Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 196 of 211
Found at i:60539253 original size:85 final size:84
Alignment explanation
Indices: 60539080--60539263 Score: 205
Period size: 85 Copynumber: 2.2 Consensus size: 84
60539070 ACGTTTACAG
* * * *
60539080 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCGAAAAGACGCCGCTAAAGATCATGT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTCGAAAAGACGCCGCGAAAGATAATGT
*
60539145 TCTTTAGCGGCGCTTGGTA
66 TCTTTACCGGCGCTTGGTA
* * *
60539164 AAAAAA-GCCGCTATAGATCATGTTCTTTAGTAGCGCTTTC-ATCATAA-ACGCCGCGAAAGGTA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGC-TTCGA--A-AAGACGCCGCGAAAGATA
*
60539226 ATGTTCTTTACCGGCGCTTTTGT-
62 ATGTTCTTTACCGGCGC-TTGGTA
*
60539249 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
60539264 TTTTGGGGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
83 27 0.33
84 9 0.11
85 35 0.42
86 12 0.14
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTCGAAAAGACGCCGCGAAAGATAATGT
TCTTTACCGGCGCTTGGTA
Found at i:60539673 original size:21 final size:21
Alignment explanation
Indices: 60539647--60539736 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
60539637 GCTTCTCTCG
*
60539647 CTGCTTCTCGCATTGCAGCCT
1 CTGCTTCTCGCGTTGCAGCCT
* * *
60539668 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCGCGTTGCAGCCT
* * *
60539689 CTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCTCGCGTTGCAGCCT
*
60539710 CTGCTTCT-GTCGTTGCCGCCT
1 CTGCTTCTCG-CGTTGCAGCCT
60539731 CTGCTT
1 CTGCTT
60539737 TAAGTTGTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.04, C:0.40, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCGCGTTGCAGCCT
Found at i:60541871 original size:41 final size:41
Alignment explanation
Indices: 60541809--60542148 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
60541799 GTTTGGAATT
* *
60541809 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60541850 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60541891 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60541932 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60541973 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60542014 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60542055 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
60542096 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
60542137 GGTGATCCGAAT
1 GGTGATCTGAAT
60542149 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:60541946 original size:82 final size:82
Alignment explanation
Indices: 60541809--60542142 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
60541799 GTTTGGAATT
60541809 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
60541874 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
60541891 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
60541956 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
60541973 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
60542038 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
60542055 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
60542120 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
60542137 GGTGAT
1 GGTGAT
60542143 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:60545215 original size:365 final size:366
Alignment explanation
Indices: 60544544--60545257 Score: 1187
Period size: 365 Copynumber: 2.0 Consensus size: 366
60544534 TCGACATTTG
* *
60544544 CGGCGTTTTAATTAAAAACGCCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCGTTTTATAAA
1 CGGCGTTTTAATTAAAAACGACACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAA
* * *
60544609 AATATAAGGAAACATTCTGGCGTTTTCCCAAACACACCACAATTAATATATTATTGAACCAGCGT
66 AATATAAGGAAACATTCTGGCGTTTTCCCAAAAACACCACAATTAATATATTATCGAACCAGCGC
* *
60544674 CATTTTCAGTAAATTTTATACATCCTTGCGGCGTTTTTAATAAAACGCCACTAAAAGATTCCATC
131 CATTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTCCATC
* * *
60544739 CTTCAACTGAAACGGCGCCGTTTTCGCAAAATTCAAATATTATTTATGGCGCTTTTAGGAAAAAT
196 CTTCAACTGAAACGGCGCCATTTTCGCAAAATTCAAATATTATTTATAGCGCTTTTAGGAAAAAC
*
60544804 GCCACAACTAAAATTTATTCCCTAAGCCGAAACGACGCCATATCGGTAAATGCAATAAATATTTG
261 GCCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCATATCGGTAAATGCAATAAATATTTG
*
60544869 TGGCA-TTTTTTATCAGAACGCCGGTAATGTCTACCTTTTA
326 TGGCATTTTTTTATCAAAACGCCGGTAATGTCTACCTTTTA
60544909 CGGCGTTTTAATTAAAAACGACACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAA
1 CGGCGTTTTAATTAAAAACGACACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAA
** *
60544974 AATATAAGGAAACATTCTGGCGTTTTCCCAAAAATGCCACAATTAATATATTATCGAACCGGCGC
66 AATATAAGGAAACATTCTGGCGTTTTCCCAAAAACACCACAATTAATATATTATCGAACCAGCGC
* *
60545039 CGTTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAATATTCCATC
131 CATTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTCCATC
* * * * *
60545104 CTTCAATTGAAACGGCGCCATTTTGGCAAAGTTTAAATATTATTTATAGCGCTTTTCGGAAAAAC
196 CTTCAACTGAAACGGCGCCATTTTCGCAAAATTCAAATATTATTTATAGCGCTTTTAGGAAAAAC
* * * *
60545169 GCCACAACTTAAACTTATTCCCTAAGCCGAAACGACGTCGTATCGGTAAATGCAATAAATTTTTG
261 GCCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCATATCGGTAAATGCAATAAATATTTG
60545234 TGGCATTTTTTTATCAAAACGCCG
326 TGGCATTTTTTTATCAAAACGCCG
60545258 CTAAATCTTA
Statistics
Matches: 322, Mismatches: 26, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
365 305 0.95
366 17 0.05
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (366 bp):
CGGCGTTTTAATTAAAAACGACACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAA
AATATAAGGAAACATTCTGGCGTTTTCCCAAAAACACCACAATTAATATATTATCGAACCAGCGC
CATTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTCCATC
CTTCAACTGAAACGGCGCCATTTTCGCAAAATTCAAATATTATTTATAGCGCTTTTAGGAAAAAC
GCCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCATATCGGTAAATGCAATAAATATTTG
TGGCATTTTTTTATCAAAACGCCGGTAATGTCTACCTTTTA
Found at i:60545282 original size:4 final size:4
Alignment explanation
Indices: 60545273--60545298 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60545263 TCTTACATAT
60545273 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
60545299 GTATCATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:60545712 original size:14 final size:15
Alignment explanation
Indices: 60545693--60545731 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
60545683 ATGACCATTG
60545693 AAACCCTAAATCCC-
1 AAACCCTAAATCCCT
*
60545707 AAACCCCAAATCCCT
1 AAACCCTAAATCCCT
*
60545722 AACCCCTAAA
1 AAACCCTAAA
60545732 CCCGATCCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAATCCCT
Found at i:60546701 original size:115 final size:116
Alignment explanation
Indices: 60546494--60546956 Score: 704
Period size: 115 Copynumber: 4.0 Consensus size: 116
60546484 TAAATTATTT
* *
60546494 TAAATCCCTGAGCATTAGCGGCGCTTACTTGAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
*
60546559 CAG-GGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
66 CAGACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
*
60546609 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
*
60546674 CAG-CGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAGCAAAAACGCCGC
66 CAGACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
* * * * *
60546724 TAAAGCCCCTGAGCATTAGCAGCACTTAATT-AAAAACACCGCTAAATCTCCGAAAGCTCAGAAA
1 TAAAG-CCCTGAGCATTAGCGGCGCTTACTTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAA
*
60546788 A-TGACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
65 ACAGACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
* * * ** *
60546839 TAAAGCCCTGGGTATTAGCGTCGCTT-CCCGAAAAACGCCTCTAAATCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
* *
60546903 C-GACGTCGTTCGGATTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
66 CAGACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
60546953 TAAA
1 TAAA
60546957 TCCCCGAAAG
Statistics
Matches: 319, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
114 99 0.31
115 198 0.62
116 22 0.07
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (116 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTACTTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
CAGACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGC
Found at i:60546956 original size:73 final size:72
Alignment explanation
Indices: 60546869--60547028 Score: 257
Period size: 73 Copynumber: 2.2 Consensus size: 72
60546859 TCGCTTCCCG
*
60546869 AAAAACGCCTCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTCGGATTAGGTTTTTTTGTGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTCGGATTAGGTTTTTTTGTGGC
*
60546934 GCTTTAT
66 ACTTTAT
* *
60546941 CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGTTTTTTTGTGG
1 -AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTCGGATTAGGTTTTTTTGTGG
*
60547006 CACTTTCT
65 CACTTTAT
60547014 AGAAAACGCCGCTAA
1 A-AAAACGCCGCTAA
60547029 TGCTTATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 1 0.01
73 80 0.99
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTCGGATTAGGTTTTTTTGTGGC
ACTTTAT
Found at i:60548033 original size:15 final size:15
Alignment explanation
Indices: 60548006--60548044 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
60547996 TTAAACTTTA
60548006 AAAATATTA-AATGT
1 AAAATATTATAATGT
60548020 AAAATATTATAATGT
1 AAAATATTATAATGT
**
60548035 TTAATATTAT
1 AAAATATTAT
60548045 TAAACATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
AAAATATTATAATGT
Found at i:60550637 original size:18 final size:16
Alignment explanation
Indices: 60550601--60550644 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
60550591 GATCTCTCTC
60550601 AATAAAAAATTTCAAA
1 AATAAAAAATTTCAAA
*
60550617 AATAAAAATATTTATAAA
1 AATAAAAA-ATTT-CAAA
60550635 AATTAAAAAA
1 AA-TAAAAAA
60550645 AAACTAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 6 0.25
19 6 0.25
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAAAAATTTCAAA
Found at i:60550647 original size:29 final size:32
Alignment explanation
Indices: 60550614--60550675 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
60550604 AAAAAATTTC
*
60550614 AAAAA-TAAA-AATATTTATAA-AAA-TTAAAA
1 AAAAACTAAAGAATATATA-AAGAAAGTTAAAA
60550643 AAAAACTAAAGAATATATAAAGAAAGTTAAAA
1 AAAAACTAAAGAATATATAAAGAAAGTTAAAA
60550675 A
1 A
60550676 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 5 0.18
30 6 0.21
31 10 0.36
32 7 0.25
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (32 bp):
AAAAACTAAAGAATATATAAAGAAAGTTAAAA
Found at i:60555408 original size:40 final size:40
Alignment explanation
Indices: 60555353--60555434 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
60555343 AAGAAATTCA
60555353 TGGTAAATTATAATATTATCAGCATCCATTTAATTAGTCT
1 TGGTAAATTATAATATTATCAGCATCCATTTAATTAGTCT
60555393 TGGTAAATTATAATATTATCAGCATCCATTTAATTAGTCT
1 TGGTAAATTATAATATTATCAGCATCCATTTAATTAGTCT
60555433 TG
1 TG
60555435 AAGAGGAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (40 bp):
