Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 91 of 208
Found at i:31405908 original size:20 final size:19
Alignment explanation
Indices: 31405883--31405922 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31405873 CTCGATAAAT
*
31405883 ATGAAATCTCGTTTGAATAC
1 ATGAAAT-TCGATTGAATAC
*
31405903 ATGAAATTCGATTGGATAC
1 ATGAAATTCGATTGAATAC
31405922 A
1 A
31405923 GGGCTCCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (19 bp):
ATGAAATTCGATTGAATAC
Found at i:31406159 original size:26 final size:26
Alignment explanation
Indices: 31406124--31406190 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
31406114 CTGATTATGG
*
31406124 CTCTTCGTGAGCTTCCCGTTAATTGC
1 CTCTTTGTGAGCTTCCCGTTAATTGC
*
31406150 CTCTTTGTGAGCTTCCCGTTAATTGG
1 CTCTTTGTGAGCTTCCCGTTAATTGC
31406176 CTCTTTGTGAGCTTC
1 CTCTTTGTGAGCTTC
31406191 TCAATATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.10, C:0.27, G:0.21, T:0.42
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCCGTTAATTGC
Found at i:31406559 original size:38 final size:38
Alignment explanation
Indices: 31406517--31406593 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
31406507 TGCAAAAAGT
31406517 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
1 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
31406555 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
1 ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
31406593 A
1 A
31406594 CACATGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (38 bp):
ATGATATGTACATGTTCCTTGGAAACTTGAAATGATAA
Found at i:31408822 original size:95 final size:95
Alignment explanation
Indices: 31408659--31408847 Score: 342
Period size: 95 Copynumber: 2.0 Consensus size: 95
31408649 AGATTTACAC
* * *
31408659 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATATGACAGAGCGAGCATTGTCTTGACGATG
1 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAACGAGCATTGTCTCGACGATG
*
31408724 AGCAACAACCAACCAAACACCAACGAATTT
66 AGCAACAACCAACCAAACACCAACAAATTT
31408754 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAACGAGCATTGTCTCGACGATG
1 ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAACGAGCATTGTCTCGACGATG
31408819 AGCAACAACCAACCAAACACCAACAAATT
66 AGCAACAACCAACCAAACACCAACAAATT
31408848 AAACATAGGT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (95 bp):
ATTCATTAGTGTTGTAATTTTAACATGACATAAAATACGACAGAACGAGCATTGTCTCGACGATG
AGCAACAACCAACCAAACACCAACAAATTT
Found at i:31409915 original size:58 final size:58
Alignment explanation
Indices: 31409803--31409964 Score: 227
Period size: 51 Copynumber: 3.0 Consensus size: 58
31409793 ACTGATATTA
*
31409803 GAAACCAAAGATTATAAACTTTTAA-T--TGAAGTAGAAAAAATATACAATATGAGTC
1 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
31409858 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
1 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
* *
31409916 --TA-CAAAG---A-CAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAG
1 GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAG
31409965 CCTACAAAGA
Statistics
Matches: 101, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
51 40 0.40
52 1 0.01
55 30 0.30
56 2 0.02
58 28 0.28
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (58 bp):
GAAACCAAAGATTATAAACTTTTAATTGGTGAAGTAGAACAAATATACAATATGAGTC
Found at i:31411532 original size:263 final size:264
Alignment explanation
Indices: 31411061--31411592 Score: 1003
Period size: 263 Copynumber: 2.0 Consensus size: 264
31411051 AATAGTAGGA
*
31411061 TATCTGGTTTGTTGACTATATAAAAGTAGGGTAATACTCAAACCAAGAAAGAACCAACCATTAAA
1 TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACCAAGAAAGAACCAACCATTAAA
31411126 AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
66 AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
31411191 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
131 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
31411256 TACCATAAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACA-TAAA
196 TACCATAAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
31411320 ATAG
261 ATAG
*
31411324 TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACGAAGAAAGAACCAACCATTAAA
1 TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACCAAGAAAGAACCAACCATTAAA
* *
31411389 AAGAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAGC
66 AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
*
31411454 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTATCAAT
131 TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
*
31411519 TACCATTAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
196 TACCATAAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
31411584 ATAG
261 ATAG
31411588 TATCT
1 TATCT
31411593 AGACATAAAA
Statistics
Matches: 262, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
263 249 0.95
264 13 0.05
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (264 bp):
TATCTGGTTTGTTGACTATATAAAAGTAGGATAATACTCAAACCAAGAAAGAACCAACCATTAAA
AAAAACGAGACTGAACCAGTAAAAACCCAGCTTTATAAATATATTTTTCTTCTTGTTTTCAAAAC
TTTATTCCTAATCAATGAGATTTGAACCATTAACCTCTTGATTTTATAATAAAGATCTTACCAAT
TACCATAAAGCCAAATGTACTTTGTGTTAATTATAAACCATATTTATTATTTATTATACATTAAA
ATAG
Found at i:31414764 original size:13 final size:13
Alignment explanation
Indices: 31414746--31414771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31414736 TAAAATAAGA
31414746 AATGAAATATTTT
1 AATGAAATATTTT
31414759 AATGAAATATTTT
1 AATGAAATATTTT
31414772 TTTAGGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AATGAAATATTTT
Found at i:31418077 original size:3 final size:3
Alignment explanation
Indices: 31418071--31418109 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
31418061 TCGCGGATGA
*
31418071 TGG TGG TGG TGG TGG T-G TGG TGA TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
31418110 TGTCGTCGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.03, C:0.00, G:0.62, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:31418168 original size:24 final size:24
Alignment explanation
Indices: 31418139--31418188 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31418129 TCTTGAGTCA
31418139 TTCTAGTTGAATTCTCAGTAACAT
1 TTCTAGTTGAATTCTCAGTAACAT
31418163 TTCTAGTTGAATTCTCAGTAACAT
1 TTCTAGTTGAATTCTCAGTAACAT
31418187 TT
1 TT
31418189 GCATGGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (24 bp):
TTCTAGTTGAATTCTCAGTAACAT
Found at i:31420718 original size:25 final size:25
Alignment explanation
Indices: 31420690--31420737 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
31420680 TTACCAAAAA
31420690 TGGAAAATAAAATTGAAGATAACAG
1 TGGAAAATAAAATTGAAGATAACAG
31420715 TGGAAAATAAAATTGAAGATAAC
1 TGGAAAATAAAATTGAAGATAAC
31420738 TTGTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (25 bp):
TGGAAAATAAAATTGAAGATAACAG
Found at i:31421859 original size:34 final size:35
Alignment explanation
Indices: 31421815--31421881 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
31421805 CAGTAAAATA
*
31421815 TTTTCCGTAAAATAATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
* * *
31421849 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTT
31421882 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
Found at i:31422859 original size:11 final size:11
Alignment explanation
Indices: 31422842--31422884 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
31422832 CTCTGATATT
31422842 CTCTCAAATTA
1 CTCTCAAATTA
* *
31422853 TTCTCAAATTC
1 CTCTCAAATTA
*
31422864 CTCTCAAATTT
1 CTCTCAAATTA
*
31422875 CTTTCAAATT
1 CTCTCAAATT
31422885 CCTATTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAAATTA
Found at i:31422867 original size:22 final size:22
Alignment explanation
Indices: 31422820--31422887 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
31422810 TAAATCATTT
*
31422820 CTCTC-AATTTCTCTCTGATATT-
1 CTCTCAAATTTCTCTC--AAATTC
31422842 CTCTCAAATTAT-TCTCAAATTC
1 CTCTCAAATT-TCTCTCAAATTC
*
31422864 CTCTCAAATTTCTTTCAAATTC
1 CTCTCAAATTTCTCTCAAATTC
31422886 CT
1 CT
31422888 ATTTAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 5 0.12
22 26 0.65
23 8 0.20
24 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (22 bp):
CTCTCAAATTTCTCTCAAATTC
Found at i:31428619 original size:125 final size:126
Alignment explanation
Indices: 31428389--31428678 Score: 456
Period size: 125 Copynumber: 2.3 Consensus size: 126
31428379 CCAAACATGC
31428389 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
31428454 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATT-ATTTTTCAGGA
66 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAGGA
* * *
31428514 GCTATTGTAGCAAAAGCGCGTCCACTTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
* ** * * *
31428579 GCTTAAAGTGTTTTTGACACTATTTGCTCAGGAACGTCTACTCGAAATTAATTTTTTAGGA
66 ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAGGA
* * **
31428640 GCTACTGTAGCAAAAGTGCGCCCACGGGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTT
31428679 AAATTAACAA
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 106 0.71
126 44 0.29
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
ACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAGGA
Found at i:31428801 original size:97 final size:94
Alignment explanation
Indices: 31428690--31428984 Score: 374
Period size: 96 Copynumber: 3.1 Consensus size: 94
31428680 AATTAACAAA
* * *
31428690 TAATTTAATTAAGTAACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTA
1 TAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTAAACACTA
31428755 AATCCTAATCTAATTTTATAAAAATTTATAAT
65 AA-CCTAATCTAATTTT-TAAAAATTTATAAT
* * * *
31428787 TAATTTACTCAAGTAACCCTGAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAA
1 TAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAA
* * *
31428852 ACCCTTATCTGATTTTTAAATAATTTTTAAT
66 A-CCTAATCTAATTTTTAAA-AATTTATAAT
* * * ** *
31428883 TAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGA
1 TAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTACTT-AAAAACCCTAAACACTA
* *
31428948 AACCTAATCCAATTTTGAAAAATTTATAAT
65 AACCTAATCTAATTTTTAAAAATTTATAAT
31428978 TAATTTA
1 TAATTTA
31428985 ATTGACAAAC
Statistics
Matches: 170, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
95 19 0.11
96 103 0.61
97 48 0.28
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (94 bp):
TAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACTAA
ACCTAATCTAATTTTTAAAAATTTATAAT
Found at i:31431160 original size:19 final size:18
Alignment explanation
Indices: 31431132--31431168 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
31431122 TGAAATTAGA
31431132 AAATAATTTTTCTTTTTCT
1 AAATAA-TTTTCTTTTTCT
*
31431151 AAATACTTTTCTTTTTCT
1 AAATAATTTTCTTTTTCT
31431169 TAAAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (18 bp):
AAATAATTTTCTTTTTCT
Found at i:31431602 original size:28 final size:31
Alignment explanation
