Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 338 of 444
Found at i:97672554 original size:16 final size:18
Alignment explanation
Indices: 97672523--97672555 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
97672513 GTTAATAGAA
97672523 TAAATTTAGATTTAATTG
1 TAAATTTAGATTTAATTG
97672541 TAAATTT-G-TTTAATT
1 TAAATTTAGATTTAATT
97672556 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAATTTAGATTTAATTG
Found at i:97673154 original size:45 final size:45
Alignment explanation
Indices: 97673090--97673177 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
97673080 ATTTACAGAC
* *
97673090 TCAGTTCACGAAAATGAGGTTCTGGAACTGCATTTTCTAACACCA
1 TCAGTTCACAAAAACGAGGTTCTGGAACTGCATTTTCTAACACCA
* *
97673135 TCAGTTTACAAAAACGAGGTTCTGGAACTGCATTTTCTGACAC
1 TCAGTTCACAAAAACGAGGTTCTGGAACTGCATTTTCTAACAC
97673178 TATTGGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (45 bp):
TCAGTTCACAAAAACGAGGTTCTGGAACTGCATTTTCTAACACCA
Found at i:97673876 original size:18 final size:18
Alignment explanation
Indices: 97673853--97673891 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
97673843 ATATAATTGT
97673853 TCTCATTTAACTTTACAA
1 TCTCATTTAACTTTACAA
97673871 TCTCATTTAACTTTACAA
1 TCTCATTTAACTTTACAA
97673889 TCT
1 TCT
97673892 TATGCTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTCATTTAACTTTACAA
Found at i:97675599 original size:29 final size:28
Alignment explanation
Indices: 97675533--97675606 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 28
97675523 AAGTCTACAT
* * *
97675533 ACATGCATATGGCCCACTAGGCCTAATC
1 ACATTCATATGGCCCATTAGGCCAAATC
*
97675561 TCATTCATATGGCCCATTAGGCTCAAATC
1 ACATTCATATGGCCCATTAGGC-CAAATC
97675590 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
97675607 CTGGCCCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCAAATC
Found at i:97675618 original size:29 final size:30
Alignment explanation
Indices: 97675533--97675623 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 30
97675523 AAGTCTACAT
* *
97675533 ACATGCATATGGCCCA-CTAGG-CCTAATC
1 ACATTCATATGGCCCATCTAGGCCCAAATC
* *
97675561 TCATTCATATGGCCCAT-TAGGCTCAAATC
1 ACATTCATATGGCCCATCTAGGCCCAAATC
*
97675590 ACATTCATATGGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCATCTAGGCCCAAATC
97675619 A-ATTC
1 ACATTC
97675624 CAAGCTATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 22 0.42
29 30 0.57
30 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAAATC
Found at i:97676617 original size:10 final size:10
Alignment explanation
Indices: 97676602--97676637 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
97676592 GTATTTGCAA
97676602 AAAAAAAAAC
1 AAAAAAAAAC
97676612 AAAAAAAAAC
1 AAAAAAAAAC
*
97676622 AAAACAAAAC
1 AAAAAAAAAC
97676632 AAAAAA
1 AAAAAA
97676638 GTCAAGAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:97677591 original size:23 final size:24
Alignment explanation
Indices: 97677561--97677608 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
97677551 TTCAAGTCTA
97677561 AAACCAAT-TATTGTCCCTTAAAT
1 AAACCAATATATTGTCCCTTAAAT
97677584 AAACCAATCATATTGTCCCTTAAAT
1 AAACCAAT-ATATTGTCCCTTAAAT
97677609 GGACCCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (24 bp):
AAACCAATATATTGTCCCTTAAAT
Found at i:97683146 original size:40 final size:40
Alignment explanation
Indices: 97682974--97683139 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
97682964 AACCCAAGTA
* * *
97682974 CCTTCGGGATTTAG-CCGGATATAGCAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
97683013 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
97683053 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
97683093 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
97683133 CCTTCGG
1 CCTTCGG
97683140 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 105 0.89
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:97684604 original size:14 final size:14
Alignment explanation
Indices: 97684582--97684624 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
97684572 TTTCATTTTG
97684582 TAACATAAAATTAT
1 TAACATAAAATTAT
*
97684596 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
97684609 TAACACAAAATAAT
1 TAACATAAAATTAT
97684623 TA
1 TA
97684625 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:97684618 original size:13 final size:13
Alignment explanation
Indices: 97684582--97684620 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
97684572 TTTCATTTTG
97684582 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
97684596 TAGCATAAAATAT
1 TAACATAAAATAT
*
97684609 TAACACAAAATA
1 TAACATAAAATA
97684621 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:97690552 original size:40 final size:40
Alignment explanation
Indices: 97690467--97690617 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
97690457 AATTGAATGA
* * * *
97690467 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
97690507 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
97690548 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
97690587 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
97690618 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:97690631 original size:40 final size:40
Alignment explanation
Indices: 97690504--97690633 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
97690494 ATGCTGGAAA
* * *
97690504 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
97690544 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
97690584 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
97690624 TTATATCCGG
1 TTATATCCGG
97690634 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:97690632 original size:80 final size:80
Alignment explanation
Indices: 97690466--97690633 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
97690456 AAATTGAATG
* *
97690466 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
97690531 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
97690546 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
97690609 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
97690626 ATATCCGG
1 ATATCCGG
97690634 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:97698499 original size:40 final size:40
Alignment explanation
Indices: 97698433--97698583 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
97698423 AAATTGAATG
* *
97698433 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
97698472 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
97698512 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
97698552 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
97698584 ACGTGTTATA
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:97698567 original size:80 final size:79
Alignment explanation
Indices: 97698435--97698583 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
97698425 ATTGAATGAT
*
97698435 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
97698500 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
97698514 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
97698577 TTTGTGC
63 ATTGTGC
97698584 ACGTGTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:97708110 original size:39 final size:40
Alignment explanation
Indices: 97708004--97708220 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
97707994 CAACCAAGTA
** * * * *
97708004 CCTTCGGGGTTTAG-CCGGATATAGTTACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* * * ** *
97708043 CCTTCGAGACTTATCCTGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
97708083 CCTTCGGGAC-TAGCCCGGAAATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
97708122 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
97708162 CCTTTGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
97708202 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
97708221 TTATCATCCA
Statistics
Matches: 156, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 43 0.28
40 113 0.72
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:97708147 original size:79 final size:80
Alignment explanation
Indices: 97708004--97708220 Score: 303
Period size: 79 Copynumber: 2.7 Consensus size: 80
97707994 CAACCAAGTA
** * * * * * * **
97708004 CCTTCGGGGTTTAG-CCGGATATAGTTACTCACTCAAATGCCTTCGAGACTTATCCTGGTTATAG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAAATAG
*
97708068 TAACTCGCACAATTG
66 TAACTCGCACAAATG
97708083 CCTTCGGGAC-TAGCCCGGAAATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAAATAG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAAATAG
97708147 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* *
97708162 CCTTTGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
97708221 TTATCATCCA
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
78 3 0.02
79 73 0.59
80 47 0.38
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGAAATAG
TAACTCGCACAAATG
Found at i:97716255 original size:40 final size:40
Alignment explanation
Indices: 97716186--97716399 Score: 321
Period size: 40 Copynumber: 5.5 Consensus size: 40
97716176 CAACCAAGTA
* * * *
97716186 CCTTCGGG-TTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
** *
97716224 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
97716264 CCTTC-GGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
97716303 CCTTCGGGACTTAGCCC--AAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
97716341 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
97716381 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
97716400 TTATCATCCG
Statistics
Matches: 162, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 46 0.28