TGGTAAATTATAATATTATCAGCATCCATTTAATTAGTCT
Found at i:60560377 original size:18 final size:17
Alignment explanation
Indices: 60560344--60560382 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
60560334 TTGTATAAAT
60560344 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
60560362 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
60560379 TGTG
1 TGTG
60560383 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:60560635 original size:23 final size:23
Alignment explanation
Indices: 60560608--60560705 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
60560598 AGTGTTATTG
60560608 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
60560631 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
60560654 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60560676 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
60560699 ATCAGTG
1 ATCAGTG
60560706 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:60560674 original size:45 final size:45
Alignment explanation
Indices: 60560610--60560698 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
60560600 TGTTATTGAT
* *
60560610 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
60560655 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
60560699 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:60574227 original size:27 final size:28
Alignment explanation
Indices: 60574196--60574248 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
60574186 AGAGAAATGA
60574196 AGAAGA-GA-GGAAAACAAAAGGAAAAAT
1 AGAAGAGGATGGAAAACAAAA-GAAAAAT
*
60574223 AGAAGAGGATGGAAAATAAAAGAAAA
1 AGAAGAGGATGGAAAACAAAAGAAAA
60574249 TTAAAAGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 7 0.30
29 10 0.43
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (28 bp):
AGAAGAGGATGGAAAACAAAAGAAAAAT
Found at i:60574255 original size:11 final size:10
Alignment explanation
Indices: 60574234--60574269 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
60574224 GAAGAGGATG
60574234 GAAAATAAAA
1 GAAAATAAAA
60574244 GAAAATTAAAA
1 GAAAA-TAAAA
*
60574255 GAACATAAAA
1 GAAAATAAAA
60574265 GAAAA
1 GAAAA
60574270 AATTAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:60576276 original size:21 final size:21
Alignment explanation
Indices: 60576250--60576302 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
60576240 CAGCGGTGGT
*
60576250 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGGTACTGTAGC
*
60576271 GGTGAGATTGGGTACTGTAGC
1 GGTGAGATTAGGTACTGTAGC
*
60576292 AGTGAGATTAG
1 GGTGAGATTAG
60576303 AAACAGCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.38, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGGTACTGTAGC
Found at i:60577454 original size:11 final size:12
Alignment explanation
Indices: 60577424--60577456 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60577414 TTCAGCTTGG
60577424 ATGCTGGTTTGC
1 ATGCTGGTTTGC
*
60577436 ACGCTGGTTTGC
1 ATGCTGGTTTGC
60577448 -TGCTGGTTT
1 ATGCTGGTTT
60577457 CCTATTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:60588364 original size:27 final size:26
Alignment explanation
Indices: 60588317--60588371 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
60588307 TAGGTTAATT
* *
60588317 TTAAAATAAATAATATGTAAAATAAC
1 TTAAAATAAATAACATATAAAATAAC
*
60588343 TTAAAATAAAATGACATATAAAATAAC
1 TTAAAAT-AAATAACATATAAAATAAC
60588370 TT
1 TT
60588372 GAAACAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAACATATAAAATAAC
Found at i:60591039 original size:19 final size:19
Alignment explanation
Indices: 60591015--60591066 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
60591005 AAATAAGTAA
60591015 TAAAAAGAAAGAATGAAAG
1 TAAAAAGAAAGAATGAAAG
60591034 TAAAAAGAAAGAATGAAAG
1 TAAAAAGAAAGAATGAAAG
*
60591053 AAAGAAAGAAAGAA
1 TAA-AAAGAAAGAA
60591067 AAAGAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (19 bp):
TAAAAAGAAAGAATGAAAG
Found at i:60591086 original size:4 final size:4
Alignment explanation
Indices: 60591018--60591067 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
60591008 TAAGTAATAA
* * *
60591018 AAAG AAAG AATG AAAG TAA- AAAG AAAG AATG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
60591065 AAA
1 AAA
60591068 AAGAAAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 2 0.05
4 37 0.95
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (4 bp):
AAAG
Found at i:60592285 original size:24 final size:24
Alignment explanation
Indices: 60592258--60592304 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
60592248 ATTTAAATGG
60592258 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TA-GTGATTGAATTT
60592282 ATTGAATTTATAGTGATTGAATT
1 ATTGAATTTATAGTGATTGAATT
60592305 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (24 bp):
ATTGAATTTATAGTGATTGAATTT
Found at i:60592517 original size:41 final size:40
Alignment explanation
Indices: 60592460--60592550 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 40
60592450 CGTCTTTGAG
* * *
60592460 TCGATGAGACACTGGGTGTCAATTTATTACTTC-AGATTAAT
1 TCGATGAGGCACTGGGTATCAATTTATTAATTCGA-ATT-AT
60592501 TCGATGAGGCACTGGGTATCAATTTATTAATTCGAATTAT
1 TCGATGAGGCACTGGGTATCAATTTATTAATTCGAATTAT
60592541 TCGATGAGGC
1 TCGATGAGGC
60592551 TCTAAGTGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 12 0.26
41 33 0.72
42 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (40 bp):
TCGATGAGGCACTGGGTATCAATTTATTAATTCGAATTAT
Found at i:60592725 original size:20 final size:20
Alignment explanation
Indices: 60592702--60592759 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
60592692 TTGAATATGG
*
60592702 TATGGATGAAGCAATTGCGT
1 TATGGATAAAGCAATTGCGT
60592722 TATGGATAAAGCAATTGCGT
1 TATGGATAAAGCAATTGCGT
60592742 TATGGATAAAGCAATTGC
1 TATGGATAAAGCAATTGC
60592760 ATAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCGT
Found at i:60593010 original size:20 final size:20
Alignment explanation
Indices: 60592987--60593024 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60592977 TTGAATATGG
*
60592987 TATGGATGAAGCAATTGCGT
1 TATGGATAAAGCAATTGCGT
60593007 TATGGATAAAGCAATTGC
1 TATGGATAAAGCAATTGC
60593025 ATAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCGT
Found at i:60597348 original size:46 final size:46
Alignment explanation
Indices: 60597276--60597415 Score: 244
Period size: 46 Copynumber: 3.0 Consensus size: 46
60597266 ACCATGCTAT
* * *
60597276 AACTCGGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
60597322 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
60597368 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
60597414 AA
1 AA
60597416 TTTGCCATGG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:60612122 original size:18 final size:17
Alignment explanation
Indices: 60612094--60612127 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
60612084 TTTTTATTGC
60612094 ATTTTATTTTTGTTTTT
1 ATTTTATTTTTGTTTTT
60612111 ATTTTAATTTTTGTTTT
1 ATTTT-ATTTTTGTTTT
60612128 CTAAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
ATTTTATTTTTGTTTTT
Found at i:60614159 original size:43 final size:42
Alignment explanation
Indices: 60614042--60614151 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
60614032 CGTGCAATGC
* * * *
60614042 CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATG
1 CAACGTCCCAAACGTGGTCTTACATGTAAACAAAAATCGATG
* * *
60614084 CCACTGTCCTAGAAAG-GGTCTTACATGTAAACAAAAATCGATG
1 CAAC-GTCCCA-AACGTGGTCTTACATGTAAACAAAAATCGATG
60614127 CTAACGTCCCAAACGTGGTCTTACA
1 C-AACGTCCCAAACGTGGTCTTACA
60614152 CGAAAACACA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
42 6 0.11
43 44 0.81
44 4 0.07
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
CAACGTCCCAAACGTGGTCTTACATGTAAACAAAAATCGATG
Found at i:60618962 original size:23 final size:24
Alignment explanation
Indices: 60618919--60618967 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
60618909 TTTATTTGTT
* *
60618919 TTATTGTTTATTGTTTATTATCTA
1 TTATTGTTTATTGATTATTATATA
60618943 TTATT-TTTATT-ATTAGTTATATA
1 TTATTGTTTATTGATTA-TTATATA
60618966 TT
1 TT
60618968 TATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 3 0.14
23 14 0.64
24 5 0.23
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
TTATTGTTTATTGATTATTATATA
Found at i:60620693 original size:25 final size:25
Alignment explanation
Indices: 60620630--60620693 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
60620620 TATTTTATTT
*
60620630 TTATTTTTATTGTTATTTTCTTAGAC
1 TTATTTTTATT-TTATTTTCTGAGAC
60620656 TTATTTTGT-TTTTATCTTT-TGA-AC
1 TTATTTT-TATTTTAT-TTTCTGAGAC
60620680 TATATTTTTATTTT
1 T-TATTTTTATTTT
60620694 TTATGATGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
24 4 0.12
25 16 0.48
26 12 0.36
27 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (25 bp):
TTATTTTTATTTTATTTTCTGAGAC
Found at i:60623348 original size:42 final size:41
Alignment explanation
Indices: 60623210--60623420 Score: 250
Period size: 42 Copynumber: 5.1 Consensus size: 41
60623200 TTTAAACAGA
* * *
60623210 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTG-ATTCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAATT--GT
* * * *
60623251 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAATTGT
60623292 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-ATTGT
*
60623334 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTGT
* *
60623376 TTCACCGGCATTAAGCATGCTAGACGTAAAGTCTGAAATGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTGT
60623417 TTCA
1 TTCA
60623421 TTGGCAATAA
Statistics
Matches: 151, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
40 3 0.02
41 68 0.45
42 79 0.52
43 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTGT
Found at i:60623405 original size:84 final size:82
Alignment explanation
Indices: 60623253--60623420 Score: 257
Period size: 83 Copynumber: 2.0 Consensus size: 82
60623243 TGATTCAGTA
* * *
60623253 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCATGCTAGACG
*
60623318 TAAAGTCTGATATTGTTT
66 TAAAGTCTGA-AATGTTT
*
60623336 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCATGCTAGA
1 CACCGGCACTT-AGCCTGCTAGACATAAAGTCTGAAA-TATTTCACCGGCATTAAGCATGCTAGA
60623400 CGTAAAGTCTGAAATGTTT
64 CGTAAAGTCTGAAATGTTT
60623419 CA
1 CA
60623421 TTGGCAATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
82 2 0.03
83 39 0.50
84 37 0.47
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (82 bp):
CACCGGCACTTAGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATTAAGCATGCTAGACG
TAAAGTCTGAAATGTTT
Found at i:60632828 original size:32 final size:34
Alignment explanation
Indices: 60632767--60632832 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
60632757 TGTAAAATTT
**
60632767 AAAAAAAAATTTGGAGTTTAATGAGATTTTTTTA
1 AAAAAAAAATTAAGAGTTTAATGAGATTTTTTTA
*
60632801 AAAAAAAAATTAAG-GTTTAATTA-ATTTTTTTA
1 AAAAAAAAATTAAGAGTTTAATGAGATTTTTTTA
60632833 GATTAATGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 9 0.31
33 8 0.28
34 12 0.41