Indices: 31431562--31431624 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 31
31431552 CTATTAGCGT
31431562 ATTTTCGTTTTTA-TCAC-CTATG-T-TTAAA
1 ATTTTCGTTTTTAGTCACTC-ATGTTATTAAA
31431590 ATTTTC-TGTTTTAGTCACTCATGTTATTAAA
1 ATTTTCGT-TTTTAGTCACTCATGTTATTAAA
31431621 ATTT
1 ATTT
31431625 AATATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 1 0.03
28 11 0.37
29 7 0.23
30 2 0.07
31 9 0.30
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.54
Consensus pattern (31 bp):
ATTTTCGTTTTTAGTCACTCATGTTATTAAA
Found at i:31435167 original size:12 final size:12
Alignment explanation
Indices: 31435150--31435174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31435140 ACGCTCGTGC
31435150 CCTAGCCCATGT
1 CCTAGCCCATGT
31435162 CCTAGCCCATGT
1 CCTAGCCCATGT
31435174 C
1 C
31435175 TGAACTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (12 bp):
CCTAGCCCATGT
Found at i:31435379 original size:65 final size:65
Alignment explanation
Indices: 31435293--31435437 Score: 218
Period size: 65 Copynumber: 2.2 Consensus size: 65
31435283 CATGGCTGTA
* * * *
31435293 TGCTAGGCTGTGTGAAAAATGTTGGGTATACTGACTTGTATCACACGGCCGACCACACACCCGTG
1 TGCTAAGCCGTGTGAAAAATGTTGGGTATACTGACTTATATCACACGGCCAACCACACACCCGTG
* * *
31435358 TGCTAAGTCGTGTGAAAAATGTTGGGTATACTGACTTATGTCACATGGCCAACCACACACCCGTG
1 TGCTAAGCCGTGTGAAAAATGTTGGGTATACTGACTTATATCACACGGCCAACCACACACCCGTG
*
31435423 TGCTAGGCCGTGTGA
1 TGCTAAGCCGTGTGA
31435438 GGCTACTGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (65 bp):
TGCTAAGCCGTGTGAAAAATGTTGGGTATACTGACTTATATCACACGGCCAACCACACACCCGTG
Found at i:31440219 original size:26 final size:25
Alignment explanation
Indices: 31440189--31440254 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
31440179 GTAGATCTTA
* *
31440189 TGAGCGTCCCGTTATATGGCTCTTTG
1 TGAGCCTCCCGTTA-AAGGCTCTTTG
*
31440215 TGAGCCTCCAGATTAAAGGCTCTTTG
1 TGAGCCTCCCG-TTAAAGGCTCTTTG
* * *
31440241 AGAGCTTTCCGTTA
1 TGAGCCTCCCGTTA
31440255 GTGCTCGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 3 0.09
26 26 0.81
27 3 0.09
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (25 bp):
TGAGCCTCCCGTTAAAGGCTCTTTG
Found at i:31440315 original size:24 final size:24
Alignment explanation
Indices: 31440288--31440358 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
31440278 TATGGCTATT
*
31440288 CGGTGCTTCCCGTTAAGTGCTCTC
1 CGGTGCTACCCGTTAAGTGCTCTC
* *
31440312 CGGTGCTACTCGTTAAGTGCTCTT
1 CGGTGCTACCCGTTAAGTGCTCTC
* *
31440336 CAGAGCTACCCGTTATAG-GCTCT
1 CGGTGCTACCCGTTA-AGTGCTCT
31440359 TTGTGAGCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 38 0.95
25 2 0.05
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (24 bp):
CGGTGCTACCCGTTAAGTGCTCTC
Found at i:31447327 original size:62 final size:63
Alignment explanation
Indices: 31447230--31447354 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 63
31447220 TCTGATCAGT
* *
31447230 GATAAAGTGCTAAGTGGTAGCTTTAGCTACACTTATCTGATCAA-GA-ACAAGTGATAAGTGGA
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGGATA-AAGTGATAAGTGGA
31447292 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGG
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG-GATAAAGTGATAAGTGG
31447355 TAGCATTAGC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
62 42 0.72
64 15 0.26
65 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (63 bp):
GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGGATAAAGTGATAAGTGGA
Found at i:31447355 original size:46 final size:46
Alignment explanation
Indices: 31447292--31447535 Score: 438
Period size: 46 Copynumber: 5.3 Consensus size: 46
31447282 GATAAGTGGA
31447292 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
31447338 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
31447384 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
*
31447430 GACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
* *
31447476 GATCAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATC-AGG
1 GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
*
31447521 GA-CAAGTGATAAGTG
1 GATAAAGTGATAAGTG
31447536 ATCACAAGTA
Statistics
Matches: 194, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
44 13 0.07
45 4 0.02
46 177 0.91
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (46 bp):
GATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
Found at i:31452729 original size:86 final size:87
Alignment explanation
Indices: 31452575--31453235 Score: 970
Period size: 86 Copynumber: 7.6 Consensus size: 87
31452565 AGAAACAAAA
* * *
31452575 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTGCATTAATA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
31452640 GCGAAGCAGATCAAAAATGAAG
66 GCGAAGCAGATCGAAAACGAAG
* *
31452662 CCTTGCCTCCATCAGTTGCAGTGGTGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
31452726 GCGAAGCAGATCGAAAACGAAG
66 GCGAAGCAGATCGAAAACGAAG
* *
31452748 CCTTGCCTCCATCGGTTTCAGTGGAGCTGGTTAAAGA-AGCAGATTTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
*
31452812 GCGAAGCAGATCGAAAACAAAG
66 GCGAAGCAGATCGAAAACGAAG
* *
31452834 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATGTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * *
31452899 GTGAAGCAGATCAAAAATGAAG
66 GCGAAGCAGATCGAAAACGAAG
* *
31452921 CCTTGCCTCCATCGGTTACAGTGGAGTTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
31452985 GCGAAGCAGATCAAAAACAAAG
66 GCGAAGCAGATCGAAAACGAAG
* * * *
31453007 CCTTGCCTCCATCGGTTGCAATGGAGCTGGTTGAAG-TAGCAGATTTTGCCTTCCTACATTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
31453071 TCGAAGTAGATCGAAAACGAAG
66 GCGAAGCAGATCGAAAACGAAG
* * *
31453093 CCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCTGCGTTAACA
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
** * *
31453158 ATGAAGCAGATCGAGAATGAAG
66 GCGAAGCAGATCGAAAACGAAG
* * * *
31453180 CCTTGCTTCCATCGGTTACAGTAGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCT
1 CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
31453236 AAGCACTAGC
Statistics
Matches: 517, Mismatches: 54, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
86 315 0.61
87 202 0.39
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (87 bp):
CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCGAAAACGAAG
Found at i:31452753 original size:43 final size:43
Alignment explanation
Indices: 31452706--31452841 Score: 100
Period size: 43 Copynumber: 3.2 Consensus size: 43
31452696 AGAAGCAGAT
31452706 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGC
* * * * * * * * * *
31452749 CTTGCC-TCCAT-CGGTT-TCAGTGGAGCTGGT-TAAAGAAGCAGAT
1 CTTGCCTTCC-TGC-ATTAACAGCGAAGCAGATCGAAA-ACGAAG-C
* *
31452792 TTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGC
31452835 CTTGCCT
1 CTTGCCT
31452842 CCATCGGTTG
Statistics
Matches: 62, Mismatches: 23, Indels: 16
0.61 0.23 0.16
Matches are distributed among these distances:
41 3 0.05
42 17 0.27
43 23 0.37
44 16 0.26
45 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGC
Found at i:31452886 original size:173 final size:174
Alignment explanation
Indices: 31452575--31453235 Score: 988
Period size: 173 Copynumber: 3.8 Consensus size: 174
31452565 AGAAACAAAA
* *
31452575 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTGCATTAATA
1 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
** * *
31452640 GCGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCAGTTGCAGTGGTGCTGGTTAAAGA-AGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
*
31452704 ATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
131 ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
* *
31452748 CCTTGCCTCCATCGGTTTCAGTGGAGCTGGTTAAAGA-AGCAGATTTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
31452812 GCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
* * * *
31452877 ATGTTGCCTTCCTGCATTAACAGTGAAGCAGATCAAAAATGAAG
131 ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
*
31452921 CCTTGCCTCCATCGGTTACAGTGGAGTTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
31452985 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTGAAG-TAGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
* * *
31453049 ATTTTGCCTTCCTACATTAACATCGAAGTAGATCGAAAACGAAG
131 ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
* * * *
31453093 CCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCTGCGTTAACA
1 CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
** * * ** * * *
31453158 ATGAAGCAGATCGAGAATGAAGCCTTGCTTCCATCGGTTACAGTAGAGCTGGTTAAAGATAGCAG
66 GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
31453223 ATTTTGCCTTCCT
131 ATTTTGCCTTCCT
31453236 AAGCACTAGC
Statistics
Matches: 445, Mismatches: 40, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
172 157 0.35
173 269 0.60
174 19 0.04
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (174 bp):
CCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAG
ATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAG
Found at i:31453034 original size:259 final size:259
Alignment explanation
Indices: 31452567--31453235 Score: 1059
Period size: 259 Copynumber: 2.6 Consensus size: 259
31452557 TGAAAATCAG
* * *
31452567 AAACAAAACCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
* * * * *
31452632 CATTAATAGCGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCAGTTGCAGTGGTGCTGGTTAAA
66 CATTAACAGTGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAA
* *
31452697 GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCG
131 GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCG
* * *
31452762 GTTTCAGTGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
196 GTTGCAATGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTACATTAACAGCGAAGCAGATCGA
* *
31452826 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATGTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
*
31452891 CATTAACAGTGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCGGTTACAGTGGAGTTGGTTAAA
66 CATTAACAGTGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAA
31452956 GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCG
131 GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCG
* * * *
31453021 GTTGCAATGGAGCTGGTTGAAGTAGCAGATTTTGCCTTCCTACATTAACATCGAAGTAGATCGA
196 GTTGCAATGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTACATTAACAGCGAAGCAGATCGA
* * *
31453085 AAACGAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
* * * * * *
31453150 CGTTAACAATGAAGCAGATCGAGAATGAAGCCTTGCTTCCATCGGTTACAGTAGAGCTGGTTAAA
66 CATTAACAGTGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAA
*
31453215 GATAGCAGATTTTGCCTTCCT
131 GA-AGCAGATCTTGCCTTCCT
31453236 AAGCACTAGC
Statistics
Matches: 376, Mismatches: 33, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
259 359 0.95
260 17 0.05
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (259 bp):
AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTG
