Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 472 of 770
Found at i:145731059 original size:79 final size:79
Alignment explanation
Indices: 145730923--145731140 Score: 256
Period size: 79 Copynumber: 2.7 Consensus size: 79
145730913 CGAATGATGT
* * * * * *
145730923 CCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGTGATTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAAACCGGGTCAAGTCCCGAAGGCATTT
145730988 GTGCGAGTTACCAAAA
64 GTGCGAGTTACCAAAA
* * *
145731004 CCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTCAAGTCCCGAAGGCATTTGT
* *
145731069 GCGAGTTACTAAAT
66 GCGAGTTACCAAAA
* * * * * *
145731083 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCCATGTCCCGAAG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTCAAGTCCCGAAG
145731141 ATAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
79 52 0.45
80 52 0.45
81 12 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTCAAGTCCCGAAGGCATTTGT
GCGAGTTACCAAAA
Found at i:145731070 original size:40 final size:40
Alignment explanation
Indices: 145730923--145731127 Score: 241
Period size: 40 Copynumber: 5.1 Consensus size: 40
145730913 CGAATGATGT
* * * * * * *
145730923 CCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGTGATTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
145730964 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
145731004 CCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
145731043 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
145731083 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
145731123 CCGGG
1 CCGGG
145731128 CCATGTCCCG
Statistics
Matches: 143, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 39 0.27
40 81 0.57
41 23 0.16
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:145736187 original size:43 final size:43
Alignment explanation
Indices: 145736111--145736231 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
145736101 ATAGGATTTA
* * * *
145736111 CGATATGTGATTGCGTTTAAGACCATTTTTGGGACA-TCAGCAT
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGT-AGCAT
* *
145736154 CGTATATGTGATT-CGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CG-ATATGTGATTACGTGTAAGACCATGTCTGGGACAGTAGCAT
* * *
145736197 CGATATGTGATTACATGTAAGACCACGTCTAGGAC
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGAC
145736232 GTTGGCATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 10 0.15
43 45 0.68
44 11 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTAGCAT
Found at i:145738064 original size:16 final size:17
Alignment explanation
Indices: 145738043--145738075 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
145738033 TATGTATATT
*
145738043 TTTAAATGTGT-TTATA
1 TTTAAAAGTGTATTATA
145738059 TTTAAAAGTGTATTATA
1 TTTAAAAGTGTATTATA
145738076 CCTGACTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTAAAAGTGTATTATA
Found at i:145741164 original size:14 final size:13
Alignment explanation
Indices: 145741124--145741183 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 13
145741114 TTAATTAAAC
145741124 TAATTAAATTAAT
1 TAATTAAATTAAT
* *
145741137 TATCTTAAAATAAT
1 TA-ATTAAATTAAT
145741151 CTAATTAAATTAAT
1 -TAATTAAATTAAT
*
145741165 TAATCTAAAATAACT
1 TAAT-TAAATTAA-T
145741180 TAAT
1 TAAT
145741184 GTAATTTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.16
14 25 0.66
15 7 0.18
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATTAAATTAAT
Found at i:145741189 original size:28 final size:28
Alignment explanation
Indices: 145741123--145741177 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
145741113 ATTAATTAAA
145741123 CTAATTAAATTAATTATCTTAAAATAAT
1 CTAATTAAATTAATTATCTTAAAATAAT
145741151 CTAATTAAATTAATTAATC-TAAAATAA
1 CTAATTAAATTAATT-ATCTTAAAATAA
145741178 CTTAATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (28 bp):
CTAATTAAATTAATTATCTTAAAATAAT
Found at i:145752226 original size:15 final size:15
Alignment explanation
Indices: 145752208--145752238 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
145752198 GGTATTTATG
145752208 TTATTGATATTAATT
1 TTATTGATATTAATT
145752223 TTATTGATATTAATT
1 TTATTGATATTAATT
145752238 T
1 T
145752239 ATCAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTATTGATATTAATT
Found at i:145764270 original size:25 final size:25
Alignment explanation
Indices: 145764222--145764279 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
145764212 ATAAAACCTA
*
145764222 AAAATGAAATAGTATTAAATGAAGAT
1 AAAAT-AAAAAGTATTAAATGAAGAT
145764248 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAGAT
145764273 -AAATAAA
1 AAAATAAA
145764280 GATAAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 10 0.33
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAGAT
Found at i:145768708 original size:43 final size:43
Alignment explanation
Indices: 145768640--145768742 Score: 199
Period size: 43 Copynumber: 2.4 Consensus size: 43
145768630 GTTTGGTCTC
145768640 GGCACTAAGTGTG-GGGCAATAAATGGGCACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGCAATAAATGGGCACGGTGACAAGATT
145768682 GGCACTAAGTGTGCGGGCAATAAATGGGCACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGCAATAAATGGGCACGGTGACAAGATT
145768725 GGCACTAAGTGTGCGGGC
1 GGCACTAAGTGTGCGGGC
145768743 TTGGAAGGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 13 0.22
43 47 0.78
ACGTcount: A:0.28, C:0.17, G:0.37, T:0.18
Consensus pattern (43 bp):
GGCACTAAGTGTGCGGGCAATAAATGGGCACGGTGACAAGATT
Found at i:145768886 original size:29 final size:29
Alignment explanation
Indices: 145768751--145768885 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
145768741 GCTTGGAAGG
145768751 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
145768780 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
145768809 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
145768838 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
145768867 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
145768886 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:145776777 original size:33 final size:35
Alignment explanation
Indices: 145776719--145776785 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 35
145776709 GCAATAAATG
145776719 GGCACGGTGACAAGATTGGCACTAAGTGTGCGGGT
1 GGCACGGTGACAAGATTGGCACTAAGTGTGCGGGT
145776754 GGCACGGTGAC-AGA-TGGCACTAAGTGTGCGGG
1 GGCACGGTGACAAGATTGGCACTAAGTGTGCGGG
145776786 CTTGGAAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 18 0.56
34 3 0.09
35 11 0.34
ACGTcount: A:0.22, C:0.18, G:0.42, T:0.18
Consensus pattern (35 bp):
GGCACGGTGACAAGATTGGCACTAAGTGTGCGGGT
Found at i:145776840 original size:58 final size:58
Alignment explanation
Indices: 145776767--145776929 Score: 229
Period size: 58 Copynumber: 2.8 Consensus size: 58
145776757 ACGGTGACAG
* * *
145776767 ATGGCACTAAGTGTGCGGGCTTGGAA-GGTATGGCACTAAGTGTGCGAACTTAAATTAT
1 ATGGCACTAAGTGTGCGAGCTT-AAATCGTATGGCACTAAGTGTGCGAACTTAAATTAT
* ** *
145776825 ATGGCACTAAGTGTGCGAACTTAAATTATATGGCACTAAGTGTGCAAACTTAAATTAT
1 ATGGCACTAAGTGTGCGAGCTTAAATCGTATGGCACTAAGTGTGCGAACTTAAATTAT
* *
145776883 ATGGCACTATGTGTGCGAGCTTAAATCGCATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGAGCTTAAATCGTATGGCACTAAGTGTGCGA
145776930 GATCGTTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 2 0.02
58 90 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (58 bp):
ATGGCACTAAGTGTGCGAGCTTAAATCGTATGGCACTAAGTGTGCGAACTTAAATTAT
Found at i:145776930 original size:29 final size:29
Alignment explanation
Indices: 145776795--145776929 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
145776785 GCTTGGAAGG
145776795 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
145776824 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
145776853 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
145776882 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
145776911 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
145776930 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:145781093 original size:39 final size:40
Alignment explanation
Indices: 145781035--145781135 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
145781025 AAATTGAATG
* *
145781035 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
145781074 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
145781114 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
145781136 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:145781128 original size:40 final size:40
Alignment explanation
Indices: 145781035--145781211 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
145781025 AAATTGAATG
* * * * *
145781035 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
145781074 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
145781114 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
145781154 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
145781194 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
145781212 TTGGCCTTGG
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 40 0.34
40 75 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:145789225 original size:40 final size:39
Alignment explanation
Indices: 145789057--145789236 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
145789047 AGAAATTGAA
* *
145789057 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
145789097 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
145789137 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