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (34 bp):
AAAAAAAAATTAAGAGTTTAATGAGATTTTTTTA
Found at i:60639475 original size:19 final size:19
Alignment explanation
Indices: 60639421--60639483 Score: 51
Period size: 21 Copynumber: 3.3 Consensus size: 19
60639411 AAAAAGATAT
60639421 TAAAATTTA-TATAAACTTA
1 TAAAATTTATTA-AAACTTA
* * *
60639440 TAAAAAAATCATAAAAACTTA
1 T--AAAATTTATTAAAACTTA
60639461 TAAAATTTATTAAAA--TA
1 TAAAATTTATTAAAACTTA
60639478 TAAAAT
1 TAAAAT
60639484 AGAAATTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 8 0.23
19 12 0.34
21 14 0.40
22 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATTTATTAAAACTTA
Found at i:60639683 original size:20 final size:19
Alignment explanation
Indices: 60639650--60639689 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
60639640 GATATTCTCC
60639650 TTTTTATTGATAAATTATTT
1 TTTTTATTGATAAATT-TTT
**
60639670 TTTTTATTTTTAAATTTTT
1 TTTTTATTGATAAATTTTT
60639689 T
1 T
60639690 ATCTCCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTATTGATAAATTTTT
Found at i:60640638 original size:60 final size:61
Alignment explanation
Indices: 60640562--60640678 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 61
60640552 TTTTGTGAGA
* *
60640562 TTTAAAAATATCACGAAAATATGT-GAA-AAAAACATCACAAAAATAT-CCAATTTGGTAAGG
1 TTTAAAAATATCACGAAAAGAT-TAAAAGAAAAACATCACAAAAA-ATCCCAATTTGGTAAGG
* *
60640622 TTTATAAATGTCACGAAAAGATTAAAAGAAAAACATCACAAAAAATCCCAATTTGGT
1 TTTAAAAATATCACGAAAAGATTAAAAGAAAAACATCACAAAAAATCCCAATTTGGT
60640679 GTGGTCTCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 1 0.02
60 23 0.46
61 26 0.52
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (61 bp):
TTTAAAAATATCACGAAAAGATTAAAAGAAAAACATCACAAAAAATCCCAATTTGGTAAGG
Found at i:60640714 original size:61 final size:59
Alignment explanation
Indices: 60640567--60640706 Score: 140
Period size: 61 Copynumber: 2.3 Consensus size: 59
60640557 TGAGATTTAA
* * * *
60640567 AAATATCACGAAAATATGTGAA-AAAAACATCACAAAAATATCCAATTTGGTAAGGTTTAT
1 AAATGTCACGAAAAGAT-T-AAGAAAAACATCACAAAAATATCCAATTTGGTAAGGTTCAC
**
60640627 AAATGTCACGAAAAGATTAAAAGAAAAACATCACAAAAA-ATCCCAATTTGGTGTGGTCTCAC
1 AAATGTCACGAAAAGATT--AAGAAAAACATCACAAAAATAT-CCAATTTGGTAAGGT-TCAC
*
60640689 AAATTGTCATGAAAAGAT
1 AAA-TGTCACGAAAAGAT
60640707 CTTGAAAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 1 0.01
60 19 0.28
61 29 0.43
62 5 0.07
63 13 0.19
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (59 bp):
AAATGTCACGAAAAGATTAAGAAAAACATCACAAAAATATCCAATTTGGTAAGGTTCAC
Found at i:60642931 original size:42 final size:42
Alignment explanation
Indices: 60642822--60643064 Score: 202
Period size: 42 Copynumber: 5.7 Consensus size: 42
60642812 ATGGCAGTAC
* * ** * *
60642822 ATGATTTTGTATAAGACCACATTTGGGACGTTGGCATCG-AT
1 ATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
60642863 TTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGTATCGTAT
1 AT--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
60642908 ATGATTTTGTGTAAGACCTTGTCTGGGACAGTGGCATCG-AT
1 ATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
60642949 AGTTGATTACGTGTAAGACCATGTTTGAGACATTGGCATCGCAT
1 A--TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
60642993 ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGAATCAATTT
1 ATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC-GTAT
* * *
60643036 AAGATTTACGTGTAATACCTTGTCTGGGA
1 ATGATTT-CGTGTAAGACCATGTCTGGGA
60643065 TAGTGGGATT
Statistics
Matches: 161, Mismatches: 32, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
41 4 0.02
42 59 0.37
43 49 0.30
44 46 0.29
45 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
ATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:60642967 original size:43 final size:42
Alignment explanation
Indices: 60642845--60643116 Score: 182
Period size: 43 Copynumber: 6.3 Consensus size: 42
60642835 AGACCACATT
60642845 TGGGAC-GTTGGCATCGAT-TTGAGATTTACGTGTAAGACCATGTC
1 TGGGACAG-TGGCATCGATATT--GA-TTACGTGTAAGACCATGTC
* * ** *
60642889 TGGGACATTGGTATCG-TATATGATTTTGTGTAAGACCTTGTC
1 TGGGACAGTGGCATCGATAT-TGATTACGTGTAAGACCATGTC
*
60642931 TGGGACAGTGGCATCGATAGTTGATTACGTGTAAGACCATGTT
1 TGGGACAGTGGCATCGATA-TTGATTACGTGTAAGACCATGTC
* * * *
60642974 TGAGACATTGGCATCGCATA-TGATTTCGTGTAAGACCACGTC
1 TGGGACAGTGGCATCG-ATATTGATTACGTGTAAGACCATGTC
* * * *
60643016 TGGGAC-GTTGGAATCAAT-TTAAGATTTACGTGTAATACCTTGTC
1 TGGGACAG-TGGCATCGATATT--GA-TTACGTGTAAGACCATGTC
* * * * * *
60643060 TGGGATAGTGGGATTGTTATTTGATTACATATAAGACC-TCGTC
1 TGGGACAGTGGCATCGATA-TTGATTACGTGTAAGACCAT-GTC
60643103 TGGGAC-GTTGGCAT
1 TGGGACAG-TGGCAT
60643117 TGTACGAGCT
Statistics
Matches: 178, Mismatches: 34, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.02
42 62 0.35
43 63 0.35
44 46 0.26
45 2 0.01
46 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
TGGGACAGTGGCATCGATATTGATTACGTGTAAGACCATGTC
Found at i:60643114 original size:129 final size:128
Alignment explanation
Indices: 60642831--60643116 Score: 317
Period size: 129 Copynumber: 2.2 Consensus size: 128
60642821 CATGATTTTG
* * * *
60642831 TATAAGACCACATTTGGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACA
1 TATAAGACCTCGTTTGGGACGTTGGCATCGATAT-AGATTTACGTGTAAGACCACGTCTGGGACA
* * * * *
60642896 TTGGTATCGTATATGATTTTGTGTAAGACCTTGTCTGGGACAGTGGCATCGATAGTTGATTACG
65 TTGGAATCATATAAGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATAGTTGATTACA
* * *
60642960 TGTAAGACCAT-GTTTGAGACATTGGCATCGCATAT-GATTT-CGTGTAAGACCACGTCTGGGAC
1 TATAAGACC-TCGTTTGGGACGTTGGCATCG-ATATAGATTTACGTGTAAGACCACGTCTGGGAC
* * * * * * * *
60643022 GTTGGAATCAATTTAAGATTTACGTGTAATACCTTGTCTGGGATAGTGGGATTGTTATTTGATTA
64 ATTGGAATC-ATATAAGATTT-CGTGTAAGACCTTGTCTGGGACAGTGGCATCGATAGTTGATTA
60643087 CA
127 CA
*
60643089 TATAAGACCTCGTCTGGGACGTTGGCAT
1 TATAAGACCTCGTTTGGGACGTTGGCAT
60643117 TGTACGAGCT
Statistics
Matches: 128, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
127 28 0.22
128 14 0.11
129 83 0.65
130 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (128 bp):
TATAAGACCTCGTTTGGGACGTTGGCATCGATATAGATTTACGTGTAAGACCACGTCTGGGACAT
TGGAATCATATAAGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATAGTTGATTACA
Found at i:60643348 original size:42 final size:42
Alignment explanation
Indices: 60643297--60643583 Score: 416
Period size: 42 Copynumber: 6.8 Consensus size: 42
60643287 GTTTACAAAC
* * *
60643297 AAAAACGCCGTTAAAGACCATGTTCTTTAGTGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
60643339 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
60643381 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* * *
60643423 AAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * * *
60643465 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTTGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
60643507 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
60643549 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
60643584 TTTTTTTTCT
Statistics
Matches: 223, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
41 3 0.01
42 216 0.97
43 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:60643586 original size:126 final size:126
Alignment explanation
Indices: 60643297--60643670 Score: 439
Period size: 126 Copynumber: 3.0 Consensus size: 126
60643287 GTTTACAAAC
* * * * * *
60643297 AAAAACGCCGTTAAAGACCATGTTCTTTAGTGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAAATGCCGCTAAAGAACATG
* *
60643361 TTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
65 TTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
60643423 AAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCGCTAAAGAACATGT
* *
60643488 TCTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
66 TCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * *****
60643549 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAAT-GCCGCTAAAGAACATG
* * *** * * *
60643614 TTCTTTAGTGGC-ATTTTTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
65 TTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
60643671 TTATACAAAA
Statistics
Matches: 214, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
125 4 0.02
126 185 0.86
127 25 0.12
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAATGCCGCTAAAGAACATGT
TCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:60643639 original size:84 final size:82
Alignment explanation
Indices: 60643297--60643685 Score: 393
Period size: 84 Copynumber: 4.6 Consensus size: 82
60643287 GTTTACAAAC
* * * * *
60643297 AAAAACGCCGTTAAAGACCATGTTCTTTAGTGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
* **
60643362 TCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGC-ATT-TTA
* *
60643381 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCAAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
*
60643446 TCTTTAGCGGCGTTTGTAA
66 TCTTTAGCGGCATTT-T-A
* * * *
60643465 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
**
60643530 TCTTTAGCGGC-GCTTA
66 TCTTTAGCGGCATTTTA
* ***** *
60643546 ATGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAAC
1 A---AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTTGAAAAAAACGCCGCTAAAGAAC
* *
60643611 ATGTTCTTTAGTGGCATTTTTT
62 ATGTTCTTTAGCGGCA-TTTTA
* * * * *
60643633 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATACAAAAACGCC
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGA-A-AAAAACGCC
60643686 ACTATTTTTG
Statistics
Matches: 255, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 7 0.03
84 203 0.80
85 39 0.15
87 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCATTTTA
Found at i:60643761 original size:14 final size:14
Alignment explanation
Indices: 60643738--60643771 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
60643728 GCCCTCCTGT
*
60643738 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
60643752 AGCAACATTTCAAA
1 AGCAACATTTCAAA
60643766 AGCAAC
1 AGCAAC
60643772 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:60644063 original size:21 final size:21
Alignment explanation
Indices: 60643995--60644065 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
60643985 TTTTGCTCTG
* *
60643995 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
60644016 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
60644037 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
60644058 CTCTGCTT
1 CTCTGCTT
60644066 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:60645863 original size:11 final size:11
Alignment explanation
Indices: 60645847--60645886 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
60645837 GATGATAATA
60645847 CATTAGTTACC
1 CATTAGTTACC
60645858 CATTAGTTACC
1 CATTAGTTACC
*
60645869 CACTAGTTACC
1 CATTAGTTACC
60645880 CA-TAGTT
1 CATTAGTT
60645887 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:60647865 original size:7 final size:7
Alignment explanation
Indices: 60647812--60647888 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
