48 final size:48
Alignment explanation
Indices: 39004550--39004642 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
39004540 ATATGTCATG
*
39004550 AAAAATAAATAAACAAAAGCCACACTAATGAGGTGAGTGCTATTGTTT
1 AAAAATAAATAAACAAAAGCCACACTAATAAGGTGAGTGCTATTGTTT
39004598 AAAAATAAATAAACAAAAGCCACACTAATAAGGTGAGTGCTATTG
1 AAAAATAAATAAACAAAAGCCACACTAATAAGGTGAGTGCTATTG
39004643 CTTCAAGAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (48 bp):
AAAAATAAATAAACAAAAGCCACACTAATAAGGTGAGTGCTATTGTTT
Found at i:39007067 original size:27 final size:27
Alignment explanation
Indices: 39007036--39007213 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39007026 TAAATTGTAC
39007036 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39007063 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39007089 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39007117 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39007145 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39007172 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39007199 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39007214 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39007150 original size:82 final size:81
Alignment explanation
Indices: 39007037--39007192 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39007027 AAATTGTACA
* *
39007037 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39007101 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39007118 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39007183 TGCGAGTTGA
65 TGCGAATTGA
39007193 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39007204 original size:82 final size:81
Alignment explanation
Indices: 39007033--39007213 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39007023 GATTAAATTG
* *
39007033 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39007098 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39007114 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39007178 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39007196 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39007214 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39019153 original size:51 final size:49
Alignment explanation
Indices: 39018988--39019174 Score: 169
Period size: 51 Copynumber: 3.7 Consensus size: 49
39018978 AGTGAAAGTG
* *
39018988 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATG-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGT
* * * * * **
39019037 ATGGGTCGCATGTGTAGTACCATGTGCAGGTTATTATGCATACCGGATAGTT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-G-T
* * * * * *
39019089 TTGATCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGGTGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GT
*
39019139 AATGGTCACATGTGTAGTACTATGTGCAAGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
39019175 TATGAACCGA
Statistics
Matches: 105, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
49 4 0.04
50 36 0.34
51 64 0.61
52 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGT
Found at i:39019238 original size:45 final size:45
Alignment explanation
Indices: 39019187--39019273 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
39019177 TGAACCGAAT
* * *
39019187 ATCATTGTTTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGGAC
1 ATCATTGATTAATAAGGCGGTTGCTATGTGCTGATTCCACCGGAC
39019232 ATCATTGATTAATAAGGCGGTTGCTATGTGCTGATTCCACCG
1 ATCATTGATTAATAAGGCGGTTGCTATGTGCTGATTCCACCG
39019274 AGTATGTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAGGCGGTTGCTATGTGCTGATTCCACCGGAC
Found at i:39023665 original size:28 final size:28
Alignment explanation
Indices: 39023616--39023675 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
39023606 GTAAAGAGAT
* * *
39023616 ATATATATGTATATTTTAAAATTGTGAA
1 ATATATATGTATATTATAAAATTATAAA
39023644 ATATATATGTATA-TATATAAATTATAAA
1 ATATATATGTATATTATA-AAATTATAAA
39023672 ATAT
1 ATAT
39023676 GTGTGCATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (28 bp):
ATATATATGTATATTATAAAATTATAAA
Found at i:39026757 original size:16 final size:16
Alignment explanation
Indices: 39026736--39026776 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
39026726 CAACATTCCC
39026736 TCCTTAAAAAGTTTGG
1 TCCTTAAAAAGTTTGG
39026752 TCCTTAAAAAGTTTGG
1 TCCTTAAAAAGTTTGG
*