145789177 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
145789217 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
145789237 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:145794724 original size:28 final size:28
Alignment explanation
Indices: 145794659--145794759 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
145794649 ATAGTGAATC
*
145794659 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
145794688 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
145794716 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
145794746 CGCACACTTAGTGC
1 CGCACACTTAGTGC
145794760 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:145802675 original size:28 final size:28
Alignment explanation
Indices: 145802610--145802710 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
145802600 ATAGTGAATC
*
145802610 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
145802639 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
145802667 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
145802697 CGCACACTTAGTGC
1 CGCACACTTAGTGC
145802711 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:145805871 original size:27 final size:28
Alignment explanation
Indices: 145805811--145805872 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
145805801 TCATAATTGG
** * *
145805811 GCAAAATGACCAATTTGCCCCTAGACTT
1 GCAAAATGACCAATTTAACCCTAAACCT
*
145805839 GCAAAATGACCATTTTAACCCTAAACCT
1 GCAAAATGACCAATTTAACCCTAAACCT
145805867 G-AAAAT
1 GCAAAAT
145805873 CGATTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (28 bp):
GCAAAATGACCAATTTAACCCTAAACCT
Found at i:145812582 original size:43 final size:42
Alignment explanation
Indices: 145812486--145812598 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
145812476 TCGAGATGTG
* *
145812486 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATCG-A
*
145812529 ATTACATGTAAGACCATGTCTGGGACATTGGTATCGTTAATCG-
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T-ATCGA
* * * *
145812572 ATTTCGTGTAAGACCCTGTCTAGGACA
1 ATTACATGTAAGACCATGTCTGGGACA
145812599 GTAACATCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 57 0.93
44 1 0.02
45 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATCGA
Found at i:145817301 original size:28 final size:27
Alignment explanation
Indices: 145817238--145817307 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
145817228 ATAGTGAGTC
145817238 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
145817265 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
145817293 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
145817308 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:145821624 original size:29 final size:29
Alignment explanation
Indices: 145821591--145821655 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
145821581 GTGACGAGAT
145821591 TGGCACTAAGTGTGCATGATGGAAATATA
1 TGGCACTAAGTGTGCATGATGGAAATATA
*
145821620 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGATGGAAATATA
*
145821649 CGGCACT
1 TGGCACT
145821656 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGATGGAAATATA
Found at i:145821761 original size:2 final size:2
Alignment explanation
Indices: 145821756--145821788 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
145821746 GTGCGTACTC
*
145821756 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
145821789 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:145829698 original size:2 final size:2
Alignment explanation
Indices: 145829693--145829723 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
145829683 GTGCGTACTC
*
145829693 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
145829724 CTCCGATCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:145833578 original size:40 final size:40
Alignment explanation
Indices: 145833505--145833686 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
145833495 ATACCTGGGC
* * * *
145833505 TAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGT
145833545 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
* *
145833585 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
*
145833625 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
*
145833665 TAAGACCCGAAGGCAATTGTGC
1 TAAGACCCGAAGGCATTTGTGC
145833687 TTGTGGTTAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 129 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
Found at i:145833643 original size:80 final size:80
Alignment explanation
Indices: 145833495--145833706 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
145833485 CAATTGAATG
* * * * *
145833495 ATACCTGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
145833559 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
145833575 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
145833640 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
145833655 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
145833707 ATTCCAAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:145836950 original size:29 final size:29
Alignment explanation
Indices: 145836916--145837018 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
145836906 TACTCGATTT
* * *
145836916 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
145836945 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
145836974 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
145837003 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
145837019 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:145838202 original size:18 final size:17
Alignment explanation
Indices: 145838177--145838231 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
145838167 GAATGAACAC
145838177 TTTTTTTTTTCTTTTCT
1 TTTTTTTTTTCTTTTCT
* *
145838194 TTGTTTTTTTCATATTCT
1 TTTTTTTTTTC-TTTTCT
*
145838212 CTTTTTTTTTTCATTTCT
1 -TTTTTTTTTTCTTTTCT
145838230 TT
1 TT
145838232 ATTCTTCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 12 0.39
18 9 0.29
19 10 0.32
ACGTcount: A:0.05, C:0.13, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTTCTTTTCT
Found at i:145844823 original size:29 final size:29
Alignment explanation
Indices: 145844789--145844891 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
145844779 TACTCGATTT
* * *
145844789 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
145844818 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
145844847 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
145844876 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
145844892 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:145846089 original size:20 final size:18
Alignment explanation
Indices: 145846051--145846105 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
145846041 AGAATGAACA
145846051 CTTTTTTTTTTC-TTT-T
1 CTTTTTTTTTTCATTTCT
145846067 CTTTGTTTTTTTCATATTCT
1 CTTT-TTTTTTTCAT-TTCT
145846087 CTTTTTTTTTTTCATTTCT
1 C-TTTTTTTTTTCATTTCT
145846106 TTATTCTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 1 0.03
19 6 0.18
20 12 0.35
21 3 0.09
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (18 bp):
CTTTTTTTTTTCATTTCT
Found at i:145847558 original size:28 final size:28
Alignment explanation
Indices: 145847518--145847591 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
145847508 CATATACCTC
* * * **
145847518 GCACGCTAAGTGCTATTTTGGATGTTTT
1 GCACACTAAGTGCCATTTTCGATACTTT
**
145847546 GCACACTAAGTGCCATCCTCGATACTTT
1 GCACACTAAGTGCCATTTTCGATACTTT
145847574 GCACACTAAGTGCCATTT
1 GCACACTAAGTGCCATTT
145847592 ATATATATAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (28 bp):
GCACACTAAGTGCCATTTTCGATACTTT
Found at i:145847670 original size:40 final size:39
Alignment explanation
Indices: 145847605--145847690 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
145847595 TATATATATA
**
145847605 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
145847645 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
145847684 TAGCCGA
1 TAGCCGA
145847691 TAAGTCGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:145853002 original size:3 final size:3
Alignment explanation
Indices: 145852994--145853019 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
145852984 TAAAAGTATT
145852994 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
145853020 TTATCACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:145860079 original size:41 final size:41
Alignment explanation
Indices: 145860020--145860102 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
145860010 AAAATAGGAG
*
145860020 TAAATAAAGGAAAGATGATATCATCCCTTTTTCATCTTCTT
1 TAAATAAAAGAAAGATGATATCATCCCTTTTTCATCTTCTT
*
145860061 TAAATAAAAGAAATATGATATCATCCCTTTTTCATCTTCTT
1 TAAATAAAAGAAAGATGATATCATCCCTTTTTCATCTTCTT
145860102 T
1 T
145860103 CTCCACCGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (41 bp):
TAAATAAAAGAAAGATGATATCATCCCTTTTTCATCTTCTT
Found at i:145862135 original size:46 final size:46
Alignment explanation
Indices: 145862068--145862240 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
145862058 AACCCGCCCT
* * * * * *
145862068 TAAGTAAACTCAGACTCAACTCAATGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
145862114 TAAGTGAACTCGGACTCAACTCAACGTGTTTGGATTCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
145862162 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
145862207 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
