Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 64 of 91
Found at i:23141874 original size:31 final size:31
Alignment explanation
Indices: 23141825--23141903 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
23141815 GATATTGATA
* * *
23141825 CATGGTGTGTCACGACATTTGAC-TTGATATG
1 CATGGAGTGTAACAACATTTGACGTT-ATATG
* * * *
23141856 CATGGCGTGTTACAACATTTTACGTTATTTG
1 CATGGAGTGTAACAACATTTGACGTTATATG
23141887 CATGGAGTGTAACAACA
1 CATGGAGTGTAACAACA
23141904 CCACTAACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 38 0.95
32 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (31 bp):
CATGGAGTGTAACAACATTTGACGTTATATG
Found at i:23145427 original size:31 final size:31
Alignment explanation
Indices: 23145374--23145681 Score: 332
Period size: 31 Copynumber: 10.0 Consensus size: 31
23145364 AATAAGGAAT
* *
23145374 AAATG-TGAGACATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
23145404 AAATGTTGTGACACGCCGTGCATATCAAATA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
23145435 AAATATTGTAACACGCCATTCATAACAAGAA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
***
23145466 AAATGAAATGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
23145497 AAATGTTGTGACACGCCATGCATAACAAGATA
1 AAATGTTGTGACACGCCATGCATAACAAG-TA
* * * * *
23145529 AACT-TGGTGACACGCCAAGGATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
23145559 AAATATTCTGACACGTCATGCATAATAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
23145590 AAAGGTTGTGACACGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
** *
23145621 AAACATTGTGACACGCCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
23145652 AATTGTTCTGACCCGCCATGCATAACAAGT
1 AAATGTTGTGACACGCCATGCATAACAAGT
23145682 TCTGGTGTGT
Statistics
Matches: 224, Mismatches: 51, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
30 9 0.04
31 210 0.94
32 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:23146364 original size:14 final size:15
Alignment explanation
Indices: 23146345--23146405 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
23146335 TATATCTATT
*
23146345 TACAATGAAT-TGTA
1 TACAATAAATGTGTA
23146359 TACAATAAATTGTGTA
1 TACAATAAA-TGTGTA
*
23146375 TACAAAAAATGTGTA
1 TACAATAAATGTGTA
* *
23146390 TAAAATGAAT-TGTA
1 TACAATAAATGTGTA
23146404 TA
1 TA
23146406 AAAAAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 14 0.35
15 14 0.35
16 12 0.30
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (15 bp):
TACAATAAATGTGTA
Found at i:23146376 original size:16 final size:16
Alignment explanation
Indices: 23146355--23146402 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
23146345 TACAATGAAT
23146355 TGTATACAATAAATTG
1 TGTATACAATAAATTG
*
23146371 TGTATACAA-AAAATG
1 TGTATACAATAAATTG
* *
23146386 TGTATAAAATGAATTG
1 TGTATACAATAAATTG
23146402 T
1 T
23146403 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (16 bp):
TGTATACAATAAATTG
Found at i:23146406 original size:14 final size:15
Alignment explanation
Indices: 23146355--23146412 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
23146345 TACAATGAAT
*
23146355 TGTATACAATAAATTG
1 TGTATAAAATAAA-TG
23146371 TGTATACAAA-AAATG
1 TGTATA-AAATAAATG
*
23146386 TGTATAAAATGAAT-
1 TGTATAAAATAAATG
23146400 TGTATAAAA-AAAT
1 TGTATAAAATAAAT
23146413 TTATGTGTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 11 0.30
16 9 0.24
17 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (15 bp):
TGTATAAAATAAATG
Found at i:23147915 original size:31 final size:31
Alignment explanation
Indices: 23147888--23148217 Score: 288
Period size: 31 Copynumber: 10.6 Consensus size: 31
23147878 CCCATAAACT
*
23147888 GTAAAATGTTGTGACACGCCATGCATAACAA
1 GTAAAATGTGGTGACACGCCATGCATAACAA
* * * *
23147919 GATAAACT-TGGTGACACGCCAAGGATAACGA
1 G-TAAAATGTGGTGACACGCCATGCATAACAA
* * *
23147950 GGAAAATGTCGTGACACGCCATGCAAAACAA
1 GTAAAATGTGGTGACACGCCATGCATAACAA
* * *