39 40 0.25
40 76 0.47
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:97716374 original size:78 final size:78
Alignment explanation
Indices: 97716205--97716398 Score: 309
Period size: 78 Copynumber: 2.5 Consensus size: 78
97716195 TTAGCCGGAT
* * ** *
97716205 ATAGTTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCG
1 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATAGTAACTCGCACAAATGCCTTCG
*
97716270 GACTTAGCCCGGAA
65 GACTTAGCCCGAAA
97716284 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-AAATAGTAACTCGCACAAATGCCTTCGG
1 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATAGTAACTCGCACAAATGCCTTC-G
97716348 GACTTAGCCCGAAA
65 GACTTAGCCCGAAA
97716362 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
97716399 GTTATCATCC
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
77 23 0.21
78 50 0.47
79 34 0.32
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (78 bp):
ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATAGTAACTCGCACAAATGCCTTCGG
ACTTAGCCCGAAA
Found at i:97719054 original size:19 final size:19
Alignment explanation
Indices: 97719030--97719073 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
97719020 TGGAGACAGG
97719030 GACACGT-TCGTGTGCCTTC
1 GACACGTCT-GTGTGCCTTC
*
97719049 GACACGTCTGTGTGCCTTT
1 GACACGTCTGTGTGCCTTC
97719068 GACACG
1 GACACG
97719074 CCTATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.14, C:0.30, G:0.27, T:0.30
Consensus pattern (19 bp):
GACACGTCTGTGTGCCTTC
Found at i:97719749 original size:6 final size:6
Alignment explanation
Indices: 97719719--97719796 Score: 79
Period size: 6 Copynumber: 12.8 Consensus size: 6
97719709 AAGAAACATT
* * * *
97719719 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
97719768 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
97719797 GTGACATAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 2 0.03
6 53 0.90
7 3 0.05
8 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:97719781 original size:37 final size:37
Alignment explanation
Indices: 97719730--97719820 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
97719720 TCAGAACTAG
*
97719730 AATCAAAATGAGAATCAGAATCAGAATCAGGTGACAA
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTGACAA
* *
97719767 AATCAGAATCAGAATCAGAATCAGAATCAGGTGACAT
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTGACAA
* *
97719804 AATTAAAATCAAAATCA
1 AATCAAAATCAGAATCA
97719821 ATATTAGGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (37 bp):
AATCAAAATCAGAATCAGAATCAGAATCAGGTGACAA
Found at i:97719814 original size:31 final size:31
Alignment explanation
Indices: 97719742--97719849 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 31
97719732 TCAAAATGAG
*
97719742 AATCAGAATCAGAATCAGGTGACAAAATCAGAATCAG
1 AATCAGAATCAGAATCAGGTGAC---AT---AATCAA
*
97719779 AATCAGAATCAGAATCAGGTGACATAATTAA
1 AATCAGAATCAGAATCAGGTGACATAATCAA
* * * *
97719810 AATCAAAATCA-ATATTAGGTAACAGAATCAA
1 AATCAGAATCAGA-ATCAGGTGACATAATCAA
97719841 AATCAGAAT
1 AATCAGAAT
97719850 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 36 0.58
34 2 0.03
37 23 0.37
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACATAATCAA
Found at i:97720030 original size:2 final size:2
Alignment explanation
Indices: 97720023--97720054 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
97720013 ACCAGAACAG
97720023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97720055 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97720423 original size:27 final size:27
Alignment explanation
Indices: 97720393--97720802 Score: 489
Period size: 27 Copynumber: 15.2 Consensus size: 27
97720383 AACACCATTG
* *
97720393 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
97720420 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
97720447 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
97720474 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* **
97720501 GGATAAAAAAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
97720528 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** *
97720555 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
97720582 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
97720609 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
97720636 AGGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** * *
97720663 GGGTAAAATAGTAATTTTTTAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
**
97720690 GGGTAAAATAGTAATTCTT-TAAATCGA
1 GGGTAAAACGGTAATT-TTGTAAATCGA
* * *
97720717 GGGTAAATCGGTAATTTTATAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
** *
97720744 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
97720771 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
97720798 GGGTA
1 GGGTA
97720803 CTTTGGTAAT
Statistics
Matches: 333, Mismatches: 48, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 329 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:97720810 original size:27 final size:27
Alignment explanation
Indices: 97720780--97720975 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
97720770 AGGGTAAAAC
* *
97720780 GGTAATTTTATAAATCGAGGGTACTTT
1 GGTAATTTTATAAATCAAGGGTATTTT
* * *
97720807 GGTAATTTTACAAGTCAAGGGTATTTC
1 GGTAATTTTATAAATCAAGGGTATTTT
* * *
97720834 AGTAATTTCACAAATC-AGAGGTATTTT
1 GGTAATTTTATAAATCAAG-GGTATTTT
* * *
97720861 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTATAAATCAAGGGTATTTT
* * *
97720888 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTATAAATCAAGGGTATTTT
* * *
97720915 GGTAATTTTATAGACCAGGGGTATTTT
1 GGTAATTTTATAAATCAAGGGTATTTT
*
97720942 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTATAAATCAAGGGTATTTT
97720969 GGTAATT
1 GGTAATT
97720976 CTACCCTACA
Statistics
Matches: 150, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 147 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTATAAATCAAGGGTATTTT
Found at i:97720849 original size:81 final size:80
Alignment explanation
Indices: 97720401--97720910 Score: 281
Period size: 81 Copynumber: 6.3 Consensus size: 80
97720391 TGGGGTAAAA
* * * ** ** *
97720401 TGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
1 TGGTAATTTTACAAATCAAGGGTAAAACAATAATTCTACAAATC-AGGGTAAAATGGTAATTTTA
**
97720466 TAAATCGAGGGTAAAA
65 TAAATCGAGGGTAATT
* * * * * * **
97720482 CGGTAATTCTATAAATCGAGGATAAAA-AAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTT
1 TGGTAATTTTACAAATCAAGGGTAAAACAA-TAATTCTACAAATC-AGGGTAAAATGGTAATTTT
* **
97720546 GTAAATCGAGGGTAAAA
64 ATAAATCGAGGGTAATT
* * ** * ** * ** ** * *
97720563 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTTTACAAATCAAGGGTAAAACAATAATTCTACAAATC-AGGGTAAAATGGTAATTTTA
* * **
97720628 TAAATCAAAGGTAAAA
65 TAAATCGAGGGTAATT
* * ** * * * ** *
97720644 CGATAATTTTGTAAATCAAGGGTAAAATAGTAATTTTTTAAATCAAGGGTAAAATAGTAATTCTT
1 TGGTAATTTTACAAATCAAGGGTAAAACAATAATTCTACAAATC-AGGGTAAAATGGTAATT-TT
*
97720709 -TAAATCGAGGGTAAAT
64 ATAAATCGAGGGTAATT
* * ** *
97720725 CGGTAATTTTATAAATCAAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAACGGTAATTTTA
1 TGGTAATTTTACAAATCAAGGGTAAAACAATAATTCTACAAATC-AGGGTAAAATGGTAATTTTA
*
97720790 TAAATCGAGGGTACTT
65 TAAATCGAGGGTAATT
* *** * ***
97720806 TGGTAATTTTACAAGTCAAGGGTATTTCAGTAATT-TCACAAATCAGAGGTATTTTGGTAATTTT
1 TGGTAATTTTACAAATCAAGGGTAAAACAATAATTCT-ACAAATCAG-GGTAAAATGGTAATTTT
* * *
97720870 ACAAA-CCAGGGGTATTT
64 ATAAATCGA-GGGTAATT
* *
97720887 TGGTAATTTTACAAACCAGGGGTA
1 TGGTAATTTTACAAATCAAGGGTA
97720911 TTTTGGTAAT
Statistics
Matches: 358, Mismatches: 64, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
80 8 0.02
81 349 0.97
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (80 bp):
TGGTAATTTTACAAATCAAGGGTAAAACAATAATTCTACAAATCAGGGTAAAATGGTAATTTTAT
AAATCGAGGGTAATT
Found at i:97720988 original size:54 final size:54
Alignment explanation
Indices: 97720780--97721002 Score: 227
Period size: 54 Copynumber: 4.1 Consensus size: 54
97720770 AGGGTAAAAC
* * * * * * *
97720780 GGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACA-AGTCAAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACATA-CCAGGGGTATTTT
* * * *
97720834 AGTAATTTCACAAATC-AGAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAG-GGTATTTTGGTAATTTTACATACCAGGGGTATTTT
* * *
97720888 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAGACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACATACCAGGGGTATTTT
* * * *
97720942 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTCTACCCTA-CAGGGGCATTTT
1 GGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-CATACCAGGGGTATTTT
*
97720996 AGTAATT
1 GGTAATT
97721003 CTACCTTACA
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.01
54 139 0.97
55 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACATACCAGGGGTATTTT
Found at i:97720988 original size:81 final size:81
Alignment explanation
Indices: 97720780--97721002 Score: 252
Period size: 81 Copynumber: 2.8 Consensus size: 81
97720770 AGGGTAAAAC
* * * * * *
97720780 GGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGT-CAAGGGTATTTCAGTAATTTCA
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACCA-TACAGGGGTATTTTAGTAATTTCA
*
97720844 CAAATCAGAGGTATTTT
65 CAAACCAGAGGTATTTT
* * * * *
97720861 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTA
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACCATA-CAGGGGTATTTTAGTAATTTCA
* * *
97720925 TAGACCAGGGGTATTTT
65 CAAACCAGAGGTATTTT
* * *
97720942 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTCTACCCTACAGGGGCATTTTAGTAATT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACCATACAGGGGTATTTTAGTAATT
97721003 CTACCTTACA
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 114 0.97
82 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACCATACAGGGGTATTTTAGTAATTTCAC
AAACCAGAGGTATTTT
Found at i:97720994 original size:27 final size:27
Alignment explanation
Indices: 97720964--97721040 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
97720954 AACCAAGGGT
*
97720964 ATTTTGGTAATTCTACCCTACAGGGGC
1 ATTTTAGTAATTCTACCCTACAGGGGC
* * *
97720991 ATTTTAGTAATTCTACCTTACAAGGGT
1 ATTTTAGTAATTCTACCCTACAGGGGC
* * *
97721018 ATTTCAGTAATGCTAGCCTACAG
1 ATTTTAGTAATTCTACCCTACAG
97721041 ATATGAGATT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTAGTAATTCTACCCTACAGGGGC
Found at i:97722758 original size:21 final size:21
Alignment explanation
Indices: 97722723--97722778 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
97722713 AATAAATAAT
97722723 AAATGAAAA-AGAAACAAAAG-
1 AAATGAAAAGAGAAAC-AAAGC
97722743 AAATGAAAAGAGAAACAAAGC
1 AAATGAAAAGAGAAACAAAGC
97722764 AAATGAAACAGAGAA
1 AAATGAAA-AGAGAA
97722779 GAACAGGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.39
21 14 0.42
22 6 0.18
ACGTcount: A:0.70, C:0.07, G:0.18, T:0.05
Consensus pattern (21 bp):
AAATGAAAAGAGAAACAAAGC
Found at i:97723339 original size:6 final size:6
Alignment explanation
Indices: 97723327--97723365 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
97723317 TCGCTATTGC
* * *
97723327 TACTGT TATTGT TACTGT TACTGT TAGTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
97723366 AATGTATTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:97723350 original size:18 final size:18
Alignment explanation
Indices: 97723327--97723365 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
97723317 TCGCTATTGC
* *
97723327 TACTGTTATTGTTACTGT
1 TACTGTTAGTGTTACCGT
97723345 TACTGTTAGTGTTACCGT
1 TACTGTTAGTGTTACCGT
97723363 TAC
1 TAC
97723366 AATGTATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (18 bp):
TACTGTTAGTGTTACCGT
Found at i:97723544 original size:17 final size:18
Alignment explanation
Indices: 97723502--97723545 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
97723492 ACTGAATATT
* *
97723502 TGACTGTTATTGAATTAC
1 TGACTATTATTGAATGAC
*
97723520 TGATTATTATTG-ATGAC
1 TGACTATTATTGAATGAC
97723537 TGACTATTA
1 TGACTATTA
97723546 CTGGAATGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (18 bp):
TGACTATTATTGAATGAC
Found at i:97728666 original size:14 final size:15
Alignment explanation
Indices: 97728629--97728674 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
97728619 ATATATATGA
*
97728629 ATTAGTAATAAATTAT
1 ATTA-TAATTAATTAT
97728645 ATTA-AATTAATT-T
1 ATTATAATTAATTAT
97728658 ATTATAATTATATTAT
1 ATTATAATTA-ATTAT
97728674 A
1 A
97728675 AGATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 3 0.12
16 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTATAATTAATTAT
Found at i:97728864 original size:22 final size:22
Alignment explanation
Indices: 97728827--97728883 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
97728817 AATAAATAAT
97728827 AAATG-AAAA-AGAAACAAAAG-
1 AAATGAAAAAGAGAAAC-AAAGC
97728847 AAATGAAAAAGAGAAACAAAGC
1 AAATGAAAAAGAGAAACAAAGC
*
97728869 AAATGAAACAGAGAA
1 AAATGAAAAAGAGAA
97728884 GAACAGGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 5 0.15
21 8 0.24
22 20 0.61
ACGTcount: A:0.70, C:0.07, G:0.18, T:0.05
Consensus pattern (22 bp):
AAATGAAAAAGAGAAACAAAGC
Found at i:97729433 original size:6 final size:6
Alignment explanation
Indices: 97729424--97729462 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
97729414 TGTGTACCGC
* *
97729424 TACTGC TACTGT TACTGT TACTGT TACTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
97729463 GGTGTATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:97729451 original size:18 final size:18
Alignment explanation
Indices: 97729413--97729462 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
97729403 ATGAGGTACT
*
97729413 CTGTGTACCGCTACTGCTA
1 CTGT-TACCGTTACTGCTA
* *
97729432 CTGTTACTGTTACTGTTA
1 CTGTTACCGTTACTGCTA
97729450 CTGTTACCGTTAC
1 CTGTTACCGTTAC
97729463 GGTGTATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (18 bp):
CTGTTACCGTTACTGCTA
Found at i:97729596 original size:18 final size:18
Alignment explanation
Indices: 97729570--97729604 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
97729560 TAAATAAAGG
*
97729570 TACTTAATAATTGACTGC
1 TACTGAATAATTGACTGC
*
97729588 TACTGAATATTTGACTG
1 TACTGAATAATTGACTG
97729605 ATTACTGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:97731912 original size:19 final size:19
Alignment explanation
Indices: 97731888--97731926 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
97731878 GCTCATATTC
97731888 ATTCCTTACTAATCATACA
1 ATTCCTTACTAATCATACA
97731907 ATTCCTTACTAATCATACA
1 ATTCCTTACTAATCATACA
97731926 A
1 A
97731927 CTTGAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTCCTTACTAATCATACA
Found at i:97732190 original size:49 final size:49
Alignment explanation
Indices: 97732129--97732442 Score: 187
Period size: 48 Copynumber: 6.6 Consensus size: 49
97732119 CACATCTAAG
*
97732129 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGT-
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC--GGTA
* * *
97732179 T-GATGCCATGTCCCAGACAGATCTTACACTGGCTCTCATCTATCGGTA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTA
* * * * * *
97732227 TCAATGCCATGT-CCTGACAGGTCTTACTCTGA----CACATGTC--AA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTA
* * * * **
97732269 GCCGATGCCATGTCCCAGACATGTCTTACACT-AGCTCTCGTCT-T-AATA
1 -TCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTA
* * * * **
97732317 CCGATGCCATGTCCCAGACATGATCTTACACTGACTCT--TGTCTCAATA
1 TCGATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGGTA
* * * *
97732365 ACGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-AT--GTGG
1 TCGATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGGT-A
* *
97732413 CCGATG-CATGTCCCAGACATGTCTTACACT
1 TCGATGCCATGTCCCAGACAGGTCTTACACT
97732443 AGCACACATC
Statistics
Matches: 210, Mismatches: 36, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 11 0.05
44 20 0.10
46 12 0.06
47 38 0.18
48 76 0.36
49 50 0.24
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTA
Found at i:97732423 original size:95 final size:94
Alignment explanation
Indices: 97732083--97732442 Score: 252
Period size: 92 Copynumber: 3.8 Consensus size: 94
97732073 GTACGATGCT
* * * *
97732083 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACACATCTAAGT--CGATGCCATGTCCCAG
1 GATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCATA-ATAA-TACCGATGCCATGTCCCAG
* * * * * ****
97732146 ACAGGTCTTACACTGACTTTCATATATCGAGGTT
63 ACATGTCTTACACTGAC--TCTTGTCTCAATAAC
* * * ** * * *
97732180 GATGCCATGTCCCAGACA-GATCTTACACTGGCTCTCATCTATCGGTATCAATGCCATGT-CCTG
1 GATGCCATGTCCCAAACATG-TCTTACACTAGCTCTCAT-AAT-AATACCGATGCCATGTCCCAG
* * * * **
97732243 ACAGGTCTTACTCTGACACATG--TCAA-GCC
63 ACATGTCTTACACTGACTCTTGTCTCAATAAC
* * **
97732272 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATACCGATGCCATGTCCCAGACA
1 GATGCCATGTCCCAAACATGTCTTACACTAGCTCTCATAATAATACCGATGCCATGTCCCAGACA
97732337 TGATCTTACACTGACTCTTGTCTCAATAAC
66 TG-TCTTACACTGACTCTTGTCTCAATAAC
* * *
97732367 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CATGTCCCAGA
1 GATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCATAATAAT-ACCGATGCCATGTCCCAGA
97732430 CATGTCTTACACT
64 CATGTCTTACACT
97732443 AGCACACATC
Statistics
Matches: 211, Mismatches: 39, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
90 12 0.06
91 8 0.04
92 49 0.23
93 4 0.02
94 13 0.06
95 39 0.18
96 41 0.19
97 35 0.17
98 10 0.05
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGTCTTACACTAGCTCTCATAATAATACCGATGCCATGTCCCAGACA
TGTCTTACACTGACTCTTGTCTCAATAAC
Found at i:97742226 original size:34 final size:34
Alignment explanation
Indices: 97742183--97742250 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
97742173 AGCCCTGTAT
*
97742183 CAGTGTGGGCCTTAGCCCATTACAGTAACAGTAA
1 CAGTGTGGGCCTTAACCCATTACAGTAACAGTAA
* **
97742217 CAGTGTGGGCTTTAACCCATTATGGTAACAGTAA
1 CAGTGTGGGCCTTAACCCATTACAGTAACAGTAA
97742251 TAGAAATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
CAGTGTGGGCCTTAACCCATTACAGTAACAGTAA
Found at i:97769245 original size:29 final size:29
Alignment explanation
Indices: 97769213--97769321 Score: 146
Period size: 29 Copynumber: 3.5 Consensus size: 29
97769203 ATAGTGAATC
*
97769213 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGTT
97769242 CGCACACTTAGTACTTAGTGCTATATATTTTCAGTT
1 CG--CAC-----ACTTAGTGCTATATATTTTCAGTT
97769278 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGTT
97769307 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
97769322 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 14
0.83 0.01 0.16
Matches are distributed among these distances:
29 41 0.57
31 3 0.04
34 3 0.04
36 25 0.35
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGTT
Found at i:97769806 original size:2 final size:2
Alignment explanation
Indices: 97769799--97769835 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
97769789 CATACTTATG
97769799 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97769836 GGGCATCACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97783302 original size:42 final size:43
Alignment explanation
Indices: 97783231--97783349 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 43
97783221 ATGTTACCAC