60647802 ACCTTAATCA
*
60647812 CTAAACT
1 CTAAACC
60647819 CTCAAACC
1 CT-AAACC
60647827 CTAAACC
1 CTAAACC
** *
60647834 AAAAACA
1 CTAAACC
60647841 CTAAA-C
1 CTAAACC
* *
60647847 CTACATC
1 CTAAACC
*
60647854 GTAAACC
1 CTAAACC
*
60647861 TTAAACC
1 CTAAACC
*
60647868 CTAAACT
1 CTAAACC
60647875 CTAAACC
1 CTAAACC
60647882 CTAAACC
1 CTAAACC
60647889 AGAATTCAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:60647879 original size:14 final size:13
Alignment explanation
Indices: 60647812--60647888 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 13
60647802 ACCTTAATCA
60647812 CTAAACTCTCAAACC
1 CTAAAC-CT-AAACC
* *
60647827 CTAAACCAAAAACA
1 CTAAACC-TAAACC
* *
60647841 CTAAACCTACATC
1 CTAAACCTAAACC
*
60647854 GTAAACCTTAAACC
1 CTAAACC-TAAACC
60647868 CTAAACTCTAAACC
1 CTAAAC-CTAAACC
60647882 CTAAACC
1 CTAAACC
60647889 AGAATTCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
13 9 0.18
14 33 0.67
15 7 0.14
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.18
Consensus pattern (13 bp):
CTAAACCTAAACC
Found at i:60647950 original size:17 final size:17
Alignment explanation
Indices: 60647928--60647977 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
60647918 TATCCTATTT
60647928 CCTACATTATATAATAA
1 CCTACATTATATAATAA
60647945 CCTACATTATATAATAA
1 CCTACATTATATAATAA
*
60647962 ACTACA-TATATAATAA
1 CCTACATTATATAATAA
60647978 TCTAGCGGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 10 0.31
17 22 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (17 bp):
CCTACATTATATAATAA
Found at i:60648180 original size:113 final size:111
Alignment explanation
Indices: 60647999--60648349 Score: 402
Period size: 113 Copynumber: 3.1 Consensus size: 111
60647989 TTCCCACAAC
* * * *
60647999 GCGCCGCTAATAATATGTTTTACCGGCGTTTTACCATAAGCGCCAC-AACTGGTAGTATACATCA
1 GCGCCGCTAATACTATGATTTAGCGGCGTTTTA-AATAAGCGCCACTAA-T-GTAGTATACATCA
60648063 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
63 AGACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
* * *
60648112 GCGCCGCTAATACTATGATTTAGCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAA
1 GCGCCGCTAATACTATGATTTAGCGGCGTTTT-AAATAAGCGCCACTAAT-GTAGTATACATCAA
* * * * *
60648177 GACCAAA-CTCTGCGTTTTGGTTAA-GAAATATTGCGGCGCTTTTCACTAC
64 GACCAAAGCGCTGCGTTTTGGTTAATG---TTTTGCGGCGCTTTACAATAA
* ** * *
60648226 TCGCCGCTAATACTATTCTTTAGCAGCGTTTTAATATAAGCGCCACTACTGCTAGTATACATCAA
1 GCGCCGCTAATACTATGATTTAGCGGCGTTTTAA-ATAAGCGCCACTAATG-TAGTATACATCAA
* * *
60648291 GACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGTTTTCCAATAA
64 GACCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
*
60648339 GCGCCACTAAT
1 GCGCCGCTAAT
60648350 CCTAATATAC
Statistics
Matches: 199, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
111 1 0.01
112 16 0.08
113 87 0.44
114 79 0.40
115 16 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (111 bp):
GCGCCGCTAATACTATGATTTAGCGGCGTTTTAAATAAGCGCCACTAATGTAGTATACATCAAGA
CCAAAGCGCTGCGTTTTGGTTAATGTTTTGCGGCGCTTTACAATAA
Found at i:60648451 original size:188 final size:188
Alignment explanation
Indices: 60648129--60648531 Score: 689
Period size: 188 Copynumber: 2.1 Consensus size: 188
60648119 TAATACTATG
* * * * *
60648129 ATTTAGCGGCGTTTTCAAATAAGCGCCACTAATCGTAATGTACCTCAAGACCAAACTCTGCGTTT
1 ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
60648194 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
66 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
60648259 ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
131 ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
60648317 ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
1 ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
* * *
60648382 TGGTTAAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTAGTAGCGTTTTA
66 TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
* *
60648447 ATATAAGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
131 ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
* * *
60648505 ATTTTGCGACGCTTTACAATAAGCGCC
1 ATTTTGCGGCGTTTTCCAATAAGCGCC
60648532 GCTACTACTA
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 202 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (188 bp):
ATTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTT
TGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATTCTTTAGCAGCGTTTTA
ATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAAT
Found at i:60648572 original size:113 final size:114
Alignment explanation
Indices: 60648322--60648747 Score: 464
Period size: 114 Copynumber: 3.7 Consensus size: 114
60648312 TTAATATTTT
* ** *
60648322 GCGGCGTTTTCCA-ATAAGCGCCACTAATCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTT-AATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
* * * *
60648386 TAAGAAATCTTGCGGCGCTTTTCACTACTCGCTGCTAATACTATTCTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
** * * ** *
60648436 GTAGCGTTTTAATATAAGTGCCACTACTGGTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGT
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
* * * * ** * * *
60648501 T-A-ATATTTTGCGACGCTTTACAATAAGCGCCGCTACTACTATGCGTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* * *
60648549 GCGGCGTTTTTAA-ATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCG-TTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGT
*
60648613 TAAGAAATATTGCGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTA
65 TAAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
* ** * *
60648663 GCGGCGTTTGAATATAAGCGCCACTAAGGCTACTATACATCAAGACCAAAGCGCTGCGTTTTGGA
1 GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
** *
60648728 TAAGAGCTTTTGCGGCGCTT
65 TAAGAAATATTGCGGCGCTT
60648748 GGTAGTAAAC
Statistics
Matches: 252, Mismatches: 53, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
112 14 0.06
113 76 0.30
114 119 0.47
115 43 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (114 bp):
GCGGCGTTTTAATATAAGCGCCACTAATCCTAATATACATCAAGACCAAACGCTGCGTTTTGGTT
AAGAAATATTGCGGCGCTTTTCAATACTCGCCGCTAATACTATACTTTA
Found at i:60651146 original size:16 final size:16
Alignment explanation
Indices: 60651125--60651155 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60651115 TTATTTTTTG
*
60651125 GATTTAGGGTTATTTC
1 GATTTAAGGTTATTTC
60651141 GATTTAAGGTTATTT
1 GATTTAAGGTTATTT
60651156 TAGGTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.52
Consensus pattern (16 bp):
GATTTAAGGTTATTTC
Found at i:60651251 original size:68 final size:68
Alignment explanation
Indices: 60651142--60651269 Score: 211
Period size: 68 Copynumber: 1.9 Consensus size: 68
60651132 GGTTATTTCG
*
60651142 ATTTAAGGTTATTTTAGGTTATTTCGATTTTAATTTTGATTTCGATTCTGATTTTGATTTTGATT
1 ATTTAAGGTTATTTTAGGTTATTTCGATTTCAATTTTGATTTCGATTCTGATTTTGATTTTGATT
60651207 TTA
66 TTA
* * * *
60651210 ATTTAGGGTTATTTTAGGTTATTTTGATTTCAATTTTGATTTTGATTTTGATTTTGATTT
1 ATTTAAGGTTATTTTAGGTTATTTCGATTTCAATTTTGATTTCGATTCTGATTTTGATTT
60651270 AAATTTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.60
Consensus pattern (68 bp):
ATTTAAGGTTATTTTAGGTTATTTCGATTTCAATTTTGATTTCGATTCTGATTTTGATTTTGATT
TTA
Found at i:60651313 original size:6 final size:6
Alignment explanation
Indices: 60651162--60651293 Score: 101
Period size: 6 Copynumber: 22.7 Consensus size: 6
60651152 ATTTTAGGTT
* * * * *
60651162 ATTTCG ATTTTA ATTTTG ATTTCG ATTCTG ATTTTG ATTTTG ATTTTA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** ** **
60651210 ATTTAG -GGTT- ATTTT- AGGTT- ATTTTG ATTTCA ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** *
60651254 ATTTTG ATTTTG ATTTAA ATTTTG ATTTTG ATTTTT ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
60651294 CAATTTAGGG
Statistics
Matches: 96, Mismatches: 28, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
5 9 0.09
6 87 0.91
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (6 bp):
ATTTTG
Found at i:60651505 original size:16 final size:16
Alignment explanation
Indices: 60651484--60651527 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
60651474 ACTGCTATTT
60651484 ATTGTTTGTATCTGCC
1 ATTGTTTGTATCTGCC
*
60651500 ATTGTTTGTATCTGTC
1 ATTGTTTGTATCTGCC
*
60651516 ACTGTTTGTATC
1 ATTGTTTGTATC
60651528 CTAGCTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.14, C:0.16, G:0.18, T:0.52
Consensus pattern (16 bp):
ATTGTTTGTATCTGCC
Found at i:60651728 original size:62 final size:61
Alignment explanation
Indices: 60651627--60651758 Score: 194
Period size: 62 Copynumber: 2.1 Consensus size: 61
60651617 GTTAAAGTGT
* * *
60651627 TTGGTTATTGTTTGTCATGTGCATAACAGAAATGATTGTGTTTGTACTAAATTATTTTTGTA
1 TTGGTTATTGTGTGCCATGCGCATAACAGAAATGATTGTGTTTGTACTAAATTA-TTTTGTA
* *
60651689 TTGGTTATTGTGTGCCATGCGCATGACAGAAAT-AGTTGTGTTTGTATTAAATTATTTTGTA
1 TTGGTTATTGTGTGCCATGCGCATAACAGAAATGA-TTGTGTTTGTACTAAATTATTTTGTA
60651750 TTGGTTATT
1 TTGGTTATT
60651759 ATTTGATAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
61 17 0.27
62 47 0.73
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (61 bp):
TTGGTTATTGTGTGCCATGCGCATAACAGAAATGATTGTGTTTGTACTAAATTATTTTGTA
Found at i:60651890 original size:15 final size:15
Alignment explanation
Indices: 60651866--60651895 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60651856 GAAGAAGAAA
*
60651866 TGTCTGGTAGTGATG
1 TGTCTAGTAGTGATG
60651881 TGTCTAGTAGTGATG
1 TGTCTAGTAGTGATG
60651896 CATCTGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.37, T:0.40
Consensus pattern (15 bp):
TGTCTAGTAGTGATG
Found at i:60653712 original size:26 final size:26
Alignment explanation
Indices: 60653682--60653740 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
60653672 TGATTGGTTA
*
60653682 TTTAATATACATACTGTTGACTA-TTT
1 TTTAATATACATACAG-TGACTATTTT
* *
60653708 TTTAATATGCATACAGTGAGTATTTT
1 TTTAATATACATACAGTGACTATTTT
60653734 TTTAATA
1 TTTAATA
60653741 ATATGCATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.49
Consensus pattern (26 bp):
TTTAATATACATACAGTGACTATTTT
Found at i:60653852 original size:97 final size:96
Alignment explanation
Indices: 60653620--60653852 Score: 283
Period size: 97 Copynumber: 2.4 Consensus size: 96
60653610 TTTAGGTGTG
* * * * *
60653620 TGTATGTGTATGACTATTTTTT--TAATATGCATGTAGTAATTGTTGGTGTGTGTGATTGGTTAT
1 TGTATGT-TGTGAGTATTTTTTAATAATATGCATGTAGTGATTGTTGGTGTGTATGACTGGTTAT
*
60653683 TTAATATACATACTGTTGACTATTTTTTAATA
65 TTAATAGACATACTGTTGACTATTTTTTAATA
* *** * * *
60653715 TGCATACAGTGAGTATTTTTTTAATAATATGCATGCAGTGATTGTTGGTGTGTATGACTGTTTTT
1 TGTATGTTGTGAGTA-TTTTTTAATAATATGCATGTAGTGATTGTTGGTGTGTATGACTG-GTTA
60653780 TTTAATAGACATGA-TGTTGACTATTTTTTAATA
64 TTTAATAGACAT-ACTGTTGACTATTTTTTAATA
*
60653813 TGTATGTTGTGAGTATTTTTTAATAATATGCACGTAGTGA
1 TGTATGTTGTGAGTATTTTTTAATAATATGCATGTAGTGA
60653853 CTATTTTTTA
Statistics
Matches: 114, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
94 5 0.04
95 10 0.09
97 55 0.48
98 43 0.38
99 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (96 bp):