145862241 TGCCCTGTGA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 56 0.56
47 27 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:145863826 original size:27 final size:27
Alignment explanation
Indices: 145863742--145863895 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
145863732 GACGAGAATG
* * *
145863742 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
145863771 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
145863800 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
145863827 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
145863855 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
145863882 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
145863896 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:145863863 original size:55 final size:55
Alignment explanation
Indices: 145863792--145863895 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
145863782 GCGAGCTCAA
145863792 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
145863847 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
145863896 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:145871684 original size:27 final size:27
Alignment explanation
Indices: 145871600--145871753 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
145871590 GACGAGAATG
* * *
145871600 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
145871629 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
145871658 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
145871685 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
145871713 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
145871740 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
145871754 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:145871721 original size:55 final size:55
Alignment explanation
Indices: 145871650--145871753 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
145871640 GCGAGCTCAA
145871650 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
145871705 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
145871754 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:145873614 original size:30 final size:30
Alignment explanation
Indices: 145873580--145873638 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
145873570 ATTTAATATG
145873580 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
145873610 AACTTTTGCATAATTACACTTTTGCCCCT
1 AACTTTGGAAAAATTACACTTTTGCCCCT
145873639 TGGCTCGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:145874692 original size:47 final size:48
Alignment explanation
Indices: 145874623--145874749 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 48
145874613 TATTGTGAAC
* *
145874623 TAGTGTAAGACATGTCTAGGACATACATCGGCCACATT-ATGA-GAG-CT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGA-GACGAGTCT
*
145874670 T-GTGTAAGACTATGTCTGGGACATGGCATCGG--CATTGAGACGAGTGT
1 TAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATTGAGACGAGTCT
145874717 TAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCC
145874750 TCGAGACGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
45 6 0.09
46 20 0.29
47 28 0.41
48 15 0.22
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGAGACGAGTCT
Found at i:145874757 original size:46 final size:46
Alignment explanation
Indices: 145874623--145874779 Score: 158
Period size: 46 Copynumber: 3.4 Consensus size: 46
145874613 TATTGTGAAC
* * * * *
145874623 TAGTGTAAGACATGTCTAGGACATACATCGGCCAC-ATTATGAGAGCT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAG-T
* * *
145874670 T-GTGTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGTGT
1 TAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGT
*
145874717 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGA
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGT
*
145874763 CAGTGTAAGACATGTCT
1 TAGTGTAAGACATGTCT
145874780 TAGGCATGCA
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
46 41 0.45
47 29 0.32
48 21 0.23
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGT
Found at i:145874801 original size:46 final size:44
Alignment explanation
Indices: 145874671--145874822 Score: 119
Period size: 46 Copynumber: 3.3 Consensus size: 44
145874661 ATGAGAGCTT
* * * * **
145874671 GTGTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGTGTTA
1 GTGTAAGAC-ATGTCTAGGACAT-GCATCAGCCTCGAGAC--GTGACA
* *
145874719 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGACA
1 GTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGT--GACA
* *
145874765 GTGTAAGACATGTCTTAGG-CATGCATCAG-CTACGAGATGTGTCA
1 GTGTAAGACATGTC-TAGGACATGCATCAGCCT-CGAGACGTGACA
145874809 GTGTAAGACCATGT
1 GTGTAAGA-CATGT
145874823 TTGGGACACG
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
44 13 0.14
45 7 0.08
46 46 0.51
47 16 0.18
48 9 0.10
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
GTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTGACA
Found at i:145877054 original size:40 final size:40
Alignment explanation
Indices: 145876995--145877136 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
145876985 AAATTGAATG
* * *
145876995 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
145877035 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
145877075 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
145877115 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
145877137 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:145877137 original size:40 final size:39
Alignment explanation
Indices: 145877034--145877162 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
145877024 TGCTGGAAAT
* * *
145877034 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
145877074 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
145877114 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
145877154 TATATCCGG
1 TATATCCGG
145877163 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:145889471 original size:40 final size:39
Alignment explanation
Indices: 145889360--145889511 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
145889350 TATAACATGT
* ** *
145889360 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
145889400 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
145889440 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
145889480 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
145889512 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:145889494 original size:80 final size:80
Alignment explanation
Indices: 145889360--145889511 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
145889350 TATAACATGT
* *
145889360 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
145889425 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
145889440 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
145889503 CCCGGATAT
64 CCCGGATAT
145889512 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:145891360 original size:2 final size:2
Alignment explanation
Indices: 145891355--145891390 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
145891345 TTCGCCACAC
*
145891355 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
145891391 CTGTTCTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145891603 original size:6 final size:6
Alignment explanation
Indices: 145891564--145891673 Score: 64
Period size: 6 Copynumber: 17.8 Consensus size: 6
145891554 TTGCATTCAC
* * * *
145891564 ATTCTG ATTTTG ATTTTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
145891613 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
145891663 ATTTTG ATTCT
1 ATTCTG ATTCT
145891674 AGTTTTGATA
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.05
6 65 0.82
7 7 0.09
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:145891623 original size:25 final size:25
Alignment explanation
Indices: 145891595--145891661 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
145891585 CCTGATACTG
*
145891595 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
145891620 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
145891645 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
145891662 CATTTTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:145891655 original size:31 final size:30
Alignment explanation
Indices: 145891564--145891661 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
145891554 TTGCATTCAC
* * *
145891564 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGAT-CTG
*
145891595 ATTCTGATTCTAATTCTGTCACCT-A----
1 ATTCTGATTCTGATTCTGTCACCTGATCTG
145891620 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGA-TCTG
145891651 ATTCTGATTCT
1 ATTCTGATTCT
145891662 CATTTTGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 23 0.41
26 1 0.02
30 1 0.02
31 31 0.55
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTGATCTG
Found at i:145894826 original size:56 final size:55
Alignment explanation
Indices: 145894764--145894889 Score: 198
Period size: 56 Copynumber: 2.3 Consensus size: 55
145894754 GACAATGGCA
*
145894764 TCGATATATGTGTGCAAGTAAGACCACGTTTAATATGTTCGCATCGATATGTGACT
1 TCGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTCGCATCGATATGTG-CT
* *
145894820 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGCT
1 TCGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTCGCATCGATATGTGCT
*
145894875 TCCAATATATGTGTG
1 T-CGATATATGTGTG
145894890 ATTGTAAGAC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