23147981 TTAAAATGTTGTGACACGCCATGTATAACAA
1 GTAAAATGTGGTGACACGCCATGCATAACAA
* * *
23148012 GATAAACT-TGGTGACACGCCAAGGATAACAA
1 G-TAAAATGTGGTGACACGCCATGCATAACAA
* * *
23148043 GCAAAATGTTGTGACACGCCATGCAAAACAA
1 GTAAAATGTGGTGACACGCCATGCATAACAA
* *
23148074 TTAAAATGTGGTGACACGCCGTGCATAACAA
1 GTAAAATGTGGTGACACGCCATGCATAACAA
* * * *
23148105 GCTAAACT-TGGTGACACGTCAAGGATAACAA
1 G-TAAAATGTGGTGACACGCCATGCATAACAA
* ** *
23148136 GCAAAATGTTCTGACACGCCATGCATACCAAA
1 GTAAAATGTGGTGACACGCCATGCATAAC-AA
* * * * * *
23148168 ATCAAACGTTGTGACATGCCATGAATAACAA
1 GTAAAATGTGGTGACACGCCATGCATAACAA
* *
23148199 GTAACATGTTGTGACACGC
1 GTAAAATGTGGTGACACGC
23148218 TAAAGCTGAC
Statistics
Matches: 232, Mismatches: 60, Indels: 14
0.76 0.20 0.05
Matches are distributed among these distances:
30 12 0.05
31 182 0.78
32 38 0.16
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (31 bp):
GTAAAATGTGGTGACACGCCATGCATAACAA
Found at i:23148049 original size:93 final size:93
Alignment explanation
Indices: 23147889--23148199 Score: 462
Period size: 93 Copynumber: 3.3 Consensus size: 93
23147879 CCATAAACTG
* *
23147889 TAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACGAGGAA
1 TAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGCAA
23147954 AATGTCGTGACACGCCATGCAAAACAAT
66 AATGTCGTGACACGCCATGCAAAACAAT
*
23147982 TAAAATGTTGTGACACGCCATGTATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGCAA
1 TAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGCAA
*
23148047 AATGTTGTGACACGCCATGCAAAACAAT
66 AATGTCGTGACACGCCATGCAAAACAAT
* * * *
23148075 TAAAATGTGGTGACACGCCGTGCATAACAAGCTAAACTTGGTGACACGTCAAGGATAACAAGCAA
1 TAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGCAA
* * *
23148140 AATGTTC-TGACACGCCATGCATACCAAAA
66 AATG-TCGTGACACGCCATGCAAAAC-AAT
* * * *
23148169 TCAAACGTTGTGACATGCCATGAATAACAAG
1 TAAAATGTTGTGACACGCCATGCATAACAAG
23148200 TAACATGTTG
Statistics
Matches: 197, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
93 169 0.86
94 28 0.14
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (93 bp):
TAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGCAA
AATGTCGTGACACGCCATGCAAAACAAT
Found at i:23148586 original size:25 final size:25
Alignment explanation
Indices: 23148552--23148601 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23148542 GCTCCATCAT
23148552 TGATTGTTCTTGATTGGGTCAACTA
1 TGATTGTTCTTGATTGGGTCAACTA
23148577 TGATTGTTCTTGATTGGGTCAACTA
1 TGATTGTTCTTGATTGGGTCAACTA
23148602 CAATAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (25 bp):
TGATTGTTCTTGATTGGGTCAACTA
Found at i:23148885 original size:150 final size:153
Alignment explanation
Indices: 23148597--23148926 Score: 409
Period size: 150 Copynumber: 2.2 Consensus size: 153
23148587 TGATTGGGTC
* * * *
23148597 AACTACAATAACATATATAACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
1 AACTGCAATTACATATATAACTGTATTATTCAATAATCATGTAT---ATTGTTGAACATTAACCG
* *
23148662 TTACAACTTTAATATCTTTACCACCGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTG
63 TTACAACTTTAATATCCTTACCACCGGCTCCTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTG
* **
23148727 CTTTAGGACCTATTGTCGCTT-TCATA
128 CTTGAGGACCTATCCTCGCTTCT-ATA
23148753 AACTGCAATTACATATATAACTGTATTATTCAATAATCAT-T-T-TTGTTGAACATTAACCGTTA
1 AACTGCAATTACATATATAACTGTATTATTCAATAATCATGTATATTGTTGAACATTAACCGTTA
* ** * ** *
23148815 CAACTTTAATATCCTTACCGCCGGCTCCTTAGTTGTCTGCGATTGG-GTTGGACTGATCGGTGCT
66 CAACTTTAATATCCTTACCACCGGCTCCTTAGCAGTCTGCG-GTGGAGCCGGACCGATCGGTGCT
*
23148879 TGAGGACCTGTCCTCGCTTCTATA
130 TGAGGACCTATCCTCGCTTCTATA
* *
23148903 AACTGCAATTACATAAATTACTGT
1 AACTGCAATTACATATATAACTGT
23148927 GTTACTCGAT
Statistics
Matches: 153, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
150 110 0.72
151 4 0.03
154 1 0.01
155 1 0.01
156 37 0.24
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (153 bp):