* *
97783231 ATATCGATGCCACTGTCGTAGACAA-GGTCTTACAC-GAATCA-A
1 ATAT-GATGCCAATGTCCTAGA-AATGGTCTTACACAGAATCACA
*
97783273 TATATGATGCCAATGTCCTAGAAATGGTCTTACACATAATCACA
1 -ATATGATGCCAATGTCCTAGAAATGGTCTTACACAGAATCACA
**
97783317 ATACAATGCCAATGTTCC-A-AACATGGTCTTACA
1 ATATGATGCCAATG-TCCTAGAA-ATGGTCTTACA
97783350 TGTAATCACA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 33 0.50
44 4 0.06
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
ATATGATGCCAATGTCCTAGAAATGGTCTTACACAGAATCACA
Found at i:97783524 original size:42 final size:43
Alignment explanation
Indices: 97783468--97783602 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
97783458 CTTACTTGTT
* * * *
97783468 ATCAC-ATATCGATGCCATTATCCCATACAGGGTCTTACACG-A
1 ATCACAATAT-GATGCCAATGTCCCAAACATGGTCTTACACGTA
97783510 ATCA-ATATATGATGCCAATGTCCCAAACATGGTCTTACACGTA
1 ATCACA-ATATGATGCCAATGTCCCAAACATGGTCTTACACGTA
** * *
97783553 ATCACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTA
1 ATCACAATATGATGCCAATGTCCCAAACATGGTCTTACACGTA
97783596 ATCACAA
1 ATCACAA
97783603 CTCGATAACC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
42 31 0.38
43 49 0.60
44 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
ATCACAATATGATGCCAATGTCCCAAACATGGTCTTACACGTA
Found at i:97783624 original size:242 final size:241
Alignment explanation
Indices: 97783189--97783672 Score: 745
Period size: 242 Copynumber: 2.0 Consensus size: 241
97783179 TCACATAAGC
* * **
97783189 TCGTACAATGCATATCCTAAAAATGGTCTTACATGTTACCACATATCGATGCCACTGTCGTAGAC
1 TCGTACAATGCATATCCCAAAAATGGTCTTACATGTTACCACATATCGATGCCACTATCCCAGAC
*
97783254 AAGGTCTTACACGAATCAATATATGATGCCAATGTCCTAGAAATGGTCTTACACATAATCACAAT
66 AAGGTCTTACACGAATCAATATATGATGCCAATGTCCCAGAAATGGTCTTACACATAATCACAAT
*
97783319 ACAATGCCAATGTTCCAAACATGGTCTTACATGTAATCACAACTCGATAACCTAATGTCATGACA
131 ACAATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAACTCGATAACCTAATGTCATGACA
* *
97783384 TTCGTATCCTATGCTATTCCAAAGGTTCGTACGAGACTTTCATATG
196 TTCGTATCCTATGCTATTCCAAAGGTTCGTAAGAGACTTTCAGATG
* * * * * * *
97783430 TCGTACAATGCCATATCCCAGATATTGTCTTACTTGTTATCACATATCGATGCCATTATCCCATA
1 TCGTACAATG-CATATCCCAAAAATGGTCTTACATGTTACCACATATCGATGCCACTATCCCAGA
* *
97783495 CAGGGTCTTACACGAATCAATATATGATGCCAATGTCCCA-AACATGGTCTTACACGTAATCACA
65 CAAGGTCTTACACGAATCAATATATGATGCCAATGTCCCAGAA-ATGGTCTTACACATAATCACA
*
97783559 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAACTCGATAACCTAATGTCATGA
129 ATACAATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAACTCGATAACCTAATGTCATGA
* * * *
97783624 CATTCGTATCCTATGCTATTTCTAAGGTTTGTAAGGGACTTTCAGATG
194 CATTCGTATCCTATGCTATTCCAAAGGTTCGTAAGAGACTTTCAGATG
97783672 T
1 T
97783673 TGTAACTTTG
Statistics
Matches: 219, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
241 12 0.05
242 207 0.95
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (241 bp):
TCGTACAATGCATATCCCAAAAATGGTCTTACATGTTACCACATATCGATGCCACTATCCCAGAC
AAGGTCTTACACGAATCAATATATGATGCCAATGTCCCAGAAATGGTCTTACACATAATCACAAT
ACAATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAACTCGATAACCTAATGTCATGACA
TTCGTATCCTATGCTATTCCAAAGGTTCGTAAGAGACTTTCAGATG
Found at i:97797845 original size:29 final size:29
Alignment explanation
Indices: 97797803--97797903 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
97797793 GACAAGATTG
* *
97797803 GCACTAAGTGTGCGGGTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* ** *
97797832 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* *
97797860 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGTTAAAATTATATA
97797889 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
97797904 ATTCACTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.36
29 37 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTAAAATTATATA
Found at i:97805722 original size:29 final size:29
Alignment explanation
Indices: 97805680--97805780 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
97805670 GACAAGATTG
* *
97805680 GCACTAAGTGTGCGGGTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* ** *
97805709 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* *
97805737 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGTTAAAATTATATA
97805766 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
97805781 ATTCACTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.36
29 37 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTAAAATTATATA
Found at i:97809925 original size:25 final size:26
Alignment explanation
Indices: 97809890--97809938 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
97809880 AATTGGGGTT
*
97809890 TAAATGAAAAAAATGACTAAATTGCA
1 TAAATGAAAAAAATGACCAAATTGCA
*
97809916 TAAAT-AAAAAAATTACCAAATTG
1 TAAATGAAAAAAATGACCAAATTG
97809939 ACAATTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (26 bp):
TAAATGAAAAAAATGACCAAATTGCA
Found at i:97822310 original size:40 final size:40
Alignment explanation
Indices: 97822225--97822375 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
97822215 AATTGAATGA
* * * *
97822225 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
97822265 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
97822306 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
97822345 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
97822376 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:97822389 original size:40 final size:40
Alignment explanation
Indices: 97822262--97822391 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
97822252 ATGCTGGAAA
* * *
97822262 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
97822302 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
97822342 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
97822382 TTATATCCGG
1 TTATATCCGG
97822392 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:97822390 original size:80 final size:80
Alignment explanation
Indices: 97822224--97822391 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
97822214 AAATTGAATG
* *
97822224 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
97822289 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
97822304 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
97822367 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
97822384 ATATCCGG
1 ATATCCGG
97822392 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:97825529 original size:40 final size:40
Alignment explanation
Indices: 97825460--97825625 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
97825450 AACCCAAGTA
* *
97825460 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
97825499 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
97825539 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
97825579 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
97825619 CCTTCGG
1 CCTTCGG
97825626 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 105 0.89
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:97827085 original size:14 final size:14
Alignment explanation
Indices: 97827063--97827105 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
97827053 TTTCATTTTG
97827063 TAACATAAAATTAT
1 TAACATAAAATTAT
*
97827077 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
97827090 TAACACAAAATAAT
1 TAACATAAAATTAT
97827104 TA
1 TA
97827106 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:97827099 original size:13 final size:13
Alignment explanation
Indices: 97827063--97827101 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
97827053 TTTCATTTTG
97827063 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
97827077 TAGCATAAAATAT
1 TAACATAAAATAT
*
97827090 TAACACAAAATA
1 TAACATAAAATA
97827102 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:97839916 original size:37 final size:37
Alignment explanation
Indices: 97839866--97839955 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
97839856 ACTGAAAGTA
* * *
97839866 TGCTCAAATGAGCAATATCTAATGAATATATTGAATG
1 TGCTCAAAAGAGCAATATCCAATGAATATACTGAATG
* * *
97839903 TGCTCAAACGAGCAATATCCACTGAATATACTGATTG
1 TGCTCAAAAGAGCAATATCCAATGAATATACTGAATG
*
97839940 AGCTCAAAAGAGCAAT
1 TGCTCAAAAGAGCAAT
97839956 GTTTATTGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (37 bp):
TGCTCAAAAGAGCAATATCCAATGAATATACTGAATG
Found at i:97842552 original size:42 final size:43
Alignment explanation
Indices: 97842441--97842576 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
97842431 AGCTCGTACA
* * ***
97842441 ATGCCAACATCTCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGAAGTGGTCTTACACAAAATCAAATATCG
*
97842484 ATGTC-ACTATCCCAGATAG-GGTCTTACACAAAATCAAATAT-G
1 ATGCCAAC-ATCCCAGA-AGTGGTCTTACACAAAATCAAATATCG
* * * *
97842526 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAACATCCCAGAAGTGGTCTTACAC-AAAATCA-AATATCG
97842570 ATGCCAA
1 ATGCCAA
97842577 TGTCCTAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.32
43 39 0.52
44 11 0.15
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGAAGTGGTCTTACACAAAATCAAATATCG
Found at i:97842561 original size:43 final size:43
Alignment explanation
Indices: 97842441--97842562 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
97842431 AGCTCGTACA
* * *
97842441 ATGCCAACATCTCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACATCCCAGAAGTGGTCTTACACGTAAATCAAATAT-G
* *
97842484 ATGTC-ACTATCCCAGATAG-GGTCTTACAC-AAAATCAAATATG
1 ATGCCAAC-ATCCCAGA-AGTGGTCTTACACGTAAATCAAATATG
* *
97842526 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA
1 ATGCCAACATCCCAGAAGTGGTCTTACACGTAAATCA
97842563 TAAGTCGATG