CATTAACAGTGAAGCAGATCAAAAATGAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAA
GAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCG
GTTGCAATGGAGCTGGTTAAAGAAGCAGATTTTGCCTTCCTACATTAACAGCGAAGCAGATCGA
Found at i:31454683 original size:54 final size:53
Alignment explanation
Indices: 31454611--31454718 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 53
31454601 TAGGCCATCC
31454611 GAAAAATGGTGAGCATACTGACTTGTGA-CACACGGCCAAGCCACACGCCCGTGT
1 GAAAAATGGTGAGCATACTGACTTGT-ATCACACGGCCAA-CCACACGCCCGTGT
* * * * *
31454665 GAAAAATGTTGGGTATACTGACTTGTATCACATGGCTAACCACACGCCCGTGT
1 GAAAAATGGTGAGCATACTGACTTGTATCACACGGCCAACCACACGCCCGTGT
31454718 G
1 G
31454719 CTAGGCCGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 16 0.33
54 32 0.67
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (53 bp):
GAAAAATGGTGAGCATACTGACTTGTATCACACGGCCAACCACACGCCCGTGT
Found at i:31457608 original size:95 final size:95
Alignment explanation
Indices: 31457499--31457687 Score: 324
Period size: 95 Copynumber: 2.0 Consensus size: 95
31457489 AAATTTTACA
*
31457499 AATTTGGAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
1 AATTTGAAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
*
31457564 TTATTTAACTAGAGAATTTGATTAAAGAAG
66 TTATTCAACTAGAGAATTTGATTAAAGAAG
* * *
31457594 AATTTGAAAATAATTTAATTGAGTTGATTTATTCGATGTGGAATTAAATTAGGTGGTCGTGAGAA
1 AATTTGAAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
*
31457659 TTGTTCAACTAGAGAATTTGATTAAAGAA
66 TTATTCAACTAGAGAATTTGATTAAAGAA
31457688 TTTTCTTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.37
Consensus pattern (95 bp):
AATTTGAAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATGAGGTGGTCATGAGAA
TTATTCAACTAGAGAATTTGATTAAAGAAG
Found at i:31458162 original size:12 final size:12
Alignment explanation
Indices: 31458145--31458203 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
31458135 TTTTAATAAG
31458145 ATTTAATATTAA
1 ATTTAATATTAA
*
31458157 ATTTAAT-CTAA
1 ATTTAATATTAA
31458168 TATTT-ATA-TAA
1 -ATTTAATATTAA
*
31458179 ATATT-AGATTAA
1 AT-TTAATATTAA
31458191 ATTTAATATTAA
1 ATTTAATATTAA
31458203 A
1 A
31458204 GTGATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.05
11 14 0.36
12 23 0.59
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:31458288 original size:26 final size:24
Alignment explanation
Indices: 31458259--31458308 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
31458249 AGTTGTAGAG
*
31458259 AGAAAATTCTCTAAAGAGATTATTTC
1 AGAAAATT-TATAAAGAGATT-TTTC
*
31458285 AGAAAATTTATAAAGATATTTTTC
1 AGAAAATTTATAAAGAGATTTTTC
31458309 TAATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (24 bp):
AGAAAATTTATAAAGAGATTTTTC
Found at i:31463611 original size:50 final size:50
Alignment explanation
Indices: 31463492--31463730 Score: 275
Period size: 50 Copynumber: 4.7 Consensus size: 50
31463482 AAAGAGATCC
*
31463492 CATGTAAGACCATGTCTGGGACAT-GCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCT
* *
31463547 CATGTAAGACCATGTCTGGGACATGGCGTTGCCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
*
31463597 CATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
** * * * * **
31463646 CCCGTAAGACCATGTCTCGGACATGGAATGGGCACCGATATGAGAATATCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCT
* *
31463697 CATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
31463731 TGTTATGATT
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 37 0.23
50 59 0.37
51 27 0.17
53 3 0.02
55 26 0.16
56 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:31463717 original size:100 final size:102
Alignment explanation
Indices: 31463484--31463731 Score: 306
Period size: 100 Copynumber: 2.4 Consensus size: 102
31463474 ATTTGGGTAA
*
31463484 AGAGATCCCATGTAAGACCATGTCTGGGACATGCATTGGCATCCTTGAGATCATGAGAGGTCCCA
1 AGAGATCTCATGTAAGACCATGTCTGGGACATGCATTGGCATCC-TGAGA--ATGAGAGGTCCCA
* * ** *
31463549 TGTAAGACCATGTCTGGGACATGGCGTTGCCACCGAGATG
63 CGTAAGACCATGTCTCGGACATGGAATGGCCACCGAGATG
*
31463589 AGAGGTCTCATGTAAGACCATGTCTGGGACATGACATTGGCA-CC-GAG-ATGAGAGGTCCC-CG
1 AGAGATCTCATGTAAGACCATGTCTGGGACATG-CATTGGCATCCTGAGAATGAGAGGTCCCACG
* *
31463650 TAAGACCATGTCTCGGACATGGAATGGGCACCGATATG
65 TAAGACCATGTCTCGGACATGGAATGGCCACCGAGATG
* * *
31463688 AGAATATCTCATGTAAGACCATGTTTGGGACATGGCTTTGGCAT
1 AG-AGATCTCATGTAAGACCATGTCTGGGACAT-GCATTGGCAT
31463732 GTTATGATTA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
99 35 0.28
100 46 0.37
101 1 0.01
103 3 0.02
105 33 0.26
106 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (102 bp):
AGAGATCTCATGTAAGACCATGTCTGGGACATGCATTGGCATCCTGAGAATGAGAGGTCCCACGT
AAGACCATGTCTCGGACATGGAATGGCCACCGAGATG
Found at i:31469088 original size:41 final size:41
Alignment explanation
Indices: 31469031--31469136 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
31469021 AATGAGATAA
* * *
31469031 TTCAGACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
31469072 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
*
31469113 TTCGGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
31469137 AATTGCCAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
Found at i:31472975 original size:29 final size:29
Alignment explanation
Indices: 31472933--31473016 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 29
31472923 AATAAAAATC
31472933 ATAAAAGT-TATAAAAAATATAAAAATTTA
1 ATAAAA-TATATAAAAAATATAAAAATTTA
* *
31472962 ATAAAATATATAAAAAATGAT-AGAATTTT
1 ATAAAATATATAAAAAAT-ATAAAAATTTA
31472991 ATAAAA-ATCATAAAAAAATTATAAAA
1 ATAAAATAT-AT-AAAAAA-TATAAAA
31473017 TGTCAAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 3 0.07
29 30 0.65
30 10 0.22
31 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (29 bp):
ATAAAATATATAAAAAATATAAAAATTTA
Found at i:31473016 original size:9 final size:9
Alignment explanation
Indices: 31472924--31473016 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
31472914 ACATTAAAAA
*
31472924 ATAAAAATC
1 ATAAAAATT
*
31472933 ATAAAAGTT
1 ATAAAAATT
*
31472942 ATAAAAAAT
1 ATAAAAATT
31472951 ATAAAAATT
1 ATAAAAATT
31472960 -TAATAAAATAT
1 AT-A-AAAAT-T
*
31472971 ATAAAAAATG
1 AT-AAAAATT
**
31472981 ATAGAATTTT
1 ATA-AAAATT
31472991 ATAAAAATCAT
1 ATAAAAAT--T
*
31473002 AAAAAAATT
1 ATAAAAATT
31473011 ATAAAA
1 ATAAAA
31473017 TGTCAAAAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
8 1 0.02
9 33 0.52
10 13 0.20
11 14 0.22
12 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:31473172 original size:18 final size:18
Alignment explanation
Indices: 31473149--31473183 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31473139 ATAAATAAAA
31473149 AAATAATAA-ATTTTTTTT
1 AAATAA-AATATTTTTTTT
31473167 AAATAAAATATTTTTTT
1 AAATAAAATATTTTTTT
31473184 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATAAAATATTTTTTTT
Found at i:31473678 original size:22 final size:23
Alignment explanation
Indices: 31473635--31473681 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
31473625 TGGATTAGAA
31473635 TTTTGTATGAATATTCTAATTTT
1 TTTTGTATGAATATTCTAATTTT
*
31473658 TTTTGTATGAATATTGT-ATTTT
1 TTTTGTATGAATATTCTAATTTT
31473680 TT
1 TT
31473682 ATGAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (23 bp):
TTTTGTATGAATATTCTAATTTT
Found at i:31473679 original size:41 final size:40
Alignment explanation
Indices: 31473634--31473843 Score: 132
Period size: 41 Copynumber: 5.0 Consensus size: 40
31473624 TTGGATTAGA
31473634 ATTTTGTATGAATATTCTAATTTTTTTTGTATGAATATTGT
1 ATTTTGTATGAATATT-TAATTTTTTTTGTATGAATATTGT
* * * *
31473675 ATTTTTTATGAATATTATAATTATTTTAT-AATTAA-ATTTGT
1 ATTTTGTATGAATATT-TAATT-TTTTTTGTATGAATA-TTGT
* * *
31473716 A--TT-TAT-AGT-TTTGGATTAGTATTTTGTATGAATATTGT
1 ATTTTGTATGAATATTT-AATT--TTTTTTGTATGAATATTGT
31473754 AATTTTGTATGAATATTTTAA--TTTTTTGTATGAATATTGT
1 -ATTTTGTATGAATA-TTTAATTTTTTTTGTATGAATATTGT
31473794 AATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGT
1 -A---TTTTGTATGAATATT-TAA-TTT-T--TTTTGTATGAATATTGT
31473843 A
1 A
31473844 ATGTCGGGAT
Statistics
Matches: 131, Mismatches: 15, Indels: 39
0.71 0.08 0.21
Matches are distributed among these distances:
35 1 0.01
36 5 0.04
37 6 0.05
38 11 0.08
39 4 0.03
40 21 0.16
41 31 0.24
42 10 0.08
43 18 0.14
44 1 0.01
45 3 0.02
46 1 0.01
47 1 0.01
48 1 0.01
49 17 0.13
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (40 bp):
ATTTTGTATGAATATTTAATTTTTTTTGTATGAATATTGT
Found at i:31473734 original size:102 final size:100
Alignment explanation
Indices: 31473616--31473802 Score: 263
Period size: 102 Copynumber: 1.9 Consensus size: 100
31473606 ATATTTAGTG
31473616 TTTATAGTTTGGATTAGAATTTTGTATGAATATTCTAATTTTTTTTGTATGAATATTGT-A-TTT
1 TTTATAGTTTGGATTAGAATTTTGTATGAATATTCTAA----TTTTGTATGAATATTGTAATTTT
31473679 TT-TATGAATATTATAATTATTTTATAATTAAATTTGTA
62 TTGTATGAATATTATAATTATTTTATAATTAAATTTGTA
* * *
31473717 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTTTAATTTTTTG
1 TTTATAG-TTTGGATTAGAATTTTGTATGAATATTCTAATTTTGTATGAATATTGTAATTTTTTG
* *
31473782 TATGAATATTGTAATTTTTTT
65 TATGAATATTATAATTATTTT
31473803 GTATGAATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
98 16 0.21
99 1 0.01
100 5 0.06
101 26 0.34
102 29 0.38
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (100 bp):
TTTATAGTTTGGATTAGAATTTTGTATGAATATTCTAATTTTGTATGAATATTGTAATTTTTTGT
ATGAATATTATAATTATTTTATAATTAAATTTGTA
Found at i:31473799 original size:27 final size:27
Alignment explanation
Indices: 31473768--31473845 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 27
31473758 TTGTATGAAT
31473768 ATTTTAATTTTTTGTATGAATATTGTA
1 ATTTTAATTTTTTGTATGAATATTGTA
31473795 A---T--TTTTTTGTATGAATATTGTA
1 ATTTTAATTTTTTGTATGAATATTGTA
31473817 ATTTTGTAA--TTTTGTATGAATATTGTA
1 A-TTT-TAATTTTTTGTATGAATATTGTA
31473844 AT
1 AT
31473846 GTCGGGATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
22 21 0.48
24 1 0.02
26 1 0.02
27 21 0.48
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (27 bp):
ATTTTAATTTTTTGTATGAATATTGTA
Found at i:31473821 original size:21 final size:21
Alignment explanation
Indices: 31473635--31473898 Score: 149
Period size: 21 Copynumber: 12.2 Consensus size: 21
31473625 TGGATTAGAA
*
31473635 TTTTGTATGAATATTCTAATTTT
1 TTTTGTATGAATATTGTAA--TT
31473658 TTTTGTATGAATATTGT-A-T
1 TTTTGTATGAATATTGTAATT
*
31473677 TTTT-TATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
* *
31473697 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
31473719 TATAGTTTTGGAT-TAGT-A--
1 TTTTG-TATGAATATTGTAATT
31473737 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
31473756 TTTTGTATGAATATTTTAATT
1 TTTTGTATGAATATTGTAATT
31473777 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGTAA-TT
31473799 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAA---T-T
31473824 AATTTTGTATGAATATTGTAATGT
1 --TTTTGTATGAATATTGTAAT-T
*
31473848 CGGGATATAT-TAT-AATATTGTAATT
1 -----T-TTTGTATGAATATTGTAATT
31473873 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
31473894 ATTTT