39026768 ACCTTAAAA
1 TCCTTAAAA
39026777 TTTATCTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (16 bp):
TCCTTAAAAAGTTTGG
Found at i:39031971 original size:40 final size:41
Alignment explanation
Indices: 39031927--39032016 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
39031917 TTTACGAGAA
* *
39031927 AAACGCTGC-AAAAGGTGAGCAATAGTGGCGTTTTTGGTCC
1 AAACGCCGCAAAAAGGTGAGCAATAGTGGCATTTTTGGTCC
* *
39031967 AAACGCCGCAAAAAGTTGAGCAATAGTGGCATTTTTTGTCC
1 AAACGCCGCAAAAAGGTGAGCAATAGTGGCATTTTTGGTCC
39032008 AAACGCCGC
1 AAACGCCGC
39032017 GAATATGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 8 0.18
41 37 0.82
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (41 bp):
AAACGCCGCAAAAAGGTGAGCAATAGTGGCATTTTTGGTCC
Found at i:39032235 original size:77 final size:75
Alignment explanation
Indices: 39032158--39032345 Score: 202
Period size: 78 Copynumber: 2.5 Consensus size: 75
39032148 TATTCATTTC
*
39032158 CCCCAAATCAATTCCCCCTCCCCGAAATCCCT-A-ATTTTAACCCAAAATCCCTTTCTCTTTTTC
1 CCCCAAATCAATTCCCCCTCCCCGAAATCCCTAACATTTT-ACCC-AAATCCCTTTAT-TTTTTC
* *
39032221 CC-CATTTTATTTT
63 CCTAACTTT-TTTT
* * * * *
39032234 CCCCAAATCAATTATCCCCTTCCCTGAAATCCCTAACATTTTTCCCAATTCCTTTTATTTTTTCC
1 CCCCAAATCAA-T-TCCCCCTCCCCGAAATCCCTAACATTTTACCCAAATCCCTTTATTTTTTCC
39032299 CTAACTTTTTTT
64 CTAACTTTTTTT
* * *
39032311 CCCCAAATCAGTTCCCCCTCCTCGAAATCCTTAAC
1 CCCCAAATCAATTCCCCCTCCCCGAAATCCCTAAC
39032346 TCTTTTTCCC
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
75 19 0.20
76 12 0.13
77 23 0.24
78 31 0.33
79 4 0.04
80 5 0.05
ACGTcount: A:0.23, C:0.37, G:0.02, T:0.37
Consensus pattern (75 bp):
CCCCAAATCAATTCCCCCTCCCCGAAATCCCTAACATTTTACCCAAATCCCTTTATTTTTTCCCT
AACTTTTTTT
Found at i:39033350 original size:17 final size:18
Alignment explanation
Indices: 39033328--39033361 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39033318 TCAGTATGAG
39033328 CTTCTTAT-AAAAAGCTT
1 CTTCTTATCAAAAAGCTT
*
39033345 CTTCTTGTCAAAAAGCT
1 CTTCTTATCAAAAAGCT
39033362 GTTAAGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (18 bp):
CTTCTTATCAAAAAGCTT
Found at i:39036461 original size:43 final size:43
Alignment explanation
Indices: 39036390--39036497 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 43
39036380 CCACAAAGCC
* * * *
39036390 AAAGAACATGACTTTTAGCGGCGCTTTTACTAAAAACGCTGCT
1 AAAGAACATGACCTTTAGCGGCACTTTTACGAAAAACGCCGCT
* * * *
39036433 AAAGAACATGACCTTTAGTGGCATTTTTAGGAAAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCACTTTTACGAAAAACGCCGCT
** **
39036476 AAAGGTCATGTTCTTTAGCGGC
1 AAAGAACATGACCTTTAGCGGC
39036498 GTTTGTGGGA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
AAAGAACATGACCTTTAGCGGCACTTTTACGAAAAACGCCGCT
Found at i:39036553 original size:42 final size:43
Alignment explanation
Indices: 39036462--39036712 Score: 244
Period size: 42 Copynumber: 5.9 Consensus size: 43
39036452 GGCATTTTTA
*
39036462 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTG
* *
39036505 GG-AAAGCACCGCTAAA-GTCATGTTCTTTGGCAGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTG
* * * ** *
39036546 GGAAAAGCGCCACTAAAGGTCATGCTCTATAATAGCGCTTGT-
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTG
* * * * ** *
39036588 GGAAAAGCGTTC-CTAAAGGTCATGCTCTATGGTGGGGTTTGT-
1 GGAAAAGCG-CCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTG
* * *
39036630 GGAAAAGCGCCGTTAAATGACATGTTCTTTAGC-GACGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAG-CGTTTGTG
* * *
39036673 GGAAAAGCGCGGCTAAAGGTCATGTTCTATAGCGGCGTTT
1 GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTT
39036713 TTCCACATAA
Statistics
Matches: 170, Mismatches: 31, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
41 27 0.16
42 88 0.52
43 54 0.32
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
GGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTG
Found at i:39036682 original size:127 final size:126
Alignment explanation
Indices: 39036474--39036703 Score: 318
Period size: 127 Copynumber: 1.8 Consensus size: 126
39036464 AAAAGCGCCG
* * * * *
39036474 CTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAGCACCGCTAAAGTCATGTTCTTTGGCAGC
1 CTAAAGGTCATGCTCTATAGCGGCGTTTGTGGAAAAGCACCGCTAAAGACATGTTCTTTAGCAGC
39036539 GTTTGTGGGAAAAGCGCCACTAAAGGTCATGCTCTATAATAGCGCTTGTGGAAAAGCGTTC
66 GTTTGTGGGAAAAGCGCCACTAAAGGTCATGCTCTATAATAGCGCTTGTGGAAAAGCGTTC
* * * * *