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.02
42 24 0.38
43 38 0.59
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGAAGTGGTCTTACACGTAAATCAAATATG
Found at i:97852600 original size:22 final size:22
Alignment explanation
Indices: 97852572--97852614 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
97852562 ATGAACTACT
97852572 AACATAAATATCACTAAATCGC
1 AACATAAATATCACTAAATCGC
97852594 AACATAAATATCACTAAATCG
1 AACATAAATATCACTAAATCG
97852615 AAAAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (22 bp):
AACATAAATATCACTAAATCGC
Found at i:97860147 original size:8 final size:8
Alignment explanation
Indices: 97860134--97860160 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
97860124 AAGCGGAAAA
97860134 AAACAAAG
1 AAACAAAG
97860142 AAACAAAG
1 AAACAAAG
97860150 AAACAAAG
1 AAACAAAG
97860158 AAA
1 AAA
97860161 GAACCAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.11, G:0.11, T:0.00
Consensus pattern (8 bp):
AAACAAAG
Found at i:97864527 original size:41 final size:41
Alignment explanation
Indices: 97864482--97864599 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
97864472 TGAAAGATAA
97864482 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
97864523 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
97864553 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
97864594 ATGTAG
1 ATGTAG
97864600 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:97864538 original size:71 final size:71
Alignment explanation
Indices: 97864450--97864613 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
97864440 GAGATGTATC
97864450 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
97864515 AGGACA
66 AGGACA
97864521 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
97864586 AGGACA
66 AGGACA
97864592 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
97864614 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:97872097 original size:41 final size:41
Alignment explanation
Indices: 97872052--97872169 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
97872042 TGAAAGATAA
97872052 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
97872093 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
97872123 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
97872164 ATGTAG
1 ATGTAG
97872170 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:97872108 original size:71 final size:71
Alignment explanation
Indices: 97872020--97872183 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
97872010 GAGATGTATC
97872020 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
97872085 AGGACA
66 AGGACA
97872091 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
97872156 AGGACA
66 AGGACA
97872162 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
97872184 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:97883292 original size:56 final size:56
Alignment explanation
Indices: 97883201--97883365 Score: 276
Period size: 56 Copynumber: 2.9 Consensus size: 56
97883191 TGTATGCTTT
* *
97883201 GATGATCACACAGAGCTACAGTAGTCCACAACATATGCGGAATACTACCAATCCTC
1 GATGCTCACACAGAGCTACGGTAGTCCACAACATATGCGGAATACTACCAATCCTC
* *
97883257 GATGCTCACACAGAGCTACGGTAGTCCCCAACATATGCGAAATACTACCAATCCTC
1 GATGCTCACACAGAGCTACGGTAGTCCACAACATATGCGGAATACTACCAATCCTC
* *
97883313 GATGCTCACACAGAGCTACGGTAGTCCACAACTTATGCAGAATACTACCAATC
1 GATGCTCACACAGAGCTACGGTAGTCCACAACATATGCGGAATACTACCAATC
97883366 ACTATACTCA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (56 bp):
GATGCTCACACAGAGCTACGGTAGTCCACAACATATGCGGAATACTACCAATCCTC
Found at i:97884253 original size:16 final size:16
Alignment explanation
Indices: 97884232--97884262 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
97884222 TTCCCTTTCC
97884232 TTTTTCTTTCTTTCTG
1 TTTTTCTTTCTTTCTG
97884248 TTTTTCTTTCTTTCT
1 TTTTTCTTTCTTTCT
97884263 TTCCCCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTCTTTCTTTCTG
Found at i:97884399 original size:29 final size:28
Alignment explanation
Indices: 97884323--97884399 Score: 70
Period size: 31 Copynumber: 2.6 Consensus size: 28
97884313 GTTTTACATT
97884323 TAATGATAAAA-ATATA-TTATAATATAA
1 TAAT-ATAAAATATATATTTATAATATAA
*
97884350 TAATATAATAATATTATTATTTATCAT-TAA
1 TAATATAA-AATA-TA-TATTTATAATATAA
97884380 GTAATAATAAAATATATATT
1 -TAAT-ATAAAATATATATT
97884400 AATTATGCCG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
26 4 0.10
27 6 0.14
28 1 0.02
29 6 0.14
30 7 0.17
31 14 0.33
32 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (28 bp):
TAATATAAAATATATATTTATAATATAA
Found at i:97884877 original size:12 final size:12
Alignment explanation
Indices: 97884862--97884904 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
97884852 TAGGTACAGT
97884862 TTCAGATTCAAA
1 TTCAGATTCAAA
97884874 TTCAGA-TCAAGA
1 TTCAGATTCAA-A
97884886 TTCAGATTCAAA
1 TTCAGATTCAAA
97884898 TTACAGA
1 TT-CAGA
97884905 AGTAGATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.14
12 16 0.57
13 8 0.29
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (12 bp):
TTCAGATTCAAA
Found at i:97885363 original size:17 final size:17
Alignment explanation
Indices: 97885338--97885385 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
97885328 CAAATTTATG
*
97885338 GGCCTACATGCCCATGT
1 GGCCCACATGCCCATGT
*
97885355 GGCCCACATACCCATGT
1 GGCCCACATGCCCATGT
97885372 GGCCCACATGCCCA
1 GGCCCACATGCCCA
97885386 GATTAGTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.21, C:0.42, G:0.21, T:0.17
Consensus pattern (17 bp):
GGCCCACATGCCCATGT
Found at i:97886307 original size:12 final size:12
Alignment explanation
Indices: 97886290--97886323 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
97886280 CCTAGACACA
97886290 TACCCGTGTGTC
1 TACCCGTGTGTC
97886302 TACCCGTGTGTC
1 TACCCGTGTGTC
*
97886314 TACCCATGTG
1 TACCCGTGTG
97886324 GACAACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.32
Consensus pattern (12 bp):
TACCCGTGTGTC
Found at i:97887377 original size:30 final size:29
Alignment explanation
Indices: 97887343--97887410 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
97887333 ATGAATCGGA
97887343 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
97887373 AGCTTTGGCACTAAGTGTGTGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
97887402 AGCTTTGGC
1 AGCTTTGGC
97887411 TACTTGAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:97894177 original size:16 final size:16
Alignment explanation
Indices: 97894156--97894186 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
97894146 TTTAATACCT
97894156 TTAGCTACTAGAACTA
1 TTAGCTACTAGAACTA
97894172 TTAGCTACTAGAACT
1 TTAGCTACTAGAACT
97894187 CAACTTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
TTAGCTACTAGAACTA
Found at i:97900245 original size:88 final size:89
Alignment explanation
Indices: 97900087--97900254 Score: 223
Period size: 88 Copynumber: 1.9 Consensus size: 89
97900077 TTATGAGAGC
* * * *
97900087 TAGTATAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGTGCTAGTGTTAGATATATTT
1 TAGTATAAGACCATGTCTGGGACATGGCATCGACATCGAGACAAGAGCTAGTGTAAGATATATCT
*
97900152 GGGACAT-GCATCGAGATGATAGT
66 AGGACATGGCATCGAGATGATAGT
* * * * *
97900175 TAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-GAGATATGAGCTAGTGTAAGACTGTGTC
1 TAGTATAAGACCATGTCTGGGACATGGCATCGACATCGAGACAAGAGCTAGTGTAAGA-TATATC
97900239 TAGGACATGGCATCGA
65 TAGGACATGGCATCGA
97900255 AACCTTACCC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 17 0.25
88 44 0.65
89 7 0.10
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (89 bp):
TAGTATAAGACCATGTCTGGGACATGGCATCGACATCGAGACAAGAGCTAGTGTAAGATATATCT
AGGACATGGCATCGAGATGATAGT
Found at i:97908244 original size:13 final size:13
Alignment explanation
Indices: 97908223--97908263 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
97908213 GCTTGGCAGA
*
97908223 GACACGCCCGTGT
1 GACATGCCCGTGT
97908236 GACATGCCCGTGT
1 GACATGCCCGTGT
97908249 GACATGCCCGTGT
1 GACATGCCCGTGT
97908262 GA
1 GA
97908264 ATCGTGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:97917848 original size:79 final size:81
Alignment explanation
Indices: 97917747--97917931 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
97917737 ACGACTCGCT
** * *
97917747 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
97917810 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
97917827 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
97917891 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
97917907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
97917932 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:97917931 original size:40 final size:39
Alignment explanation
Indices: 97917740--97917931 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
97917730 GGATATAACG
* ** * *
97917740 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
97917780 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
97917820 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
97917859 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
97917899 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
97917932 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:97925904 original size:79 final size:82
Alignment explanation
Indices: 97925788--97925972 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
97925778 ACGACTCGCT
** * *
97925788 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
97925851 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
97925868 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