1 -TTTT
31473899 ATAATTAATT
Statistics
Matches: 195, Mismatches: 21, Indels: 51
0.73 0.08 0.19
Matches are distributed among these distances:
17 5 0.03
18 17 0.09
19 27 0.14
20 9 0.05
21 38 0.19
22 32 0.16
23 23 0.12
24 5 0.03
25 2 0.01
26 11 0.06
27 24 0.12
28 2 0.01
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:31473845 original size:19 final size:19
Alignment explanation
Indices: 31473736--31473824 Score: 124
Period size: 19 Copynumber: 4.4 Consensus size: 19
31473726 TTGGATTAGT
31473736 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
31473755 ATTTTGTATGAATATTTTA
1 ATTTTGTATGAATATTGTA
31473774 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
31473795 ATTTTTTTGTATGAATATTGTA
1 A---TTTTGTATGAATATTGTA
31473817 ATTTTGTA
1 ATTTTGTA
31473825 ATTTTGTATG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
19 26 0.40
21 18 0.28
22 21 0.32
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.57
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:31474149 original size:15 final size:15
Alignment explanation
Indices: 31474108--31474149 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
31474098 GTTAACTCAT
*
31474108 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
31474123 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
31474139 TTAAATTTTAT
1 TTAAATTTTAT
31474150 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:31480078 original size:36 final size:36
Alignment explanation
Indices: 31480036--31480117 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
31480026 TTTAGGATTG
*
31480036 AATTGTAAAATAAG-AAAATATGTG-TTTGAGGAATTA
1 AATTGTAAAAT-AGTAAAATATG-GATTTAAGGAATTA
* * *
31480072 AATTGTAGAATAGTAAAATTTGGATTTAAGGGATTA
1 AATTGTAAAATAGTAAAATATGGATTTAAGGAATTA
*
31480108 AATCGTAAAA
1 AATTGTAAAA
31480118 AATATAACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
35 3 0.08
36 35 0.92
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.33
Consensus pattern (36 bp):
AATTGTAAAATAGTAAAATATGGATTTAAGGAATTA
Found at i:31484598 original size:18 final size:17
Alignment explanation
Indices: 31484568--31484601 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31484558 TCTCTTATAG
*
31484568 TTTGATTTTATTTTAAT
1 TTTGATTTAATTTTAAT
31484585 TTTGAATTTAATTTTAA
1 TTTG-ATTTAATTTTAA
31484602 GAATTAGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTGATTTAATTTTAAT
Found at i:31489962 original size:26 final size:26
Alignment explanation
Indices: 31489932--31489981 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
31489922 AGATATCCAT
31489932 ATCCACGATTAACATAGATCCTACTA
1 ATCCACGATTAACATAGATCCTACTA
31489958 ATCCACGATTAACATAGATCCTAC
1 ATCCACGATTAACATAGATCCTAC
31489982 AACCACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (26 bp):
ATCCACGATTAACATAGATCCTACTA
Found at i:31491758 original size:14 final size:14
Alignment explanation
Indices: 31491739--31491769 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31491729 TAACTCTTGC
31491739 TAAATTAACAACCT
1 TAAATTAACAACCT
31491753 TAAATTAACAACCT
1 TAAATTAACAACCT
31491767 TAA
1 TAA
31491770 GACCAGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATTAACAACCT
Found at i:31495502 original size:5 final size:6
Alignment explanation
Indices: 31495484--31495509 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31495474 ATTTAAACTT
31495484 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
31495510 CTGTTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:31495954 original size:9 final size:9
Alignment explanation
Indices: 31495940--31495980 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
31495930 CTCTAAGCCT
31495940 CCGCCGCCA
1 CCGCCGCCA
31495949 CCGCCGCCA
1 CCGCCGCCA
31495958 CCGCCGCCA
1 CCGCCGCCA
31495967 CCGCCGCCA
1 CCGCCGCCA
31495976 CCGCC
1 CCGCC
31495981 TCCGCCTCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.10, C:0.68, G:0.22, T:0.00
Consensus pattern (9 bp):
CCGCCGCCA
Found at i:31495995 original size:6 final size:6
Alignment explanation
Indices: 31495940--31495992 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
31495930 CTCTAAGCCT
* * * * * *
31495940 CCGCCG CCACCG CCGCCA CCGCCG CCACCG CCGCCA CCGCCT CCGCCT
1 CCGCCG CCGCCG CCGCCG CCGCCG CCGCCG CCGCCG CCGCCG CCGCCG
31495988 CCGCC
1 CCGCC
31495993 TCCACCACTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.08, C:0.68, G:0.21, T:0.04
Consensus pattern (6 bp):
CCGCCG
Found at i:31499844 original size:12 final size:12
Alignment explanation
Indices: 31499829--31499864 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
31499819 TGTTGATATG
31499829 GATGATAGTTAT
1 GATGATAGTTAT
31499841 GATGA-AGATTAT
1 GATGATAG-TTAT
31499853 GATGATAGTTAT
1 GATGATAGTTAT
31499865 AACTACTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (12 bp):
GATGATAGTTAT
Found at i:31500636 original size:26 final size:26
Alignment explanation
Indices: 31500580--31500636 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
31500570 GGATTGAAAA
31500580 AATT-ATTTAATTAAAAAATAAATTC
1 AATTAATTTAATTAAAAAATAAATTC
* * *
31500605 AGTTAATTTAATTAACTAAATTAATT-
1 AATTAATTTAATTAA-AAAATAAATTC
31500631 AATTAA
1 AATTAA
31500637 ATAATATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.12
26 15 0.58
27 8 0.31
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
AATTAATTTAATTAAAAAATAAATTC
Found at i:31501911 original size:18 final size:17
Alignment explanation
Indices: 31501877--31501916 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
31501867 AAAATATGGA
31501877 ATTAACATTTTTTAATT
1 ATTAACATTTTTTAATT
*
31501894 TTTAACATTTTTTAAATT
1 ATTAACATTTTTT-AATT
31501912 ATTAA
1 ATTAA
31501917 GTAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAACATTTTTTAATT
Found at i:31505073 original size:43 final size:44
Alignment explanation
Indices: 31504986--31505195 Score: 227
Period size: 43 Copynumber: 4.9 Consensus size: 44
31504976 AGCTCGTACA
* * *** *
31504986 ATGCCAACATCCCAGACA-TGGTCTTACATGTATTTACAAATCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGTAAACACAAGTCG
31505029 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGACAGTGGTCTTACACGTAAACACAAGTCG
* * *
31505072 ATGCCAACATCCCA-A-ATGTGGTCTTACACGTAAACATAAGTAG
1 ATGCCAACGTCCCAGACA-GTGGTCTTACACGTAAACACAAGTCG
* * * * *
31505115 ATGTCAATGTCCCAGGC-GTGGTCTTACACATAAACATAAGTCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGTAAACACAAGTCG
31505158 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAAACACA
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGTAAACACA
31505196 TATTGAAAAG
Statistics
Matches: 140, Mismatches: 20, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 133 0.95
44 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGTGGTCTTACACGTAAACACAAGTCG
Found at i:31505743 original size:28 final size:29
Alignment explanation
Indices: 31505693--31505748 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
31505683 ATTTCACATT
** *
31505693 TTAGTCCCTTAATTTACACTTTTCTTAAC
1 TTAGTCCCTTAATACACACTTTTATTAAC
*
31505722 TTAGT-CCTTAATACACATTTTTATTAA
1 TTAGTCCCTTAATACACACTTTTATTAA
31505749 AAATTACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.48
Consensus pattern (29 bp):
TTAGTCCCTTAATACACACTTTTATTAAC
Found at i:31506113 original size:73 final size:73
Alignment explanation
Indices: 31505977--31506221 Score: 316
Period size: 73 Copynumber: 3.4 Consensus size: 73
31505967 AAAATAAGCA
* * * * * ***
31505977 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAATGGCGTCGTTTCCCGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
31506041 TCAGGGAT
66 TCAGGGAT
* * * * * * *
31506049 TTAGTGGCGTTTCTGAGAAAGCGCCACAAAAAAACATAAGCCCAACGATGCCGTTTTGTAAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
31506114 TC-GAGGAT
66 TCAG-GGAT
31506122 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
31506187 TCGAGGG-T
66 TC-AGGGAT
31506195 TTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
31506222 TAATGCTTAG
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
72 25 0.17
73 122 0.81
74 2 0.01
75 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (73 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
TCAGGGAT
Found at i:31506693 original size:15 final size:15
Alignment explanation
Indices: 31506643--31506697 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
31506633 GGATTATGGA
31506643 TTAAGGGTT-GGGAT
1 TTAAGGGTTAGGGAT
*
31506657 TTAAGGTTTA-GG-T
1 TTAAGGGTTAGGGAT
31506670 GTTAGAGGGTTAGGGAT
1 -TTA-AGGGTTAGGGAT
31506687 TTAAGGGTTAG
1 TTAAGGGTTAG
31506698 ACGTGCTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 13 0.38
15 14 0.41
16 5 0.15
17 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (15 bp):
TTAAGGGTTAGGGAT
Found at i:31506918 original size:14 final size:14
Alignment explanation
Indices: 31506884--31506924 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
31506874 ATTTTAAGGG
* *
31506884 TTAGGGAGTATGGAT
1 TTAGGGATTAT-GAA
31506899 TTAGGGATTATGAA
1 TTAGGGATTATGAA
31506913 TTAGGGATTATG
1 TTAGGGATTATG
31506925 GTTTAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGAA
Found at i:31506950 original size:21 final size:20
Alignment explanation
Indices: 31506916--31506956 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
31506906 TTATGAATTA
*
31506916 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
31506936 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
31506957 AGAGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:31506982 original size:14 final size:15
Alignment explanation
Indices: 31506944--31506986 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
31506934 TTGGGATTTA
31506944 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
31506959 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
31506974 ATG-TTAGGGGTTA
1 AGGTTTAGGGGTTA
31506987 AGAGTTATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:31507014 original size:15 final size:14
Alignment explanation
Indices: 31506924--31507011 Score: 56
Period size: 15 Copynumber: 6.1 Consensus size: 14
31506914 TAGGGATTAT
*
31506924 GGTTTAAGGGTT-G
1 GGTTTAAGGTTTAG
31506937 GGATTTAAGGTTTAG
1 GG-TTTAAGGTTTAG
*
31506952 GGGTTAGAGGTTTAG
1 GGTTTA-AGGTTTAG
* *
31506967 GGGTT-AGATGTTAG
1 GGTTTAAGGT-TTAG
*
31506981 GGGTTAAGAG-TTATG
1 GGTTTAAG-GTTTA-G
*
31506996 GATTTAAGGTTTAG
1 GGTTTAAGGTTTAG
31507010 GG
1 GG
31507012 ATTCAGGGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
13 5 0.08
14 27 0.45
15 28 0.47
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:31507827 original size:107 final size:106
Alignment explanation
Indices: 31507562--31507850 Score: 476
Period size: 107 Copynumber: 2.7 Consensus size: 106
31507552 TTTATTTTAT
* * * **
31507562 AAAA-AAATCAATTTATAAAAAATAAAATAAAATATTTTTAGCAA-AGCAAAACGGTATCATTTT
1 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTA-TAATAGCAAAACGGCGTCATTTT
*
