Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 166 of 211
Found at i:48961857 original size:18 final size:18
Alignment explanation
Indices: 48961814--48961857 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
48961804 ACTCAATCCA
*
48961814 AACCCAAGTATCCAACCC
1 AACCCAATTATCCAACCC
48961832 AACCCAATTA-CCTAACCC
1 AACCCAATTATCC-AACCC
48961850 AACCCAAT
1 AACCCAAT
48961858 CATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:48961907 original size:6 final size:6
Alignment explanation
Indices: 48961898--48961926 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48961888 AAATAAAATT
48961898 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
48961927 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:48962026 original size:9 final size:9
Alignment explanation
Indices: 48962009--48962084 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
48961999 GTAGTGATTC
48962009 AATTCGGTT
1 AATTCGGTT
*
48962018 AATTTGGTT
1 AATTCGGTT
48962027 AATTCAGG-T
1 AATTC-GGTT
48962036 AATTCGGTT
1 AATTCGGTT
* *
48962045 AATACAGTT
1 AATTCGGTT
48962054 AATTCGAG-T
1 AATTCG-GTT
*
48962063 AATTCAGTT
1 AATTCGGTT
48962072 AATTCGGTT
1 AATTCGGTT
48962081 AATT
1 AATT
48962085 TTTAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48962038 original size:18 final size:18
Alignment explanation
Indices: 48962009--48962084 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
48961999 GTAGTGATTC
* *
48962009 AATTCGGTTAATTTGGTT
1 AATTCAGTTAATTCGGTT
*
48962027 AATTCAGGTAATTCGGTT
1 AATTCAGTTAATTCGGTT
*
48962045 AATACAGTTAATTCGAG-T
1 AATTCAGTTAATTCG-GTT
48962063 AATTCAGTTAATTCGGTT
1 AATTCAGTTAATTCGGTT
48962081 AATT
1 AATT
48962085 TTTAACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (18 bp):
AATTCAGTTAATTCGGTT
Found at i:48962041 original size:27 final size:27
Alignment explanation
Indices: 48962009--48962084 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
48961999 GTAGTGATTC
*
48962009 AATTCGGTTAATTTGGTTAATTC-AGGT
1 AATTCGGTTAATTCGGTTAATTCGA-GT
* *
48962036 AATTCGGTTAATACAGTTAATTCGAGT
1 AATTCGGTTAATTCGGTTAATTCGAGT
*
48962063 AATTCAGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
48962085 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGAGT
Found at i:48962205 original size:27 final size:28
Alignment explanation
Indices: 48962147--48962205 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
48962137 GAATTAACCG
* *** *
48962147 AAAAAATTTTGGTTCGGTTAATTTTTTG
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48962175 AAAAAATTTCGGTTCGGTTAA-CGGTTA
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48962202 AAAA
1 AAAA
48962206 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (28 bp):
AAAAAATTTCGGTTCGGTTAATCGGTTA
Found at i:48970303 original size:5 final size:6
Alignment explanation
Indices: 48970287--48970313 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48970277 ATGGAAAGAA
48970287 AGGGGG AGGGGG AGGGGG AGGGGG AGG
1 AGGGGG AGGGGG AGGGGG AGGGGG AGG
48970314 AGAAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (6 bp):
AGGGGG
Found at i:48973394 original size:15 final size:15
Alignment explanation
Indices: 48973374--48973422 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
48973364 TTTGATAAAC
48973374 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTGT
* **
48973389 TGAAAAAATAAGTAC
1 TGAAAAATTAAGTGT
* *
48973404 TGAAAATTTAATTGT
1 TGAAAAATTAAGTGT
48973419 TGAA
1 TGAA
48973423 TTTAAGTTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:48981000 original size:43 final size:43
Alignment explanation
Indices: 48980901--48981064 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
48980891 TAGGGTTACC
* *
48980901 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
* *
48980943 GAGACTT-CGTGTAAGACCATGTCTGGGACATTGGTATCGATAT
1 GAGA-TTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
* * ** * *
48980986 GTGATTTCGTGTAAGACCATGGCTGGG-CTATTGGCATTGATAC
1 GAGATTACGTGTAAGACCATATCTGGGAC-ATTGGCATCGATAT
* *
48981029 GAGATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGCAT
48981065 TGTTACGGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 34 0.33
43 68 0.67
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GAGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
Found at i:48987932 original size:43 final size:43
Alignment explanation
Indices: 48987833--48987996 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
48987823 TAGGGCTACC
* *
48987833 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
* *
48987875 GAGACTT-CGTGTAAGACCATGTCTGGGACATTGGTATCGATAT
1 GAGA-TTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
* * ** * *
48987918 GTGATTTCGTGTAAGACCATGGCTGGG-CTATTGGCATTGATAC
1 GAGATTACGTGTAAGACCATATCTGGGAC-ATTGGCATCGATAT
* *
48987961 GAGATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGCAT
48987997 TGTTACGGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 34 0.33
43 68 0.67
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GAGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
Found at i:48988855 original size:25 final size:21
Alignment explanation
Indices: 48988808--48988848 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48988798 GAATGTGATC
*
48988808 ATTTTCAATAGAAACAAACAT
1 ATTTTCAAGAGAAACAAACAT
48988829 ATTTTCAAGAGAAACAAACA
1 ATTTTCAAGAGAAACAAACA
48988849 AGAATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (21 bp):
ATTTTCAAGAGAAACAAACAT
Found at i:48993439 original size:13 final size:13
Alignment explanation
Indices: 48993421--48993445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48993411 TATTTTAATA
48993421 TTATTTTGTGTGT
1 TTATTTTGTGTGT
48993434 TTATTTTGTGTG
1 TTATTTTGTGTG
48993446 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:48994601 original size:41 final size:41
Alignment explanation
Indices: 48994556--48994657 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
48994546 GCTTAGCGCT
*
48994556 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
48994597 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
48994638 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
48994658 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:48995849 original size:28 final size:28
Alignment explanation
Indices: 48995818--48995964 Score: 165
Period size: 28 Copynumber: 5.2 Consensus size: 28
48995808 GAATATTTTC
*
48995818 GTGGCAATATATAAAAAGAAATGCCTTT
1 GTGGCAATATATAAAATGAAATGCCTTT
*
48995846 GTGGCAAAATATTAAAATG-AATGCCTTT
1 GTGGCAATATA-TAAAATGAAATGCCTTT
* * *
48995874 GTGGAAAAATATGAAAATG-AATGCCTTC
1 GTGGCAATATAT-AAAATGAAATGCCTTT
* *
48995902 ATGGCAATATATAAAA-AAGAATGCCTTT
1 GTGGCAATATATAAAATGA-AATGCCTTT
* *
48995930 GTGGCAATATATGAATTGAAATGCCTTT
1 GTGGCAATATATAAAATGAAATGCCTTT
48995958 GTGGCAA
1 GTGGCAA
48995965 ACTCTGAAAG
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
27 5 0.05
28 89 0.88
29 7 0.07
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (28 bp):
GTGGCAATATATAAAATGAAATGCCTTT
Found at i:48995953 original size:56 final size:56
Alignment explanation
Indices: 48995818--48996044 Score: 178
Period size: 56 Copynumber: 4.1 Consensus size: 56
48995808 GAATATTTTC
* * ** * *
48995818 GTGGCAATATATAAAAAGAAATGCCTTTGTGGCAAAATATTAAAATGAATGCCTTT
1 GTGGCAATATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
* * *
48995874 GTGGAAAAATATGAAAATG-AATGCCTTCATGGCAATATATAAAAAAGAATGCCTTT
1 GTGGCAATATATG-AAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
* ** * * * * *
48995930 GTGGCAATATATGAATTGAAATGCCTTTGTGGCAAACTCT-GAAAGGAATGTCTTT
1 GTGGCAATATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
* * * * * *
48995985 GTGGCAGACT-T-TGAAA-GAAATGCCTTTATGGCGAACTCT-GAAAGGAATGCCTTT
1 GTGGCA-A-TATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
48996039 GTGGCA
1 GTGGCA
48996045 GACTTTAAAG
Statistics
Matches: 143, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
54 41 0.29
55 26 0.18
56 71 0.50
57 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (56 bp):
GTGGCAATATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
Found at i:48995972 original size:28 final size:27
Alignment explanation
Indices: 48995832--48996103 Score: 153
Period size: 27 Copynumber: 10.0 Consensus size: 27
48995822 CAATATATAA
* * *
48995832 AAAGAAATGCCTTTGTGGCAAAATATT
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* * *
48995859 AAA-ATGAATGCCTTTGTGGAAAAATATG
1 AAAGA--AATGCCTTTGTGGCAAACTCTG
** * *
48995887 AAA-ATGAATGCCTTCATGGCAATA-TATA
1 AAAGA--AATGCCTTTGTGGCAA-ACTCTG
* *
48995915 AAAAAGAATGCCTTTGTGGCAATA-TATG
1 AAAGA-AATGCCTTTGTGGCAA-ACTCTG
*
48995943 AATTGAAATGCCTTTGTGGCAAACTCTG
1 AA-AGAAATGCCTTTGTGGCAAACTCTG
* * * *
48995971 AAAGGAATGTCTTTGTGGCAGACTTTG
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* *
48995998 AAAGAAATGCCTTTATGGCGAACTCTG
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* * *
48996025 AAAGGAATGCCTTTGTGGCAGACT-TT
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* * * *
48996051 AAAGGGAATGCCTTCGTGGCAGACT-TT
1 AAA-GAAATGCCTTTGTGGCAAACTCTG
* *
48996078 AAAGGAATGCC-TTGATGGCATACTCT
1 AAAGAAATGCCTTTG-TGGCAAACTCT
48996104 ATCTAATAGC
Statistics
Matches: 205, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.01
26 21 0.10
27 91 0.44
28 88 0.43
29 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAGAAATGCCTTTGTGGCAAACTCTG