55 3 0.05
56 62 0.95
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (55 bp):
TCGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTCGCATCGATATGTGCT
Found at i:145894897 original size:56 final size:55
Alignment explanation
Indices: 145894767--145894929 Score: 188
Period size: 56 Copynumber: 2.9 Consensus size: 55
145894757 AATGGCATCG
* * *
145894767 ATATATGTGTGCAAGTAAGACCACGTTTAATATGTTCGCATCGATATGTGACTTCG
1 ATATATGTGTG-AAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTCA
*
145894823 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTG-CTTCCA
1 ATATATGTGTG-AAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTT-CA
* * *
145894879 ATATATGTGTGATTGTAAGACC-CTGTCTAAGACAG-TGGCATCGATATGTGA
1 ATATATGTGTGA-AGTAAGACCAC-GTTTAATAC-GTTGGCATCGATATGTGA
145894930 TTACATGTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
55 4 0.04
56 89 0.95
57 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (55 bp):
ATATATGTGTGAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTCA
Found at i:145900205 original size:46 final size:46
Alignment explanation
Indices: 145900151--145900323 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
145900141 TGGTTGAGCA
*
145900151 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * * *
145900197 TCCAAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G
* *
145900242 CATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
*
145900290 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
145900324 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 57 0.55
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:145900307 original size:93 final size:93
Alignment explanation
Indices: 145900148--145900318 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
145900138 GGATGGTTGA
* *
145900148 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGT
145900213 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
* * *
145900241 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CAAACTCGTTGAG
145900305 TTGAGTCTGAGTTC
65 TTGAGTCTGAGTTC
145900319 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:145905753 original size:40 final size:40
Alignment explanation
Indices: 145905693--145905844 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
145905683 TATTCGGATG
**
145905693 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
*
145905733 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
145905773 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
145905813 ATATCCGGGCTAAGACTCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
145905845 GAATTGCTAT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:145905855 original size:40 final size:40
Alignment explanation
Indices: 145905693--145905864 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
145905683 TATTCGGATG
** **
145905693 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* *
145905733 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* *
145905773 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
145905813 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAATTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACT
145905853 ATATCC-GGCTAA
1 ATATCCGGGCTAA
145905865 ACCACGAAGG
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 6 0.05
40 110 0.92
41 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
Found at i:145908749 original size:48 final size:48
Alignment explanation
Indices: 145908189--145908751 Score: 928
Period size: 48 Copynumber: 11.7 Consensus size: 48
145908179 TAGATATGTG
* *
145908189 TGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
145908237 TGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
145908285 TCTGGTAAAGCTGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
145908333 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
145908381 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
** *
145908429 TGTGGTAAAGCCGAATGGCTGGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
145908477 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
145908525 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
145908573 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATAAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
145908621 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
145908669 TGTGGTAATGTCGAATGGCTAATGTGAAATATGTGTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
145908717 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
145908752 GGGGATGTGT
Statistics
Matches: 486, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 486 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:145908953 original size:37 final size:37
Alignment explanation
Indices: 145908898--145909000 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
145908888 GGAAATATAT
145908898 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
145908935 TCCGGGTAAGACCAGATGACTACATGGGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
145908972 TCCGGGTAAGACCCGATAACTACGCGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
145909001 GGACTATTCG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:145910339 original size:40 final size:40
Alignment explanation
Indices: 145910284--145910642 Score: 637
Period size: 40 Copynumber: 9.0 Consensus size: 40
145910274 TTGAGAGTGA
145910284 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
145910324 TATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
145910364 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
145910404 TATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
145910444 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
145910484 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
145910524 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
145910564 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
145910604 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
145910643 ATGTGCATTC
Statistics
Matches: 304, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 304 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:145910856 original size:25 final size:25
Alignment explanation
Indices: 145910806--145910856 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
145910796 TGTGTAACAA
* *
145910806 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
145910831 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
145910856 C
1 C
145910857 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:145913895 original size:48 final size:48
Alignment explanation
Indices: 145913833--145914353 Score: 890
Period size: 48 Copynumber: 10.9 Consensus size: 48
145913823 TATATATGTG
145913833 TGTGGTAAAGCCGAATGGCTTA-TGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGC-TAGTGTGAAATATATATGAGATATGTATA
*
145913881 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
145913929 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
145913977 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
145914025 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
145914073 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
145914121 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
145914169 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
145914217 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
145914265 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTGTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
145914313 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGAT
145914354 GTGTGTATAT
Statistics
Matches: 461, Mismatches: 7, Indels: 10
0.96 0.01 0.02
Matches are distributed among these distances:
47 2 0.00
48 458 0.99
49 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
Found at i:145913993 original size:28 final size:28
Alignment explanation
Indices: 145913961--145914089 Score: 74
Period size: 28 Copynumber: 5.2 Consensus size: 28
145913951 TGTGAAATAT
145913961 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
145913989 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
145914009 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
145914037 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
145914057 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
145914085 GAATG
1 GAATG
145914090 GCTAGTGTGA
Statistics
Matches: 69, Mismatches: 16, Indels: 32
0.59 0.14 0.27
Matches are distributed among these distances:
20 16 0.23
21 8 0.12
22 8 0.12
26 8 0.12
27 8 0.12
28 21 0.30
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.29
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:145914549 original size:37 final size:37
Alignment explanation
Indices: 145914494--145914596 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
145914484 GGAAATATAT
*
145914494 TCCGGGTAAGACCAGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
145914531 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
145914568 TTCGGGTAAGACCCGATAACTACGCGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
145914597 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:145918823 original size:40 final size:42
Alignment explanation
Indices: 145918778--145918927 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 42
145918768 TTTAACCGGA
* *
145918778 TATAGTGACTCGCTCGATTGTCTTCGGGACA-TAGCCCAG-T
1 TATAGTGACTCGCACGATTGCCTTCGGGACATTAGCCCAGAT
* * *