31507625 GTTCAAAATGAAATAGCGGCGTTTTTATAAAAAACGCCGCAA
65 GTTCAAAATGAAATAGCGGCATTTTTATAAAAAACGCCGCAA
31507667 AAAATAAATCAATTTATAAAAAACAAAATAAAAAA-TTTTATGAATAGCAAAACGGCGTCATTTT
1 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTAT-AATAGCAAAACGGCGTCATTTT
31507731 GTTCAAAATGAAATAGCGGCATTTTTATAAAAAAACGCCGCAA
65 GTTCAAAATGAAATAGCGGCATTTTTAT-AAAAAACGCCGCAA
31507774 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTATAATAGCAAAACGGCGTCATTTTG
1 AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTATAATAGCAAAACGGCGTCATTTTG
31507839 TTCAAAATGAAA
66 TTCAAAATGAAA
31507851 AATTTTTTGC
Statistics
Matches: 173, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
105 11 0.06
106 72 0.42
107 84 0.49
108 6 0.03
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.27
Consensus pattern (106 bp):
AAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTATAATAGCAAAACGGCGTCATTTTG
TTCAAAATGAAATAGCGGCATTTTTATAAAAAACGCCGCAA
Found at i:31508077 original size:250 final size:249
Alignment explanation
Indices: 31507636--31508111 Score: 717
Period size: 250 Copynumber: 1.9 Consensus size: 249
31507626 TTCAAAATGA
31507636 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAAA
*
31507701 ATTTTATGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAA
65 ATTTTATGAATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAA
* *
31507766 CGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTATAATAGCAAAACGGCG
130 CGCCGCAAAAAATAAATCAATTTATAAAAAAAAAAATAAAAAATTTTTATAATAGCAAAACGGAG
*
31507831 TCATTTTGTTCAAAATGAAAAATTTTTTGCGATAAAAACGCCGCTAAAGGTAAGC
195 TCATTTTGTTAAAAATGAAAAATTTTTTGCGATAAAAACGCCGCTAAAGGTAAGC
* *
31507886 AATAGCGGCGTTTTTATGAAAAACGCCGC-AAAA-AAATCAATTTATAAAAAAATAAAATAAAAA
1 AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAATAAATCAATTTAT-AAAAAACAAAATAAAAA
* * * ** * **
31507949 ATTTT-TAGCATAACAAAACGGTGTCATTTTGTTCAAAATGAAATAGTGGTGTTTTTTTTCTAAA
65 ATTTTAT-GAATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGG-CATTTTTATAAAAA
* *
31508013 AATGCTGCAAAAAATAAATCAATTTATAAAAAATAAAAATAAAAAA-TTTTATGAATAGCAAAAC
128 AACGCCGCAAAAAATAAATCAATTTATAAAAAA-AAAAATAAAAAATTTTTAT-AATAGCAAAAC
*
31508077 GGAGTCATTTTGTTAAAAATGAAAATTTTTTTGCG
191 GGAGTCATTTTGTTAAAAATGAAAAATTTTTTGCG
31508112 GCGTTTTTAT
Statistics
Matches: 204, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
247 13 0.06
248 63 0.31
249 46 0.23
250 82 0.40
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (249 bp):
AATAGCGGCGTTTTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
TTTTATGAATAACAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCATTTTTATAAAAAAAC
GCCGCAAAAAATAAATCAATTTATAAAAAAAAAAATAAAAAATTTTTATAATAGCAAAACGGAGT
CATTTTGTTAAAAATGAAAAATTTTTTGCGATAAAAACGCCGCTAAAGGTAAGC
Found at i:31510672 original size:26 final size:26
Alignment explanation
Indices: 31510636--31510688 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
31510626 GAGGTATACA
31510636 AGGAAATGTCTAGGGCAAGGAATTTT
1 AGGAAATGTCTAGGGCAAGGAATTTT
31510662 AGGAAATGTCTAGGGCAAGGAATTTT
1 AGGAAATGTCTAGGGCAAGGAATTTT
31510688 A
1 A
31510689 CTTGCAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (26 bp):
AGGAAATGTCTAGGGCAAGGAATTTT
Found at i:31516601 original size:29 final size:29
Alignment explanation
Indices: 31516569--31516624 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
31516559 AAATAAAATT
*
31516569 CTAAAATTAGATAATCCTTA-ATAATTATC
1 CTAAAATTA-ATAATCCTAACATAATTATC
* *
31516598 CTAATATTAATTATCCTAACATAATTA
1 CTAAAATTAATAATCCTAACATAATTA
31516625 AAATAGAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (29 bp):
CTAAAATTAATAATCCTAACATAATTATC
Found at i:31524057 original size:14 final size:16
Alignment explanation
Indices: 31524037--31524075 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
31524027 TAACCTTTTA
31524037 AAAATTATAAAAT-AT
1 AAAATTATAAAATAAT
31524052 -AAATTATTAAAATAAT
1 AAAATTA-TAAAATAAT
31524068 AAAATTAT
1 AAAATTAT
31524076 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 3 0.14
17 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTATAAAATAAT
Found at i:31524072 original size:17 final size:16
Alignment explanation
Indices: 31524037--31524076 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
31524027 TAACCTTTTA
31524037 AAAATTA-TAAAATAT
1 AAAATTATTAAAATAT
31524052 -AAATTATTAAAATAAT
1 AAAATTATTAAAAT-AT
31524068 AAAATTATT
1 AAAATTATT
31524077 TTTTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 6 0.27
16 2 0.09
17 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTATTAAAATAT
Found at i:31527811 original size:174 final size:175
Alignment explanation
Indices: 31527493--31527813 Score: 423
Period size: 174 Copynumber: 1.8 Consensus size: 175
31527483 AATCCTAATA
* * *
31527493 TCTAAACCAACTCAGAGAATATCAAACTAAACAAGTGCATTACTAGCAAGTTAAATTTCACCTTT
1 TCTAAACCAACTCAAAGAATATCAAACTAAACAAGTGCATTAATAGCAAATTAAATTTCACCTTT
* * * * * *
31527558 CCAGCATTTCTCAAGCATCTAAATAAACTAATTAAGAGATTCAAATCTCACAACCAATTTTCCTA
66 CCAGCATTTCTCAAGCAGCCAAATAAACTAATTAAGAGATCCAAATCTCACAACCAATCTTACAA
* *
31527623 GACCTAATGCTAAAATGAGATTCACAGAAAACAAAATTCTTAGCC
131 AACCTAAAGCTAAAATGAGATTCACAGAAAACAAAATTCTTAGCC
* * ** *
31527668 TCTAAACCAACTCAAAGAA-ATCAAAGTAAAC-AGCTTCATTAATAGCAAATTGCATTTCACTTT
1 TCTAAACCAACTCAAAGAATATCAAACTAAACAAG-TGCATTAATAGCAAATTAAATTTCACCTT
* * * *
31527731 TCCATCATTTCTCAAGCAGCCAAATAAACTGATTAAAGAGATCCTAATCTCACTACCAA-CTTAC
65 TCCAGCATTTCTCAAGCAGCCAAATAAACTAATT-AAGAGATCCAAATCTCACAACCAATCTTAC
31527795 AAAACCTAAAGCTAAAATG
129 AAAACCTAAAGCTAAAATG
31527814 TAATTTTTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
173 2 0.02
174 83 0.67
175 39 0.31
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (175 bp):
TCTAAACCAACTCAAAGAATATCAAACTAAACAAGTGCATTAATAGCAAATTAAATTTCACCTTT
CCAGCATTTCTCAAGCAGCCAAATAAACTAATTAAGAGATCCAAATCTCACAACCAATCTTACAA
AACCTAAAGCTAAAATGAGATTCACAGAAAACAAAATTCTTAGCC
Found at i:31533320 original size:22 final size:22
Alignment explanation
Indices: 31533292--31533341 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
31533282 GTAAAATCGA
*
31533292 AAAAAACTTGGGATTTTAGATG
1 AAAAAACTTGGGATTTTACATG
* * *
31533314 GAAAAACTTGTGTTTTTACATG
1 AAAAAACTTGGGATTTTACATG
31533336 AAAAAA
1 AAAAAA
31533342 AAATAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (22 bp):
AAAAAACTTGGGATTTTACATG
Found at i:31536393 original size:61 final size:61
Alignment explanation
Indices: 31536328--31536454 Score: 166
Period size: 61 Copynumber: 2.1 Consensus size: 61
31536318 ATCCTAAATA
* * ** *
31536328 TAAAATATTCAACAAAATTAGCCTTCAATGTTTACAA-AATTTGTCATTTTAGTTCGAATTC
1 TAAAAAATTCAACAAAATTAGCCCTCAAAATTTACAATAATTT-TCAATTTAGTTCGAATTC
* * *
31536389 TAAAAAATTCAATAAATTTAGCCCTCAAAATTTACAATAATTTTCAATTTAGTTCTAATTC
1 TAAAAAATTCAACAAAATTAGCCCTCAAAATTTACAATAATTTTCAATTTAGTTCGAATTC
31536450 TAAAA
1 TAAAA
31536455 CAATAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 52 0.91
62 5 0.09
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (61 bp):
TAAAAAATTCAACAAAATTAGCCCTCAAAATTTACAATAATTTTCAATTTAGTTCGAATTC
Found at i:31536645 original size:6 final size:7
Alignment explanation
Indices: 31536626--31536655 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
31536616 CCCACCACGT
31536626 GGAAAAA
1 GGAAAAA
31536633 GGAAAAA
1 GGAAAAA
31536640 GGAAAAA
1 GGAAAAA
31536647 GGAAAAA
1 GGAAAAA
31536654 GG
1 GG
31536656 GAATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (7 bp):
GGAAAAA
Found at i:31537642 original size:11 final size:11
Alignment explanation
Indices: 31537578--31537675 Score: 52
Period size: 11 Copynumber: 8.5 Consensus size: 11
31537568 GATGTCTCAA
**
31537578 AAAATAATAGC
1 AAAATAATAAT
*
31537589 AAAATTAACAAT
1 AAAA-TAATAAT
*
31537601 AAAATAAGAAT
1 AAAATAATAAT
* * *
31537612 TATATAATATT
1 AAAATAATAAT
31537623 CAAACAATAATAAT
1 --AA-AATAATAAT
*
31537637 AAAATAATAGT
1 AAAATAATAAT
* *
31537648 AACATAATAGT
1 AAAATAATAAT
* *
31537659 AAAATGACAAT
1 AAAATAATAAT
31537670 AAAATA
1 AAAATA
31537676 GTGAGAAATG
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 47 0.72
12 10 0.15
13 1 0.02
14 7 0.11
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.26
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:31545927 original size:19 final size:19
Alignment explanation
Indices: 31545905--31545942 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31545895 ATTTTCTATT
31545905 TTTTCGTTCTTTTT-TTTCC
1 TTTTC-TTCTTTTTCTTTCC
*
31545924 TTTTCTTTTTTTTCTTTCC
1 TTTTCTTCTTTTTCTTTCC
31545943 CTTCTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTCTTCTTTTTCTTTCC
Found at i:31545941 original size:13 final size:13
Alignment explanation
Indices: 31545897--31545941 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
31545887 TTTATTCTAT
*
31545897 TTTCTATTTTTTC
1 TTTCTTTTTTTTC
*
31545910 GTTCTTTTTTTTCC
1 TTTCTTTTTTTT-C
31545924 TTTTCTTTTTTTTC
1 -TTTCTTTTTTTTC
31545938 TTTC
1 TTTC
31545942 CCTTCTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 14 0.52
14 2 0.07
15 11 0.41
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:31545950 original size:28 final size:29
Alignment explanation
Indices: 31545891--31545964 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
31545881 GCTTTTTTTA
* * ** *
31545891 TTCTATTTTCTATTTTTTCGTTCTTTTTT
1 TTCTCTTTTCTTTTTTTTCGTTCCCTTCT
*
31545920 TTC-CTTTTCTTTTTTTTCTTTCCCTTCT
1 TTCTCTTTTCTTTTTTTTCGTTCCCTTCT
31545948 TTCATTCTTTTCTTTTT
1 TTC--TCTTTTCTTTTT
31545965 ATGTGCTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 22 0.61
29 3 0.08
31 11 0.31
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (29 bp):
TTCTCTTTTCTTTTTTTTCGTTCCCTTCT
Found at i:31548011 original size:42 final size:43
Alignment explanation
Indices: 31547855--31548074 Score: 250
Period size: 42 Copynumber: 5.1 Consensus size: 43
31547845 AACTTTTGCA
* * * *
31547855 GCGCTTACAGAAAAAAATGCCGCTAAAGGTCATGTTCTTTAGCG
1 GCGCTTA-GGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCG
* * * *
31547899 GCGCTTAGGAAAAAAACACTGCT-AATGATCATGTTCTTTA-CTG
1 GCGCTTAGGAAAAAAACGCCGCTAAAAG-TAATGTTCTTTAGC-G
* *
31547942 GCGCTTAGGAAAAAAACGCTGCTAAAAGTAATGTTCTATAGCG
1 GCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCG
* * *
31547985 GCGCTT-GGTAAAAAACGTCGCTAAAAGTAATGTTCTATAGCG
1 GCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCG
* *
31548027 GCGCTT-GGTAGAAAACGCCGCTAAAAGTAATGTTCTTTAGCG
1 GCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCG
31548069 GCGCTT
1 GCGCTT
31548075 CATCTACAAA
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
42 82 0.52
43 64 0.41
44 11 0.07
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
GCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCG
Found at i:31548128 original size:43 final size:43
Alignment explanation
Indices: 31547962--31548112 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 43
31547952 AAAAAACGCT
* ** * * **