Found at i:48995987 original size:27 final size:27
Alignment explanation
Indices: 48995949--48996103 Score: 174
Period size: 27 Copynumber: 5.8 Consensus size: 27
48995939 TATGAATTGA
*
48995949 AATGCCTTTGTGGCAAACTCTGAAAGG
1 AATGCCTTTGTGGCAGACTCTGAAAGG
* * *
48995976 AATGTCTTTGTGGCAGACTTTGAAAGA
1 AATGCCTTTGTGGCAGACTCTGAAAGG
*
48996003 AATGCCTTTATGGC-GAACTCTGAAAGG
1 AATGCCTTTGTGGCAG-ACTCTGAAAGG
*
48996030 AATGCCTTTGTGGCAGACT-TTAAAGGG
1 AATGCCTTTGTGGCAGACTCTGAAA-GG
* *
48996057 AATGCCTTCGTGGCAGACT-TTAAAGG
1 AATGCCTTTGTGGCAGACTCTGAAAGG
*
48996083 AATGCC-TTGATGGCATACTCT
1 AATGCCTTTG-TGGCAGACTCT
48996104 ATCTAATAGC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
25 2 0.02
26 21 0.19
27 86 0.78
28 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (27 bp):
AATGCCTTTGTGGCAGACTCTGAAAGG
Found at i:48996022 original size:54 final size:54
Alignment explanation
Indices: 48995947--48996090 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
48995937 TATATGAATT
* *
48995947 GAAATGCCTTTGTGGCAAACTCTGAAAGGAATGTCTTTGTGGCAGACTTTGAAA-
1 GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTTTGTGGCAGACTTT-AAAG
*
48996001 GAAATGCCTTTATGGCGAACTCTGAAAGGAATGCCTTTGTGGCAGACTTTAAAG
1 GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTTTGTGGCAGACTTTAAAG
* ** * *
48996055 GGAATGCCTTCGTGGCAGACT-TTAAAGGAATGCCTT
1 GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTT
48996091 GATGGCATAC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 17 0.21
54 63 0.79
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (54 bp):
GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTTTGTGGCAGACTTTAAAG
Found at i:48998245 original size:31 final size:31
Alignment explanation
Indices: 48998207--48998619 Score: 452
Period size: 31 Copynumber: 13.3 Consensus size: 31
48998197 ACTGAATTCT
* * *
48998207 TGAAAAGGTTATATCCGAAATGTATATAAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
48998238 TGAAAAGGTTATATCCGAAACAAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
48998269 TGAAAAGATTATATCCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * * *
48998300 AGAAAATGTTATATCCGAAATGAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* **
48998331 TGAAAAGGTTATATCTGAAAC-AGATACCAAA
1 TGAAAAGGTTATATCCGAAACGA-ATATTAAA
* * *
48998362 TGAAAATGTTATATTCGAAATGAATATTAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * *
48998393 TGAAAAGGTTATATCTGAAACAAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
48998424 TGAAAAGATTATATCCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * *
48998455 AGAAAAGGTTATATCCGAAATGAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* **
48998486 TGAAAAGGTTATATCTGAAAC-AGATACCAAA
1 TGAAAAGGTTATATCCGAAACGA-ATATTAAA
*
48998517 TGAAAATGTTATATCCGAAACGAATATTAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* ** *
48998548 TGAAAAGGTTATATCCGAAATGGGTATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * * * *
48998579 TGAAAAAGTTATATCTGAAACGGATGTCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
48998610 TGAAAAGGTT
1 TGAAAAGGTT
48998620 CAAAAGGTTG
Statistics
Matches: 313, Mismatches: 65, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
30 2 0.01
31 309 0.99
32 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (31 bp):
TGAAAAGGTTATATCCGAAACGAATATTAAA
Found at i:49000193 original size:27 final size:26
Alignment explanation
Indices: 49000153--49000241 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
49000143 TGGCTATCGC
* * *
49000153 AACATAGGGAGTCCATCGAGATAGTA
1 AACATGGGGAGTCCATCGAGACAATA
* *
49000179 AACATGGGGTAGTCCATTGGGACAATA
1 AACATGGGG-AGTCCATCGAGACAATA
** * *
49000206 AACATGGGAGAGTCCGCCAAGACATTA
1 AACATGGG-GAGTCCATCGAGACAATA
49000233 AACATGGGG
1 AACATGGGG
49000242 TTACATGTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.18
27 40 0.80
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (26 bp):
AACATGGGGAGTCCATCGAGACAATA
Found at i:49000354 original size:121 final size:120
Alignment explanation
Indices: 49000127--49000381 Score: 341
Period size: 121 Copynumber: 2.1 Consensus size: 120
49000117 GAGGTTTAAG
* * * *
49000127 GTGTAAGACCATAGCTTGGCTATCGCAACATAGGGAGTCCATCGAGATAGTAAACATGGGGTAGT
1 GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCCATCGAGACAGTAAACACGGGGTAGT
* *
49000192 CCATTGGGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
66 CCACTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACAT-GGGTTACAT
* * *
49000248 GTGTAAGACCATAGCTTGACTGTGGCAACATAGAGAG-CCTATCGGGACAGTAAACACGGGGTAG
1 GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCC-ATCGAGACAGTAAACACGGGGTAG
** * * * * *
49000312 TCTGCTGAGACAATAAACATTGGAGAGTTCGCTAGGATATTAAACATGGGTTACAT
65 TCCACTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGTTACAT
49000368 GTGTAAGACCATAG
1 GTGTAAGACCATAG
49000382 TTATGCTATG
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
120 25 0.21
121 92 0.79
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.22
Consensus pattern (120 bp):
GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCCATCGAGACAGTAAACACGGGGTAGT
CCACTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGTTACAT
Found at i:49000424 original size:120 final size:121
Alignment explanation
Indices: 49000127--49000430 Score: 337
Period size: 121 Copynumber: 2.5 Consensus size: 121
49000117 GAGGTTTAAG
* * * * * * *
49000127 GTGTAAGACCATAGCTTGGCTATCGCAACATAGGGAGTCC-ATCGAGATAGTAAACATGGGGTAG
1 GTGTAAGACCATAGCTTGACTATGGCAACATAGAGAG-CCTATCGGGACAATAAACACGGGGTAG
*** *
49000191 TCCATTGGGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
65 TCTGCTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
* *
49000248 GTGTAAGACCATAGCTTGACTGTGGCAACATAGAGAGCCTATCGGGACAGTAAACACGGGGTAGT
1 GTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGCCTATCGGGACAATAAACACGGGGTAGT
* * * * *
49000313 CTGCTGAGACAATAAACATTGGAGAGTTCGCTAGGATATTAAACAT-GGGTTACAT
66 CTGCTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
* * * * * *
49000368 GTGTAAGACCATAGTTATG-CTATGGCAGCATAGGGAGTCT-GCTGGGACAATAAACACTGGGTA
1 GTGTAAGACCATAGCT-TGACTATGGCAACATAGAGAGCCTATC-GGGACAATAAACACGGGGTA
49000431 ATCCACCAAG
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
119 1 0.01
120 61 0.39
121 94 0.60
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (121 bp):
GTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGCCTATCGGGACAATAAACACGGGGTAGT
CTGCTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
Found at i:49026167 original size:37 final size:37
Alignment explanation
Indices: 49026117--49026195 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49026107 TTATTACGAA
* * *
49026117 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49026154 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49026191 GTCTT
1 GTCTT
49026196 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49026582 original size:49 final size:47
Alignment explanation
Indices: 49026314--49026824 Score: 844
Period size: 47 Copynumber: 10.7 Consensus size: 47
49026304 GCCTTCGGGA
* * * * * *
49026314 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49026361 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026408 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49026455 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026502 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026549 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026598 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026647 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026696 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49026743 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49026790 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
49026825 AGAATCCTAA
Statistics
Matches: 446, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 300 0.67
49 145 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49026900 original size:241 final size:238
Alignment explanation
Indices: 49026314--49026824 Score: 741
Period size: 241 Copynumber: 2.2 Consensus size: 238
49026304 GCCTTCGGGA
* * ** * *
49026314 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT-GTCAC--ATATAT
1 CTTATCACAATATATACACTTTCACATCCATCACATCAG-CA-TAGG-CCTAATCACATATATAT
* * *
49026375 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
63 ACACTTTCACATTCATCACATCAGCCATTAGGCCATACCACATATATATACACTTTCACATTCAT
*
49026438 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
128 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
49026503 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
193 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49026549 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATCCATCACATCAG-CA-TAGGCCTAATCACATATATAT
* * *
49026614 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
63 ACACTTTCACATTCATCACATCAGCCATTAGGCCATACCACATATATATACACTTTCACATTCAT
49026679 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
128 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
49026744 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
193 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49026790 CTTATCTC-ATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACAATATATACACT-TTCACATCCATCACAT
49026825 AGAATCCTAA
Statistics
Matches: 257, Mismatches: 11, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
235 8 0.03