39036600 CTAAAGGTCATGCTCTATGGTGGGGTTTGTGGAAAAGCGCCGTTAAATGACATGTTCTTTAGC-G
1 CTAAAGGTCATGCTCTATAGCGGCGTTTGTGGAAAAGCACCGCTAAA-GACATGTTCTTTAGCAG
** *
39036664 ACGTTTGTGGGAAAAGCGCGGCTAAAGGTCATGTTCTATA
65 -CGTTTGTGGGAAAAGCGCCACTAAAGGTCATGCTCTATA
39036704 GCGGCGTTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
126 40 0.45
127 49 0.55
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (126 bp):
CTAAAGGTCATGCTCTATAGCGGCGTTTGTGGAAAAGCACCGCTAAAGACATGTTCTTTAGCAGC
GTTTGTGGGAAAAGCGCCACTAAAGGTCATGCTCTATAATAGCGCTTGTGGAAAAGCGTTC
Found at i:39037165 original size:17 final size:17
Alignment explanation
Indices: 39037145--39037203 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
39037135 TCAAAATGAT
*
39037145 TAAACAATTCAATAATA
1 TAAATAATTCAATAATA
*
39037162 TAAATAATACAA-AATA
1 TAAATAATTCAATAATA
39037178 TAAAATTTAATTCAATAATA
1 T-AAA--TAATTCAATAATA
39037198 TAAATA
1 TAAATA
39037204 CTTGACATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 5 0.14
17 15 0.43
19 10 0.29
20 5 0.14
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:39039863 original size:22 final size:22
Alignment explanation
Indices: 39039816--39039867 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
39039806 AATTACTATT
*
39039816 AAATATACAAAAATTCGTAATTC
1 AAATATACAAAAATTC-TAATAC
*
39039839 AAATATATAAAAATT-TAAATAC
1 AAATATACAAAAATTCT-AATAC
39039861 AAATATA
1 AAATATA
39039868 AAATATGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
23 14 0.54
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATATACAAAAATTCTAATAC
Found at i:39043995 original size:6 final size:6
Alignment explanation
Indices: 39043963--39044014 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
39043953 GTCTACCTGC
39043963 AAAAT- AAAAT- AAAATA GAAGGAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA -AA--AATA AAAATA AAAATA AAAATA AAAATA
39044012 AAA
1 AAA
39044015 TGTGTAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.23
6 25 0.58
7 2 0.05
8 2 0.05
9 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:39046936 original size:823 final size:823
Alignment explanation
Indices: 39045351--39047825 Score: 4932
Period size: 823 Copynumber: 3.0 Consensus size: 823
39045341 CACATTCGAG
39045351 AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAGGACAAAAAGTTA
1 AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAGGACAAAAAGTTA
39045416 AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
66 AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
39045481 AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
131 AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
39045546 TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
196 TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
39045611 CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
261 CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
39045676 GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
326 GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
39045741 GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
391 GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
39045806 ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
456 ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
39045871 TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
521 TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
39045936 CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
586 CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
39046001 CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTCCAATTTGGTGGTTGAAC
651 CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTCCAATTTGGTGGTTGAAC
39046066 TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
716 TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
39046131 CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
781 CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
*
39046174 AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAAGACAAAAAGTTA
1 AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAGGACAAAAAGTTA
39046239 AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
66 AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
39046304 AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
131 AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