31547962 GCTAAAAGTAATGTTCTATAGCGGCGCTTGGT-AAAAAACGTC
1 GCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACACC
* ** ** *
31548004 GCTAAAAGTAATGTTCTATAGCGGCGCTTGGTAGA-AAACGCC
1 GCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACACC
31548046 GCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACACC
1 GCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACACC
* *
31548089 GCTAAAAGTAGTGTTCTTTCGCGG
1 GCTAAAAGTAATGTTCTTTAGCGG
31548113 TTCTTATTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 68 0.70
43 29 0.30
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
GCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACAAACACC
Found at i:31548590 original size:21 final size:21
Alignment explanation
Indices: 31548566--31548631 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
31548556 GCTTCTCTCG
* *
31548566 CTGCTTCTCTTACTGCGGCCT
1 CTGCTTCTCTCACTGCAGCCT
* *
31548587 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCACTGCAGCCT
* *
31548608 CTGCTTCCCTCGCTGCCA-CCT
1 CTGCTTCTCTCACTG-CAGCCT
31548629 CTG
1 CTG
31548632 TTTTAAGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCACTGCAGCCT
Found at i:31554156 original size:25 final size:25
Alignment explanation
Indices: 31554128--31554232 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
31554118 GTTACATAAT
**
31554128 TTATGTATTAAGTAAAATATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
31554153 TTATGTACGTGT-A-TAAGTTGTGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
31554179 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * *
31554204 TTGTGTATTATGTAACTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
31554229 TTAT
1 TTAT
31554233 CAAAGTAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 2 0.03
25 42 0.65
26 17 0.26
27 2 0.03
28 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:31554157 original size:9 final size:9
Alignment explanation
Indices: 31554145--31554758 Score: 287
Period size: 9 Copynumber: 69.1 Consensus size: 9
31554135 TTAAGTAAAA
31554145 TATGTAAGT
1 TATGTAAGT
*
31554154 TATGTACGT
1 TATGTAAGT
31554163 GTA--TAAGT
1 -TATGTAAGT
*
31554171 TGTGTAAGT
1 TATGTAAGT
31554180 TATGT-A-T
1 TATGTAAGT
* *
31554187 TAAGTAAGC
1 TATGTAAGT
31554196 TATGTAAGT
1 TATGTAAGT
*
31554205 TGTGT-A-T
1 TATGTAAGT
*
31554212 TATGTAACT
1 TATGTAAGT
31554221 TATGTAAGT
1 TATGTAAGT
**
31554230 TATCAAAGT
1 TATGTAAGT
* *
31554239 AATGTATGT
1 TATGTAAGT
31554248 TATGTAAG-
1 TATGTAAGT
31554256 T-TGTAAGT
1 TATGTAAGT
31554264 TATGT-A-T
1 TATGTAAGT
*
31554271 TATGTAACT
1 TATGTAAGT
31554280 TATGTAAGT
1 TATGTAAGT
* *
31554289 TAT-CAAAT
1 TATGTAAGT
*
31554297 TAATGTATGT
1 T-ATGTAAGT
31554307 TATGTAAG-
1 TATGTAAGT
31554315 T-TGTAAGT
1 TATGTAAGT
*
31554323 TAT-TATGTAT
1 TATGTAAG--T
31554333 TATGTAAGT
1 TATGTAAGT
31554342 TATGTAAGT
1 TATGTAAGT
31554351 TATGTAAGT
1 TATGTAAGT
31554360 TATGTAAGT
1 TATGTAAGT
31554369 TATGT-A-T
1 TATGTAAGT
*
31554376 TATGTAGGT
1 TATGTAAGT
31554385 TATGTAAGT
1 TATGTAAGT
* *
31554394 TGTGTAAGA
1 TATGTAAGT
*
31554403 TATTTAAGT
1 TATGTAAGT
31554412 TATGTAAGT
1 TATGTAAGT
*
31554421 TTTGT-A-T
1 TATGTAAGT
31554428 TATGTAAGT
1 TATGTAAGT
* *
31554437 TATGTATGC
1 TATGTAAGT
31554446 TATGT-A-T
1 TATGTAAGT
31554453 TATGTAAGTTGT
1 TATGTAA---GT
*
31554465 TATGTTA-T
1 TATGTAAGT
31554473 TATGTAAGT
1 TATGTAAGT
*
31554482 TATGCAAGTT
1 TATGTAAG-T
*
31554492 TAAATATAAGCT
1 T--ATGTAAG-T
* *
31554504 TGTAGATAACT
1 TAT-G-TAAGT
31554515 TATGTAAGTT
1 TATGTAAG-T
31554525 AATATGTAAGT
1 --TATGTAAGT
*
31554536 AATGT-A-T
1 TATGTAAGT
31554543 TATGTAAGTT
1 TATGTAAG-T
* *
31554553 TATATAAAAATTT
1 TATGT---AA-GT
*
31554566 TATATAAGT
1 TATGTAAGT
*
31554575 TATG-GA-T
1 TATGTAAGT
31554582 TATGTAAGGT
1 TATGTAA-GT
* *
31554592 AGCATATAAGTT
1 --TATGTAAG-T
31554604 TATGTAAGT
1 TATGTAAGT
31554613 TATG--A--
1 TATGTAAGT
31554618 -ATGTAAGT
1 TATGTAAGT
31554626 TATGT-A-T
1 TATGTAAGT
*
31554633 TGTGTAAGT
1 TATGTAAGT
* *
31554642 TATTTAAAT
1 TATGTAAGT
*
31554651 TATTTAAGT
1 TATGTAAGT
*
31554660 TGTGT-A-T
1 TATGTAAGT
31554667 TATGTAAGT
1 TATGTAAGT
* * *
31554676 CATGTAGGC
1 TATGTAAGT
31554685 TATGT--GT
1 TATGTAAGT
31554692 TATGTAAGT
1 TATGTAAGT
*
31554701 TATGAAAGTT
1 TATGTAAG-T
*
31554711 ATATATAAGT
1 -TATGTAAGT
31554721 TATGTAAGT
1 TATGTAAGT
31554730 TATTCTGTAAGT
1 TA---TGTAAGT
31554742 TATGT--GT
1 TATGTAAGT
*
31554749 TGTGTAAGT
1 TATGTAAGT
31554758 T
1 T
31554759 TATATATAAG
Statistics
Matches: 455, Mismatches: 83, Indels: 134
0.68 0.12 0.20
Matches are distributed among these distances:
4 3 0.01
6 1 0.00
7 78 0.17
8 40 0.09
9 241 0.53
10 30 0.07
11 14 0.03
12 40 0.09
13 8 0.02
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:31554205 original size:34 final size:34
Alignment explanation
Indices: 31554166--31554485 Score: 147
Period size: 34 Copynumber: 9.5 Consensus size: 34
31554156 TGTACGTGTA
* *
31554166 TAAGTTGTGTAAGTTATGTATTAAGTAAGCTATG
1 TAAGTTATGTAAGTTATGTATTAAGTAAGTTATG
* * *
31554200 TAAGTTGTGT-A-TTATGTAACTTATGTAAGTTATC
1 TAAGTTATGTAAGTTATGT-A-TTAAGTAAGTTATG
* * *
31554234 AAAGTAATGTATGTTATGTAAGTT--GTAAGTTATG
1 TAAGTTATGTAAGTTATGT-A-TTAAGTAAGTTATG
* *
31554268 T-A-TTATGTAACTTATGTAAGTT-A-TCAAATTAATG
1 TAAGTTATGTAAGTTATGT-A-TTAAGT-AAGTT-ATG
* * *
31554302 TATGTTATGTAAGTTGTAAGTTATTATGT-A-TTATG
1 TAAGTTATGTAAG-T-TATG-TATTAAGTAAGTTATG
*
31554337 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGT-A-TTAAGTAAGTTATG
* ** * *
31554373 T-A-TTATGTAGGTTATGTAAGTTGTGTAAGATATT
1 TAAGTTATGTAAGTTATGT-A-TTAAGTAAGTTATG
* *
31554407 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGTATTAAGTAAGTTATG
* * *
31554441 TATGCTATGT-A-TTATG---TAAGT-TGTTATG
1 TAAGTTATGTAAGTTATGTATTAAGTAAGTTATG
*
31554469 TTA-TTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
31554486 CAAGTTTAAA
Statistics
Matches: 227, Mismatches: 37, Indels: 49
0.73 0.12 0.16
Matches are distributed among these distances:
27 5 0.02
28 8 0.04
29 9 0.04
32 29 0.13
33 12 0.05
34 96 0.42
35 19 0.08
36 39 0.17
37 4 0.02
38 4 0.02
39 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATTAAGTAAGTTATG
Found at i:31554245 original size:59 final size:58
Alignment explanation
Indices: 31554176--31554459 Score: 250
Period size: 59 Copynumber: 4.7 Consensus size: 58
31554166 TAAGTTGTGT
* * *
31554176 AAGTTATGTA-TTAAGTAAGCTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATCA
1 AAGTAATGTAGTTATGTAAG-T-TGTAAGTTATGTATTATGTAACTTATGTAAGTTATCA
31554235 AAGTAATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCA
1 AAGTAATGTA-GTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCA
* * **
31554294 AATTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGT
1 AAGTAATGTA-GTTATGTAAGTTGTAAG---TTATGTATTATGTAACTTATGTAAGTTATCA
* * * * ** * **
31554356 AAGTTATGTAAGTTATGT-ATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGT
1 AAGTAATGT-AGTTATGTAAGT-TGTAAGTTATGT-A-TTATGTAACTTATGTAAGTTATCA
** * *
31554417 AAGTTTTGTA-TTATGTAAGTTATGTATGCTATGTATTATGTAA
1 AAGTAATGTAGTTATGTAAG-T-TGTAAGTTATGTATTATGTAA
31554460 GTTGTTATGT
Statistics
Matches: 195, Mismatches: 19, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
59 91 0.47
60 5 0.03
61 51 0.26
62 47 0.24
63 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (58 bp):
AAGTAATGTAGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATGTAAGTTATCA
Found at i:31554267 original size:43 final size:44
Alignment explanation
Indices: 31554145--31554491 Score: 240
Period size: 43 Copynumber: 8.0 Consensus size: 44
31554135 TTAAGTAAAA
* *
31554145 TATGTAAGTTATGTACGTGTA--TAAGTTGTGTAAGTTATGT-A-T
1 TATGTAAGTTATGTAAGT-TATGTAAG-TATGTAAGTTATGTAAGT
* * * * *
31554187 TAAGTAAGCTATGTAAGTTGTGT-ATTATGTAACTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGTAAGTATGTAAGTTATGTAAGT
** * *
31554230 TATCAAAGTAATGTATGTTATGTAAGT-TGTAAGTTATGT-A-T
1 TATGTAAGTTATGTAAGTTATGTAAGTATGTAAGTTATGTAAGT
* ** * *
31554271 TATGTAACTTATGTAAGTTATCAAATTAATGTATGTTATGTAAG-
1 TATGTAAGTTATGTAAGTTATGTAAGT-ATGTAAGTTATGTAAGT
*
31554315 T-TGTAAGTTAT-TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG--TTATGTAAG-TATGTAAGTTATGTAAGT
* * *
31554360 TATGTAAGTTATGT-A-TTATGTAGGTTATGTAAGTTGTGTAAGA
1 TATGTAAGTTATGTAAGTTATGTAAG-TATGTAAGTTATGTAAGT
* * * * *
31554403 TATTTAAGTTATGTAAGTTTTGT-ATTATGTAAGTTATGTATGC
1 TATGTAAGTTATGTAAGTTATGTAAGTATGTAAGTTATGTAAGT
* * *
31554446 TATGT-A-TTATGTAAGTTGTTATGTTATTATGTAAGTTATGCAAGT
1 TATGTAAGTTATGTAA---GTTATGTAAGTATGTAAGTTATGTAAGT
31554491 T
1 T
31554492 TAAATATAAG
Statistics
Matches: 237, Mismatches: 47, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
41 41 0.17
42 22 0.09
43 106 0.45
44 32 0.14
45 25 0.11
46 10 0.04
47 1 0.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (44 bp):
TATGTAAGTTATGTAAGTTATGTAAGTATGTAAGTTATGTAAGT
Found at i:31554330 original size:19 final size:19
Alignment explanation
Indices: 31554306--31554362 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
31554296 TTAATGTATG
31554306 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
31554325 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
*
31554344 TGTAAGT--TATGTAAGTTA
1 T-TATGTAGTATGTAAGTTA
31554362 T
1 T
31554363 GTAAGTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 14 0.41
19 16 0.47
20 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:31554623 original size:13 final size:13
Alignment explanation
Indices: 31554605--31554629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31554595 ATATAAGTTT
31554605 ATGTAAGTTATGA
1 ATGTAAGTTATGA
31554618 ATGTAAGTTATG
1 ATGTAAGTTATG
31554630 TATTGTGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (13 bp):
ATGTAAGTTATGA
Found at i:31554628 original size:22 final size:22
Alignment explanation
Indices: 31554581--31554631 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
31554571 AAGTTATGGA
*
31554581 TTATGTAAGGTAGCATATAAGT
1 TTATGTAAGGTAGAATATAAGT
* *
31554603 TTATGTAAGTTATGAATGTAAG-
1 TTATGTAAGGTA-GAATATAAGT
31554625 TTATGTA
1 TTATGTA
31554632 TTGTGTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (22 bp):
TTATGTAAGGTAGAATATAAGT
Found at i:31554640 original size:16 final size:16
Alignment explanation
Indices: 31554603--31554681 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
31554593 GCATATAAGT
31554603 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
31554618 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
31554632 TTGTGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
31554650 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
*
31554666 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
31554682 GGCTATGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
13 12 0.24
14 1 0.02
16 25 0.50
18 12 0.24
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:31556831 original size:10 final size:10
Alignment explanation
Indices: 31556816--31556856 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