145918818 TATAGTGATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGAT
1 TATAGTGACTCGCACGATTGCCTTCGGGACATTAGCCCAGAT
* * * *
145918859 T-TAGTAACTCGCACGAATGCCTTCGGGAC-TTAACCC-GGT
1 TATAGTGACTCGCACGATTGCCTTCGGGACATTAGCCCAGAT
* * * * *
145918898 TTTGGTAACTCGCACAAATGCCTTCGGGAC
1 TATAGTGACTCGCACGATTGCCTTCGGGAC
145918928 TTAACCCGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.04
40 87 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (42 bp):
TATAGTGACTCGCACGATTGCCTTCGGGACATTAGCCCAGAT
Found at i:145918911 original size:80 final size:80
Alignment explanation
Indices: 145918759--145918963 Score: 216
Period size: 80 Copynumber: 2.6 Consensus size: 80
145918749 GAATCACGTA
* * * * * *
145918759 CCTTC-GGAATTTAA-CCGGATATAGTGACTCGCTCGATTGTCTTCGGGACATAGCCCAGTTATA
1 CCTTCGGGAA-TTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATAACCCAGTTATA
* * *
145918822 GTGATTCGCACAATTG
65 GTAACTCGCACAAATG
* * * * *
145918838 CCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGG
1 CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATAACCCAGTTATAG
145918903 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * * * *
145918918 CCTTCGGGACTTAACCCGGTTTTGGTAAGTCGCACAAATGCCTTCG
1 CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACGAATGCCTTCG
145918964 AGAATTGACC
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 8 0.08
80 96 0.92
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (80 bp):
CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATAACCCAGTTATAG
TAACTCGCACAAATG
Found at i:145918928 original size:40 final size:40
Alignment explanation
Indices: 145918827--145919018 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
145918817 TTATAGTGAT
* * *
145918827 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
145918867 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
145918907 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAG
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * * ** *
145918947 TCGCACAAATGCCTTCGAGAATTGACCTAGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
145918987 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGACTTAACCCGGA
145919019 CACCATTCGA
Statistics
Matches: 126, Mismatches: 25, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 103 0.82
41 23 0.18
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
Found at i:145921861 original size:27 final size:28
Alignment explanation
Indices: 145921804--145921869 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
145921794 AAACTTGTAC
* *
145921804 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGGGCGAGTTTGATCATAT
*
145921832 AGCACTAAGTGGGCGAG-TTGATTATAT
1 AGCACTAAGTGGGCGAGTTTGATCATAT
145921859 AGCACTAAGTG
1 AGCACTAAGTG
145921870 TGCGGACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGGGCGAGTTTGATCATAT
Found at i:145924242 original size:29 final size:29
Alignment explanation
Indices: 145924209--145924273 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
145924199 GTGACGAGAT
*
145924209 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
145924238 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
145924267 CGGCACT
1 TGGCACT
145924274 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:145930920 original size:24 final size:24
Alignment explanation
Indices: 145930880--145930941 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
145930870 GATTATGTAG
145930880 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
145930904 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
145930929 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
145930942 AAAAAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:145932141 original size:29 final size:29
Alignment explanation
Indices: 145932108--145932172 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
145932098 GTGACGAGAT
*
145932108 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
145932137 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
145932166 CGGCACT
1 TGGCACT
145932173 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:145938582 original size:27 final size:26
Alignment explanation
Indices: 145938534--145938593 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
145938524 GCGAAGCTGC
*
145938534 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
145938561 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
145938587 TAGATAT
1 CAGATAT
145938594 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:145938680 original size:27 final size:26
Alignment explanation
Indices: 145938632--145938683 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
145938622 ACGAGGCTGC
*
145938632 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
145938658 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
145938684 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:145939335 original size:26 final size:26
Alignment explanation
Indices: 145939283--145939334 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
145939273 TCACACAAGT
* *
145939283 TAGTCATTTACGCTCGATGGGTAAAA
1 TAGTCATTTACCCTCGAGGGGTAAAA
*
145939309 TAGTCATTTTACCCTCTAGGGGTAAA
1 TAGTCA-TTTACCCTCGAGGGGTAAA
145939335 TCAGTAGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (26 bp):
TAGTCATTTACCCTCGAGGGGTAAAA
Found at i:145943019 original size:46 final size:47
Alignment explanation
Indices: 145942913--145943034 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
145942903 TGTCTTCGAC
** * *
145942913 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
145942963 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
145943009 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
145943035 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:145950333 original size:46 final size:46
Alignment explanation
Indices: 145950228--145950344 Score: 173
Period size: 46 Copynumber: 2.6 Consensus size: 46
145950218 TGTCTTCGAC
** * *
145950228 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
* *
145950274 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
145950320 ATGGACTTACATGGCTCATT-CTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
145950345 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 5 0.08
46 59 0.92
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:145955923 original size:27 final size:26
Alignment explanation
Indices: 145955875--145955934 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
145955865 GCGAAGCTGC
*
145955875 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
* *
145955902 TAGATATTGTGGCTAG-GCCACCAGAA
1 CAGATATTGTGAC-AGAGCCACCAGAA
145955928 CAGATAT
1 CAGATAT
145955935 ATATATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:145959102 original size:29 final size:29
Alignment explanation
Indices: 145959060--145959184 Score: 164
Period size: 29 Copynumber: 4.3 Consensus size: 29
145959050 GAAAGCATGA
* *
145959060 ATATGAAAGTGATTTGGGCCTAATGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
145959089 ATATGAATGTGATTTGGGCCTAATGAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
145959118 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
145959147 ATATGAA--TGATATTGGGCCTAGTAGGCC
1 ATATGAATGTGAT-TTGGGCCTAATGGGCC
*
145959175 ATATGCATGT
1 ATATGAATGT
145959185 ATGTAGACTT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
27 4 0.05
28 20 0.24
29 59 0.70
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:145961181 original size:27 final size:27
Alignment explanation
Indices: 145961149--145961200 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
145961139 CGGGCCTCGA
145961149 TTTACAAAATTACCATTTTACCCTCAG
1 TTTACAAAATTACCATTTTACCCTCAG
*
145961176 TTTACAAAATTACCGTTTTACCCTC
1 TTTACAAAATTACCATTTTACCCTC
145961201 GATTGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (27 bp):
TTTACAAAATTACCATTTTACCCTCAG
Found at i:145961226 original size:27 final size:27
Alignment explanation
Indices: 145961196--145961385 Score: 129
Period size: 27 Copynumber: 7.1 Consensus size: 27
145961186 TACCGTTTTA
* * *
145961196 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * *
145961223 CCCTATA-GGATAGAATTACCAAAATAC
1 CCCTAGATTG-TAAAATTACCAAAATAC
*
145961250 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * ***
145961277 CCTTAGTTTGTAAAATTATTGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
** * * * *
145961304 CATTGGTTTGTGAAATTACCGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
*
145961331 CCTTA-ATTTGTAAAATTACCAAAATA-
1 CCCTAGA-TTGTAAAATTACCAAAATAC
*
145961357 CCCT-GATT-TACAAAATTACAAAAATAC
1 CCCTAGATTGT--AAAATTACCAAAATAC
145961384 CC
1 CC
145961386 TTGACTTTCT
Statistics
Matches: 130, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 19 0.15
27 107 0.82
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
CCCTAGATTGTAAAATTACCAAAATAC
Found at i:145961294 original size:54 final size:54
Alignment explanation
Indices: 145961236--145961468 Score: 191
Period size: 54 Copynumber: 4.3 Consensus size: 54
145961226 TATAGGATAG
* **
145961236 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTAA
*** ** *** * *
145961290 AATTATTGAAATACCATTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTAA
* * * *
145961344 AATTACCAAAATA-CCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTT-AGTTTGT-AA
* ** ** * *
145961399 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCCTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTAA
* *