TGTATGTTGTGAGTATTTTTTAATAATATGCATGTAGTGATTGTTGGTGTGTATGACTGGTTATT
TAATAGACATACTGTTGACTATTTTTTAATA
Found at i:60663914 original size:22 final size:23
Alignment explanation
Indices: 60663872--60663914 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
60663862 GCTGCTGTTT
* *
60663872 TCATTGTTTTTGTTGTTGTTTTG
1 TCATTGTTTTTGGTGTCGTTTTG
60663895 TCATTG-TTTTGGTGTCGTTT
1 TCATTGTTTTTGGTGTCGTTT
60663915 CGCTATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (23 bp):
TCATTGTTTTTGGTGTCGTTTTG
Found at i:60669936 original size:38 final size:38
Alignment explanation
Indices: 60669898--60669971 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 38
60669888 TATAGTATTA
*
60669898 TATATTATG-ATTTTAGTAAATTCATA-TAATAATAA-T
1 TATATTAAGAATTTTAGTAAATT-ATATTAATAATAATT
*
60669934 TATATTAAGAATTTTATTAAATTATATTTAATAATAAT
1 TATATTAAGAATTTTAGTAAATTATA-TTAATAATAAT
60669972 GTTAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 11 0.34
37 12 0.38
38 9 0.28
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (38 bp):
TATATTAAGAATTTTAGTAAATTATATTAATAATAATT
Found at i:60670226 original size:16 final size:16
Alignment explanation
Indices: 60670205--60670275 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
60670195 TTCAATTACT
60670205 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
60670221 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
** * *
60670237 ATTACAATTCCATTCA
1 ATTACAGCTCTATTCC
60670253 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
60670269 ATTACAG
1 ATTACAG
60670276 TGAACCAAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:60670350 original size:38 final size:39
Alignment explanation
Indices: 60670299--60670376 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
60670289 CCATTAGAGT
*
60670299 TAGACTTTAGTTTTATTTTTATTGGGTTG-GTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
60670337 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
60670376 T
1 T
60670377 TGGGTTGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 28 0.74
39 10 0.26
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
Found at i:60670510 original size:34 final size:34
Alignment explanation
Indices: 60670468--60670540 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 34
60670458 CCGTTAATAA
60670468 AAAAATTAT-AAAAAAATTAACCGACCCCCAACCG
1 AAAAATTATAAAAAAAATTAACCGA-CCCCAACCG
60670502 AAAAATTATAAAAAAAATTAACCGACCCCAACCG
1 AAAAATTATAAAAAAAATTAACCGACCCCAACCG
60670536 AAAAA
1 AAAAA
60670541 ATTCGGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 23 0.61
35 15 0.39
ACGTcount: A:0.58, C:0.23, G:0.05, T:0.14
Consensus pattern (34 bp):
AAAAATTATAAAAAAAATTAACCGACCCCAACCG
Found at i:60670541 original size:35 final size:35
Alignment explanation
Indices: 60670467--60670543 Score: 131
Period size: 35 Copynumber: 2.2 Consensus size: 35
60670457 ACCGTTAATA
60670467 AAAAAATTATAAAAAAATTAACCGACCCCCAACCG
1 AAAAAATTATAAAAAAATTAACCGACCCCCAACCG
60670502 -AAAAATTATAAAAAAAATTAACCGA-CCCCAACCG
1 AAAAAATTAT-AAAAAAATTAACCGACCCCCAACCG
60670536 AAAAAATT
1 AAAAAATT
60670544 CGGTTAACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
34 18 0.45
35 22 0.55
ACGTcount: A:0.57, C:0.22, G:0.05, T:0.16
Consensus pattern (35 bp):
AAAAAATTATAAAAAAATTAACCGACCCCCAACCG
Found at i:60676844 original size:12 final size:12
Alignment explanation
Indices: 60676827--60676852 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60676817 AAAGGCGATC
60676827 CCAAGTCCAAGA
1 CCAAGTCCAAGA
60676839 CCAAGTCCAAGA
1 CCAAGTCCAAGA
60676851 CC
1 CC
60676853 GGCGGTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (12 bp):
CCAAGTCCAAGA
Found at i:60683248 original size:26 final size:26
Alignment explanation
Indices: 60683191--60683241 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
60683181 AATGGTTTCT
*
60683191 GAAAATATTTTTTATTTTTATTTTTA
1 GAAAATAGTTTTTATTTTTATTTTTA
60683217 GAAAATAGTTTTTATTTTTATTTTT
1 GAAAATAGTTTTTATTTTTATTTTT
60683242 TAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (26 bp):
GAAAATAGTTTTTATTTTTATTTTTA
Found at i:60686425 original size:25 final size:25
Alignment explanation
Indices: 60686391--60686442 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
60686381 TGTACTATAT
60686391 ATTTATTTATATTTTATATGATCAA
1 ATTTATTTATATTTTATATGATCAA
*
60686416 ATTTATTTATATTTTATGTGATCAA
1 ATTTATTTATATTTTATATGATCAA
60686441 AT
1 AT
60686443 AATAAAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (25 bp):
ATTTATTTATATTTTATATGATCAA
Found at i:60695447 original size:81 final size:81
Alignment explanation
Indices: 60695356--60695630 Score: 236
Period size: 81 Copynumber: 3.3 Consensus size: 81
60695346 TTCGGTCTAT
* * *
60695356 TCCACTGTAATCTTAAGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAAATTCAGAGAGATAA
60695421 GATCCTTTTAATCCGC
66 GATCCTTTTAATCCGC
* * * * * * *
60695437 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTG-T-TTC-GCTATAATCTCAGGG
1 TCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGATCTGCTCTACTGC-A-AAT-TCAGAG
**
60695499 AGATAAGAT--TTGAATATCTTCGGTC
60 AGATAAGATCCTTTTA-ATC--C-G-C
* * *
60695524 TATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGTAATTTTAGAGAGA
1 ---TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAAATTCAGAGAGA
* *
60695589 TAAAATCCTTTTAATCCAC
63 TAAGATCCTTTTAATCCGC
60695608 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
60695631 GGACTTGTGG
Statistics
Matches: 149, Mismatches: 26, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
81 48 0.32
82 6 0.04
83 8 0.05
84 23 0.15
85 1 0.01
86 2 0.01
87 21 0.14
88 8 0.05
89 6 0.04
90 26 0.17
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (81 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAAATTCAGAGAGATAA
GATCCTTTTAATCCGC
Found at i:60695549 original size:171 final size:171
Alignment explanation
Indices: 60695324--60695654 Score: 540
Period size: 171 Copynumber: 1.9 Consensus size: 171
60695314 GCTACTGCTT
*
60695324 AGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTTAAGGAGATAAGACCTGATG
1 AGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATG
* *
60695389 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCTTTTAATCCGCTCCACTGTAATCTCAGG
66 CGATCTGCTCTACTGCAACTTCAGAGAGATAAAATCCTTTTAATCCACTCCACTGTAATCTCAGG
*
60695454 GAGATAGGA-TTACTGGCTTCAATCTGTTTCGCTATAATCTC
131 GAGATAGGACTT-CTGGCTTAAATCTGTTTCGCTATAATCTC
* *
60695495 AGGGAGATAAGAT-TTGAATATCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
1 AGGGAGATAAGATCTGGAAT-TCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGAT
* * *
60695559 GCGATCTGCTCTACTGTAATTTTAGAGAGATAAAATCCTTTTAATCCACTCCACTGTAATCTCAG
65 GCGATCTGCTCTACTGCAACTTCAGAGAGATAAAATCCTTTTAATCCACTCCACTGTAATCTCAG
*
60695624 GGAGATAGGACTTGTGGCTTAAATCTGTTTC
130 GGAGATAGGACTTCTGGCTTAAATCTGTTTC
60695655 CCTACTCCTA
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
170 5 0.03
171 141 0.95
172 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (171 bp):
AGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATG
CGATCTGCTCTACTGCAACTTCAGAGAGATAAAATCCTTTTAATCCACTCCACTGTAATCTCAGG
GAGATAGGACTTCTGGCTTAAATCTGTTTCGCTATAATCTC
Found at i:60695629 original size:40 final size:40
Alignment explanation
Indices: 60695527--60695630 Score: 93
Period size: 40 Copynumber: 2.6 Consensus size: 40
60695517 TTCGGTCTAT
* * **
60695527 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAAACCT-ATGCAATCCAC
* * * * **
60695568 TCTACTGTAATTTTAGAGAGATAAAATCCT-TTTAATCCAC
1 TCCACTGTAATCTCAGGGAGATAAAA-CCTATGCAATCCAC
60695608 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
60695631 GGACTTGTGG
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
40 24 0.50
41 21 0.44
42 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (40 bp):
TCCACTGTAATCTCAGGGAGATAAAACCTATGCAATCCAC
Found at i:60695807 original size:44 final size:44
Alignment explanation
Indices: 60695757--60695891 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
60695747 CAACTGAGTG
*
60695757 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGCGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGA
* ** ** * * * * *
60695801 AGGCAAGATCTACTATCTTTAACCTGCTCCACTG-CAAC-CGAGGG
1 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCAGCGC-AGGA
* *
60695845 AGGCGAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGA
60695889 AGG
1 AGG
60695892 TAAAATCTGC
Statistics
Matches: 64, Mismatches: 23, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
43 19 0.30
44 27 0.42
45 18 0.28
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (44 bp):
AGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGCGCAGGA
Found at i:60695854 original size:88 final size:88
Alignment explanation
Indices: 60695733--60696029 Score: 373
Period size: 88 Copynumber: 3.4 Consensus size: 88
60695723 TGTAAACTTC
* * * *
60695733 AACCTGCTCCACTACAACTGAGTGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGCGCA
1 AACCCGCTCCACTACAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCA
60695798 GGAAGGCAAGATCTACTATCTTT
66 GGAAGGCAAGATCTACTATCTTT
* * * *
60695821 AACCTGCTCCACTGCAACCGAGGGAGGCGAGGCTGGTATCTTCGATCTGCTTCGCTGTCAGTGCA
1 AACCCGCTCCACTACAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCA
* * *
60695886 GGAAGGTAAAATCTGCTATCTTT
66 GGAAGGCAAGATCTACTATCTTT
* * * * * *
60695909 AACCCACTCCACTACAACCGATGGAGGCAAGGCT-TTGTTTTCGATCTGCTTCACTGTCAATGCA
1 AACCCGCTCCACTACAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCA
60695973 GGAAGGCAAGATCTGA-TATCTTT
66 GGAAGGCAAGATCT-ACTATCTTT
* * * **
60695996 AACCCGCTTCACTGCAACCAATAGAGGCAAGGCT
1 AACCCGCTCCACTACAACCGAGGGAGGCAAGGCT
60696030 TTGTTCGTTG
Statistics
Matches: 181, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
87 73 0.40
88 108 0.60
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (88 bp):
AACCCGCTCCACTACAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCA
GGAAGGCAAGATCTACTATCTTT
Found at i:60697306 original size:7 final size:7
Alignment explanation
Indices: 60697294--60697331 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
60697284 GCCTCTCCAC
60697294 TTTCATT
1 TTTCATT
60697301 TTTCATT
1 TTTCATT
60697308 TTT-A-T
1 TTTCATT
60697313 TTTCATT
1 TTTCATT
60697320 TTTCATT
1 TTTCATT
60697327 TTTCA
1 TTTCA
60697332 CTCCTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.14
6 2 0.07
7 23 0.79
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTCATT
Found at i:60697317 original size:12 final size:13
Alignment explanation
Indices: 60697294--60697328 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
60697284 GCCTCTCCAC
60697294 TTTCATTTTTCATT
1 TTTCA-TTTTCATT
60697308 TTT-ATTTTCATT
1 TTTCATTTTCATT
60697320 TTTCATTTT
1 TTTCATTTT
60697329 TCACTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 11 0.55
13 6 0.30
14 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCATTTTCATT
Found at i:60706612 original size:41 final size:42
Alignment explanation