236 3 0.01
237 36 0.14
238 1 0.00
239 70 0.27
241 139 0.54
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (238 bp):
CTTATCACAATATATACACTTTCACATCCATCACATCAGCATAGGCCTAATCACATATATATACA
CTTTCACATTCATCACATCAGCCATTAGGCCATACCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49037036 original size:16 final size:16
Alignment explanation
Indices: 49037015--49037069 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
49037005 GTTTGGTTCA
49037015 CTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
*
49037031 CTGTAATTAAATAGAG
1 CTGTAATTGAATAGAG
* *
49037047 TTGTAA-TGAAATAAAG
1 CTGTAATTG-AATAGAG
49037063 CTGTAAT
1 CTGTAAT
49037070 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:49037729 original size:62 final size:62
Alignment explanation
Indices: 49037632--49037759 Score: 220
Period size: 62 Copynumber: 2.1 Consensus size: 62
49037622 GATAGGAGAA
* * *
49037632 AATTTTATTTTTTTTATTTTTTTAGTGCTGATTTTACACAACATGGGGAAATCACTATTTCT
1 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
*
49037694 AATTTTCTTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
1 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
49037756 AATT
1 AATT
49037760 GAAAATTGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (62 bp):
AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
Found at i:49043262 original size:23 final size:22
Alignment explanation
Indices: 49043210--49043262 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
49043200 TCCACGTCTT
*
49043210 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
49043232 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
49043255 TTTCTTTT
1 TTTCTTTT
49043263 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:49048600 original size:21 final size:21
Alignment explanation
Indices: 49048576--49048644 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
49048566 ATAATGCTAA
49048576 TAAAAAATTTGAAATCGTTGT
1 TAAAAAATTTGAAATCGTTGT
* **
49048597 TAAAACATTTGTAAAATC-TATAA
1 TAAAAAATTTG--AAATCGT-TGT
*
49048620 AAAAAAATTTGAAATCGTTGT
1 TAAAAAATTTGAAATCGTTGT
49048641 TAAA
1 TAAA
49048645 GCATTTGTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 19 0.53
22 2 0.06
23 15 0.42
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (21 bp):
TAAAAAATTTGAAATCGTTGT
Found at i:49048624 original size:23 final size:23
Alignment explanation
Indices: 49048598--49048674 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
49048588 AATCGTTGTT
*
49048598 AAAACATTTGTAAAATCTATAAA
1 AAAAAATTTGTAAAATCTATAAA
***
49048621 AAAAAATTTG--AAATCGT-TGTT
1 AAAAAATTTGTAAAATC-TATAAA
**
49048642 AAAGCATTTGTAAAATCTATAAA
1 AAAAAATTTGTAAAATCTATAAA
49048665 AAAAAATTTG
1 AAAAAATTTG
49048675 ATATAAATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
21 14 0.36
22 2 0.05
23 23 0.59
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.32
Consensus pattern (23 bp):
AAAAAATTTGTAAAATCTATAAA
Found at i:49048635 original size:44 final size:44
Alignment explanation
Indices: 49048577--49048675 Score: 189
Period size: 44 Copynumber: 2.2 Consensus size: 44
49048567 TAATGCTAAT
49048577 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
1 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
*
49048621 AAAAAATTTGAAATCGTTGTTAAAGCATTTGTAAAATCTATAAA
1 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
49048665 AAAAAATTTGA
1 AAAAAATTTGA
49048676 TATAAATTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (44 bp):
AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
Found at i:49048772 original size:10 final size:11
Alignment explanation
Indices: 49048749--49048777 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
49048739 AATTTGTAGA
49048749 TAATATATAAT
1 TAATATATAAT
49048760 TAATATA-AAT
1 TAATATATAAT
49048770 TAATATAT
1 TAATATAT
49048778 TGAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATATATAAT
Found at i:49050046 original size:70 final size:69
Alignment explanation
Indices: 49049933--49050076 Score: 279
Period size: 70 Copynumber: 2.1 Consensus size: 69
49049923 ATTCATTTCA
49049933 TAAACGTCTTTTAATAGAATTAAAAATTTTATTTATAAGTATGGTCATTTTTCTTATTTAAGTAT
1 TAAACGTCTTTTAATAGAATTAAAAATTTTATTTATAAGTATGGTCATTTTTCTTATTTAAG-AT
49049998 ATTTT
65 ATTTT
49050003 TAAACGTCTTTTAATAGAATTAAAAATTTTATTTATAAGTATGGTCATTTTTCTTATTTAAGATA
1 TAAACGTCTTTTAATAGAATTAAAAATTTTATTTATAAGTATGGTCATTTTTCTTATTTAAGATA
49050068 TTTT
66 TTTT
49050072 TAAAC
1 TAAAC
49050077 CAATCAATTT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 12 0.16
70 62 0.84
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (69 bp):
TAAACGTCTTTTAATAGAATTAAAAATTTTATTTATAAGTATGGTCATTTTTCTTATTTAAGATA
TTTT
Found at i:49059317 original size:17 final size:17
Alignment explanation
Indices: 49059297--49059356 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
49059287 CTCAAGTTTA
49059297 GTGAGCTCGTAGTCTTG
1 GTGAGCTCGTAGTCTTG
* *
49059314 GTGAGCTCATA-TATTTG
1 GTGAGCTCGTAGT-CTTG
* * *
49059331 GTGAGCTTGCAGTCTGG
1 GTGAGCTCGTAGTCTTG
49059348 GTGAGCTCG
1 GTGAGCTCG
49059357 CACTTTTTGG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.35, T:0.33
Consensus pattern (17 bp):
GTGAGCTCGTAGTCTTG
Found at i:49060681 original size:12 final size:12
Alignment explanation
Indices: 49060664--49060688 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49060654 TCGAATAAGC
49060664 ATGTATATATAT
1 ATGTATATATAT
49060676 ATGTATATATAT
1 ATGTATATATAT
49060688 A
1 A
49060689 AAACTAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:49061431 original size:41 final size:41
Alignment explanation
Indices: 49061381--49061489 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
49061371 GACTTTAAGT
*
49061381 CTAGCAGGCTACGTGCCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGATGATCTGAATCAGGCTATAAAC
* * **
49061422 CTAGTAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGT
1 CTAGCAGGCTACGTGCCGATGATCTGAATCAGGCTATAAAC
* *
49061463 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGATG-ATCTG
49061490 TTTAATTAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 54 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGATGATCTGAATCAGGCTATAAAC
Found at i:49066368 original size:49 final size:47
Alignment explanation
Indices: 49066188--49066736 Score: 918
Period size: 47 Copynumber: 11.6 Consensus size: 47
49066178 TATTTGAATA
*
49066188 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49066235 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49066282 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49066329 AATGTGAAAGTGTATTTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATG
49066378 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
49066427 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49066476 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49066523 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49066570 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49066617 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
49066664 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49066711 GATGTGAAAGTGTATAAATGTGATAA
1 AATGTGAAAGTGTATATATGTGATAA
49066737 ATCCCGAAGG
Statistics
Matches: 479, Mismatches: 19, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
47 340 0.71
49 137 0.29
51 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:49070946 original size:26 final size:25
Alignment explanation
Indices: 49070917--49071044 Score: 66
Period size: 24 Copynumber: 5.2 Consensus size: 25
49070907 GCTCTCTCTC
**
49070917 GAGCCATATAACGGGAAGCATCATGT
1 GAGCCATATAACGGGAAGC-TCATAA
* * *
49070943 GAGCTATGTAACAGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
* * *
49070968 GAGCCATAT-TCGGGAAGTTCA-AGC
1 GAGCCATATAACGGGAAGCTCATA-A
* ***
49070992 GAGCCAGTAT--CAGGAAGCTCCGGA
1 GAGCCA-TATAACGGGAAGCTCATAA
* * *
49071016 GAGCCCTATATCGGGATGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
49071041 GAGC
1 GAGC
49071045 TAAGGTGTGT
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
23 4 0.05
24 28 0.37
25 27 0.36
26 16 0.21
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:49073717 original size:45 final size:44
Alignment explanation
Indices: 49073655--49073806 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 44
49073645 GTGGATCAGC
* * *
49073655 ACATAGC-ACC-CCCTTATAGTCAATAGTACTCGGTGAAATCAAT
1 ACATAGCAACCACCTTTATAATCAATGGTA-TCGGTGAAATCAAT
* * * *
49073698 ACATAACAACCACCTTTATACTCAATGGTATAGAGTGAAATCAAG
1 ACATAGCAACCACCTTTATAATCAATGGTATCG-GTGAAATCAAT
* * * * *
49073743 ACATAGGAACCACCTATATAACCATTGGTATCTGGTGAAATCAGT
1 ACATAGCAACCACCTTTATAATCAATGGTATC-GGTGAAATCAAT
*
49073788 ACATAGCAACTACCTTTAT
1 ACATAGCAACCACCTTTAT
49073807 TTTCATTAAT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
43 6 0.07
44 5 0.06
45 75 0.86
46 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (44 bp):
ACATAGCAACCACCTTTATAATCAATGGTATCGGTGAAATCAAT
Found at i:49073846 original size:90 final size:89
Alignment explanation
Indices: 49073644--49073851 Score: 199
Period size: 90 Copynumber: 2.3 Consensus size: 89
49073634 TCAGTTACAC
* **
49073644 GGTGG-ATCAGCACATAGCACCCCCT-TATAGTCAATAGTACTCGGTGAAATCAATACATAACAA
1 GGTGGAATCAGCACATAGCACCACCTATATAACCAATAGTACTCGGTGAAATCAATACATAACAA
**
49073707 CCACCTTTATACTCAATGGTATAG
66 CCACCTTTATACTCAATAATATAG
* * * * * * *
49073731 AGTGAAATCAAG-ACATAGGAACCACCTATATAACCATTGGTA-TCTGGTGAAATCAGTACATAG