39046369 TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
196 TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
39046434 CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
261 CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
39046499 GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
326 GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
39046564 GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
391 GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
39046629 ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
456 ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
39046694 TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
521 TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
39046759 CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
586 CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
39046824 CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTCCAATTTGGTGGTTGAAC
651 CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTCCAATTTGGTGGTTGAAC
39046889 TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
716 TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
39046954 CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
781 CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
39046997 AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAGGACAAAAAGTTA
1 AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAGGACAAAAAGTTA
39047062 AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
66 AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
39047127 AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
131 AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
39047192 TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
196 TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
39047257 CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
261 CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
39047322 GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
326 GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
39047387 GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
391 GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
39047452 ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
456 ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
39047517 TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
521 TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
39047582 CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
586 CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
*
39047647 CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTTCAATTTGGTGGTTGAAC
651 CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTCCAATTTGGTGGTTGAAC
39047712 TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
716 TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
39047777 CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
781 CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
39047820 AATTTT
1 AATTTT
39047826 CGAGAAACCT
Statistics
Matches: 1649, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
823 1649 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (823 bp):
AATTTTATGTACGGTGCATTTAGGTCCAAAGTGTCCTCCACATGCATAAGAAGGACAAAAAGTTA
AGATGGATTGTACCTCTATTTCTGCTACAGAACGTCGAATTACCTGATCGGAGTAATGCTTCCAA
AGGTAAGGATCGTCCCAAATGTAATACCGAGCATCCTTTTTGATCTTATCTTTTGTAGACCTTAG
TAATTCCGAAGAAACAATACCTGTAACGAGGTAATTTACTATGTCTGCGTACCAAGGATGAACCG
CATTGGCTGAAAATAGGTTTTCATCTGGGAAGTTGTCATTCAACGGTGTGTCATCTATTGGAATC
GATAATCAACTCAGATGGTTAGCTACTAAGTTTTCGCATCCCTTTCTATCCCGGATTTCAAAATC
GAACTCTTGTAGGAGCAGAATCCACCTAATCAATCGAGGTTTTGCCTCCTTCTTCCCTATGAAAT
ATTTCAAAGCTGCATGATCAGAAAAGACAATCACTTTAGTTCCCGACAGGTAAGATCTAAATTTT
TCTAAATCAAACACAACAGCTAATAATTCTTTCTCAGTGGTTGTGTTATTACTTTGGGCAAGCAT
CCAAAGTCTTCGAAGCATAGTAGATAACATGAGGTTATTTCCCTATTCTTTGGCCAAGAACAGCT
CCCACACTTCGGTCACTTGCGTCACACATGATTTCGAACGGGAAGTTCCAATTTGGTGGTTGAAC
TGTGAGAGCGGAGACCAATTTCTGCTTCAGCACGTCAAAAGCGTCTTTACAAGTCTGGTCAAATT
CAAATTCTTTATCTTTTTGTAACAGACTGCAAAACGGTTGCGC
Found at i:39055228 original size:24 final size:24
Alignment explanation
Indices: 39055201--39055257 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
39055191 CATTTAATAA
*
39055201 AATAAAATTTGTTTTTA-ATATTTT
1 AATAAAATTTATTTTTATAT-TTTT
39055225 AATAGTAAA-TTATTTTTATATTTTT