Indices: 60706496--60706612 Score: 150
Period size: 41 Copynumber: 2.8 Consensus size: 42
60706486 TTGCATAAAA
*
60706496 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTG-ATACATTT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAATACATTT
* * *
60706537 CACCGGCATAAAGCCTGCTAGACATCAAGTCTGAATTA-A-TT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAA-TACATTT
* *
60706578 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAA
60706613 AATCTCAGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 62 0.94
42 2 0.03
43 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (42 bp):
CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGAATACATTT
Found at i:60709597 original size:12 final size:12
Alignment explanation
Indices: 60709580--60709609 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
60709570 AAAAGTTTAA
60709580 TAATAATACAAT
1 TAATAATACAAT
*
60709592 TAATAATATAAT
1 TAATAATACAAT
60709604 TAATAA
1 TAATAA
60709610 ATAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATACAAT
Found at i:60709614 original size:16 final size:16
Alignment explanation
Indices: 60709593--60709627 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
60709583 TAATACAATT
60709593 AATAATATAATTAATA
1 AATAATATAATTAATA
* *
60709609 AATAATATTATTATTA
1 AATAATATAATTAATA
60709625 AAT
1 AAT
60709628 TAATTGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAATATAATTAATA
Found at i:60709621 original size:28 final size:28
Alignment explanation
Indices: 60709576--60709644 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
60709566 AATGAAAAGT
60709576 TTAAT-AATAATACAATTAAT-AATATAA
1 TTAATAAATAATACAATTAATAAAT-TAA
** *
60709603 TTAATAAATAATATTATTATTAAATTAA
1 TTAATAAATAATACAATTAATAAATTAA
* *
60709631 TTGATAAAAAATAC
1 TTAATAAATAATAC
60709645 GAAAGGGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 5 0.15
28 26 0.76
29 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (28 bp):
TTAATAAATAATACAATTAATAAATTAA
Found at i:60711240 original size:12 final size:12
Alignment explanation
Indices: 60711203--60711240 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
60711193 ATGCTCACGA
60711203 ATAAGCTTGTTT
1 ATAAGCTTGTTT
*
60711215 AAAAGCTTGTTT
1 ATAAGCTTGTTT
*
60711227 ATAAGCTCGTTT
1 ATAAGCTTGTTT
60711239 AT
1 AT
60711241 TGACTCGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (12 bp):
ATAAGCTTGTTT
Found at i:60725770 original size:17 final size:17
Alignment explanation
Indices: 60725744--60725781 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
60725734 AATTCAAAGA
60725744 AATCCCTGAACTCTTCC
1 AATCCCTGAACTCTTCC
* *
60725761 AATCCTTGAACTCTTCT
1 AATCCCTGAACTCTTCC
60725778 AATC
1 AATC
60725782 ATATGTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.34
Consensus pattern (17 bp):
AATCCCTGAACTCTTCC
Found at i:60726554 original size:25 final size:24
Alignment explanation
Indices: 60726480--60726605 Score: 134
Period size: 25 Copynumber: 5.3 Consensus size: 24
60726470 ACTAATGAAT
*
60726480 AGAGAGCACTGAAGTGCTAT-A-C
1 AGAGAGCACTGACGTGCTATAATC
* *
60726502 AGAGAGCACAGATGTGCTA-AA-C
1 AGAGAGCACTGACGTGCTATAATC
*
60726524 AGAGAGCACTGACATGCTAGTAATC
1 AGAGAGCACTGACGTGCTA-TAATC
*
60726549 AGAGAGCACTAACGTGCTAATAATC
1 AGAGAGCACTGACGTGCT-ATAATC
**
60726574 AGAGAGCACCAACGTGCTAATAATC
1 AGAGAGCACTGACGTGCT-ATAATC
60726599 AGAGAGC
1 AGAGAGC
60726606 GCGCTAAAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
22 35 0.38
24 2 0.02
25 53 0.58
26 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.17
Consensus pattern (24 bp):
AGAGAGCACTGACGTGCTATAATC
Found at i:60727563 original size:5 final size:5
Alignment explanation
Indices: 60727553--60727595 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
60727543 TTATTTCTTT
60727553 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
60727596 TTATACTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:60728484 original size:12 final size:12
Alignment explanation
Indices: 60728467--60728512 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
60728457 CGTGGCTTCC
*
60728467 TTCTTTCTCTTT
1 TTCTTTTTCTTT
60728479 TTCTTTTTCTTT
1 TTCTTTTTCTTT
60728491 TTCTTTTTC--T
1 TTCTTTTTCTTT
60728501 TTCTTTTTCTTT
1 TTCTTTTTCTTT
60728513 CTATTTCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.32
12 21 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTTCTTT
Found at i:60728490 original size:18 final size:18
Alignment explanation
Indices: 60728467--60728502 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60728457 CGTGGCTTCC
60728467 TTCTTTCTCTTTTTCTTT
1 TTCTTTCTCTTTTTCTTT
*
60728485 TTCTTTTTCTTTTTCTTT
1 TTCTTTCTCTTTTTCTTT
60728503 CTTTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTCTTTCTCTTTTTCTTT
Found at i:60728519 original size:16 final size:16
Alignment explanation
Indices: 60728478--60728519 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
60728468 TCTTTCTCTT
*
60728478 TTTCTTTTTCTTTTTC
1 TTTCTATTTCTTTTTC
* *
60728494 TTTTTCTTTCTTTTTC
1 TTTCTATTTCTTTTTC
60728510 TTTCTATTTC
1 TTTCTATTTC
60728520 GTTTAACCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTTCTTTTTC
Found at i:60728583 original size:7 final size:7
Alignment explanation
Indices: 60728571--60728636 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
60728561 ATTTACTTAT
60728571 TATAATA
1 TATAATA
60728578 TATAATA
1 TATAATA
60728585 TAATATATA
1 T-ATA-ATA
60728594 TACTTAATA
1 TA--TAATA
*
60728603 -ATTAAGA
1 TA-TAATA
60728610 TATAATA
1 TATAATA
60728617 TTATAATA
1 -TATAATA
60728625 CTATAATA
1 -TATAATA
60728633 TATA
1 TATA
60728637 TTTTTAAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 21 0.42
8 20 0.40
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (7 bp):
TATAATA
Found at i:60728598 original size:30 final size:30
Alignment explanation
Indices: 60728558--60728636 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 30
60728548 TTTTATTTTT
*
60728558 TATATTTACTTATTATAATATATA-ATATAA
1 TATATATACTTA-TATAATATATAGATATAA
60728588 TATATATACTTA-ATAAT-TA-AGATATAA
1 TATATATACTTATATAATATATAGATATAA
*
60728615 TAT-TATA-ATACTATAATATATA
1 TATATATACTTA-TATAATATATA
60728637 TTTTTAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
TATATATACTTATATAATATATAGATATAA
Found at i:60733155 original size:26 final size:28
Alignment explanation
Indices: 60733126--60733188 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
60733116 ATGTGAATGA
*
60733126 ATTATAAAATG-AAA-GAATGTATATGT
1 ATTATAAAATGTAAATGAATATATATGT
*
60733152 ATTATAAAATGTAAATGTATATATATGT
1 ATTATAAAATGTAAATGAATATATATGT
60733180 ATATATAAA
1 AT-TATAAA
60733189 CTATATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 11 0.34
27 3 0.09
28 12 0.38
29 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (28 bp):
ATTATAAAATGTAAATGAATATATATGT
Found at i:60733164 original size:18 final size:19
Alignment explanation
Indices: 60733141--60733176 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60733131 AAAATGAAAG
*
60733141 AATGTATATGTAT-TATAA
1 AATGTAAATGTATATATAA
60733159 AATGTAAATGTATATATA
1 AATGTAAATGTATATATA
60733177 TGTATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
AATGTAAATGTATATATAA
Found at i:60734908 original size:44 final size:44
Alignment explanation
Indices: 60734819--60734909 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
60734809 GTTTTAGTCC
* * * **
60734819 ACTCCATTGCAACTTCAAGGAGATATGATTATTTTCTTCTGTCT
1 ACTCCACTGCAACTTCAAGGAGATAAGATTATATTCTTCAATCT
* *
60734863 ACTCCACTGCAACTTCAGGGAGATAAGACTTGTATT-TTCAATCT
1 ACTCCACTGCAACTTCAAGGAGATAAGA-TTATATTCTTCAATCT
60734907 ACT
1 ACT
60734910 TCGCCACCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAAGGAGATAAGATTATATTCTTCAATCT
Found at i:60734973 original size:44 final size:44
Alignment explanation
Indices: 60734925--60735911 Score: 490
Period size: 44 Copynumber: 22.3 Consensus size: 44
60734915 ACCAGTATGG
60734925 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* ** * * * *
60734969 GAAGATAAGATCTATTTTCTTCGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
*
60735013 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
60735057 GAAGACAAGATCTGCTAT-TTTCTATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTT-GATCTACTTCA-CGCCAGTACAT
** *
60735102 GAAGACAAGATCTATTGA-CTTTGATCTACTTCACG-CTGATACAT
1 GAAGACAAGATCTGGT-ATCTTTGATCTACTTCACGCCAG-TACAT
* * * * ***
60735146 GAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAGTACAT
* * *
60735191 GGAGACAAGATCTGTTGA-CTTTGATCTACTTCACG-CTGATACAT
1 GAAGACAAGATCTGGT-ATCTTTGATCTACTTCACGCCAG-TACAT
* ** * * * * ***
60735235 GAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTT-GATCTACTTC-ACGCCAGTACAT
* * * * *
60735281 GAAGGCGAGATCT-GTATATTCGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
60735324 GAAGACAAGATCT-GTATTCCTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTA-T-CTTTGATCTACTTC-ACGCCAGTACAT
* * * * *
60735370 GAAGGCGAGATCTGTTATCTTTGATCTACTTTACGCTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * * ***
60735414 AAAGACAGGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG--GTAT-CTTTGATCTACTTC-ACGCCAGTACAT
* * *
60735462 GAATG-CGAGATCT-GTATATTCGATCTACTTCACGCCAGTACAT
1 GAA-GACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * *
60735505 GAAGACAAGATCT-GTATTCTTTCGATCTGCTTCGCCACCAGT--AT
1 GAAGACAAGATCTGGTA-TCTTT-GATCTACTTC-ACGCCAGTACAT
* * * * * * * * *
60735549 G--G-GAAGA--T-GTATATTCGATCCACTTCGCTACCAATATAA
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCAC-GCCAGTACAT
* * ** *
60735588 GAAGACAGGACCTATTATCTTTGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * * ***
60735632 GAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAGTACAT
* *
60735677 GGAGACAAGATCT-GTTTCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * ***
60735720 GAAGACAAGATTTGTTTTCTTTCGATCTGCTTCGCCACCAGTATGG
1 GAAGACAAGATCTGGTATCTTT-GATCTACTTC-ACGCCAGTACAT
* * * * *
60735766 GAAGGCGAGATCT-GTATATTCGATCTACTTCACGCTAGTACAT
1 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
* * * *
60735809 GAAGACAAGATCT-GTATTCCTTCGATCTGCTTCGCCACCAGT--AT
1 GAAGACAAGATCTGGTA-T-CTTTGATCTACTTC-ACGCCAGTACAT
* * *
60735853 GGAAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 -G-AAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
*
60735899 GAAGACAATATCT
1 GAAGACAAGATCT
60735912 ACTTTTTCCT
Statistics
Matches: 690, Mismatches: 205, Indels: 96
0.70 0.21 0.10
Matches are distributed among these distances:
36 1 0.00
37 13 0.02
38 3 0.00
39 6 0.01
41 5 0.01
42 5 0.01
43 85 0.12
44 278 0.40
45 180 0.26
46 81 0.12
47 18 0.03
48 14 0.02
49 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:60735106 original size:133 final size:130
Alignment explanation
Indices: 60734925--60735933 Score: 493
Period size: 133 Copynumber: 7.6 Consensus size: 130
60734915 ACCAGTATGG
* * *
60734925 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTT
1 GAAGACAAGATCT-GTAT-TTTGATCTACTTCACACCAGTACAGGAAGACAAGATCTATTTTCTT
60734990 CGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTAC
64 CGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTAC
60735055 AT
129 AT
* ** **
60735057 GAAGACAAGATCTGCTATTTTCTATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTGACT
1 GAAGACAAGATCTG-TATTTT-GATCTACTTCA-CACCAGTACAGGAAGACAAGATCTATTTTCT
* * * * *
60735122 TTGATCTACTTCACGCTGATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGT
63 TCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGT
***
60735187 ATGG
127 ACAT
* * * * * * *
60735191 GGAGACAAGATCTGTTGACTTTGATCTACTTCAC-GCTGATACATGAAGACAATATCTACTTTCT
1 GAAGACAAGATCTG-T-ATTTTGATCTACTTCACACCAG-TACAGGAAGACAAGATCTATTTTC-
* * * * * *** * * * * *
60735255 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTG-TATATTCGATCTACTTCACGCTAG
62 TTCGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAG
60735319 TACAT
126 TACAT
* * ** * * * *
60735324 GAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATC
1 GAAGACAAGATCTGTATT--TT-GATCTACTTC-ACACCAGTACAGGAAGACAAGATCTATTTTC
* * * * * * * * *
60735389 TTTGATCTACTTTACGCTAGTACATAAAGACAGGATCTGCTTTTTCCTTCGATCTACTTCGCCAC
62 TTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGC--TAT-CTTTGATCTACTTC-ACGC
***
60735454 CAGTATGG
123 CAGTACAT
* * * * * *
60735462 GAATG-CGAGATCTGTATATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTATTCTT
1 GAA-GACAAGATCTGTAT-TTTGATCTACTTCACACCAGTACAGGAAGACAAGATCTATTTTC-T
* * * * ** * * * * * *
60735526 TCGATCTGCTT--CGC-CA-CCA-GTATGGGAAGA--TG-TATATTCGATCCACTTCGCTACCAA
63 TCGATCTACTTCACGCTAATACATG-AAGACAAGATCTGCTATCTTTGATCTACTTCAC-GCCAG
* *
60735583 TATAA
126 TACAT
* * * * * * * *
60735588 GAAGACAGGACCTATTATCTTTGATCTACTTCACGCTAGTACATGAAGACACGATCTGTTTTCTT
1 GAAGACAAGATCT-GTAT-TTTGATCTACTTCACACCAGTACAGGAAGACAAGATCTATTTTCTT
* * * * * *** * *
60735653 CGACCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TTTCTTTGATCTACTTCACGCCAGTA
64 CGATCTACTTCA-CGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTA
60735717 CAT
128 CAT
* * * * ** * * * * *
60735720 GAAGACAAGATTTGTTTTCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCT-GTATA
1 GAAGACAAGATCTG-TAT-TTT-GATCTACTTC-ACACCAGTACAGGAAGACAAGATCTATTTTC
* * * * *
60735784 TTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCACC
62 TTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTA-T-CTTTGATCTACTTC-ACGCC
60735848 AGT--AT
124 AGTACAT
* * * * *
60735853 GGAAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTT
1 -G-AAGACAAGATCTG-TAT-TTTGATCTACTTCACACCAGTACAGGAAGACAAGATCTA--TTT
*
60735918 TCCTTCGATCTGCTTC
60 T-CTTCGATCTACTTC
60735934 GCCACCAGTA
Statistics
Matches: 638, Mismatches: 194, Indels: 85
0.70 0.21 0.09
Matches are distributed among these distances:
125 2 0.00
126 36 0.06
127 45 0.07
129 2 0.00
130 2 0.00
131 11 0.02
132 79 0.12
133 191 0.30
134 116 0.18
135 81 0.13
136 25 0.04
137 26 0.04
138 20 0.03
139 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (130 bp):
GAAGACAAGATCTGTATTTTGATCTACTTCACACCAGTACAGGAAGACAAGATCTATTTTCTTCG
ATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:60735149 original size:89 final size:89
Alignment explanation
Indices: 60734895--60735555 Score: 704
Period size: 89 Copynumber: 7.4 Consensus size: 89
60734885 ATAAGACTTG
* *
60734895 TATTTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACG
1 TATTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTA-CTTTGATCTACTTCACG
* *
60734960 C-CAGTACATGAAGATAAGATCT-A
65 CTCAGTACATGAAGACAAGATCTGC
* * * * * *** *
60734983 TTTTCTTCGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCAC
1 TATT-TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTA-CTTTGATCTACTTCAC
60735047 GC-CAGTACATGAAGACAAGATCTGC
64 GCTCAGTACATGAAGACAAGATCTGC
* * *
60735072 TATTTTCTATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTGACTTTGATCTACTTCACG
1 TATTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTT-ACTTTGATCTACTTCACG
*
60735137 CTGA-TACATGAAGACAAGATCTGC
65 CTCAGTACATGAAGACAAGATCTGC
* * * *
60735161 T-TTCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTGACTTTGATCTACTTCAC
1 TATT-TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTT-ACTTTGATCTACTTCAC
* * *
60735225 GCTGA-TACATGAAGACAATATCTAC
64 GCTCAGTACATGAAGACAAGATCTGC
* * * * *
60735250 TTTCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATA-TTCGATCTACTTCAC
1 TAT-TTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT-TACTTTGATCTACTTCAC
60735314 GCT-AGTACATGAAGACAAGATCTG-
64 GCTCAGTACATGAAGACAAGATCTGC
* * * *
60735338 TATTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATCTTTGATCTACTTTA
1 TATT--TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTA-CTTTGATCTACTTCA
* *
60735403 CGCT-AGTACATAAAGACAGGATCTGC
63 CGCTCAGTACATGAAGACAAGATCTGC
* * *
60735429 TTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAATG-CGAGATCTGTATA-TTCGATCTACTT
1 -TATT--TTCGATCTACTTCGCCACCAGTATGGGAA-GACAAGATCTGT-TACTTTGATCTACTT
60735492 CACGC-CAGTACATGAAGACAAGATCTG-
61 CACGCTCAGTACATGAAGACAAGATCTGC
*
60735519 TATTCTTTCGATCTGCTTCGCCACCAGTATGGGAAGA
1 TA-T-TTTCGATCTACTTCGCCACCAGTATGGGAAGA
60735556 TGTATATTCG
Statistics
Matches: 497, Mismatches: 54, Indels: 43
0.84 0.09 0.07
Matches are distributed among these distances:
87 1 0.00
88 83 0.17
89 256 0.52
90 74 0.15
91 37 0.07
92 43 0.09
93 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
TATTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTACTTTGATCTACTTCACGC
TCAGTACATGAAGACAAGATCTGC
Found at i:60735956 original size:181 final size:177
Alignment explanation
Indices: 60735610--60735979 Score: 571
Period size: 181 Copynumber: 2.1 Consensus size: 177
60735600 TATTATCTTT
* *
60735610 GATCTACTTCACGCTAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTAT
1 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGTTTCCTTCGACCTACTCCACCACCAGTAT
** *
60735675 GGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCT
66 GGAAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCC
60735740 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
131 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
* * * *
60735787 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGTA
1 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGT-TTCCTTCGACCTACTCCACCACCAGTA
* * *
60735852 TGGAAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTACT-T
65 TGGAAAGACAAGATCTGTT-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGAT-T--TGT
60735916 TTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
126 TTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
*
60735968 GATCCACTTCAC
1 GATCTACTTCAC
60735980 TACCAATATA
Statistics
Matches: 175, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
177 36 0.21
178 37 0.21
179 37 0.21
180 1 0.01
181 63 0.36
182 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (177 bp):
GATCTACTTCACGCTAGTACATGAAGACAAGATCTGTTTCCTTCGACCTACTCCACCACCAGTAT
GGAAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCC
TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
Found at i:60735998 original size:92 final size:89
Alignment explanation
Indices: 60735610--60735979 Score: 508
Period size: 89 Copynumber: 4.1 Consensus size: 89
60735600 TATTATCTTT
* * * * * *
60735610 GATCTACTTCACGCTAGTACATGAAGACACGATCTGTTTT-CTTCGACCTACTCCACCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCCTTCGATCTGCTTCGCCACCAGTA
* * * * * *
60735674 TGGGGAGACAAGATCTGTTTCTTT
66 TGGGAAGGCGAGATCTGTATATTC
* *
60735698 GATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTTCGATCTGCTTCGCCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCCTTCGATCTGCTTCGCCACCAGTA
60735763 TGGGAAGGCGAGATCTGTATATTC
66 TGGGAAGGCGAGATCTGTATATTC
* *
60735787 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGTA
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCCTTCGATCTGCTTCGCCACCAGTA
* * *
60735852 TGGAAAGGCGAGATCTGTTATCTTT
66 TGGGAAGGCGAGATCTG-TATATTC
* *
60735877 GATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTTTCCTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCT--GTTTTCCTTCGATCTGCTTCGCCACCAG
60735942 TATGGGAAGGCGAGATCTGTATATTC
64 TATGGGAAGGCGAGATCTGTATATTC
*
60735968 GATCCACTTCAC
1 GATCTACTTCAC
60735980 TACCAATATA
Statistics
Matches: 249, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
88 37 0.15
89 114 0.46
90 38 0.15
91 16 0.06
92 44 0.18
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (89 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCCTTCGATCTGCTTCGCCACCAGTA
TGGGAAGGCGAGATCTGTATATTC
Found at i:60737332 original size:49 final size:47
Alignment explanation
Indices: 60737279--60737384 Score: 133
Period size: 47 Copynumber: 2.2 Consensus size: 47
60737269 CTTTGCGAGT
* * *
60737279 TTTCACCTTAGCCTCTCCTTTTTTTTT-ACTCAAGGCTCCCTTTGTAGGG
1 TTTCACCTT-G-CTCT-CTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
* *
60737328 TTTCACCCTGGTCTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
1 TTTCACCTTGCTCTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
60737375 TTTCACCTTG
1 TTTCACCTTG
60737385 GTCCCACCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 10 0.20
47 31 0.62
48 1 0.02
49 8 0.16
ACGTcount: A:0.12, C:0.28, G:0.15, T:0.44
Consensus pattern (47 bp):
TTTCACCTTGCTCTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
Found at i:60737367 original size:47 final size:46
Alignment explanation
Indices: 60737296--60737387 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
60737286 TTAGCCTCTC
* * *
60737296 CTTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCT
1 CTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCT
*
60737342 CTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 CTTTTTTTTT-ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
60737388 CCACCTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 10 0.24
47 31 0.76
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.45
Consensus pattern (46 bp):
CTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCT
Found at i:60737397 original size:47 final size:47
Alignment explanation
Indices: 60737299--60737398 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
60737289 GCCTCTCCTT
* * * * * ***
60737299 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
60737346 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
60737393 TTTTTT
1 TTTTTT
60737399 AAGCAGAGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.12, C:0.27, G:0.16, T:0.45
Consensus pattern (47 bp):
TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:60742156 original size:26 final size:25
Alignment explanation
Indices: 60742098--60742159 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
60742088 ATGTATATGA
60742098 AAATGTG-A-ATGAATTATAAAATG
1 AAATGTGTATATGAATTATAAAATG
*
60742121 AAA-GAATGTATATGTATTATAAAATG
1 AAATG--TGTATATGAATTATAAAATG
60742147 TAAATGTGTATAT
1 -AAATGTGTATAT