1 GGTGGAATC-AGCACATA-GCACCACCTATATAACCAATAGTACTC-GGTGAAATCAATACATAA
* ** * *
49073794 CAACTACCTTTATTTTCATTAATATCG
63 CAACCACCTTTATACTCAATAATATAG
49073821 GGTGGAATCAGCACATAGCATCCACCTATAT
1 GGTGGAATCAGCACATAGCA-CCACCTATAT
49073852 TTCCAACAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
87 3 0.03
88 8 0.09
89 15 0.16
90 68 0.72
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (89 bp):
GGTGGAATCAGCACATAGCACCACCTATATAACCAATAGTACTCGGTGAAATCAATACATAACAA
CCACCTTTATACTCAATAATATAG
Found at i:49073863 original size:45 final size:45
Alignment explanation
Indices: 49073771--49073864 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 45
49073761 TAACCATTGG
* * * * * **
49073771 TATCTGGTGAAATCAGTACATAGCAACTACCTTTATTTTCATTAA
1 TATCGGGTGAAATCAGCACATAGCAACCACCTATATTTCCAACAA
* *
49073816 TATCGGGTGGAATCAGCACATAGCATCCACCTATATTTCCAACAA
1 TATCGGGTGAAATCAGCACATAGCAACCACCTATATTTCCAACAA
49073861 TATC
1 TATC
49073865 CGGCCCATTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (45 bp):
TATCGGGTGAAATCAGCACATAGCAACCACCTATATTTCCAACAA
Found at i:49077820 original size:179 final size:179
Alignment explanation
Indices: 49077518--49077858 Score: 583
Period size: 179 Copynumber: 1.9 Consensus size: 179
49077508 TTTTGCTTTC
* *
49077518 AATTTACCACAGCATGATGTTGAGTTAACTAGTCCATACCCAGAAGCACATCAAACTCATTAAAT
1 AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCCAGAAGCACATCAAACTCATTAAAT
* * *
49077583 GGTAATAATATTAAATCAACTGGGAAACAATAACCCTGTATCATTAACGGACAATTCTTACAAAT
66 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGAAAATTCTTACAAAT
* *
49077648 TTTATCCACCATCACGTACTGGGCTAGGGGGTTTGATACTTTAACCACA
131 TTTATCCACCATCACGTACCGGCCTAGGGGGTTTGATACTTTAACCACA
* * * *
49077697 AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCTAGAATCATATCAAATTCATTAAAT
1 AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCCAGAAGCACATCAAACTCATTAAAT
49077762 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGAAAATTCTTACAAAT
66 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGAAAATTCTTACAAAT
49077827 TTTATCCACCATCACGTACCGGCCTAGGGGGT
131 TTTATCCACCATCACGTACCGGCCTAGGGGGT
49077859 AATTTAGTGG
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
179 151 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (179 bp):
AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCCAGAAGCACATCAAACTCATTAAAT
GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGAAAATTCTTACAAAT
TTTATCCACCATCACGTACCGGCCTAGGGGGTTTGATACTTTAACCACA
Found at i:49078512 original size:17 final size:17
Alignment explanation
Indices: 49078482--49078515 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49078472 AGCTTGTCTT
49078482 TTCTCTTTACTAAGCTC
1 TTCTCTTTACTAAGCTC
49078499 TTCTGCTTTA-TAAGCTC
1 TTCT-CTTTACTAAGCTC
49078516 GATCAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.26, G:0.09, T:0.47
Consensus pattern (17 bp):
TTCTCTTTACTAAGCTC
Found at i:49080820 original size:16 final size:16
Alignment explanation
Indices: 49080799--49080833 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
49080789 GAATCATTTA
49080799 AAGTATCGATGGATAC
1 AAGTATCGATGGATAC
49080815 AAGTATCGATGGATAC
1 AAGTATCGATGGATAC
49080831 AAG
1 AAG
49080834 GGTAGTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (16 bp):
AAGTATCGATGGATAC
Found at i:49089596 original size:51 final size:52
Alignment explanation
Indices: 49089520--49089639 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
49089510 CGGTGGCCCA
* *
49089520 CACATAGTACCACCCTTGTAGCCAAAGCTA-CATTCTTCACAAAGTGACCTT
1 CACATAGTACCACACTTGTAACCAAAGCTATCATTCTTCACAAAGTGACCTT
* *
49089571 CACATAGTACCACACTTGTAACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTAACCAAAGCTATCATTCTTCACAAAGTGACCTT
49089623 CACATAGTACCACACTT
1 CACATAGTACCACACTT
49089640 AAGTCACTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 28 0.44
52 36 0.56
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.27
Consensus pattern (52 bp):
CACATAGTACCACACTTGTAACCAAAGCTATCATTCTTCACAAAGTGACCTT
Found at i:49098090 original size:39 final size:39
Alignment explanation
Indices: 49098028--49098112 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
49098018 AGCCATAAAT
* *
49098028 AACATTCTTTAATCAACAGAATTTCCTATCAATCAAGAA
1 AACAATCTTTAATCAACAGAATTTCATATCAATCAAGAA
* * *
49098067 AACAATCTTTATTCAACATAATTTCATATCAATCAAGCA
1 AACAATCTTTAATCAACAGAATTTCATATCAATCAAGAA
49098106 AACAATC
1 AACAATC
49098113 ACAATGTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
AACAATCTTTAATCAACAGAATTTCATATCAATCAAGAA
Found at i:49098847 original size:24 final size:26
Alignment explanation
Indices: 49098799--49098847 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
49098789 ACATTCATTT
*
49098799 ATTAAAACATACTTATGAAAGAAATG
1 ATTAAAACATACTTATGAAAAAAATG
49098825 ATTAAAACATAC-T-TGAAAAAAAT
1 ATTAAAACATACTTATGAAAAAAAT
49098848 TTAAACTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 1 0.05
26 12 0.55
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (26 bp):
ATTAAAACATACTTATGAAAAAAATG
Found at i:49113443 original size:66 final size:66
Alignment explanation
Indices: 49113337--49113485 Score: 264
Period size: 66 Copynumber: 2.3 Consensus size: 66
49113327 AAGGAGGTGT
* *
49113337 TAGCAACCACATACTCATTTAGGCATACATTACCTTACACATATATACATTTTAAGATAATTTGA
1 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
49113402 A
66 A
*
49113403 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGC
1 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
49113468 A
66 A
49113469 TAGCAACCACATA-TCAT
1 TAGCAACCACATACTCAT
49113486 ATAATCTGAT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 4 0.05
66 76 0.95
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (66 bp):
TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
A
Found at i:49114770 original size:10 final size:10
Alignment explanation
Indices: 49114757--49114785 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
49114747 AAAATTCATT
49114757 AAATCCTTAG
1 AAATCCTTAG
49114767 AAATCCTTAG
1 AAATCCTTAG
49114777 AAATCCTTA
1 AAATCCTTA
49114786 AAAAAAACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (10 bp):
AAATCCTTAG
Found at i:49117296 original size:61 final size:61
Alignment explanation
Indices: 49117221--49117343 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
49117211 TTTCCTATTG
*
49117221 AAAGTAAGAAAATAATTTCTAGTTCTA-TGTCTGATTAGAAATTTTTCGAGCCCACACTCGA
1 AAAGTAAGAAAATAATTTCTAGTTCTATTG-ATGATTAGAAATTTTTCGAGCCCACACTCGA
*
49117282 AAAGTAAGAAAATAATTTCTAGTTCTATTGATGATTAGAAATTTTTCGAGTCCACACTCGA
1 AAAGTAAGAAAATAATTTCTAGTTCTATTGATGATTAGAAATTTTTCGAGCCCACACTCGA
49117343 A
1 A
49117344 GTAGTTCATG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (61 bp):
AAAGTAAGAAAATAATTTCTAGTTCTATTGATGATTAGAAATTTTTCGAGCCCACACTCGA
Found at i:49120672 original size:62 final size:59
Alignment explanation
Indices: 49120584--49120717 Score: 180
Period size: 62 Copynumber: 2.2 Consensus size: 59
49120574 TCCAAAAATA
* * * * *
49120584 ATATTATTTTAAT-ATATTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTA-AG--AAATATT
*
49120645 CTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
49120704 ATATTAATTTAATA
1 ATATTAATTTAATA
49120718 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.31
61 13 0.20
62 32 0.49
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
Found at i:49124325 original size:46 final size:45
Alignment explanation
Indices: 49124273--49124375 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
49124263 GAATGAATAG
*
49124273 AAATAGAGAAATGAAAAACATTCAGAAATGATTATGGTTTTCTCCA
1 AAATAGAGAAATGAAAAACATTCAGAAATGAATATGGTTTT-TCCA
** * * *
49124319 AAATAGAGAAATG-AAATTATTTAGAAATGAATGTGGTTTTTTCA
1 AAATAGAGAAATGAAAAACATTCAGAAATGAATATGGTTTTTCCA
49124363 AAAT-GAGAAATGA
1 AAATAGAGAAATGA
49124376 TTCATTTGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 8 0.16
44 7 0.14
45 22 0.44
46 13 0.26
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (45 bp):
AAATAGAGAAATGAAAAACATTCAGAAATGAATATGGTTTTTCCA
Found at i:49124406 original size:42 final size:43
Alignment explanation
Indices: 49124273--49124407 Score: 114
Period size: 42 Copynumber: 3.1 Consensus size: 43
49124263 GAATGAATAG
** * **
49124273 AAATAGAGAAATGAAAAACATTCAGAAATGATTATGGTTTTCTCCA
1 AAATAGAGAAATG--AATTATTTAGAAATGAACATGGTTTTCT-CA
** *
49124319 AAATAGAGAAATGAAATTATTTAGAAATGAATGTGGTTTTTTCA
1 AAATAGAGAAATG-AATTATTTAGAAATGAACATGGTTTTCTCA
*
49124363 AAAT-GAGAAATG-ATTCATTT-GCAAATGAACATGGATTTCTCA
1 AAATAGAGAAATGAATT-ATTTAG-AAATGAACATGGTTTTCTCA
49124405 AAA
1 AAA
49124408 ATGATTGGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 4 0.05
42 23 0.30
43 8 0.10
44 6 0.08
45 23 0.30
46 13 0.17
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (43 bp):
AAATAGAGAAATGAATTATTTAGAAATGAACATGGTTTTCTCA
Found at i:49124717 original size:15 final size:15
Alignment explanation
Indices: 49124697--49124727 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49124687 TGAACCCGAT
49124697 ATGGAAGAGGCCCAA
1 ATGGAAGAGGCCCAA
49124712 ATGGAAGAGGCCCAA
1 ATGGAAGAGGCCCAA
49124727 A
1 A
49124728 AGCCCCTCAT
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:0.42, C:0.19, G:0.32, T:0.06
Consensus pattern (15 bp):
ATGGAAGAGGCCCAA
Found at i:49129221 original size:22 final size:23
Alignment explanation