97925931 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
97925948 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
97925973 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:97925972 original size:40 final size:39
Alignment explanation
Indices: 97925781--97925972 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
97925771 GGATATAACG
* ** * *
97925781 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
97925821 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
97925861 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
97925900 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
97925940 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
97925973 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:97929112 original size:47 final size:46
Alignment explanation
Indices: 97929002--97929172 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
97928992 GTTAATGTGG
* *
97929002 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACAAGACGAGA
* * *
97929048 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATCGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACCA-CAAGACGAGA
* *** * *
97929096 GCTAGTGTAAGACATGTATAGGG-CATGCATTGGCCTCAAGAC-ATAA
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCAACCACAAGACGA-GA
* *
97929142 GCCAGTGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
97929173 GGCTACAAGA
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
45 3 0.03
46 45 0.45
47 27 0.27
48 26 0.26
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACAAGACGAGA
Found at i:97933452 original size:46 final size:47
Alignment explanation
Indices: 97933308--97933518 Score: 175
Period size: 46 Copynumber: 4.5 Consensus size: 47
97933298 ATTGTGGGCT
* * ** * *
97933308 AGTGTAAGACATGTTTAGGACATGCATCAGCC-ACATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACGAGAGCC
* * * *
97933354 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GTATCGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTA-CAAGACGAGAGCC
97933402 AGTGTAAGACATGTCTGGGACATGCATCAGCCTA-AAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACG-AGAGCC
* ** * * *
97933448 AGTGTAAGACATGTTTGGGACATGCATC-GGTTACGAGATG-GTAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACGAG-AGCC
97933494 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
97933519 GCATTGACAT
Statistics
Matches: 135, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
45 3 0.02
46 64 0.47
47 44 0.33
48 24 0.18
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACGAGAGCC
Found at i:97933545 original size:47 final size:48
Alignment explanation
Indices: 97933349--97933566 Score: 132
Period size: 47 Copynumber: 4.6 Consensus size: 48
97933339 CACATTATGA
* ** * *
97933349 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGA-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACATAGAGA-TAT
* * * * **
97933397 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCA-TCAGCCTAAAGACGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGA-CATAGAGATAT
* * * * ** *
97933443 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCG-GTTACGAGAT-G
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACATA-GAGATAT
97933488 GTAG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGACAT-GAGATAT
1 G-AGCT-AGTGTAAGACCATGTCTGGGACATGGCATTGACATAGAGATAT
* * *
97933536 GAGCTAGTGTAAGACCGTGTCTAGGATATGG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGG
97933567 ATCGGCACCT
Statistics
Matches: 128, Mismatches: 31, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
45 2 0.02
46 48 0.38
47 57 0.45
48 20 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACATAGAGATAT
Found at i:97933545 original size:93 final size:93
Alignment explanation
Indices: 97933305--97933550 Score: 222
Period size: 94 Copynumber: 2.6 Consensus size: 93
97933295 GTTATTGTGG
* * * *
97933305 GCTAGTGTAAGACATGTTTAGGACATGCATCAGCCACATTATG--A-GAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATAAAGACATGAGCTAGTGTAAGA-CAT
97933367 GTCTGGGACATGGCATCGGTATCGAGACGAGT
62 GTCTGGGACATGGCATCGGTATCGAGACGAGT
* * * * *
97933399 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAAAGACGTAAGCCAGTGTAAGACATGTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATAAAGACATGAGCTAGTGTAAGACATGTCT
*
97933464 GGGACAT-GCATCGGT-TACGAGATG-GT
66 GGGACATGGCATCGGTAT-CGAGACGAGT
* * *
97933490 AG-TCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACAT-GAGATATGAGCTAGTGTAAGAC
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CATAAAGACATGAGCTAGTGTAAGAC
97933551 CGTGTCTAGG
Statistics
Matches: 126, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
91 8 0.06
92 24 0.19
93 45 0.36
94 49 0.39
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATAAAGACATGAGCTAGTGTAAGACATGTCT
GGGACATGGCATCGGTATCGAGACGAGT
Found at i:97941050 original size:41 final size:40
Alignment explanation
Indices: 97940942--97941106 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
97940932 CGAGATTCAA
* * * *
97940942 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
97940982 CCGGATTTGGTGACTTGCACAATTGCCTTCGGGTCTTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTC-TTAGC
* *
97941023 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
97941063 CCGGATATAATCACTAGCATAAATGCCTTCAGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
97941103 CCGG
1 CCGG
97941107 GTATCATTCA
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
40 70 0.69
41 32 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:97941090 original size:81 final size:80
Alignment explanation
Indices: 97940942--97941106 Score: 188
Period size: 81 Copynumber: 2.0 Consensus size: 80
97940932 CGAGATTCAA
* * ** * * *
97940942 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTGACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
* *
97941007 CCTTCGGGTCTTTAGC
66 CCTTCAGGAC-TTAGC
** * *
97941023 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAAT
97941087 GCCTTCAGGACTTAGC
65 GCCTTCAGGACTTAGC
97941103 CCGG
1 CCGG
97941107 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
80 9 0.13
81 59 0.84
82 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACTAGCACAAATG
CCTTCAGGACTTAGC
Found at i:97944265 original size:12 final size:12
Alignment explanation
Indices: 97944235--97944264 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
97944225 TTATTAAAAC
97944235 TACTTTTATTTT
1 TACTTTTATTTT
97944247 TACTTTTATTTT
1 TACTTTTATTTT
97944259 TA-TTTT
1 TACTTTT
97944265 TTAGCAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TACTTTTATTTT
Found at i:97950606 original size:14 final size:15
Alignment explanation
Indices: 97950587--97950643 Score: 75
Period size: 14 Copynumber: 4.0 Consensus size: 15
97950577 TTTTTCTTTT
97950587 TTCTTC-TTCTCTTC
1 TTCTTCTTTCTCTTC
*
97950601 TTCTTCTTT-TTTTC
1 TTCTTCTTTCTCTTC
*
97950615 TTCTCCTTTCTCTTC
1 TTCTTCTTTCTCTTC
97950630 TT-TTCTTTCTCTTC
1 TTCTTCTTTCTCTTC
97950644 CGGTGTGTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 29 0.78
15 8 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTCTTCTTTCTCTTC
Found at i:97950609 original size:24 final size:22
Alignment explanation
Indices: 97950580--97950633 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 22
97950570 ATTACTTTTT
*
97950580 TTCTTTTTTCTTCTTCTCTTCTTC
1 TTCTTTTTTCTTCTCCT-TTC-TC
97950604 TTCTTTTTTTCTTCTCCTTTCTC
1 TTC-TTTTTTCTTCTCCTTTCTC
97950627 TTCTTTT
1 TTCTTTT
97950634 CTTTCTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 4 0.14
23 5 0.18
24 6 0.21
25 13 0.46
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTCTTTTTTCTTCTCCTTTCTC
Found at i:97957306 original size:27 final size:27
Alignment explanation
Indices: 97957268--97957323 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
97957258 CCATTTCTTT
97957268 ACTTAATGAAAGAATTTTAATAAGCTA
1 ACTTAATGAAAGAATTTTAATAAGCTA
97957295 ACTTAATGAAAGAATTTTAATAAGCTA
1 ACTTAATGAAAGAATTTTAATAAGCTA
97957322 AC
1 AC
97957324 ACATTCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (27 bp):
ACTTAATGAAAGAATTTTAATAAGCTA
Found at i:97958175 original size:43 final size:42
Alignment explanation
Indices: 97958105--97958249 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 42
97958095 ATATCGTACA
* * * **
97958105 ATGCCAACGTCCTAGAC-GTGGTATTACATGTAATCACACGTCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATG-AATCACAAATCG
* * * *
97958148 ATGCCACTGTCGCAGACAGGGTCTTACACGAATCACAATTACG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAATCACAAAT-CG
* *
97958191 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACAT-G-AATCACAAATCG
*
97958234 ATGCCAATGTCTCAGA
1 ATGCCAATGTCCCAGA
97958250 ATTTCTCAGT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 8 0.10
43 66 0.80
44 9 0.11
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAATCACAAATCG
Found at i:97962332 original size:40 final size:40
Alignment explanation
Indices: 97962247--97962397 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
97962237 AATTGAATGA
* * *
97962247 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
97962287 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
97962328 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
97962367 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
97962398 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:97962411 original size:40 final size:40
Alignment explanation
Indices: 97962283--97962413 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
97962273 TATGCTGGAA