1 AATA--AAATTTATTTTTATATTTTT
39055250 AATAAAAT
1 AATAAAAT
39055258 AGAAGTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
23 3 0.11
24 4 0.14
25 16 0.57
26 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
AATAAAATTTATTTTTATATTTTT
Found at i:39058508 original size:125 final size:124
Alignment explanation
Indices: 39058262--39058654 Score: 479
Period size: 126 Copynumber: 3.1 Consensus size: 124
39058252 GGCCAAATAA
*
39058262 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCA-TCAATTTTACTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* *
39058326 CCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAACTCTCTTCTCAAATTTATTTTTTTAG
65 CCTGC-TGAAGCGTTTTTGACACCATTTGTTCAGAACTCTCTTCTCAAAATTA-TTTTTTAG
* * * * * *
39058388 GAACTACTATAGAAAAAGAGTATCCACGTGGGAGCTTTTTTCAGTATTTTTGTTGACTGTGCATG
1 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
39058453 CTGCTGAAGCGTTTTTGACACCATTTGTTCAGAATTGTCTTCTCAAAATTATTTTTTAG
66 CTGCTGAAGCGTTTTTGACACCATTTGTTCAGAACTCTCTTCTCAAAATTATTTTTTAG
* * * **
39058512 GAACTAATGTAGAAAAAGAGTGTCCACGTAGGAGCTTTTTTTAGTAATTTTGCTGACAAAGCATC
1 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * ** * *
39058577 CTGTATGAAGCGTTTTTGAAATTATCTT-TTCAGAAC-CGTATTCTCAAATTTAATTTTTCT-G
66 CTG-CTGAAGCGTTTTTGACACCAT-TTGTTCAGAACTC-TCTTCTCAAAATT-ATTTTT-TAG
*
39058638 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
39058655 AAAACAAAAT
Statistics
Matches: 229, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
124 65 0.28
125 78 0.34
126 84 0.37
127 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (124 bp):
GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTGAAGCGTTTTTGACACCATTTGTTCAGAACTCTCTTCTCAAAATTATTTTTTAG
Found at i:39058765 original size:34 final size:33
Alignment explanation
Indices: 39058717--39058840 Score: 158
Period size: 34 Copynumber: 3.6 Consensus size: 33
39058707 ACAAAATTAA
** *
39058717 TTTAAAAAAACTAAATCCTAATTTAATTAATTT
1 TTTAAAAACTCTAAACCCTAATTTAATTAATTT
39058750 TCTTAAAAACTCTAAACCCTAATTTAATTAATTT
1 T-TTAAAAACTCTAAACCCTAATTTAATTAATTT
* * *
39058784 ATTTAAAACCCCTAAAACCTAATTTAATTAATTT
1 -TTTAAAAACTCTAAACCCTAATTTAATTAATTT
39058818 TTTAAAAAAACTCTAAACCCTAA
1 TTT--AAAAACTCTAAACCCTAA
39058841 ACCAAAAAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
33 4 0.05
34 58 0.74
35 16 0.21
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTAAAAACTCTAAACCCTAATTTAATTAATTT
Found at i:39058788 original size:68 final size:68
Alignment explanation
Indices: 39058711--39058840 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
39058701 CTAAACACAA
*
39058711 AATTAATTTAAAAAAACTAAATCCTAATTTAATTAATTTTCTT-AAAAACTCTAAACCCTAATTT
1 AATTAATTTAAAAAAACTAAAACCTAATTTAATTAATTTT-TTAAAAAACTCTAAACCCTAATTT
39058775 AATT
65 AATT
* ***
39058779 AATTTATTTAAAACCCCTAAAACCTAATTTAATTAATTTTTTAAAAAAACTCTAAACCCTAA
1 AATTAATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTT-AAAAAACTCTAAACCCTAA
39058841 ACCAAAAAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 2 0.04
68 35 0.64
69 18 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (68 bp):
AATTAATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTTAAAAAACTCTAAACCCTAATTTA
ATT
Found at i:39058862 original size:22 final size:22
Alignment explanation
Indices: 39058822--39058864 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
39058812 TAATTTTTTA
* *
39058822 AAAAAACTCTAAACCCTAAACC
1 AAAAAACCCTAAACACTAAACC
*
39058844 AAAAAACCCTAAAGACTAAAC
1 AAAAAACCCTAAACACTAAAC
39058865 ATGCAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.28, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAAAACCCTAAACACTAAACC
Found at i:39073428 original size:45 final size:45
Alignment explanation
Indices: 39073284--39073731 Score: 465
Period size: 45 Copynumber: 10.0 Consensus size: 45
39073274 TAGGTTGAAA
* * *
39073284 ATAATAGATATTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * * *** * * * * *
39073329 ATATCAG-CCTTGTCTCCCT-CAGCAGCAGTGGAGTAGGTTGAAA
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
*
39073372 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
39073417 ATAACATATCTTGTCTTCCTGTATTGGCGGTGAAGTAGATCAAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
39073462 ATAACAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
39073507 ATAGCAGATCTTGTCTT-CTCATATTGGTAGCGAAGTAGATCGAAG