Indices: 49129177--49129221 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
49129167 GGTTTCTTTA
*
49129177 TTATTTTAAATTCGACATTTAAT
1 TTATTTTAAATTCCACATTTAAT
49129200 TTATTTTAAATTCCA-ATTTAAT
1 TTATTTTAAATTCCACATTTAAT
49129222 CCAGTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATTTTAAATTCCACATTTAAT
Found at i:49140305 original size:22 final size:22
Alignment explanation
Indices: 49140280--49140327 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
49140270 AAAATTGCAT
*
49140280 CTAATGCCAGGATGTCGCGACA
1 CTAATGCCAGGATGTCACGACA
49140302 CTAATGCCAGGATGTCACGACA
1 CTAATGCCAGGATGTCACGACA
49140324 CTAA
1 CTAA
49140328 ACCTTTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (22 bp):
CTAATGCCAGGATGTCACGACA
Found at i:49140468 original size:22 final size:22
Alignment explanation
Indices: 49140430--49140473 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49140420 GACACTGAGC
* *
49140430 CCAAGGTCGTGACTCCATTTCT
1 CCAAGGTCGTAACTCCACTTCT
*
49140452 CCAAGGTCGTAATTCCACTTCT
1 CCAAGGTCGTAACTCCACTTCT
49140474 GATGGTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (22 bp):
CCAAGGTCGTAACTCCACTTCT
Found at i:49141985 original size:14 final size:14
Alignment explanation
Indices: 49141966--49141993 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49141956 AAAAAATAAA
49141966 AATTTTTATAAAAT
1 AATTTTTATAAAAT
49141980 AATTTTTATAAAAT
1 AATTTTTATAAAAT
49141994 TCTAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTTATAAAAT
Found at i:49142050 original size:29 final size:30
Alignment explanation
Indices: 49141988--49142053 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
49141978 ATAATTTTTA
*
49141988 TAAAATTCTAAAATATATAAATATAAATTT
1 TAAAATTCTAAAATATATAAATATAAATTG
*
49142018 TAAAAGTTC-AAAATA-ATATATATAAATTG
1 TAAAA-TTCTAAAATATATAAATATAAATTG
49142047 TAAAATT
1 TAAAATT
49142054 TTATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
30 11 0.33
31 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (30 bp):
TAAAATTCTAAAATATATAAATATAAATTG
Found at i:49142139 original size:20 final size:20
Alignment explanation
Indices: 49142114--49142163 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
49142104 TTAAATTTTC
*
49142114 AAAAATATATAATTTAGAAA
1 AAAAATAAATAATTTAGAAA
* *
49142134 AAAAATTAAATTATTTTGAAA
1 AAAAA-TAAATAATTTAGAAA
49142155 AAAAATAAA
1 AAAAATAAA
49142164 ATGTATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAAATAAATAATTTAGAAA
Found at i:49142489 original size:23 final size:22
Alignment explanation
Indices: 49142463--49142515 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
49142453 AAATGTATTT
*
49142463 TTTTAATATTTAAATATTTAAAA
1 TTTTAATATTTAAAAATTT-AAA
* *
49142486 TTTTAATTTTTTAAAAATTTTAA
1 TTTTAA-TATTTAAAAATTTAAA
49142509 TTTTAAT
1 TTTTAAT
49142516 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 14 0.54
24 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAATATTTAAAAATTTAAA
Found at i:49143356 original size:32 final size:33
Alignment explanation
Indices: 49143306--49143367 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
49143296 ATCCTAATTC
*
49143306 TAAAAAATTCAAAGAAATAT-ATAA-AAATGCA
1 TAAAAAATTCAAAAAAATATAATAATAAATGCA
*
49143337 TAAATAATTACAAAAAAATATAATAATAAAT
1 TAAAAAATT-CAAAAAAATATAATAATAAAT
49143368 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 8 0.31
32 10 0.38
33 4 0.15
34 4 0.15
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (33 bp):
TAAAAAATTCAAAAAAATATAATAATAAATGCA
Found at i:49146481 original size:27 final size:29
Alignment explanation
Indices: 49146427--49146491 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
49146417 AATTAAAATT
* *
49146427 TATTAGTATATATATTTAAAATAATTATG
1 TATTATTATATATATTTAAAATAATTATA
* *
49146456 TATTCTTATATAT-TTTAAAAT-TTTATA
1 TATTATTATATATATTTAAAATAATTATA
49146483 TATTATTAT
1 TATTATTAT
49146492 TTTCAACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 12 0.39
28 8 0.26
29 11 0.35
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTATTATATATATTTAAAATAATTATA
Found at i:49146550 original size:29 final size:27
Alignment explanation
Indices: 49146518--49146573 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
49146508 TATATTTTTA
*
49146518 ATTTTATTATTATATTTTTGAAAATATTT
1 ATTTGATTA-TATATTTTTGAAAA-ATTT
* *
49146547 ATTTGGTTATATATTTTTTAAAAATTT
1 ATTTGATTATATATTTTTGAAAAATTT
49146574 TAGAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 13 0.54
29 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
ATTTGATTATATATTTTTGAAAAATTT
Found at i:49155354 original size:25 final size:26
Alignment explanation
Indices: 49155302--49155377 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 26
49155292 ATTCGAGAGT
* * *
49155302 GCTCATACGAG-CATATAATCGGGTA
1 GCTCATCCGAGCCATATAATCAGGAA
*
49155327 GCTCTTCCGAGCCATAT-ATCAGGAA
1 GCTCATCCGAGCCATATAATCAGGAA
**
49155352 GCTCATGTGAGCCATATAAT-AGGAA
1 GCTCATCCGAGCCATATAATCAGGAA
49155377 G
1 G
49155378 TTCAAGCGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 35 0.83
26 7 0.17
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (26 bp):
GCTCATCCGAGCCATATAATCAGGAA
Found at i:49155388 original size:25 final size:25
Alignment explanation
Indices: 49155334--49155404 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
49155324 GTAGCTCTTC
*
49155334 CGAGCCATATATCAGGAAGCTCATG
1 CGAGCCATATATCAGGAAGCTCAAG
* *
49155359 TGAGCCATATAAT-AGGAAGTTCAAG
1 CGAGCCATAT-ATCAGGAAGCTCAAG
* *
49155384 CGAGCCA-ACATCGGGAAGCTC
1 CGAGCCATATATCAGGAAGCTC
49155405 TGGAGAGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.05
24 8 0.22
25 25 0.68
26 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (25 bp):
CGAGCCATATATCAGGAAGCTCAAG
Found at i:49155412 original size:24 final size:24
Alignment explanation
Indices: 49155385--49155536 Score: 116
Period size: 25 Copynumber: 6.2 Consensus size: 24
49155375 AAGTTCAAGC
* *
49155385 GAGCCAACATCGGGAAGCTCTGGA
1 GAGCCAATATCGGGAAGCTCTGAA
* *
49155409 GAGCCATTAACGGGAAGCTCAT-AA
1 GAGCCAATATCGGGAAGCTC-TGAA
* *
49155433 GATCCATTTATCGGGAAGCTCTGAA
1 GAGCCA-ATATCGGGAAGCTCTGAA
*
49155458 GAGCCAAATAAT-GGGAAGCTCCGAA
1 GAGCC-AAT-ATCGGGAAGCTCTGAA
49155483 GAGCCAAATAAT-GGGAAGCTCGTG-A
1 GAGCC-AAT-ATCGGGAAGCTC-TGAA
*
49155508 GAGCCAAATATCGGGACA-CTCAGAA
1 GAGCC-AATATCGGGA-AGCTCTGAA
49155533 GAGC
1 GAGC
49155537 TGCGGTGTGT
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
24 27 0.25
25 76 0.70
26 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCTGAA
Found at i:49155500 original size:50 final size:49
Alignment explanation
Indices: 49155385--49155536 Score: 150
Period size: 50 Copynumber: 3.1 Consensus size: 49
49155375 AAGTTCAAGC
* * *
49155385 GAGCCAA-CATCGGGAAGCTCTGGAGAGCC-ATTAACGGGAAGCTCATAA
1 GAGCCAATAATCGGGAAGCTCT-GAGAGCCAAATAACGGGAAGCTCAGAA
* * * * *
49155433 GATCCATTTATCGGGAAGCTCTGAAGAGCCAAATAATGGGAAGCTCCGAA
1 GAGCCAATAATCGGGAAGCTCTG-AGAGCCAAATAACGGGAAGCTCAGAA
*
49155483 GAGCCAAATAAT-GGGAAGCTCGTGAGAGCCAAATATCGGGACA-CTCAGAA
1 GAGCC-AATAATCGGGAAGCTC-TGAGAGCCAAATAACGGGA-AGCTCAGAA
49155533 GAGC
1 GAGC
49155537 TGCGGTGTGT
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
48 6 0.07
49 19 0.22
50 53 0.62
51 7 0.08
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (49 bp):
GAGCCAATAATCGGGAAGCTCTGAGAGCCAAATAACGGGAAGCTCAGAA
Found at i:49155522 original size:75 final size:74
Alignment explanation
Indices: 49155396--49155536 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 74
49155386 AGCCAACATC
* * * * ** *
49155396 GGGAAGCTCTGGAGAGCCATTAACGGGAAGCTCATAAGATCCATTTATCGGGA-AGCTCTGAAGA
1 GGGAAGCTCCGAAGAGCCAATAACGGGAAGCTCATAAGAGCCAAATATCGGGACA-CTCAGAAGA
49155460 GCCAAATAAT
65 GCCAAATAAT
* * *
49155470 GGGAAGCTCCGAAGAGCCAAATAATGGGAAGCTCGTGAGAGCCAAATATCGGGACACTCAGAAGA
1 GGGAAGCTCCGAAGAGCC-AATAACGGGAAGCTCATAAGAGCCAAATATCGGGACACTCAGAAGA
49155535 GC
65 GC
49155537 TGCGGTGTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
74 16 0.29
75 38 0.69
76 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (74 bp):
GGGAAGCTCCGAAGAGCCAATAACGGGAAGCTCATAAGAGCCAAATATCGGGACACTCAGAAGAG
CCAAATAAT
Found at i:49160302 original size:7 final size:7
Alignment explanation
Indices: 49160290--49160321 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
49160280 AAAAATATAT
49160290 TTTTTAA
1 TTTTTAA
49160297 TTTTTAA
1 TTTTTAA
49160304 TTTTTAA
1 TTTTTAA
49160311 -TTTTAA
1 TTTTTAA
49160317 TTTTT
1 TTTTT
49160322 TTCTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:49160314 original size:13 final size:14
Alignment explanation
Indices: 49160290--49160321 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
49160280 AAAAATATAT
49160290 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
49160304 TTTTTAA-TTTTAA
1 TTTTTAATTTTTAA
49160317 TTTTT
1 TTTTT
49160322 TTCTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:49161262 original size:24 final size:23
Alignment explanation
Indices: 49161235--49161288 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
49161225 ATATTATTTG
49161235 TATTAATATTTTATACTATTA-AAA
1 TATTAATATTTT-TA-TATTATAAA
*
49161259 TATTCATATTTTTATATTATAAA
1 TATTAATATTTTTATATTATAAA
*
49161282 AATTAAT
1 TATTAAT
49161289 TAATAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 11 0.42
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAATATTTTTATATTATAAA
Found at i:49161271 original size:25 final size:24
Alignment explanation