145961453 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
145961469 TTGTAAGATG
Statistics
Matches: 138, Mismatches: 36, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
53 23 0.17
54 72 0.52
55 17 0.12
56 26 0.19
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTAA
Found at i:145961430 original size:109 final size:107
Alignment explanation
Indices: 145961236--145961469 Score: 290
Period size: 109 Copynumber: 2.2 Consensus size: 107
145961226 TATAGGATAG
** * * * *
145961236 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTATTGAAA
1 AATTACCAAAATA-CCCTAGTTTACAAAATTACAAAAATACCCTTACTTTCTAAAATTATAGAAA
***
145961301 TACCATTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAA
65 TACCATTGGTTTACAAAATTACCGAAATACCCTTAATTTGTAA
145961344 AATTACCAAAATACCCT-GATTTACAAAATTACAAAAATACCCTTGACTTTCTAAAAATTATAGA
1 AATTACCAAAATACCCTAG-TTTACAAAATTACAAAAATACCCTT-ACTTTCT-AAAATTATAGA
* ** *
145961408 AATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAG
63 AATACCATTGGTTTACAAAATTACCGAAATACCCTTAATTTGTAA
* *
145961453 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
145961470 TGTAAGATGA
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.01
107 26 0.24
108 18 0.17
109 63 0.58
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (107 bp):
AATTACCAAAATACCCTAGTTTACAAAATTACAAAAATACCCTTACTTTCTAAAATTATAGAAAT
ACCATTGGTTTACAAAATTACCGAAATACCCTTAATTTGTAA
Found at i:145961436 original size:27 final size:27
Alignment explanation
Indices: 145961236--145961449 Score: 153
Period size: 27 Copynumber: 7.9 Consensus size: 27
145961226 TATAGGATAG
* * * *
145961236 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
145961263 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
** * **
145961290 AATTATTGAAATACCATTGGTTTGTGA
1 AATTACCGAAATACCCTTGGTTTGCAA
** *
145961317 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
145961344 AATTACCAAAATACCC-TGATTTACAA
1 AATTACCGAAATACCCTTGGTTTGCAA
** *
145961370 AATTACAAAAATACCCTTGACTTT-CTAAA
1 AATTACCGAAATACCCTTG-GTTTGC--AA
** * *
145961399 AATTATAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTGGTTTGCAA
*
145961426 AATTACTGAAATACCCTTGGTTTG
1 AATTACCGAAATACCCTTGGTTTG
145961450 TAGATTTACC
Statistics
Matches: 155, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
26 22 0.14
27 108 0.70
28 6 0.04
29 19 0.12
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTGCAA
Found at i:145962442 original size:24 final size:24
Alignment explanation
Indices: 145962384--145962442 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
145962374 CTAAAAGGGC
*
145962384 CAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGATTAT
145962408 CAGAAAGGGCTTTGCCCCA-ATTAT
1 CA-AAAGGGCTTTGCCCCAGATTAT
*
145962432 TAAAAGAGGCT
1 CAAAAG-GGCT
145962443 AGGCCTCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 16 0.52
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGATTAT
Found at i:145962636 original size:42 final size:42
Alignment explanation
Indices: 145962577--145962710 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
145962567 TAGTCTCCCC
145962577 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
145962619 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
145962661 AAATTGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
145962703 AAATGGGC
1 AAATGGGC
145962711 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:145962769 original size:31 final size:31
Alignment explanation
Indices: 145962734--145962817 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
145962724 CGTTTACAGT
145962734 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
145962765 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
145962796 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
145962818 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:145965335 original size:40 final size:40
Alignment explanation
Indices: 145965229--145965408 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
145965219 ACCCGAGTTT
* * * * *
145965229 CTTCGGGAT-TTAG-CCGGATATAACCACACACCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
145965268 CTTCGGGT-TTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
145965307 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
145965347 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
145965387 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
145965409 CATTCAAATG
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
38 4 0.03
39 34 0.27
40 89 0.70
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:145968332 original size:27 final size:27
Alignment explanation
Indices: 145968302--145968393 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
145968292 ATTACCAAAG
* * *
145968302 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
145968329 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
145968356 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
145968383 TACCCTCGATT
1 TACCCTCGATT
145968394 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:145968347 original size:54 final size:54
Alignment explanation
Indices: 145968289--145968393 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
145968279 CTCGACTTGT
* * * *
145968289 AAAATTACCAAAGTACCCTC-GATTTATAGAATTATCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAGTACCCTCAG-TTTACAAAATTACCGTTTTACCCTCGATTTAC
***
145968343 AAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATT
1 AAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATT
145968394 GTGAAATTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 42 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATTTAC
Found at i:145968415 original size:27 final size:26
Alignment explanation
Indices: 145968385--145968575 Score: 120
Period size: 27 Copynumber: 7.1 Consensus size: 26
145968375 TACCGTTTTA
* **
145968385 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
145968412 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
145968439 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * *
145968466 CCCTAGTTTGTAAAATTATCGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * **
145968493 CACTGGTTTGTGAAATTACTGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
145968519 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
145968547 CCCTGATT-TACAAAATTA-CAGAAATAC
1 CCCTGATTGT--AAAATTACCA-AAATAC
145968574 CC
1 CC
145968576 TTGACTTTCT
Statistics
Matches: 133, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.02
26 9 0.07
27 115 0.86
28 6 0.05
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:145968576 original size:54 final size:55
Alignment explanation
Indices: 145968425--145968576 Score: 177
Period size: 54 Copynumber: 2.8 Consensus size: 55
145968415 TGTAGGATAG
*
145968425 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTA-CAGAAATACCCTCTAATTTGTAA
* * * * * *
145968479 AATTATCGAAATACCACTGGTTTGTGAAATTACTGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
**
145968533 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCT
1 AATTACCAAAATACCCCTGATTTGTAAAATTACAGAAATACCCT
145968577 TGACTTTCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 78 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACAGAAATACCCTCTAATTTGTAA
Found at i:145969599 original size:25 final size:24
Alignment explanation
Indices: 145969561--145969629 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 24
145969551 AGGAAGTGCT
*
145969561 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
145969585 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
145969610 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
145969630 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 20 0.48
25 22 0.52
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:145969618 original size:24 final size:24
Alignment explanation
Indices: 145969561--145969642 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
145969551 AGGAAGTGCT
* *
145969561 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
145969585 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
145969610 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
145969633 AAAAGAGGCT
1 AAAAG-GGCT
145969643 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 9 0.17
24 22 0.42
25 22 0.42
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:145969653 original size:49 final size:49
Alignment explanation
Indices: 145969561--145969654 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
145969551 AGGAAGTGCT
**
145969561 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATC
* **
145969610 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTCTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
145969655 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
47 5 0.13
48 10 0.26
49 23 0.61
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (49 bp):
AAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATC
Found at i:145969836 original size:42 final size:42
Alignment explanation
Indices: 145969777--145969910 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
145969767 TAGTCTCCCC
*
145969777 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
145969819 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
145969861 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
145969903 AAATGGGC
1 AAATGGGC
145969911 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:145969972 original size:31 final size:31