1 ATAACAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATCGAAG
*
39073552 ATAACAGATCTTGTCTTCCTGTATTGGCAGC-ACAGTAGATCAAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGA-AGTAGATCGAAG
** * * * * * *
39073597 ATAGTAGATCTGGGCTTCTTATATTGGTAGCAAAGTAGATCGAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
39073642 -TAACAGGTCTTGTCTTCCTGTATTGGCAGCGAATTAGATCGAAA
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * * *
39073686 ACAGCAGATCTTATCTTCATGTATTGGCAGCGAAGTAGATTGAAG
1 ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
39073731 A
1 A
39073732 CAGAAGTAAC
Statistics
Matches: 324, Mismatches: 72, Indels: 14
0.79 0.18 0.03
Matches are distributed among these distances:
43 20 0.06
44 55 0.17
45 246 0.76
46 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
ATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
Found at i:39073926 original size:45 final size:45
Alignment explanation
Indices: 39073789--39074123 Score: 176
Period size: 45 Copynumber: 7.6 Consensus size: 45
39073779 AAACCACAGA
* * *
39073789 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TC--G-CAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
* *
39073830 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCATGAAAGCATA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG
* * * *
39073875 TTTTATCTCTCTGAGGTTGCAGTGGAGCAGACTCAAGATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
* * * *** * *
39073920 TCTTATCCCCCTTTGAAATTGCAGTGGGGCAGACGGGATAAA-CAAA
1 TCTTATCTCCC--TGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
* * * * *** * *
39073966 TCCTATCACCCTAAAGTTGTAGTGGATTGGA-T-TAGAATG-ACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG
* ** * * *
39074009 ATATTATCTTTCTTTGAAGTTGCAGTAGAGCAGA-TC---ATAGCAGG
1 -TCTTATC--TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
* * * *
39074053 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAATAAACCAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
*
39074097 TCTTATCTCCCTGAAGTTGAAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
39074124 TAGATCGAGG
Statistics
Matches: 214, Mismatches: 61, Indels: 35
0.69 0.20 0.11
Matches are distributed among these distances:
41 48 0.22
42 7 0.03
43 7 0.03
44 48 0.22
45 54 0.25
46 29 0.14
47 21 0.10
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
Found at i:39078801 original size:125 final size:124
Alignment explanation
Indices: 39078579--39078971 Score: 497
Period size: 125 Copynumber: 3.1 Consensus size: 124
39078569 GGCCAAATAA
39078579 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* *
39078643 CCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAACTCTCTTCTCAAATTTATTTTTTAG
65 CCTGCTTGAAGCGTTTTTGACACAATTT-TTCAGAACTCTCTTCTCAAATTTATTTTTTAG
* * *
39078704 GAACTACTATAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTATTTTTGTTGA-ATGTGCAT
1 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACA-GTGCAT
* * * *
39078768 GCTGCTTGAAGCGTTTTTGACACAATTTCTTCAGAATTGTCTTCTCAAAATTATTTTTTAG
65 CCTGCTTGAAGCGTTTTTGACACAATTT-TTCAGAACTCTCTTCTCAAATTTATTTTTTAG
* * * * **
39078829 GAACTACTGTAGAAAAATAGTGTCCACGTAGAAGCTTTTTTTAGTAATTTTGCTGACAAAGCATC
1 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * ** *
39078894 CTGCATGAAGCGTTTTTGAAATTATCTTTTCAGAAC-CGTATTCTCAAATTTAATTTTTCT-G
66 CTGCTTGAAGCGTTTTTGACACAAT-TTTTCAGAACTC-TCTTCTCAAATTT-ATTTTT-TAG
*
39078955 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
39078972 AAAAACAAAA
Statistics
Matches: 232, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
124 1 0.00
125 203 0.88
126 27 0.12
127 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (124 bp):
GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACAATTTTTCAGAACTCTCTTCTCAAATTTATTTTTTAG
Found at i:39079084 original size:34 final size:33
Alignment explanation
Indices: 39079046--39079138 Score: 141
Period size: 34 Copynumber: 2.8 Consensus size: 33
39079036 TTAAAAAAAG
39079046 TAAACCCTAATTTAATTAATTTTCTTAAAAACTC
1 TAAACCCTAATTTAATTAATTTT-TTAAAAACTC
* *
39079080 TAAACCCTAATTTAATTAATTTATTTAAAACCCC
1 TAAACCCTAATTTAATTAATTT-TTTAAAAACTC
*
39079114 TAAAACCTAATTTAATTAATTTTTT
1 TAAACCCTAATTTAATTAATTTTTT
39079139 TTAAAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
33 3 0.05
34 51 0.93
35 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTTTTAAAAACTC
Done.