Indices: 49161235--49161293 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
49161225 ATATTATTTG
*
49161235 TATTAATATTTTATACTATTAAAA
1 TATTAATATTTTATACTATAAAAA
* *
49161259 TATTCATATTTTTATATTATAAAAA
1 TATTAATA-TTTTATACTATAAAAA
49161284 TTAATTAATA
1 -T-ATTAATA
49161294 AACATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 7 0.25
25 14 0.50
26 1 0.04
27 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTAATATTTTATACTATAAAAA
Found at i:49161420 original size:21 final size:19
Alignment explanation
Indices: 49161395--49161465 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 19
49161385 TAATGTTGAC
49161395 ATTTATTATTAAAATAATA
1 ATTTATTATTAAAATAATA
* *
49161414 GATTTTAATATT-ACATAATA
1 -A-TTTATTATTAAAATAATA
49161434 ATTTATTA--AAATATAATAA
1 ATTTATTATTAAA-ATAAT-A
49161453 ATTTATTATTAAA
1 ATTTATTATTAAA
49161466 TTAAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 1 0.02
18 11 0.27
19 10 0.24
20 8 0.20
21 11 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
ATTTATTATTAAAATAATA
Found at i:49161479 original size:20 final size:22
Alignment explanation
Indices: 49161436--49161480 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
49161426 ACATAATAAT
* *
49161436 TTATTAAAATATAATAAATTTA
1 TTATTAAAATATAAAAAATATA
49161458 TTATT-AAAT-TAAAAAATATA
1 TTATTAAAATATAAAAAATATA
49161478 TTA
1 TTA
49161481 CATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATTAAAATATAAAAAATATA
Found at i:49161910 original size:20 final size:23
Alignment explanation
Indices: 49161864--49161916 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 23
49161854 TTTTTGAATT
49161864 TATTTATATTTAATAATAAATAA
1 TATTTATATTTAATAATAAATAA
*
49161887 TATTTAT-TTTTA-AATAAA-AA
1 TATTTATATTTAATAATAAATAA
49161907 TATTTATATT
1 TATTTATATT
49161917 ATTTTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 4 0.14
23 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTATATTTAATAATAAATAA
Found at i:49170291 original size:18 final size:17
Alignment explanation
Indices: 49170251--49170301 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
49170241 AAACGGACGG
*
49170251 ATAGAA-AGAAAATTAA
1 ATAGAAGAGAAAAATAA
49170267 A-AG-AGAGAAGAAATAA
1 ATAGAAGAGAA-AAATAA
49170283 ATAGAAGAGGAAAAATAA
1 ATAGAAGA-GAAAAATAA
49170301 A
1 A
49170302 AAGCCAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 7 0.24
17 2 0.07
18 10 0.34
19 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
ATAGAAGAGAAAAATAA
Found at i:49170788 original size:3 final size:3
Alignment explanation
Indices: 49170782--49170840 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
49170772 CCCTAATAGT
49170782 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
49170830 AGA AG- AGA AGA
1 AGA AGA AGA AGA
49170841 GACTGTAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49172454 original size:16 final size:17
Alignment explanation
Indices: 49172429--49172463 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
49172419 ACTTTTTCAA
49172429 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
49172445 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
49172462 TC
1 TC
49172464 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:49178950 original size:15 final size:17
Alignment explanation
Indices: 49178930--49178967 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
49178920 AAAATAAGTC
49178930 AAAAATGAAGA-TA-AA
1 AAAAATGAAGACTATAA
*
49178945 AAAAATGAATACTATAA
1 AAAAATGAAGACTATAA
49178962 AAAAAT
1 AAAAAT
49178968 ATCAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (17 bp):
AAAAATGAAGACTATAA
Found at i:49179342 original size:27 final size:26
Alignment explanation
Indices: 49179287--49179349 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
49179277 TTTAAAGCAC
* *
49179287 AAAAGTATATATACATAAATATTTAA
1 AAAAGTATATAAAAATAAATATTTAA
*
49179313 AAAAGTATCATAAAAATAAA-ATTATTA
1 AAAAGTAT-ATAAAAATAAATATT-TAA
49179340 AAAA-TATATA
1 AAAAGTATATA
49179350 GATAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.09
26 14 0.44
27 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAGTATATAAAAATAAATATTTAA
Found at i:49179455 original size:21 final size:21
Alignment explanation
Indices: 49179413--49179455 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
49179403 AGCAAAATCA
* *
49179413 GTATTTAATAAAGTAATTTAC
1 GTATATAATAAAGTAATATAC
49179434 GTATATAA-AAAGTAAATATAC
1 GTATATAATAAAGT-AATATAC
49179455 G
1 G
49179456 AACTAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (21 bp):
GTATATAATAAAGTAATATAC
Found at i:49180864 original size:44 final size:44
Alignment explanation
Indices: 49180770--49181016 Score: 330
Period size: 44 Copynumber: 5.8 Consensus size: 44
49180760 AGAAACTAAC
* * *
49180770 CTTCCACATATTCCACTGCTGGTTAGGGAGA-AGGACTGACAAT
1 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
*
49180813 CTTCCACCTATTCTACTGCTGGTCAGGGAGATAGGACTTACAAT
1 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
* **
49180857 CTTCCACCTATTCCACTGCTGGTCAGAGAGATAGGACTTGTAAT
1 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
* *
49180901 CTTCGACC---T--A--GCTGGTCAGGGAGATAGGACTGACAAT
1 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
*
49180938 CTTCCACCTATTCCAATGCTGGTCAGGGAGATAGGACTTACAAT
1 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
* *
49180982 ATTCCACCTATTCCACTGCTGGTCAGAGAGATAGG
1 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
49181017 GCTGGTATCT
Statistics
Matches: 178, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
37 30 0.17
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 28 0.16
44 116 0.65
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
Found at i:49180939 original size:37 final size:37
Alignment explanation
Indices: 49180867--49180947 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
49180857 CTTCCACCTA
*
49180867 TTCCA-CT-GCTGGTCAGAGAGATAGGACTTGTAATC
1 TTCCACCTAGCTGGTCAGAGAGATAGGACTTGCAATC
* *
49180902 TTCGACCTAGCTGGTCAGGGAGATAGGAC-TGACAATC
1 TTCCACCTAGCTGGTCAGAGAGATAGGACTTG-CAATC
49180939 TTCCACCTA
1 TTCCACCTA
49180948 TTCCAATGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 4 0.10
36 4 0.10
37 31 0.79
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (37 bp):
TTCCACCTAGCTGGTCAGAGAGATAGGACTTGCAATC
Found at i:49180991 original size:81 final size:81
Alignment explanation
Indices: 49180830--49180991 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 81
49180820 CTATTCTACT
* *
49180830 GCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCAGAGAGATAGGACT
1 GCTGGTCAGGGAGATAGGACTGACAATCTTCCACCTATTCCAATGCTGGTCAGAGAGATAGGACT
** * *
49180895 TGTAATCTTCGACCTA
66 TACAATATTCCACCTA
*
49180911 GCTGGTCAGGGAGATAGGACTGACAATCTTCCACCTATTCCAATGCTGGTCAGGGAGATAGGACT
1 GCTGGTCAGGGAGATAGGACTGACAATCTTCCACCTATTCCAATGCTGGTCAGAGAGATAGGACT
49180976 TACAATATTCCACCTA
66 TACAATATTCCACCTA
49180992 TTCCACTGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (81 bp):
GCTGGTCAGGGAGATAGGACTGACAATCTTCCACCTATTCCAATGCTGGTCAGAGAGATAGGACT
TACAATATTCCACCTA
Found at i:49181145 original size:88 final size:87
Alignment explanation
Indices: 49181016--49181294 Score: 312
Period size: 88 Copynumber: 3.2 Consensus size: 87
49181006 AGAGAGATAG
* * * * *
49181016 GGCTGGTATCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGAT-TCGTTATATTCAACCTG
1 GGCTGGTATCTTCGATCTGCTTCGCTGTCAGTA-TAGAAGGCAAGATCT-GCTATCTTCAACCTG
*
49181080 CTCCGCTGCAACCCAGGGAGGCAA
64 CTCCGCTGCAACCGAGGGAGGCAA
* ** ***
49181104 GGCTAGTATCTTCGATCTGCTTCGCTGTCAGTATAGTAAGGCAAGGCCTGCTATCTTCAGTTTGC
1 GGCTGGTATCTTCGATCTGCTTCGCTGTCAGTATAG-AAGGCAAGATCTGCTATCTTCAACCTGC
* * * *
49181169 TCTGCTACAACTGAGGGAGACAA
65 TCCGCTGCAACCGAGGGAGGCAA
* *
49181192 GGCTGGTATCTTCGATTTGTTTCGCTGTC-G-ATGCAGGAAGGCAAGATCTGCTATCTTCAACCT
1 GGCTGGTATCTTCGATCTGCTTCGCTGTCAGTAT--A-GAAGGCAAGATCTGCTATCTTCAACCT
*
49181255 GCTCCACTGCAACCGAGGGAGGCAA
63 GCTCCGCTGCAACCGAGGGAGGCAA
49181280 GGCTGGTATCTTCGA
1 GGCTGGTATCTTCGA
49181295 CCTACTCCAC
Statistics
Matches: 157, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
86 2 0.01
87 3 0.02
88 150 0.96
89 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (87 bp):
GGCTGGTATCTTCGATCTGCTTCGCTGTCAGTATAGAAGGCAAGATCTGCTATCTTCAACCTGCT
CCGCTGCAACCGAGGGAGGCAA
Found at i:49181280 original size:44 final size:44
Alignment explanation
Indices: 49181230--49181337 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 44
49181220 CGATGCAGGA
* *
49181230 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGG
* * * ** **
49181274 AGGCAAG-GCTGGTATCTTCGACCTACTCCACTACTGCTTAGGG
1 AGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGG
*
49181317 AGGCCAGATCTGCTATCTTCA
1 AGGCAAGATCTGCTATCTTCA
49181338 CTGATCTGTT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
43 33 0.66
44 17 0.34
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGG
Found at i:49182584 original size:21 final size:21
Alignment explanation
Indices: 49182560--49182608 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
49182550 TTAGCCTCTC
*
49182560 CATTTTTAATTTTTACTTTTT
1 CATTTTTAATTTTCACTTTTT
** *
49182581 CATTTTCCATTTTCATTTTTT
1 CATTTTTAATTTTCACTTTTT
49182602 CATTTTT
1 CATTTTT
49182609 TGCATTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTAATTTTCACTTTTT
Found at i:49188329 original size:15 final size:17
Alignment explanation