31556806 ATTAATAACT
31556816 ATATATATCC
1 ATATATATCC
*
31556826 ATATATATTCAT
1 ATATATA-TC-C
31556838 ATATATATCC
1 ATATATATCC
31556848 ATATATATC
1 ATATATATC
31556857 AAAAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 16 0.59
11 4 0.15
12 7 0.26
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATATCC
Found at i:31556832 original size:12 final size:12
Alignment explanation
Indices: 31556815--31556855 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
31556805 AATTAATAAC
31556815 TATATATATCCA
1 TATATATATCCA
31556827 TATATAT-T-CA
1 TATATATATCCA
31556837 TATATATATCCA
1 TATATATATCCA
31556849 TATATAT
1 TATATAT
31556856 CAAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.33
11 2 0.07
12 16 0.59
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATATATCCA
Found at i:31559014 original size:14 final size:14
Alignment explanation
Indices: 31558995--31559062 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
31558985 ATGACCGTTG
31558995 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
31559009 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
31559024 TAATCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
31559037 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
31559050 AAACCTTAAATCT
1 AAACCCTAAATCT
31559063 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:31559673 original size:41 final size:41
Alignment explanation
Indices: 31559547--31559825 Score: 298
Period size: 41 Copynumber: 6.8 Consensus size: 41
31559537 TTTTGTTACT
** * * *
31559547 ATTAGCGGCGCTTC-GGCAAAAACGCTGCTAAAGG-TAAATGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGCCAGA-GC
* * * * * *
31559588 ATTAGCGGCGCTTAGCTACAAACACC-ATAAAGGCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGC
* * *
31559628 ATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATCC-GAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCAGAGC
* * *
31559669 ATTAGCGGCGCTTAGATAAAAAAGCCGCTAAAGGCCAGAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGC
*
31559710 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCC-GAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCAGAGC
* *
31559751 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGC
*
31559792 ATTAGCAGCGCTCAGATAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
31559826 TTTAAAAAAT
Statistics
Matches: 198, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
40 33 0.17
41 161 0.81
42 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGC
Found at i:31559729 original size:82 final size:82
Alignment explanation
Indices: 31559586--31559824 Score: 383
Period size: 82 Copynumber: 2.9 Consensus size: 82
31559576 AAAGGTAAAT
* * * * *
31559586 GCATTAGCGGCGCTTAGCTACAAACA-CC-ATAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAA
1 GCATTAGCGGCGCTTAGATA-AAAAAGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAA
*
31559649 ACGCCACTAAAGATCCGA
65 ACGCCGCTAAAGATCCGA
31559667 GCATTAGCGGCGCTTAGATAAAAAAGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAAAGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAA
31559732 CGCCGCTAAAGATCCGA
66 CGCCGCTAAAGATCCGA
* *
31559749 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCAGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAAAGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAA
31559814 CGCCGCTAAAG
66 CGCCGCTAAAG
31559825 GTTTAAAAAA
Statistics
Matches: 148, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
80 4 0.03
81 21 0.14
82 123 0.83
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAAAGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAA
CGCCGCTAAAGATCCGA
Found at i:31559966 original size:40 final size:40
Alignment explanation
Indices: 31559904--31559979 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
31559894 AATTCCTATT
*
31559904 TTTAGCGGCGCTTCTGGGAAATCGCCGCTGATGCTCTACC
1 TTTAGCGGCGCTTCTGGGAAATCGCCGCTAATGCTCTACC
* *
31559944 TTTAGCGGCG-TTTTGGCTAAATCGCCGCTAATGCTC
1 TTTAGCGGCGCTTCTGG-GAAATCGCCGCTAATGCTC
31559980 GATTTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 5 0.16
40 27 0.84
ACGTcount: A:0.16, C:0.28, G:0.26, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGCTTCTGGGAAATCGCCGCTAATGCTCTACC
Found at i:31563082 original size:17 final size:18
Alignment explanation
Indices: 31563060--31563099 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
31563050 TGTAATCATC
31563060 ATAATT-TTTATTAAAT-T
1 ATAATTATTT-TTAAATAT
31563077 ATAATTATTTTTAAATAT
1 ATAATTATTTTTAAATAT
31563095 ATAAT
1 ATAAT
31563100 CATCACACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATAATTATTTTTAAATAT
Found at i:31563249 original size:87 final size:88
Alignment explanation
Indices: 31563139--31563313 Score: 228
Period size: 87 Copynumber: 2.0 Consensus size: 88
31563129 TTTAACTAAA
* * * * * * * *
31563139 AATTTTAAATGTTAATTTAGTAATAAGATGAAAAATATAGGGTATTTTTGTTGGTTCAA-ATCTT
1 AATTTTAAATGTCAACTTAGTAATAAGATGAAAAATAAAGAGTATTCTCGTCGATTCAAGAT-TT
31563203 TTCTAAACTCATG-TTTTATAATT
65 TTCTAAACTCATGATTTTATAATT
*
31563226 AATTTTAAATGTCAACTTAGTAATATGATGAAAAATAAAGAGTATTCTCGTCGATTCAAGTATTT
1 AATTTTAAATGTCAACTTAGTAATAAGATGAAAAATAAAGAGTATTCTCGTCGATTCAAG-ATTT
*
31563291 TTTTAAACTCATGATTTTATAAT
65 TTCTAAACTCATGATTTTATAAT
31563314 ATATATTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
87 50 0.67
88 14 0.19
89 11 0.15
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.43
Consensus pattern (88 bp):
AATTTTAAATGTCAACTTAGTAATAAGATGAAAAATAAAGAGTATTCTCGTCGATTCAAGATTTT
TCTAAACTCATGATTTTATAATT
Found at i:31565744 original size:13 final size:13
Alignment explanation
Indices: 31565691--31565746 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
31565681 TTGCAAAAGC
*
31565691 TTTACTTAATTTT
1 TTTACATAATTTT
* *
31565704 TATATATAATTTT
1 TTTACATAATTTT
* *
31565717 TTATAAAT-ATATT
1 TT-TACATAATTTT
31565730 TTTACATAATTTT
1 TTTACATAATTTT
31565743 TTTA
1 TTTA
31565747 AGAAAAATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
12 4 0.12
13 25 0.76
14 4 0.12
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTACATAATTTT
Found at i:31573443 original size:73 final size:71
Alignment explanation
Indices: 31573301--31573457 Score: 174
Period size: 73 Copynumber: 2.2 Consensus size: 71
31573291 CGCTTCTGTG
* * ** * *
31573301 AAAACGCCGC-AAAAAATAATCAAAACGCATCGTTTTGATTTGAGATTTAGTGGCATTAGCGGCG
1 AAAACGCCGCAAAAAAATAACCAAAACGCATCGTTTT-ATTTGAGATATAGTACCATTAACGGCA
31573365 CTTACACA
65 CTTACA-A
* * *
31573373 AAAAAGCCGCAAAAAAGATAACCAAAACGCATCGTTTT-TCTTGAGCTATAGTACCGTTAACGGC
1 AAAACGCCGCAAAAAA-ATAACCAAAACGCATCGTTTTAT-TTGAGATATAGTACCATTAACGGC
31573437 ACTTACAA
64 ACTTACAA
*
31573445 AAAACGCTGCAAA
1 AAAACGCCGCAAA
31573458 TAGTCGAGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
72 22 0.31
73 29 0.41
74 20 0.28
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (71 bp):
AAAACGCCGCAAAAAAATAACCAAAACGCATCGTTTTATTTGAGATATAGTACCATTAACGGCAC
TTACAA
Found at i:31574039 original size:14 final size:14
Alignment explanation
Indices: 31573994--31574040 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
31573984 TTAGGGTTAC
31573994 GGTTT-AGAGTTTAG
1 GGTTTGAGA-TTTAG
*
31574008 GGTTTGAGATGTAG
1 GGTTTGAGATTTAG
* *
31574022 GGTTTGGGATTTAT
1 GGTTTGAGATTTAG
31574036 GGTTT
1 GGTTT
31574041 AAGGTTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 25 0.89
15 3 0.11
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (14 bp):
GGTTTGAGATTTAG
Found at i:31574121 original size:7 final size:7
Alignment explanation
Indices: 31574089--31574162 Score: 53
Period size: 7 Copynumber: 10.4 Consensus size: 7
31574079 GGTGGTTGGT
*
31574089 GTTTGTG
1 GTTTATG
*
31574096 GTTTACAG
1 GTTTA-TG
31574104 GTTTAAT-
1 GTTT-ATG
31574111 GTTTATG
1 GTTTATG
*
31574118 GTTTAGG
1 GTTTATG
31574125 GTTTA-G
1 GTTTATG
31574131 AGTTTATG
1 -GTTTATG
31574139 GTTTATG
1 GTTTATG
* *
31574146 ATTTAGG
1 GTTTATG
*
31574153 GTTTAAG
1 GTTTATG
31574160 GTT
1 GTT
31574163 AGGGTTTAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
6 3 0.06
7 44 0.81
8 6 0.11
9 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (7 bp):
GTTTATG
Found at i:31574129 original size:21 final size:21
Alignment explanation
Indices: 31574088--31574170 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
31574078 TGGTGGTTGG
* *
31574088 TGTTTGTGGTTTACAGGTTTAA
1 TGTTTATGGTTTA-GGGTTTAA
31574110 TGTTTATGGTTTAGGGTTTAGA
1 TGTTTATGGTTTAGGGTTTA-A
* * *
31574132 -GTTTATGGTTTATGATTTAG
1 TGTTTATGGTTTAGGGTTTAA
* *
31574152 GGTTTAAGG-TTAGGGTTTA
1 TGTTTATGGTTTAGGGTTTA
31574171 GAGTTTAGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 8 0.16
21 30 0.59
22 13 0.25
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.49
Consensus pattern (21 bp):
TGTTTATGGTTTAGGGTTTAA
Found at i:31574171 original size:7 final size:7
Alignment explanation
Indices: 31574111--31574184 Score: 69
Period size: 7 Copynumber: 10.7 Consensus size: 7
31574101 CAGGTTTAAT
*
31574111 GTTTATG
1 GTTTAGG
31574118 GTTTAGG
1 GTTTAGG
*
31574125 GTTTAGA
1 GTTTAGG
*
31574132 GTTTATG
1 GTTTAGG
*
31574139 GTTTATG
1 GTTTAGG
*
31574146 ATTTAGG
1 GTTTAGG
*
31574153 GTTTAAG
1 GTTTAGG
31574160 G-TTAGG
1 GTTTAGG
*
31574166 GTTTAGA
1 GTTTAGG
*
31574173 GTTTAGA
1 GTTTAGG
31574180 GTTTA
1 GTTTA
31574185 ATTTAAGATT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
6 5 0.09
7 51 0.91
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:31574445 original size:27 final size:25
Alignment explanation
Indices: 31574399--31574453 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 25
31574389 CATCATTTTT
31574399 TATTTATATATTGCATATATACATAAA
1 TATTTATATATTGCATATATA-A-AAA
31574426 TATTTATATTTATT-CA-ATATAAAAA
1 TATTTATA--TATTGCATATATAAAAA
31574451 TAT
1 TAT
31574454 AAAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 6 0.23
26 1 0.04
27 13 0.50
28 2 0.08
29 4 0.15
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTTATATATTGCATATATAAAAA
Found at i:31575086 original size:148 final size:146
Alignment explanation
Indices: 31574652--31575126 Score: 510
Period size: 148 Copynumber: 3.2 Consensus size: 146
31574642 TCTATGTACT
* * * *
31574652 TAGTGGCGTTTTATGCCAAAACGCCAGAAAATTT-ACATAATTGTGTGGGAAACGACGTCG-TTT
1 TAGTGGCGTTTTATACCAAAACGCCAG-AAATTTGTCATAATTGTTTGGGAAACGACATCGTTTT
** * * * ** * *
31574715 CTGCGGTTATTTAGTGGCGCACAAT-TATAAACTCCGCGAATGGGTTCATTTAATCAT-GAATAC
65 C-G-GGTTATTTAGTGGCGC-TTATGTATAAACGCTGCAAATTTGTTCGTTTAGTCATGGAATAC
* *
31574778 GTCATTGTTTTTCCATGTTCT
127 GTCATCGTTTTTCCATGTT-A
* * * * *
31574799 TAGTGGCGTTTTATACCAAAACACCAGAAATTTGTCCTAATTGTTTTGGAAACGACTTCATTTCT
1 TAGTGGCGTTTTATACCAAAACGCCAGAAATTTGTCATAATTGTTTGGGAAACGACATCGTTT-T
** * *
31574864 AC-AATTAATTTAGTGGCGCTTATGTATAAACGCTGCAAAGTTCTTCGTTTAGTCATGGAATACG
65 -CGGGTT-ATTTAGTGGCGCTTATGTATAAACGCTGCAAATTTGTTCGTTTAGTCATGGAATACG
* * *
31574928 TCGTCATTTTTCCAGGTTA