Alignment explanation
Indices: 145969934--145970048 Score: 180
Period size: 31 Copynumber: 3.7 Consensus size: 31
145969924 CGTTTACAGT
*
145969934 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
145969965 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
145969996 AAAGGTTTTGGCCCAGTGATATGATTTATGGA
1 AAAGGCTTCGGCCCAGTGATATGATTTAT-GA
145970028 AAA-GCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
145970049 TCAAGACTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.06
31 68 0.87
32 5 0.06
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:145971700 original size:16 final size:16
Alignment explanation
Indices: 145971675--145971708 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
145971665 ATCCTAAAAA
* *
145971675 TTCTATTTCTGTTTTT
1 TTCTAATTCTATTTTT
145971691 TTCTAATTCTATTTTT
1 TTCTAATTCTATTTTT
145971707 TT
1 TT
145971709 AGGACTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.74
Consensus pattern (16 bp):
TTCTAATTCTATTTTT
Found at i:145977907 original size:47 final size:47
Alignment explanation
Indices: 145977853--145977991 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 47
145977843 TTAGGATTTT
**
145977853 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
145977900 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
145977947 ATGTGGTGAATATAAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
145977992 TAGTGTGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 81 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:145977955 original size:25 final size:25
Alignment explanation
Indices: 145977880--145977955 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
145977870 GTGCATATAT
145977880 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
145977905 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
145977927 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
145977952 GTGA
1 GTGA
145977956 ATATAAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:145978204 original size:37 final size:37
Alignment explanation
Indices: 145978154--145978341 Score: 261
Period size: 37 Copynumber: 5.1 Consensus size: 37
145978144 GGAAATATAT
* * * *
145978154 TCCGGGTGAGACCCGATGACTATGCGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
*
145978191 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
* *
145978228 TCTGGGTAAGACCCGATGACTAC-TGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
*
145978264 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
* * **
145978301 TCCGGGTAAGACCCGATAACTTCGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
145978338 TCCG
1 TCCG
145978342 AGCTAAAGGT
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
36 35 0.25
37 105 0.75
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
Found at i:145978282 original size:73 final size:73
Alignment explanation
Indices: 145978154--145978341 Score: 279
Period size: 73 Copynumber: 2.5 Consensus size: 73
145978144 GGAAATATAT
* * *
145978154 TCCGGGTGAGACCCGATGACTA-TGCGTGGAGAGTATGTCCGGGTAAGACCCGATGACTACGTGT
1 TCCGGGTAAGACCCGATGACTACT--GTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGT
145978218 GGAGATTTTG
64 GGAGATTTTG
*
145978228 TCTGGGTAAGACCCGATGACTACTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGG
145978293 AGATTTTG
66 AGATTTTG
* * *
145978301 TCCGGGTAAGACCCGATAACTTCGTATGGAGATTTTGTCCG
1 TCCGGGTAAGACCCGATGACTAC-TGTGGAGATTTTGTCCG
145978342 AGCTAAAGGT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
73 67 0.64
74 36 0.35
75 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (73 bp):
TCCGGGTAAGACCCGATGACTACTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTGTGG
AGATTTTG
Found at i:145980353 original size:28 final size:28
Alignment explanation
Indices: 145980292--145980389 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
145980282 TCACAAATTG
** * *
145980292 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
145980321 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
145980349 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
145980377 GCACTAAGTGTGC
1 GCACTAAGTGTGC
145980390 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:145995969 original size:40 final size:39
Alignment explanation
Indices: 145995804--145995987 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
145995794 AAATTGAATG
* * *
145995804 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
145995844 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
145995884 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
145995924 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
145995963 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
145995988 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:145996012 original size:80 final size:81
Alignment explanation
Indices: 145995844--145996032 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
145995834 GCTGGAAATT
* * * *
145995844 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
145995909 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
145995925 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
145995988 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
145996004 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
145996033 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:145998771 original size:29 final size:29
Alignment explanation
Indices: 145998737--145998870 Score: 74
Period size: 29 Copynumber: 4.6 Consensus size: 29
145998727 TACTCGATTT
* * *
145998737 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
145998766 CGCACA-TACAGTGCCATACCCTTCGAGCT
1 CGCACACT-TAGTGCCATACCATTCAAGCC
* * *
145998795 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
145998824 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
*
145998853 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
145998871 TATTTCCAGC
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.01
29 82 0.96
30 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:145998858 original size:87 final size:87
Alignment explanation
Indices: 145998774--145998955 Score: 276
Period size: 87 Copynumber: 2.1 Consensus size: 87
145998764 CCCGCACATA
* * *
145998774 CAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGC
1 CAGTGCCATACACTTCCAGCAT-GCACACTCAGTGCCATATATTTCCAGCATGCACACTCAGTGC
145998838 CATATTTTTCCAGCATGCACACT
65 CATATTTTTCCAGCATGCACACT
* * * *
145998861 TAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCATGCACACTCAGTGCC
1 CAGTGCCATACACTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCATGCACACTCAGTGCC
145998926 ATATTTTTCCAGCATGCACACT
66 ATATTTTTCCAGCATGCACACT
*
145998948 TAGTGCCA
1 CAGTGCCA
145998956 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
87 86 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (87 bp):
CAGTGCCATACACTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCATGCACACTCAGTGCC
ATATTTTTCCAGCATGCACACT
Found at i:145998871 original size:29 final size:29
Alignment explanation
Indices: 145998796--145998955 Score: 275
Period size: 29 Copynumber: 5.5 Consensus size: 29
145998786 CTTCGAGCTC
* *
145998796 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATTTTTCCAGCAT
145998825 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTCAGTGCCATATTTTTCCAGCAT
* *
145998854 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATTTTTCCAGCAT
145998883 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTCAGTGCCATATTTTTCCAGCAT
145998912 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTCAGTGCCATATTTTTCCAGCAT
*
145998941 GCACACTTAGTGCCA
1 GCACACTCAGTGCCA
145998956 ATCTCGTCAC
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 124 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (29 bp):
GCACACTCAGTGCCATATTTTTCCAGCAT
Found at i:146004110 original size:27 final size:27
Alignment explanation
Indices: 146004080--146004471 Score: 396
Period size: 27 Copynumber: 14.7 Consensus size: 27
146004070 TAATAAAGAG
* *
146004080 AAATTACCGAAATACCCCCTATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* ** *
146004107 AAATTATCGAAATACCCTTGA-TTGTG
1 AAATTACCGAAATACCCTCAATTTGTA
146004133 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* * * * *
146004160 AAATTACTGGAAT-CCCCCGATTTGTG
1 AAATTACCGAAATACCCTCAATTTGTA
* * *
146004186 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
*
146004213 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* ** *
146004240 AAATTATCGAAATA-CCTTGA-TTGTG
1 AAATTACCGAAATACCCTCAATTTGTA
* ** *
146004265 AGATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* * *
146004292 AAATTACCGAAATACCCTCGAGTTGTG
1 AAATTACCGAAATACCCTCAATTTGTA
* *
146004319 AAATTACCGAAACACCTTCAATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* ** *
146004346 AAATTATCGAAATACCCTTGATTTGTT
1 AAATTACCGAAATACCCTCAATTTGTA
* *
146004373 AAATTACTGAAATACCATCAATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* *
146004400 AAATTACCGAAATACCCTCAATGTATA
1 AAATTACCGAAATACCCTCAATTTGTA
* * *
146004427 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
*
146004454 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
146004472 TGTAGTGTAA
Statistics
Matches: 294, Mismatches: 67, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
25 14 0.05
26 50 0.17
27 230 0.78
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAATTTGTA
Found at i:146004287 original size:106 final size:108