* * *
97962283 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
97962323 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
97962363 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
97962403 ATTATATCCGG
1 ATTATATCCGG
97962414 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:97977473 original size:40 final size:39
Alignment explanation
Indices: 97977390--97977581 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 39
97977380 TTGAATGATG
* * * * *
97977390 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
*
97977430 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
97977470 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
97977509 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** *
97977550 -CCGGGCTTTGTCCCGAAGGCATTCGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
97977582 CGTTATATCC
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.26
40 87 0.67
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:97977530 original size:79 final size:81
Alignment explanation
Indices: 97977390--97977581 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 81
97977380 TTGAATGATG
* * *
97977390 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
97977454 CGTGCGAGTTAATA-AA
65 CGTGCGAGTTAATATAA
* **
97977470 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
97977533 CGTGCGAGTTACTATAA
65 CGTGCGAGTTAATATAA
** * *
97977550 -CCGGGCTTTGTCCCGAAGGCATTCGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
97977582 CGTTATATCC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.59
80 39 0.40
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:97977605 original size:79 final size:78
Alignment explanation
Indices: 97977390--97977607 Score: 199
Period size: 79 Copynumber: 2.7 Consensus size: 78
97977380 TTGAATGATG
* * * *
97977390 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTCGAGC-GAGTCACTATATCCGGA-TAA-ATTCCGAAGGCAT
97977453 TCGTGCGAGTTAATAAA
62 TCGTGCGAGTTAATAAA
* * * * * * * *
97977470 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTCGAGCGAGTCACTATATCC-GGATAAATTCCGAAGGCATTCG
*
97977535 TGCGAGTTACTATAA
65 TGCGAGTTAATA-AA
** **
97977550 -CCGGGCTTTGTCCCGAAGGCATTCGAGCGAGTCGTTATATCCGGATAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTCGAGCGAGTCACTATATCCGGATAAATTCCGAAGG
97977608 TACGTGATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
79 67 0.59
80 46 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTCGAGCGAGTCACTATATCCGGATAAATTCCGAAGGCATTCGT
GCGAGTTAATAAA
Found at i:97983416 original size:43 final size:42
Alignment explanation
Indices: 97983285--97983420 Score: 114
Period size: 43 Copynumber: 3.2 Consensus size: 42
97983275 ATATCGTACA
* * * * *
97983285 ATGCCAACGCCCCAGACGTGGTCTTACAT-GTAATCACATGTGG
1 ATGCCAATGTCCCAGACATGGTCTTAC-TCG-AATCACATATCG
* ** * *
97983328 ATGCCACTGTCGTAGACAGGGTCTTACACGAATCACA-ATTACG
1 ATGCCAATGTCCCAGACATGGTCTTACTCGAATCACATA-T-CG
*
97983371 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATAACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACTCG-AATCACATATCG
97983414 ATGCCAA
1 ATGCCAA
97983421 CATCCTAGAC
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
42 8 0.11
43 56 0.78
44 7 0.10
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACTCGAATCACATATCG
Found at i:97984602 original size:14 final size:15
Alignment explanation
Indices: 97984585--97984613 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
97984575 GCACAAAAAT
97984585 TTCACACAT-ATAAA
1 TTCACACATAATAAA
97984599 TTCACACATAATAAA
1 TTCACACATAATAAA
97984614 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:97988178 original size:44 final size:44
Alignment explanation
Indices: 97988124--97988208 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
97988114 ATTTCATTAG
* * *
97988124 AATTGACCTTATTA-CTAA-TCTAAATCGAGTTTAAGTACATCAAA
1 AATTAACCTTATTATC-AATTC-AAATCGAATTCAAGTACATCAAA
97988168 AATTAACCTTATTATCAATTCAAATCGAATTCAAGTACATC
1 AATTAACCTTATTATCAATTCAAATCGAATTCAAGTACATC
97988209 GAGAAGGGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (44 bp):
AATTAACCTTATTATCAATTCAAATCGAATTCAAGTACATCAAA
Found at i:97990561 original size:7 final size:8
Alignment explanation
Indices: 97990543--97990576 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
97990533 TAAAACATTC
97990543 TTTTATAT
1 TTTTATAT
97990551 TTTTATAT
1 TTTTATAT
97990559 TTTTATAT
1 TTTTATAT
97990567 TTTT-TAT
1 TTTTATAT
97990574 TTT
1 TTT
97990577 AAGTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTATAT
Found at i:97991032 original size:2 final size:2
Alignment explanation
Indices: 97991025--97991050 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97991015 AACTCGCATA
97991025 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
97991051 TTATTGGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97996486 original size:49 final size:49
Alignment explanation
Indices: 97996409--97996504 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
97996399 ATATAGGTGA
* * * *
97996409 CATGACATATTAAGAGTTGCAACATAACAGACTA-TTCAGATACAGATGG
1 CATGACATATTAAGAGATGCAAAATAACAAAC-AGATCAGATACAGATGG
* *
97996458 CATGGCATATTAAGTGATGCAAAATAACAAACAGATCAGATACAGAT
1 CATGACATATTAAGAGATGCAAAATAACAAACAGATCAGATACAGAT
97996505 CCTACCCCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.03
49 39 0.98
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (49 bp):
CATGACATATTAAGAGATGCAAAATAACAAACAGATCAGATACAGATGG
Found at i:98002068 original size:24 final size:24
Alignment explanation
Indices: 98002025--98002115 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 24
98002015 AGCTCCTCTG
*
98002025 AGCTGATAAATAGTAAGCTCTATTA
1 AGCTGA-AAACAGTAAGCTCTATTA
*
98002050 AGCTGAAAACAGTAAGCTCT-TTCG
1 AGCTGAAAACAGTAAGCTCTATT-A
* * * *
98002074 AGCTG-AATCGGTAAGCTCCAATA
1 AGCTGAAAACAGTAAGCTCTATTA
*
98002097 AGCT-AAAGCAGTAAGCTCT
1 AGCTGAAAACAGTAAGCTCT
98002116 TTTGAGCTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
23 28 0.53
24 19 0.36
25 6 0.11
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCTATTA
Found at i:98002123 original size:23 final size:23
Alignment explanation
Indices: 98002036--98002124 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
98002026 GCTGATAAAT
98002036 AGTAAGCTCTATTAAGCTGAAAAC
1 AGTAAGCTCTATTAAGCT-AAAAC
* * *
98002060 AGTAAGCTCT-TTCGAGCTGAATC
1 AGTAAGCTCTATT-AAGCTAAAAC
* * * *
98002083 GGTAAGCTCCAATAAGCTAAAGC
1 AGTAAGCTCTATTAAGCTAAAAC
* *
98002106 AGTAAGCTCTTTTGAGCTA
1 AGTAAGCTCTATTAAGCTA
98002125 TGGTGAGTCC
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
23 34 0.69
24 15 0.31
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTATTAAGCTAAAAC
Found at i:98005307 original size:26 final size:26
Alignment explanation
Indices: 98005271--98005321 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
98005261 AACTAACATA
* *
98005271 GAATCAAAAATCATGATTTATAGATG
1 GAATAAAAAATCATAATTTATAGATG
98005297 GAATAAAAAATCATAATTTATAGAT
1 GAATAAAAAATCATAATTTATAGAT
98005322 CAATCTGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (26 bp):
GAATAAAAAATCATAATTTATAGATG
Found at i:98007940 original size:26 final size:26
Alignment explanation
Indices: 98007911--98007961 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
98007901 ACATGGGATA
98007911 TAAGAAATTAACATCAAAATATAAAT
1 TAAGAAATTAACATCAAAATATAAAT
* *
98007937 TAAGAAATTAACATTAGAATATAAA
1 TAAGAAATTAACATCAAAATATAAA
98007962 ACAAATCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (26 bp):
TAAGAAATTAACATCAAAATATAAAT
Found at i:98008347 original size:50 final size:52
Alignment explanation
Indices: 98008270--98008374 Score: 178
Period size: 50 Copynumber: 2.1 Consensus size: 52
98008260 CAAATATAAA
* *
98008270 AAAATTATATATACAAATATAATTCATTTATAAAAGAATAAGCGTTAGTATG
1 AAAATTATATATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
98008322 AAAATT-T-TATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
1 AAAATTATATATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
98008372 AAA
1 AAA
98008375 TAAACCTGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 44 0.86
51 1 0.02
52 6 0.12
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (52 bp):
AAAATTATATATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
Found at i:98014751 original size:27 final size:27
Alignment explanation
Indices: 98014732--98014904 Score: 249
Period size: 27 Copynumber: 6.4 Consensus size: 27
98014722 ATTACCAAAG
*
98014732 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
98014759 CACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
98014786 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
98014813 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
98014840 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
98014867 TACCCT-TAGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAGAATTACCATTT
98014894 TACCCTCGATT
1 TACCCTCGATT
98014905 ATGAAATTAC
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:98014822 original size:81 final size:81
Alignment explanation
Indices: 98014732--98014904 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
98014722 ATTACCAAAG
98014732 TACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGA-T
1 TACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCT-GAGT
* *
98014796 TTATAGAATTACCATTT
65 TTACAAAATTACCATTT
* * *
98014813 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTAGTT
1 TACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTGAGTT
98014878 TACAAAATTACCATTT
66 TACAAAATTACCATTT