128 TCATCGTTTTTCCATGTTA
* *
31574947 GTAGTGGCGTTTTATACCAAAACGCTAGAAATTTGTCATAACTGTTTGGGAAACGACATCGTTTT
1 -TAGTGGCGTTTTATACCAAAACGCCAGAAATTTGTCATAATTGTTTGGGAAACGACATCGTTTT
* *
31575012 CGGGGTTATTTAGTGGCGCTTATGTATAAACGCTGCTAATTTGTTCGTTTAGTCATGGAAAACGT
65 C-GGGTTATTTAGTGGCGCTTATGTATAAACGCTGCAAATTTGTTCGTTTAGTCATGGAATACGT
*
31575077 CATCGTTTTTCAATGTTA
129 CATCGTTTTTCCATGTTA
* *
31575095 TGAGTGGCGTTTTATGCCAAAACGCAAGAAAT
1 T-AGTGGCGTTTTATACCAAAACGCCAGAAAT
31575127 AAGGCTATCT
Statistics
Matches: 272, Mismatches: 45, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
146 6 0.02
147 51 0.19
148 134 0.49
149 80 0.29
150 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (146 bp):
TAGTGGCGTTTTATACCAAAACGCCAGAAATTTGTCATAATTGTTTGGGAAACGACATCGTTTTC
GGGTTATTTAGTGGCGCTTATGTATAAACGCTGCAAATTTGTTCGTTTAGTCATGGAATACGTCA
TCGTTTTTCCATGTTA
Found at i:31575415 original size:6 final size:6
Alignment explanation
Indices: 31575404--31575437 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
31575394 CTCTATTGCA
* *
31575404 TCACCG TCACCG CCACCG TCACTG TCACCG TCAC
1 TCACCG TCACCG TCACCG TCACCG TCACCG TCAC
31575438 TGCCGCTCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.50, G:0.15, T:0.18
Consensus pattern (6 bp):
TCACCG
Found at i:31575664 original size:14 final size:14
Alignment explanation
Indices: 31575647--31575680 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
31575637 GTAGGGTTGA
*
31575647 GTTATTCGAATTTT
1 GTTATTCAAATTTT
31575661 GTTATTCAAATTTT
1 GTTATTCAAATTTT
31575675 GTTATT
1 GTTATT
31575681 TGGGTTTCTG
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:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (14 bp):
GTTATTCAAATTTT
Found at i:31575696 original size:11 final size:11
Alignment explanation
Indices: 31575680--31575705 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31575670 ATTTTGTTAT
31575680 TTGGGTTTCTG
1 TTGGGTTTCTG
31575691 TTGGGTTTCTG
1 TTGGGTTTCTG
31575702 TTGG
1 TTGG
31575706 ATTTTGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.38, T:0.54
Consensus pattern (11 bp):
TTGGGTTTCTG
Found at i:31575753 original size:20 final size:21
Alignment explanation
Indices: 31575709--31575760 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
31575699 CTGTTGGATT
*
31575709 TTGACATAGATTTTGTTATTCGG
1 TTGACATAGATTTTG-T-CTCGG
31575732 TTGACATAGATTTTG-CTCGG
1 TTGACATAGATTTTGTCTCGG
31575752 TTGACATAG
1 TTGACATAG
31575761 CTTCTAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 13 0.46
23 15 0.54
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (21 bp):
TTGACATAGATTTTGTCTCGG
Found at i:31576723 original size:9 final size:9
Alignment explanation
Indices: 31576707--31576812 Score: 82
Period size: 9 Copynumber: 12.4 Consensus size: 9
31576697 CATAATAAAC
31576707 AACTTACAT
1 AACTTACAT
*
31576716 AGCTTACAT
1 AACTTACAT
31576725 AA--TACAT
1 AACTTACAT
31576732 AACTTACAT
1 AACTTACAT
*
31576741 AACTTATAT
1 AACTTACAT
31576750 AA--TACAT
1 AACTTACAT
31576757 AACTTACAT
1 AACTTACAT
* *
31576766 AATTTACCT
1 AACTTACAT
31576775 AA--TACAT
1 AACTTACAT
* *
31576782 AA-ATATAT
1 AACTTACAT
* *
31576790 ATCATATCAT
1 AACTTA-CAT
31576800 AACTTACAT
1 AACTTACAT
31576809 AACT
1 AACT
31576813 CATTTATAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
7 19 0.24
8 5 0.06
9 48 0.62
10 6 0.08
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:31576730 original size:16 final size:16
Alignment explanation
Indices: 31576711--31576810 Score: 69
Period size: 16 Copynumber: 6.0 Consensus size: 16
31576701 ATAAACAACT
*
31576711 TACATAGCTTACATAA
1 TACATAACTTACATAA
31576727 TACATAACTTACATAA
1 TACATAACTTACATAA
*
31576743 CTTATATAA--TACATAA
1 --TACATAACTTACATAA
* *
31576759 CTTACATAATTTACCTAA
1 --TACATAACTTACATAA
* * *
31576777 TACATAAATATATATCA
1 TACATAACT-TACATAA
31576794 TATCATAACTTACATAA
1 TA-CATAACTTACATAA
31576811 CTCATTTATA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
16 38 0.57
17 11 0.16
18 18 0.27
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:31576735 original size:25 final size:25
Alignment explanation
Indices: 31576696--31576783 Score: 122
Period size: 25 Copynumber: 3.5 Consensus size: 25
31576686 GGTTTTTCTG
* * *
31576696 ACATAATAAACAACTTACATAGCTT
1 ACATAATACATAACTTACATAACTT
31576721 ACATAATACATAACTTACATAACTT
1 ACATAATACATAACTTACATAACTT
* *
31576746 ATATAATACATAACTTACATAATTT
1 ACATAATACATAACTTACATAACTT
*
31576771 ACCTAATACATAA
1 ACATAATACATAA
31576784 ATATATATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (25 bp):
ACATAATACATAACTTACATAACTT
Found at i:31582690 original size:43 final size:43
Alignment explanation
Indices: 31582638--31582885 Score: 372
Period size: 43 Copynumber: 5.8 Consensus size: 43
31582628 TTTATAAAAA
**
31582638 AAGCGCCGCTAAAAGTCATGTTCTATAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
* *
31582681 AAGCACCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
* *
31582724 AAGCGCCGCT-AAAGTCATGATCTATAGTGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
*** *
31582766 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTTAAAA
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
31582809 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
* * *
31582852 AAGCGCTGCTAAAGGTCATGACCTTTAGCGGCGT
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGT
31582886 GTATTTCTAA
Statistics
Matches: 187, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 41 0.22
43 146 0.78
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAG
Found at i:31582848 original size:128 final size:129
Alignment explanation
Indices: 31582638--31582872 Score: 382
Period size: 128 Copynumber: 1.8 Consensus size: 129
31582628 TTTATAAAAA
** ** * *
31582638 AAGCGCCGCTAAAAGTCATGTTCTATAGCGGCGTTTGTGGGAGAAGCACCGCTAAAAGTCATGAT
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAAGTCATGAC
31582703 CTATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAA-GTCATGATCTATAGTGGCGTTTGTGGGAG
66 CTATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGATCTATAGTGGCGTTTGTGGGAG
* *
31582766 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTTAAAAAAGCGCCGCTAAAAGTCATGAC
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAAGTCATGAC
*
31582831 CTATAGCGGCGTTTGTGGGAGAAGCGCTGCTAAAGGTCATGA
66 CTATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGA
31582873 CCTTTAGCGG
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
128 90 0.93
129 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (129 bp):
AAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAAGTCATGAC
CTATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGATCTATAGTGGCGTTTGTGGGAG
Found at i:31584073 original size:26 final size:26
Alignment explanation
Indices: 31584044--31584095 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
31584034 AATTTTTTTA
* *
31584044 CAAACCAAACCTAAAACAAACCCAAT
1 CAAAACAAACCCAAAACAAACCCAAT
*
31584070 CAAAATAAACCCAAAACAAACCCAAT
1 CAAAACAAACCCAAAACAAACCCAAT
31584096 TTAATTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.08
Consensus pattern (26 bp):
CAAAACAAACCCAAAACAAACCCAAT
Found at i:31585339 original size:19 final size:18
Alignment explanation
Indices: 31585315--31585350 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31585305 TGTATTTTTT
31585315 TATATTTTCATTTCATTTC
1 TATATTTTCATTT-ATTTC
*
31585334 TATATTTTTATTTATTT
1 TATATTTTCATTTATTT
31585351 ATTAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTCATTTATTTC
Found at i:31586904 original size:11 final size:11
Alignment explanation
Indices: 31586888--31586914 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
31586878 TGATATTACT
31586888 TAAAATAAAAA
1 TAAAATAAAAA
31586899 TAAAATAAAAA
1 TAAAATAAAAA
31586910 TAAAA
1 TAAAA
31586915 GATAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:31588172 original size:43 final size:43
Alignment explanation
Indices: 31588104--31588365 Score: 344
Period size: 43 Copynumber: 6.1 Consensus size: 43
31588094 TCTTTTAAAG
* *
31588104 CGCCGCTATAGACTATGGTCTTTAGCGGCGCTTAGACAAAAAA
1 CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * * *
31588147 CACCGCGATAGACCATGGTCTTTAGCGGCGCTTATACAAAAAA
1 CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * *
31588190 CGCCACTATAGATCATGGTATTTAGCGGCGCTTATACAAAAAA
1 CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * * *
31588233 CGCCACTATAGATCGTGGTCTTTAGCGGCGTTTGGACAAAAAA
1 CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * *
31588276 TGCCACTATAGACCATGGTCTTCAGCGGCGCTTGGACAAAAAA
1 CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * **
31588319 CGCCACTATAGACGATGGTCTTTAGCGGCGTTTACCCAAAAAA
1 CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
31588362 CGCC
1 CGCC
31588366 GCTAATTTTG
Statistics
Matches: 193, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 193 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (43 bp):
CGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACAAAAAA
Found at i:31588740 original size:21 final size:21
Alignment explanation
Indices: 31588702--31588741 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31588692 CTCTAATTCC
* *
31588702 CTCGCTGCAGCCTTTGCTTCT
1 CTCGCTGCAGCATCTGCTTCT
*
31588723 CTCGCTGCTGCATCTGCTT
1 CTCGCTGCAGCATCTGCTT
31588742 TAAGCTGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.38, G:0.20, T:0.38
Consensus pattern (21 bp):
CTCGCTGCAGCATCTGCTTCT
Found at i:31588809 original size:87 final size:87
Alignment explanation
Indices: 31588702--31588894 Score: 264
Period size: 87 Copynumber: 2.2 Consensus size: 87
31588692 CTCTAATTCC
* * *
31588702 CTCGCTGCAGCCTTTGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-ATGCTGGAGTTCTTCAT
1 CTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTA-GCTGGAGTTCTTCAT
31588766 A-CTTTCGTTGAACCTCAGCTTCT
65 ATCTTT-GTTGAACCTCAGCTTCT
* * *
31588789 CTCGCTGCTGCCTCTGCTTCTCTCGTTGCCGTATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA
1 CTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATA
*
31588854 TCTTTTTTGAACCTCAGCTTCT
66 TCTTTGTTGAACCTCAGCTTCT
* * *
31588876 CTCGATGTTGCCTCCGCTT
1 CTCGCTGCTGCCTCTGCTT
31588895 TAAGTTGTGT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
87 89 0.95
88 5 0.05
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.40
Consensus pattern (87 bp):
CTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATA
TCTTTGTTGAACCTCAGCTTCT
Found at i:31588825 original size:21 final size:21
Alignment explanation
Indices: 31588783--31588828 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31588773 TTGAACCTCA
* *
31588783 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
* *
31588804 GCTTCTCTCGTTGCCGTATCT
1 GCTTCTCTCGCTGCCGCATCT
31588825 GCTT
1 GCTT
31588829 TAAGTTGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.37, G:0.20, T:0.41
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Done.