Indices: 49188309--49188346 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
49188299 AAAATAAGTC
49188309 AAAAATGAAGA-TA-AA
1 AAAAATGAAGACTATAA
*
49188324 AAAAATGAATACTATAA
1 AAAAATGAAGACTATAA
49188341 AAAAAT
1 AAAAAT
49188347 AATATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (17 bp):
AAAAATGAAGACTATAA
Found at i:49194257 original size:7 final size:7
Alignment explanation
Indices: 49194245--49194281 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
49194235 ACTTTTTCAT
49194245 TCATCCC
1 TCATCCC
49194252 TCATCCC
1 TCATCCC
*
49194259 TCAACCC
1 TCATCCC
*
49194266 TCAACCC
1 TCATCCC
49194273 TCATCCC
1 TCATCCC
49194280 TC
1 TC
49194282 TCATCTCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.19, C:0.57, G:0.00, T:0.24
Consensus pattern (7 bp):
TCATCCC
Found at i:49200945 original size:27 final size:27
Alignment explanation
Indices: 49200900--49200952 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49200890 CCCTTTCGCC
* *
49200900 CTGTGTTTACTGTCTTGGCAGACTACT
1 CTGTGTTTACAGTCCTGGCAGACTACT
*
49200927 CTGTGTTTACAGTCCTGGCAGGCTAC
1 CTGTGTTTACAGTCCTGGCAGACTAC
49200953 CCAAGGATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (27 bp):
CTGTGTTTACAGTCCTGGCAGACTACT
Found at i:49208132 original size:17 final size:17
Alignment explanation
Indices: 49208093--49208133 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
49208083 TTATTCTACC
*
49208093 ACTTTTT-TTTCTTTAT
1 ACTTTTTATTTATTTAT
*
49208109 -GTTTTTATTTATTTAT
1 ACTTTTTATTTATTTAT
49208125 ACTTTTTAT
1 ACTTTTTAT
49208134 GAACCGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 5 0.25
16 8 0.40
17 7 0.35
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (17 bp):
ACTTTTTATTTATTTAT
Found at i:49208293 original size:26 final size:26
Alignment explanation
Indices: 49208257--49208310 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
49208247 AGTGTCTGCC
*
49208257 ATAAACAAAAGCATGAAATAATCAAA
1 ATAAAAAAAAGCATGAAATAATCAAA
49208283 ATAAAAAAAAGCATGAAATAATCAAA
1 ATAAAAAAAAGCATGAAATAATCAAA
49208309 AT
1 AT
49208311 TGACTAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (26 bp):
ATAAAAAAAAGCATGAAATAATCAAA
Found at i:49209422 original size:31 final size:29
Alignment explanation
Indices: 49209365--49209427 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
49209355 CATTTGACTG
* * *
49209365 TTTGGTCACTTTGGCCCTTTATGTTTTTAT
1 TTTGGTCACTTTGGCCCCTAACGTTTTT-T
49209395 TTTGGATCACTTTGGCCCCTAACGTTTTTT
1 TTTGG-TCACTTTGGCCCCTAACGTTTTTT
49209425 TTT
1 TTT
49209428 CAAATTGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.11, C:0.19, G:0.16, T:0.54
Consensus pattern (29 bp):
TTTGGTCACTTTGGCCCCTAACGTTTTTT
Found at i:49209594 original size:10 final size:10
Alignment explanation
Indices: 49209571--49209636 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
49209561 GCAAATCATT
49209571 TTAAAATT-A
1 TTAAAATTAA
49209580 TTAAAATTAA
1 TTAAAATTAA
*
49209590 TTAAAATTTA
1 TTAAAATTAA
* *
49209600 TTAAAATGATT
1 TTAAAATTA-A
*
49209611 TTAAAA-TCA
1 TTAAAATTAA
*
49209620 TTAAAATTAT
1 TTAAAATTAA
49209630 TTAAAAT
1 TTAAAAT
49209637 AATAATAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
9 14 0.31
10 25 0.56
11 6 0.13
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:49209600 original size:20 final size:19
Alignment explanation
Indices: 49209570--49209636 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
49209560 AGCAAATCAT
49209570 TTTAAAATTATTAAAATTA
1 TTTAAAATTATTAAAATTA
* *
49209589 ATTAAAATTTATTAAAATGA
1 TTTAAAA-TTATTAAAATTA
*
49209609 TTTTAAAATCATTAAAATTA
1 -TTTAAAATTATTAAAATTA
49209629 TTTAAAAT
1 TTTAAAAT
49209637 AATAATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 14 0.34
20 21 0.51
21 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (19 bp):
TTTAAAATTATTAAAATTA
Found at i:49209646 original size:30 final size:30
Alignment explanation
Indices: 49209589--49209646 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
49209579 ATTAAAATTA
* **
49209589 ATTAAAATTTATTAAAATGATTTTAAAATC
1 ATTAAAATTTATTAAAATAATAATAAAATC
49209619 ATTAAAA-TTATTTAAAATAATAATAAAA
1 ATTAAAATTTA-TTAAAATAATAATAAAA
49209647 AACCCTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTAAAATTTATTAAAATAATAATAAAATC
Found at i:49210320 original size:28 final size:29
Alignment explanation
Indices: 49210257--49210328 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
49210247 GTGAGCAATC
* *
49210257 CCCAATATCTCCAAACTCAAAAACCCTAA
1 CCCAAAATCTCCAAAATCAAAAACCCTAA
* * * *
49210286 ACAAAAATCTCCAAAATC-AAAACCTTTA
1 CCCAAAATCTCCAAAATCAAAAACCCTAA
*
49210314 CCCAAAATCCCCAAA
1 CCCAAAATCTCCAAA
49210329 TTTAGCTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.17
Consensus pattern (29 bp):
CCCAAAATCTCCAAAATCAAAAACCCTAA
Found at i:49210367 original size:22 final size:23
Alignment explanation
Indices: 49210342--49210391 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
49210332 AGCTATCCAA
49210342 AACCCAAAATCCC-AAATTCAAC
1 AACCCAAAATCCCTAAATTCAAC
* **
49210364 AACCCTAAATCCCTAAATTTGAC
1 AACCCAAAATCCCTAAATTCAAC
49210387 AACCC
1 AACCC
49210392 TAAACAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (23 bp):
AACCCAAAATCCCTAAATTCAAC
Found at i:49210388 original size:23 final size:22
Alignment explanation
Indices: 49210342--49210395 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
49210332 AGCTATCCAA
*
49210342 AACCCAAAATCCCAAATTCAAC
1 AACCCTAAATCCCAAATTCAAC
**
49210364 AACCCTAAATCCCTAAATTTGAC
1 AACCCTAAATCCC-AAATTCAAC
49210387 AACCCTAAA
1 AACCCTAAA
49210396 CAATTTATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (22 bp):
AACCCTAAATCCCAAATTCAAC
Found at i:49210743 original size:21 final size:21
Alignment explanation
Indices: 49210719--49210788 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
49210709 GATCTATTTT
49210719 AATAATTTTATATTTCAAAAA
1 AATAATTTTATATTTCAAAAA
* * *
49210740 AATAATATAATAATTT-----T
1 AATAATTTTAT-ATTTCAAAAA
*
49210757 AATAATTTCATATTTCAAAAA
1 AATAATTTTATATTTCAAAAA
49210778 AATAATTTTAT
1 AATAATTTTAT
49210789 TAATTTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
16 4 0.11
17 9 0.25
21 19 0.53
22 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATTTTATATTTCAAAAA
Found at i:49210770 original size:38 final size:39
Alignment explanation
Indices: 49210714--49210797 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 39
49210704 AGAATGATCT
*
49210714 ATTTTAATAATTTTATATTTCAAAAAAATAA-TATAATA
1 ATTTTAATAATTTCATATTTCAAAAAAATAATTATAATA
* *
49210752 ATTTTAATAATTTCATATTTCAAAAAAATAATTTTATTA
1 ATTTTAATAATTTCATATTTCAAAAAAATAATTATAATA
49210791 ATTTTAA
1 ATTTTAA
49210798 AGTCATTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 30 0.71
39 12 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (39 bp):
ATTTTAATAATTTCATATTTCAAAAAAATAATTATAATA
Found at i:49218392 original size:39 final size:39
Alignment explanation
Indices: 49218338--49218415 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
49218328 ATCCTCACCT
*
49218338 TCACTTAAGATTGTTTATGGTGGTGATTGATTCTTTCAA
1 TCACTTAAGATTGTTTATGATGGTGATTGATTCTTTCAA
*
49218377 TCACTTAAGTTTGTTTATGATGGTGATTGATTCTTTCAA
1 TCACTTAAGATTGTTTATGATGGTGATTGATTCTTTCAA
49218416 ATTAGCCGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.47
Consensus pattern (39 bp):
TCACTTAAGATTGTTTATGATGGTGATTGATTCTTTCAA
Found at i:49223844 original size:22 final size:19
Alignment explanation
Indices: 49223819--49223862 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
49223809 TGATAATAAC
49223819 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
*
49223841 TAATGTATATTAATTATTA
1 TAATATATATTAATTATTA
49223860 TAA
1 TAA
49223863 ACTTGGTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 1 0.05
21 4 0.19
22 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:49223851 original size:16 final size:15
Alignment explanation
Indices: 49223819--49223857 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
49223809 TGATAATAAC
49223819 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
49223835 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
49223851 TAATTAT
1 TAATTAT
49223858 TATAAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:49226030 original size:31 final size:31
Alignment explanation
Indices: 49225993--49226053 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
49225983 TTATTTAATG
49225993 TTTCTTAGGATATTTAATGTTTTTTGGATTC
1 TTTCTTAGGATATTTAATGTTTTTTGGATTC
49226024 TTTCTTAGGATATTTAATGTTTTTTGGATT
1 TTTCTTAGGATATTTAATGTTTTTTGGATT
49226054 AGGTTCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (31 bp):
TTTCTTAGGATATTTAATGTTTTTTGGATTC
Found at i:49227071 original size:144 final size:144
Alignment explanation
Indices: 49226893--49227180 Score: 427
Period size: 145 Copynumber: 2.0 Consensus size: 144
49226883 ATACAGTCAA
49226893 ATGCTCGTGTTAAAAAAAGAAAGAAAGAGCATATGTACGCAAAAGAAA-TAGATGTACAAAAGAG
1 ATGCTCGTGTTAAAAAAAGAAAGAAAGAGCATATGTACGCAAAAGAAATTAGATGTACAAAAGAG
* * * *
49226957 CATTTGAAAGTAAAATGAGTTGGTACATTAAAGGTATTTATTTCGAAGGTCCGA-TGCAAGCTAA
66 CATATGAAAGCAAAATGAGTTGGTACATTAAAGGTACTTATTCCGAAGGT-CGATTGCAAGCTAA
*
49227021 GTCTAGGGTTTTTAG
130 GTCTAGGGGTTTTAG
* * *
49227036 ATGCTCGTGTTAAAAAAAGAAAAGAAAGAGCATATGTACTCAAAAGAAATTAGTTGTATAAAAGA
1 ATGCTCGTGTTAAAAAAAG-AAAGAAAGAGCATATGTACGCAAAAGAAATTAGATGTACAAAAGA
** * * *
49227101 GCATATGAAAGCAAAATGAGTTGGTGTATTGAAGGTACTTATTCCGAAGGTCTATTGCAAGCTGA