Alignment explanation
Indices: 146004080--146004473 Score: 481
Period size: 106 Copynumber: 3.7 Consensus size: 108
146004070 TAATAAAGAG
* * * * ** * *
146004080 AAATTACCGAAATACCCCCTATTTGTAAAATTATCGAAATACCCTTGA-TTGTGAAATTACCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAA
** * * *
146004144 ATACCCTCAATTTGTAAAATTACTGGAAT-CCCCCGATTTGTG
66 ATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
146004186 AAATTACCAAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAA
* * *
146004251 ATA-CCTTGA-TTGTGAGATTACTAAAATACCCTCGATTTGTA
66 ATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
146004292 AAATTACCGAAATACCCTCGAGTTGTGAAATTACCGAAACACCTTCAATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAA
* * *
146004357 ATACCCTTGATTTGTTAAATTACTGAAATACCATCAATTTGTA
66 ATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * *
146004400 AAATTACCGAAATACCCTCAATGTATAAAATTACCGAAACACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAA
146004465 ATACCCTTG
66 ATACCCTTG
146004474 TAGTGTAAAA
Statistics
Matches: 246, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
105 14 0.06
106 116 0.47
107 23 0.09
108 93 0.38
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (108 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAA
ATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:146004485 original size:81 final size:81
Alignment explanation
Indices: 146004080--146004471 Score: 441
Period size: 81 Copynumber: 4.9 Consensus size: 81
146004070 TAATAAAGAG
* * * * *
146004080 AAATTACCGAAATACCCCCTATTTGTAAAATTATCGAAATACCCTTGA-TTGTGAAATTACCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
146004144 ATACCCTCAATTTGTA
66 ATACCCTCAATTTGTA
* * * * * * * *
146004160 AAATTACTGGAAT-CCCCCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTACCAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
146004224 ATACCCTCAATTTGTA
66 ATACCCTCAATTTGTA
* ** * * **
146004240 AAATTATCGAAATA-CCTTGA-TTGTGAGATTACTAAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
* * *
146004303 ATACCCTCGAGTTGTG
66 ATACCCTCAATTTGTA
* * * * * *
146004319 AAATTACCGAAACACCTTCAATTTGTAAAATTATCGAAATACCCTTGATTTGTTAAATTACTGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
*
146004384 ATACCATCAATTTGTA
66 ATACCCTCAATTTGTA
* * * * *
146004400 AAATTACCGAAATACCCTCAATGTATAAAATTACCGAAACACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
146004465 ATACCCT
66 ATACCCT
146004472 TGTAGTGTAA
Statistics
Matches: 257, Mismatches: 51, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
79 92 0.36
80 58 0.23
81 107 0.42
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
ATACCCTCAATTTGTA
Found at i:146004522 original size:27 final size:27
Alignment explanation
Indices: 146004450--146004540 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
146004440 ACCCCCGATT
*
146004450 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
*** *
146004477 TGTAAAATTCCCAAAATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
* * *
146004504 TGTAAAATGATCGACATACCCCTGTAA
1 TGTAAAATGATCGAAATACCCTTGTAG
*
146004531 AGTAAAATGA
1 TGTAAAATGA
146004541 CTGTTTTGCC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
TGTAAAATGATCGAAATACCCTTGTAG
Found at i:146008616 original size:28 final size:28
Alignment explanation
Indices: 146008551--146008649 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
146008541 TCATGAATTG
* * *
146008551 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
146008580 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
146008608 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
146008636 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
146008650 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:146016357 original size:28 final size:28
Alignment explanation
Indices: 146016292--146016390 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
146016282 TCATGAATTG
* * *
146016292 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
146016321 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
146016349 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
*
146016377 GCACTAAGCGTGCG
1 GCACTAAGTGTGCG
146016391 GGCTTATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:146026401 original size:40 final size:40
Alignment explanation
Indices: 146026315--146026411 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
146026305 TTACGATGTT
*** *
146026315 TGGCACTTAGTGTGCGTTTTGAGATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGAAATGAAATAGCTTTGGCTATATA
** * * *
146026355 CAGCACTTAGTGTGCGAAATGAAATAGCTTTGGTTTTATG
1 TGGCACTTAGTGTGCGAAATGAAATAGCTTTGGCTATATA
*
146026395 TGGCACTAAGTGTGCGA
1 TGGCACTTAGTGTGCGA
146026412 TGCCGAGATA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGAAATGAAATAGCTTTGGCTATATA
Found at i:146029747 original size:79 final size:77
Alignment explanation
Indices: 146029612--146029824 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 77
146029602 AACCGAGTTT
* * * * * * **
146029612 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTA
1 CTTCGGGACTTAGCCGGATATAA-CACTAGCACAA-AGCCTTCGGGTCTTAGCCCGGATATAATA
*
146029677 ACTTGCACAAATGC
64 ACTAGCACAAATGC
* * *
146029691 CTTCGGGTCTTAGCCGGATATAACAACTCGCACGAAAGCCTTCGGGTCTTAGCCCGGATATAATC
1 CTTCGGGACTTAGCCGGATATAAC-ACTAGCAC-AAAGCCTTCGGGTCTTAGCCCGGATATAATA
*
146029756 ACTAGCATAAATGC
64 ACTAGCACAAATGC
* *
146029770 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CTTCGGGACTTAG-CCGGATATAA-CACTAGCACAAA-GCCTTCGGGTCTTAGCC
146029825 GGGTATCATT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 76 0.68
80 34 0.30
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (77 bp):
CTTCGGGACTTAGCCGGATATAACACTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATAATAAC
TAGCACAAATGC
Found at i:146029822 original size:40 final size:40
Alignment explanation
Indices: 146029612--146029824 Score: 227
Period size: 40 Copynumber: 5.4 Consensus size: 40
146029602 AACCGAGTTT
* * * * *
146029612 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* * * ** * *
146029651 CTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* *
146029691 CTTCGGGTCTTAG-CCGGATATAA-CAACTCGCACGAAA-GC
1 CTTCGGGACTTAGCCCGGATATAATC-ACTAGCAC-AAATGC
* *
146029730 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
*
146029770 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
146029810 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
146029825 GGGTATCATT
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 41 0.28
40 105 0.71
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:146037775 original size:40 final size:40
Alignment explanation
Indices: 146037726--146037933 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
146037716 TCTTCGGAAT
* * *
146037726 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
146037765 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
146037805 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
146037845 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
146037885 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
146037925 TTAGCCCGG
1 TTAGCCCGG
146037934 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:146047888 original size:23 final size:24
Alignment explanation
Indices: 146047846--146047898 Score: 99
Period size: 23 Copynumber: 2.2 Consensus size: 24
146047836 GAGAGTCCCC
146047846 GGCGCTGTCCCTTGTGCGGGAGCA
1 GGCGCTGTCCCTTGTGCGGGAGCA
146047870 GGCGCTGTCCC-TGTGCGGGAGCA
1 GGCGCTGTCCCTTGTGCGGGAGCA
146047893 GGCGCT
1 GGCGCT
146047899 ACACTCTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.08, C:0.30, G:0.43, T:0.19
Consensus pattern (24 bp):
GGCGCTGTCCCTTGTGCGGGAGCA
Found at i:146049515 original size:40 final size:40
Alignment explanation
Indices: 146049441--146049665 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
146049431 AACCCAAGTA
* * * *
146049441 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
146049480 CCTTCGAGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
146049520 CCTTCGGGAATTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
* * *
146049563 CCTCCGGGACTTCGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * * *
146049603 TCTTCAGGACTTAGCCCAGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
146049643 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
146049666 CATCCGAATA
Statistics
Matches: 156, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 11 0.07
40 110 0.71
41 1 0.01
43 33 0.21
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:146049564 original size:83 final size:83
Alignment explanation
Indices: 146049467--146049665 Score: 253
Period size: 83 Copynumber: 2.4 Consensus size: 83
146049457 GGATATAGCA
* * * *
146049467 ACTCGCACACATGCCTTCGAGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAATT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGAATT
* *
146049532 AGCCCGGGTATAG-CAACT
66 AGCCCAGATATAGTC-ACT
* * * * *
146049550 ACTCGCACAAATGCCTCCGGGACTTCGCCCAGATATAGTCACTAGCACAAATGTCTTCAGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGAATT
*
146049615 AGCCCAGATATGGTCACT
66 AGCCCAGATATAGTCACT
146049633 A---GCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
146049666 CATCCGAATA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
80 29 0.29
83 70 0.70
84 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (83 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGAATT
AGCCCAGATATAGTCACT
Done.