60742160 ATGTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 1 0.03
23 3 0.09
24 2 0.06
25 1 0.03
26 21 0.66
27 3 0.09
28 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (25 bp):
AAATGTGTATATGAATTATAAAATG
Found at i:60743571 original size:16 final size:15
Alignment explanation
Indices: 60743550--60743593 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
60743540 AAACGAAATG
60743550 AACAAACCAAATAATA
1 AACAAA-CAAATAATA
60743566 AACAAACAAATAAATA
1 AACAAACAAAT-AATA
*
60743582 AATAAACAAATA
1 AACAAACAAATA
60743594 CTAATGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (15 bp):
AACAAACAAATAATA
Found at i:60743575 original size:20 final size:20
Alignment explanation
Indices: 60743550--60743591 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60743540 AAACGAAATG
60743550 AACAAACCAAAT-AATAAACA
1 AACAAA-CAAATAAATAAACA
*
60743570 AACAAATAAATAAATAAACA
1 AACAAACAAATAAATAAACA
60743590 AA
1 AA
60743592 TACTAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.74, C:0.14, G:0.00, T:0.12
Consensus pattern (20 bp):
AACAAACAAATAAATAAACA
Found at i:60745209 original size:44 final size:44
Alignment explanation
Indices: 60745145--60745385 Score: 122
Period size: 44 Copynumber: 5.5 Consensus size: 44
60745135 ATCTACTTCC
60745145 CTACTGCCTT-GGGAAGATAAGATTCACAGTCTTCGATCTGCTCCA
1 CTACTG-CTTAGGG-AGATAAGATTCACAGTCTTCGATCTGCTCCA
* * * *
60745190 CTACTGCTTAGGGAGATAAGA-TCTACAATCTTC-AACTTACTCTA
1 CTACTGCTTAGGGAGATAAGATTC-ACAGTCTTCGATC-TGCTCCA
* * * *** *
60745234 CTGCTGCTTAGGTAGATAGGATT-GGTGGCTT-GAATCTGCTTCC-
1 CTACTGCTTAGGGAGATAAGATTCACAGTCTTCG-ATCTGC-TCCA
* * * *
60745277 CTACTACCTT-GAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
1 CTACT-GCTTAG-GGAGATAAGATTCACAGTCTTCGATCTGCTCCA
* * * * * * *
60745322 CTACTGCTTAGGAAGACATGATCTGCA-A-TATTCAACCTACTCCA
1 CTACTGCTTAGGGAGATAAGAT-T-CACAGTCTTCGATCTGCTCCA
*
60745366 CTACTACTTAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAG
60745386 GCTAGTGCCT
Statistics
Matches: 146, Mismatches: 35, Indels: 31
0.69 0.17 0.15
Matches are distributed among these distances:
43 14 0.10
44 102 0.70
45 28 0.19
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATTCACAGTCTTCGATCTGCTCCA
Found at i:60745309 original size:132 final size:132
Alignment explanation
Indices: 60745113--60745383 Score: 366
Period size: 132 Copynumber: 2.1 Consensus size: 132
60745103 GCAACTTCAA
* * *
60745113 GGAGATA-GAGTTTGTGGCTTATATCTACTTCCCTACTGCCTTGGGAAGATAAGATTCACAGTCT
1 GGAGATAGGA-TTGGTGGCTTATATCTACTTCCCTACTACCTTGAGAAGATAAGATTCACAGTCT
* * * * * * *
60745177 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACTTACTCTACTGCTGCT
65 TCGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATATTCAACCTACTCCACTACTACT
60745242 TAG
130 TAG
* * * *
60745245 GTAGATAGGATTGGTGGCTTGA-ATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCGCCGTCT
1 GGAGATAGGATTGGTGGCTT-ATATCTACTTCCCTACTACCTTGAGAAGATAAGATTCACAGTCT
* *
60745309 TCGATCTGCTCCACTACTGCTTAGGAAGACATGATCTGCAATATTCAACCTACTCCACTACTACT
65 TCGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATATTCAACCTACTCCACTACTACT
60745374 TAG
130 TAG
60745377 GGAGATA
1 GGAGATA
60745384 AGGCTAGTGC
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 117 0.98
133 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (132 bp):
GGAGATAGGATTGGTGGCTTATATCTACTTCCCTACTACCTTGAGAAGATAAGATTCACAGTCTT
CGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATATTCAACCTACTCCACTACTACTT
AG
Found at i:60745431 original size:132 final size:132
Alignment explanation
Indices: 60745163--60745431 Score: 283
Period size: 132 Copynumber: 2.0 Consensus size: 132
60745153 TTGGGAAGAT
* * * *
60745163 AAGATTCACAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACTT
1 AAGATTCACAGTCTTCGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATATTCAACCT
* * * * * * * * * ** *
60745228 ACTCTACTGCTGCTTAGGTAGATAGGATTGGTGGCTTGAATCTGCTTCCCTACTACCTTGAGAAG
66 ACTCCACTACTACTTAGGGAGATAGGACTAGTGCCTTGAATCTGCTTCACTACCACCTACAGAAA
*
60745293 AT
131 AC
* * * *
60745295 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGACATGATCTGCAATATTCAACCT
1 AAGATTCACAGTCTTCGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATATTCAACCT
* *
60745360 ACTCCACTACTACTTAGGGAGATAAGG-CTAGTGCCTTCG-ATCTGCTTCACTGCCA-GTACAGG
66 ACTCCACTACTACTTAGGGAGAT-AGGACTAGTGCCTT-GAATCTGCTTCACTACCACCTACA-G
60745422 AAAAC
128 AAAAC
60745427 AAGAT
1 AAGAT
60745432 CTACAATCTT
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
131 2 0.02
132 105 0.95
133 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
AAGATTCACAGTCTTCGATCTGCTCCACTACTGCTTAGGAAGACAAGATCTACAATATTCAACCT
ACTCCACTACTACTTAGGGAGATAGGACTAGTGCCTTGAATCTGCTTCACTACCACCTACAGAAA
AC
Found at i:60746073 original size:46 final size:45
Alignment explanation
Indices: 60745973--60746074 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
60745963 GAAAAGCTCG
* * *
60745973 AAATGAATGAATCAATCAAGATAGCAAATTTTGCTAGAATACAAA
1 AAATGAATAAATCAATCAAGATAGCAAATTTTGCAAAAATACAAA
* * * **
60746018 ATGA-GAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAAA
1 A-AATGAATAAATCAATCAAGATAGCAAATTTTG-CAAAAATACAAA
60746064 AAATGAATAAA
1 AAATGAATAAA
60746075 ATGGAAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
45 26 0.58
46 19 0.42
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (45 bp):
AAATGAATAAATCAATCAAGATAGCAAATTTTGCAAAAATACAAA
Found at i:60750249 original size:16 final size:16
Alignment explanation
Indices: 60750217--60750250 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60750207 TTTATAATGT
* *
60750217 AATGTCATGTAGTCAA
1 AATGTCATGCAGCCAA
60750233 AATGTCATGCAGCCAA
1 AATGTCATGCAGCCAA
60750249 AA
1 AA
60750251 CAAAACACCA
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:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (16 bp):
AATGTCATGCAGCCAA
Found at i:60764670 original size:28 final size:28
Alignment explanation
Indices: 60764630--60764685 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60764620 GTATATTTAT
60764630 AGGCTTGTAAAACCATATTCTAATAGGA
1 AGGCTTGTAAAACCATATTCTAATAGGA
60764658 AGGCTTGTAAAACCATATTCTAATAGGA
1 AGGCTTGTAAAACCATATTCTAATAGGA
60764686 GTGTAGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (28 bp):
AGGCTTGTAAAACCATATTCTAATAGGA
Found at i:60769036 original size:39 final size:40
Alignment explanation
Indices: 60768987--60769073 Score: 133
Period size: 39 Copynumber: 2.2 Consensus size: 40
60768977 AAATTATATG
* *
60768987 TAATACAATAAAATATTTATTATATTTAT-TTA-TGTTTTT
1 TAATATAATAAAATATTTATTATATTTATGATAGTG-TTTT
60769026 TAATATAATAAAATATTTATTATATTTATGATAGTGTTTT
1 TAATATAATAAAATATTTATTATATTTATGATAGTGTTTT
60769066 TAATATAA
1 TAATATAA
60769074 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 28 0.64
40 14 0.32
41 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (40 bp):
TAATATAATAAAATATTTATTATATTTATGATAGTGTTTT
Found at i:60771871 original size:16 final size:16
Alignment explanation
Indices: 60771850--60771886 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
60771840 CACAGTTTTC
60771850 TTAATACATACACTAA
1 TTAATACATACACTAA
*
60771866 TTAATACATACGCTAA
1 TTAATACATACACTAA
60771882 TTAAT
1 TTAAT
60771887 TAAAGCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (16 bp):
TTAATACATACACTAA
Found at i:60774008 original size:18 final size:20
Alignment explanation
Indices: 60773972--60774008 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60773962 AAAAGAAGCC
*
60773972 AAAAAGTAATATAAGAAGTA
1 AAAAAGTAATATAACAAGTA
60773992 AAAAAGTAA-A-AACAAGT
1 AAAAAGTAATATAACAAGT
60774009 TCAGGTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 1 0.06
20 9 0.56
ACGTcount: A:0.68, C:0.03, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAAAGTAATATAACAAGTA
Found at i:60781031 original size:21 final size:21
Alignment explanation
Indices: 60781013--60781051 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60781003 AGCCAATACA
*
60781013 TAATTTTTATTATTCAATAAT
1 TAATTTTTAATATTCAATAAT
60781034 TAATTTTTAATATT-AATA
1 TAATTTTTAATATTCAATA
60781052 TTATCTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATTTTTAATATTCAATAAT
Found at i:60791619 original size:26 final size:25
Alignment explanation
Indices: 60791590--60791639 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
60791580 GAGCTTTCCG
*
60791590 ATTAAAGGCTCTTTGTGAGCTTCCTA
1 ATTAAAGGCTCTCTG-GAGCTTCCTA
*
60791616 ATTAATGGCTCTCTGGAGCTTCCT
1 ATTAAAGGCTCTCTGGAGCTTCCT
60791640 GATATGGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
ATTAAAGGCTCTCTGGAGCTTCCTA
Found at i:60791634 original size:25 final size:25
Alignment explanation
Indices: 60791580--60791700 Score: 113
Period size: 25 Copynumber: 4.9 Consensus size: 25
60791570 GGCTCTTCAT
* * *
60791580 GAGCTTTCCGATTAAAGGCTCTTTG
1 GAGCTTCCCGATTAATGGCTCTCTG
**
60791605 TGAGCTTCCTAATTAATGGCTCTCTG
1 -GAGCTTCCCGATTAATGGCTCTCTG
* * *
60791631 GAGCTTCCTGA-T-ATGGCTCGCTT
1 GAGCTTCCCGATTAATGGCTCTCTG
* *
60791654 GAACTTCCCGA-TATATGGCTATCTG
1 GAGCTTCCCGATTA-ATGGCTCTCTG
60791679 GAGCTTCCCGATTAATGGCTCT
1 GAGCTTCCCGATTAATGGCTCT
60791701 TCGGGGCTAC
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
23 19 0.25
24 1 0.01
25 35 0.45
26 22 0.29
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCTG
Found at i:60793123 original size:3 final size:3
Alignment explanation
Indices: 60793115--60793140 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60793105 GTGAGGTAAG
60793115 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
60793141 AGATGAGTGG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:60794780 original size:62 final size:62
Alignment explanation
Indices: 60794704--60794832 Score: 249
Period size: 62 Copynumber: 2.1 Consensus size: 62
60794694 CGTATATGCC
60794704 TGAAATACATGAAATTGATATTACATGACATGTTGAAATATGAGATAGAAGATACATGTGTA
1 TGAAATACATGAAATTGATATTACATGACATGTTGAAATATGAGATAGAAGATACATGTGTA
*
60794766 TGAAATACATGAAATTGATATTACATGACTTGTTGAAATATGAGATAGAAGATACATGTGTA
1 TGAAATACATGAAATTGATATTACATGACATGTTGAAATATGAGATAGAAGATACATGTGTA
60794828 TGAAA
1 TGAAA
60794833 CTTGCCTGAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.31
Consensus pattern (62 bp):
TGAAATACATGAAATTGATATTACATGACATGTTGAAATATGAGATAGAAGATACATGTGTA
Found at i:60794791 original size:31 final size:31
Alignment explanation
Indices: 60794704--60794805 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 31
60794694 CGTATATGCC
60794704 TGAAATACATGAAATTGATATTACATGACATGT
1 TGAAATACATGAAATTGATATTACATG--ATGT
* * *
60794737 TGAAAT--ATGAGATAGA-AGATACATG-TGT
1 TGAAATACATGAAATTGATA-TTACATGATGT
60794765 ATGAAATACATGAAATTGATATTACATGACTTGT
1 -TGAAATACATGAAATTGATATTACATGA--TGT
60794799 TGAAATA
1 TGAAATA
60794806 TGAGATAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
28 3 0.05
29 6 0.11
30 1 0.02
31 28 0.51
32 1 0.02
33 13 0.24
34 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (31 bp):
TGAAATACATGAAATTGATATTACATGATGT
Done.