65 GCATATGAAAGCAAAATGAGTTGGTACATTAAAGGTACTTATTCCGAAGGTCGATTGCAAGCTAA
49227166 GTCTAGGGGTTTTAG
130 GTCTAGGGGTTTTAG
49227181 CTTAAAATTA
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
143 19 0.15
144 30 0.23
145 80 0.62
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (144 bp):
ATGCTCGTGTTAAAAAAAGAAAGAAAGAGCATATGTACGCAAAAGAAATTAGATGTACAAAAGAG
CATATGAAAGCAAAATGAGTTGGTACATTAAAGGTACTTATTCCGAAGGTCGATTGCAAGCTAAG
TCTAGGGGTTTTAG
Found at i:49231239 original size:26 final size:27
Alignment explanation
Indices: 49231162--49231228 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
49231152 TTGATATCTA
* * * *
49231162 GACCATAATACCCCTTTAGAGTAAAAT
1 GACCGTAATGCCCCTATAGGGTAAAAT
*
49231189 AACCGTAATGCCCCTATAGGGTAAAAT
1 GACCGTAATGCCCCTATAGGGTAAAAT
49231216 GACCGTAATGCCC
1 GACCGTAATGCCC
49231229 TGGTGGGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.22
Consensus pattern (27 bp):
GACCGTAATGCCCCTATAGGGTAAAAT
Found at i:49231426 original size:27 final size:26
Alignment explanation
Indices: 49231372--49231437 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
49231362 GGAAGTACTG
*
49231372 TACTGGTGGCTCTGCCACAATCATTAT
1 TACTGGTGGCT-TGCCACAATCACTAT
49231399 TACTGGTGGCTTGGCCACATAT-ACTAT
1 TACTGGTGGCTT-GCCACA-ATCACTAT
* *
49231426 TATTGGTAGCTT
1 TACTGGTGGCTT
49231438 TGCTGCGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
TACTGGTGGCTTGCCACAATCACTAT
Found at i:49231600 original size:32 final size:32
Alignment explanation
Indices: 49231475--49231703 Score: 98
Period size: 32 Copynumber: 7.3 Consensus size: 32
49231465 ATCGCGATGC
* * *
49231475 TACTAATGGTTTTGTGTCGATCATAGT-A-TCGT
1 TACTAATGGCTGTGTGCCGATCATA-TCACT-GT
* * ** * *
49231507 TACTGATGGCTTTGTATCGATCATCTTACTGT
1 TACTAATGGCTGTGTGCCGATCATATCACTGT
** * *
49231539 TACCGATGGTTGTGTGCC-ATTCATGTCACTGT
1 TACTAATGGCTGTGTGCCGA-TCATATCACTGT
*
49231571 TATTAATGGCTGTGTGCCGATCATATCAC---
1 TACTAATGGCTGTGTGCCGATCATATCACTGT
* * * * * *
49231600 TACTACT-GAT-TGTGCCAATCATGTTACCGT
1 TACTAATGGCTGTGTGCCGATCATATCACTGT
* * * *
49231630 TATTGATGGCTGTGTGTCGATCATATCACTGC
1 TACTAATGGCTGTGTGCCGATCATATCACTGT
* * * * *
49231662 TACTAATGGCTTTGTGTCAATCACATTACTG-
1 TACTAATGGCTGTGTGCCGATCATATCACTGT
*
49231693 TACTTATGGCT
1 TACTAATGGCT
49231704 TGTAGCCATT
Statistics
Matches: 149, Mismatches: 39, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
27 14 0.09
28 2 0.01
29 5 0.03
30 4 0.03
31 14 0.09
32 108 0.72
33 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
TACTAATGGCTGTGTGCCGATCATATCACTGT
Found at i:49231623 original size:59 final size:59
Alignment explanation
Indices: 49231551--49231665 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
49231541 CCGATGGTTG
* *
49231551 TGTGCCATTCATGTCACTGTTATTAATGGCTGTGTGCCGATCATATCACTACTACTGAT
1 TGTGCCAATCATGTCACCGTTATTAATGGCTGTGTGCCGATCATATCACTACTACTGAT
* * * *
49231610 TGTGCCAATCATGTTACCGTTATTGATGGCTGTGTGTCGATCATATCACTGCTACT
1 TGTGCCAATCATGTCACCGTTATTAATGGCTGTGTGCCGATCATATCACTACTACT
49231666 AATGGCTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (59 bp):
TGTGCCAATCATGTCACCGTTATTAATGGCTGTGTGCCGATCATATCACTACTACTGAT
Found at i:49231783 original size:26 final size:26
Alignment explanation
Indices: 49231754--49231807 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
49231744 GACTCTTAGC
* *
49231754 CATTCTGACTACTAGCAGCTCTGCTG
1 CATTATGACTACTAGCAGCTATGCTG
* * *
49231780 CATTATTACTACTGGTAGCTATGCTG
1 CATTATGACTACTAGCAGCTATGCTG
49231806 CA
1 CA
49231808 ATATTGATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTAGCAGCTATGCTG
Found at i:49231812 original size:26 final size:26
Alignment explanation
Indices: 49231761--49231812 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
49231751 AGCCATTCTG
* *
49231761 ACTACTAGCAGCTCTGCTGCATTATT
1 ACTACTAGCAGCTATGCTGCAATATT
* *
49231787 ACTACTGGTAGCTATGCTGCAATATT
1 ACTACTAGCAGCTATGCTGCAATATT
49231813 GATGTGAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (26 bp):
ACTACTAGCAGCTATGCTGCAATATT
Found at i:49237393 original size:226 final size:226
Alignment explanation
Indices: 49236995--49237444 Score: 740
Period size: 226 Copynumber: 2.0 Consensus size: 226
49236985 GCATGAATTG
* *
49236995 GGTATACGACTTCTGCAGTATGTAACGTCATTCATAATAGTGGAATTTATAGCCCAAGAAATGGG
1 GGTATACGACTTCTGCAGTATGTAACGTCATTCATAACAGTGGAATTCATAGCCCAAGAAATGGG
* *
49237060 TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCGTTCG
66 TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCCTTCA
* * *
49237125 TTTATGTGATGAATGACTTGATTACTATTTGATAGTAATTGACTTTTCATGAAGGAAGATGTAGT
131 TTTATGTGATGAATGACTTGATTACTATTTGATAGCAATTGACTTTTCATGAAGGAAAATGTACT
49237190 GGATACCATAAGATAAAATAAGATCATATTT
196 GGATACCATAAGATAAAATAAGATCATATTT
*
49237221 GGTATACGACTTCTGCAGTATGTAGCGTCATTCATAACAGTGGAATTCATAGCCCAAGAAATGGG
1 GGTATACGACTTCTGCAGTATGTAACGTCATTCATAACAGTGGAATTCATAGCCCAAGAAATGGG
*
49237286 TAAATGATATCTTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCACTT-
66 TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTC-CTTC
* *
49237350 ATTTATGTGATGAATGATTTGATTATTATTTGATAGCAATTGACTTTTCATGAAGGAAAATGTAC
130 ATTTATGTGATGAATGACTTGATTACTATTTGATAGCAATTGACTTTTCATGAAGGAAAATGTAC
* * * * *
49237415 TGGTTATCTTGAGATAAAATAGGATCATAT
195 TGGATACCATAAGATAAAATAAGATCATAT
49237445 GCGGAGAACG
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
226 205 0.99
227 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (226 bp):
GGTATACGACTTCTGCAGTATGTAACGTCATTCATAACAGTGGAATTCATAGCCCAAGAAATGGG
TAAATGATATCCTCTCATTGGCATTACATGGTTGATGAAAAGTAAACGTGGCCACGGGTCCTTCA
TTTATGTGATGAATGACTTGATTACTATTTGATAGCAATTGACTTTTCATGAAGGAAAATGTACT
GGATACCATAAGATAAAATAAGATCATATTT
Found at i:49239199 original size:17 final size:17
Alignment explanation
Indices: 49239179--49239237 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
49239169 AGAAGATTTC
49239179 ATTTCAACATAAATTCA
1 ATTTCAACATAAATTCA
**** *
49239196 ATTTCAGTGCAAATTTA
1 ATTTCAACATAAATTCA
*
49239213 CATTTCAACTTAAATTCA
1 -ATTTCAACATAAATTCA
49239231 ATTTCAA
1 ATTTCAA
49239238 TAACAAATTT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTTCAACATAAATTCA
Found at i:49241538 original size:19 final size:20
Alignment explanation
Indices: 49241501--49241544 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
49241491 TCTTAAATTG
49241501 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAGATTATTA
49241521 TTTTATTTATAA-ATTATTA
1 TTTTATTTATAAGATTATTA
49241540 TTTTA
1 TTTTA
49241545 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATTTATAAGATTATTA
Found at i:49241548 original size:16 final size:17
Alignment explanation
Indices: 49241508--49241550 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
49241498 TTGTTTTATT
49241508 TATAAGATTATTATTTTA
1 TATAA-ATTATTATTTTA
49241526 TTTATAAATTATTATTTTA
1 --TATAAATTATTATTTTA
49241545 -ATAAAT
1 TATAAAT
49241551 AAATTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATAAATTATTATTTTA
Found at i:49241554 original size:20 final size:19
Alignment explanation
Indices: 49241509--49241555 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
49241499 TGTTTTATTT
**
49241509 ATAAGATTATTATTTTATTT
1 ATAA-ATTATTATTTTATAA
49241529 ATAAATTATTATTTTAATAA
1 ATAAATTATTATTTT-ATAA
49241549 ATAAATT
1 ATAAATT
49241556 TCATGTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATAAATTATTATTTTATAA
Found at i:49241643 original size:21 final size:21
Alignment explanation
Indices: 49241602--49241646 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49241592 TTTATAAATA
* *
49241602 TTTTATAATATTTCATTTATT
1 TTTTATAAAATTTCATGTATT
49241623 TTTTATAAAATATT-ATGTATT
1 TTTTATAAAAT-TTCATGTATT
49241644 TTT
1 TTT
49241647 ATCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATAAAATTTCATGTATT
Found at i:49241910 original size:184 final size:187
Alignment explanation
Indices: 49241640--49242005 Score: 481
Period size: 184 Copynumber: 2.0 Consensus size: 187
49241630 AAATATTATG
*
49241640 TATTTTTATCAAAAAAATATCTTTTAAACATTTTTTTTTACTTTTTTAAAGTTTTTTTTAAGAAT
1 TATTTTTATCAAAAAAATAACTTTT-AACATTTTTTTTTACTTTTTT--A-TTTTTTTTAAGAAT
* * * *
49241705 CAGATTGATAGAATATGTAAAGTTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGATTGACTA
62 CAAATTGACAGAATATGTAAAGTTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTAACTA
* * *
49241770 ATAGAATTTATAAATGTT-GAAGGGATAAATTTATTATTATGCCAATAAAAAAGGTAATTGT
127 ATAGAATGTATAAATATTGGAAGGG-TAAATTTATTATTATACCAATAAAAAAGGTAATTGT
49241831 TATTTTTATC-AAAAAATAACTTTT-A-ATTTTTTTTTACTTTTTT-TTTATTTTTAAGAATCAA
1 TATTTTTATCAAAAAAATAACTTTTAACATTTTTTTTTACTTTTTTATTT-TTTTTAAGAATCAA
* * * * * * * *
49241892 ATTGACAGAATGTGTAAAGTTGTAGGCTAATTTATTTGGATTTTTAGATTTAGGACTAATTGATA
65 ATTGACAGAATATGTAAAGTTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTAACTAATA
* *
49241957 GAATGTATAAATATTGGATGGGTAAATTTATTATTATACTAATAAAAAA
130 GAATGTATAAATATTGGAAGGGTAAATTTATTATTATACCAATAAAAAA
49242006 AAGTCATTGT
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
183 3 0.02
184 105 0.68
185 5 0.03
187 18 0.12
188 1 0.01
190 13 0.08
191 10 0.06
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.45
Consensus pattern (187 bp):
TATTTTTATCAAAAAAATAACTTTTAACATTTTTTTTTACTTTTTTATTTTTTTTAAGAATCAAA
TTGACAGAATATGTAAAGTTGCAAGCTAAATTATTTGAATTTTAAGATTTAGGACTAACTAATAG
AATGTATAAATATTGGAAGGGTAAATTTATTATTATACCAATAAAAAAGGTAATTGT
Done.