98014894 TACCCTCGATT
1 TACCCTCGATT
98014905 ATGAAATTAC
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 85 0.99
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTGAGTT
TACAAAATTACCATTT
Found at i:98014923 original size:26 final size:26
Alignment explanation
Indices: 98014718--98015057 Score: 130
Period size: 27 Copynumber: 12.7 Consensus size: 26
98014708 CCTCAATTTG
*
98014718 TAAAATTACCAAAGTACCCTCGATT-
1 TAAAATTACCAAAATACCCTCGATTA
***
98014743 TACAGAATTACC-GTTTCACCCTCGATTTA
1 TA-A-AATTACCAAAAT-ACCCTCGA-TTA
* ***
98014772 CAAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGA-TTA
* ***
98014799 TAGAATTACCATTTTACCCTCGATT-
1 TAAAATTACCAAAATACCCTCGATTA
*****
98014824 TACAGAATTACTGTTTTACCCTCGATTTA
1 TA-A-AATTACCAAAATACCCTCGA-TTA
* *** * *
98014853 CAAAATTACCATTTTACCCTTAGTTTA
1 TAAAATTACCAAAATACCC-TCGATTA
* ***
98014880 CAAAATTACCATTTTACCCTCGATTA
1 TAAAATTACCAAAATACCCTCGATTA
* * * *
98014906 TGAAATTACTAAAATA-CCTCCAGTTG
1 TAAAATTACCAAAATACCCTCGA-TTA
* * *
98014932 TAAAATTACCAAAGTACCCTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTA
* * *
98014958 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGA-TTA
* * * *
98014985 TAAAATTACCGACATACCCTCAGTTTG
1 TAAAATTACCAAAATACCCTC-GATTA
* ** *
98015012 CAAAATTACTGAAATACCCTCGATCAA
1 TAAAATTACCAAAATACCCTCGAT-TA
98015039 TAAAATTACCAAAATACCC
1 TAAAATTACCAAAATACCC
98015058 CTGCAGGGTA
Statistics
Matches: 248, Mismatches: 51, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
25 9 0.04
26 56 0.23
27 169 0.68
28 12 0.05
29 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTCGATTA
Found at i:98014950 original size:52 final size:53
Alignment explanation
Indices: 98014894--98014994 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 53
98014884 ATTACCATTT
* *
98014894 TACCCTCGATTATGAAATTACTAAAATA-CCTCCAGTTGTAAAATTACCAAAG
1 TACCCTCGATTATAAAATTACCAAAATATCCTCCAGTTGTAAAATTACCAAAG
* * * * *
98014946 TACCCTGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACC
1 TACCCTCGATTATAAAATTACCAAAATATCCTCCAGTTGTAAAATTACC
98014995 GACATACCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 23 0.56
53 18 0.44
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (53 bp):
TACCCTCGATTATAAAATTACCAAAATATCCTCCAGTTGTAAAATTACCAAAG
Found at i:98015072 original size:27 final size:27
Alignment explanation
Indices: 98015042--98015352 Score: 356
Period size: 27 Copynumber: 11.3 Consensus size: 27
98015032 CGATCAATAA
* *
98015042 AATTACCAAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
98015069 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
98015096 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
98015123 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
98015150 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
98015177 AAATACAGAAATACAGAAATACCCCTGTAGGGTAG
1 -AAT-------TACCGAAATACCCCTGTAGGGTAG
* * *
98015212 AATTATCGCAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
98015239 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
98015266 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
98015293 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
98015320 AATTACC-AAGATA-CCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
98015346 AATTACC
1 AATTACC
98015353 ATTTTGCCCT
Statistics
Matches: 247, Mismatches: 28, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
26 18 0.07
27 200 0.81
28 3 0.01
34 3 0.01
35 23 0.09
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:98015073 original size:54 final size:53
Alignment explanation
Indices: 98015015--98015190 Score: 167
Period size: 54 Copynumber: 3.3 Consensus size: 53
98015005 CAGTTTGCAA
*
98015015 AATTACTGAAATACCCTCGATCA-ATAAAATTACCAAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCTCG-T-AGATAAAATTACCAAAATACCCCTGCAGGGTAG
* * * * *
98015069 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTCGTA-GATAAAATTACCAAAATACCCCTGCAGGGTAG
* * * * * *
98015123 AATTATCGCAATACCC-CTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTC-GTA-GATAAAATTACCAAAATACCCCTGCAGGGTAG
* *
98015177 AAATACAGAAATAC
1 AATTACCGAAATAC
98015191 AGAAATACCC
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 104 0.98
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (53 bp):
AATTACCGAAATACCCTCGTAGATAAAATTACCAAAATACCCCTGCAGGGTAG
Found at i:98015237 original size:143 final size:143
Alignment explanation
Indices: 98015050--98015317 Score: 421
Period size: 143 Copynumber: 1.9 Consensus size: 143
98015040 AAAATTACCA
* *
98015050 AAATACCCCTGCAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
1 AAATACCCCTGCAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCCTG
** * * *
98015115 TAGGGTAGAATTA-TCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
66 TAGGGTAGAATTACT-AAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAA
98015179 ATACAGAAATACAG
130 ATACAGAAATACAG
* * *
98015193 AAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGAAATACCCCTG
1 AAATACCCCTGCAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCCTG
*
98015258 TAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACTAAAATACCCCTGTAGGGT
66 TAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGT
98015318 GGAATTACCA
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
143 112 0.99
144 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (143 bp):
AAATACCCCTGCAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCCTG
TAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAAA
TACAGAAATACAG
Found at i:98015279 original size:89 final size:89
Alignment explanation
Indices: 98015094--98015267 Score: 321
Period size: 89 Copynumber: 2.0 Consensus size: 89
98015084 CTTGTAGGGT
* * *
98015094 AGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGA
98015159 AATACCCCTGTAGGGTAGAAATAC
66 AATACCCCTGTAGGGTAGAAATAC
98015183 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGA
98015248 AATACCCCTGTAGGGTAGAA
66 AATACCCCTGTAGGGTAGAA
98015268 TTACTAAAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (89 bp):
AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGA
AATACCCCTGTAGGGTAGAAATAC
Found at i:98015306 original size:116 final size:116
Alignment explanation
Indices: 98015067--98015294 Score: 348
Period size: 116 Copynumber: 2.0 Consensus size: 116
98015057 CCTGCAGGGT
* * * * * *
98015067 AGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGC
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGA
* * *
98015132 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATAC
66 AATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAAATAC
* *
98015183 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGA
*
98015248 AATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 AATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAA
98015295 TTACTAAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (116 bp):
AGAAATACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGA
AATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAAATAC
Found at i:98015830 original size:22 final size:23
Alignment explanation
Indices: 98015778--98015839 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
98015768 TTAAAGCCTT
*
98015778 CTGATTATGGCTTTGTG-TCAAC
1 CTGATTATGGCTCTGTGCTCAAC
*
98015800 CT-ACATATGGCTCTGTGCT-AAC
1 CTGA-TTATGGCTCTGTGCTCAAC
*
98015822 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
98015840 CAAAAGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (23 bp):
CTGATTATGGCTCTGTGCTCAAC
Found at i:98016030 original size:27 final size:27
Alignment explanation
Indices: 98016000--98016101 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
98015990 ATTCTGTTAA
* *
98016000 GTGGCTTTGCCACATTATATGTTTCTG
1 GTGGCTCTGCCACAATATATGTTTCTG
* *
98016027 GTGGCTATGCCACAA-ATATCTGTTCTG
1 GTGGCTCTGCCACAATATATGT-TTCTG
* *
98016054 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATATGTTTCTG
* *
98016081 GTGACTCTGTCACAATATATG
1 GTGGCTCTGCCACAATATATG
98016102 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.86
28 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATATGTTTCTG
Found at i:98016267 original size:6 final size:6
Alignment explanation
Indices: 98016258--98016383 Score: 143
Period size: 6 Copynumber: 20.8 Consensus size: 6
98016248 CTGTCACGTA
* *
98016258 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
98016306 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
98016355 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
98016384 CATTTTGGTT
Statistics
Matches: 103, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
5 7 0.07
6 88 0.85
7 7 0.07
8 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:98016297 original size:30 final size:30
Alignment explanation
Indices: 98016233--98016383 Score: 165
Period size: 30 Copynumber: 5.2 Consensus size: 30
98016223 TTGCATTCAC
* *
98016233 ATTCTGGTTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
98016264 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
98016294 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
98016318 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
98016349 ATTCTGATTCTG-TTACTGATT-CTGATTCTG
1 ATTCTGATTCTGATT-CTG-TTACTAATTCTG
98016379 ATTCT
1 ATTCT
98016384 CATTTTGGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 19
0.81 0.05 0.15
Matches are distributed among these distances:
24 21 0.20
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 40 0.38
31 38 0.36
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Done.