AACTGCAATTACATATATAACTGTATTATTCAATAATCATGTATATTGTTGAACATTAACCGTTA
CAACTTTAATATCCTTACCACCGGCTCCTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTGCTT
GAGGACCTATCCTCGCTTCTATA
Found at i:23150599 original size:31 final size:31
Alignment explanation
Indices: 23150564--23150858 Score: 338
Period size: 31 Copynumber: 9.5 Consensus size: 31
23150554 AATAAGGAAT
* * *
23150564 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * * *
23150595 AAATGTTATGACACGCCATGCATAACAAGTT
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * * * *
23150626 AAACGTTGTGACATGCTATGCATATCAAGTT
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
23150657 AAAGGTTATGACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
23150688 AAATGCTATCAAATGCCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* *
23150719 AAATGCTGTCAAACGCCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
23150750 AAATTCAGTGACACGACATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
23150781 AAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
23150812 AAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
23150843 AAATGCTGTCACACGC
1 AAATGCTGTCACACGC
23150859 TAATAACTAA
Statistics
Matches: 234, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 234 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (31 bp):
AAATGCTGTCACACGCCATGCATATCAAGTA
Found at i:23150857 original size:93 final size:93
Alignment explanation
Indices: 23150564--23150858 Score: 374
Period size: 93 Copynumber: 3.2 Consensus size: 93
23150554 AATAAGGAAT
* * * * *
23150564 AAATGTTGTGACACGCCATGCATAACAAGTAAAATGTTATGACACGCCATGCATAACAAGTTAAA
1 AAATGCTGTGACACGCCATGCATATCAAGTAAAATGCTATCACACGCCATGCATAACAAGTAAAA
* * * * * *
23150629 CGTTGTGACATGCTATGCATATCAAGTT
66 TGCTGTCACACGCCATGCATATCAAGTA
* * * * *
23150657 AAAGGTTATGACACGCCATGCATATCAAGTAAAATGCTATCAAATGCCATGCATAACAAGTAAAA
1 AAATGCTGTGACACGCCATGCATATCAAGTAAAATGCTATCACACGCCATGCATAACAAGTAAAA
* *
23150722 TGCTGTCAAACGCCATGCATAACAAGTA
66 TGCTGTCACACGCCATGCATATCAAGTA
* * * * *
23150750 AAATTCAGTGACACGACATGCATATCAAGTAAAATGCTGTCACACGCCATGCATATCAAGTAAAA
1 AAATGCTGTGACACGCCATGCATATCAAGTAAAATGCTATCACACGCCATGCATAACAAGTAAAA
23150815 TGCTGTCACACGCCATGCATATCAAGTA
66 TGCTGTCACACGCCATGCATATCAAGTA
*
23150843 AAATGCTGTCACACGC
1 AAATGCTGTGACACGC
23150859 TAATAACTAA
Statistics
Matches: 170, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 170 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (93 bp):
AAATGCTGTGACACGCCATGCATATCAAGTAAAATGCTATCACACGCCATGCATAACAAGTAAAA
TGCTGTCACACGCCATGCATATCAAGTA
Found at i:23151508 original size:47 final size:47
Alignment explanation
Indices: 23151435--23151736 Score: 353
Period size: 47 Copynumber: 6.4 Consensus size: 47
23151425 CTAAACATGA
*
23151435 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * **
23151482 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTAACAGATTCAAT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * * * *
23151529 CCGTGGCGTCTCACCAACCCTGAACGT-TGGCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAAC-TCTAGCGTGTCACAGATTCCCT
* * * *
23151576 CCATGCCGTGTCACCAACTCTTAA-TCTGGCGTGTCACAAATTTCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* * *
23151622 CCATGGCGTCTCACCAACT-TTGAACGT-T-GCCGTGTCACACATTCCCA
1 CCATGGCGTGTCACCAACTCTT-AAC-TCTAG-CGTGTCACAGATTCCCT
*
23151669 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
* *
23151716 CCATGGTGTCTCACCAACTCT
1 CCATGGCGTGTCACCAACTCT
23151737 GAGCGGTGCC
Statistics
Matches: 214, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.01
46 39 0.18
47 167 0.78
48 5 0.02
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTTAACTCTAGCGTGTCACAGATTCCCT
Found at i:23151628 original size:23 final size:23
Alignment explanation
Indices: 23151556--23151635 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
23151546 CCCTGAACGT
* *
23151556 TGGCGTGTCACAGATTCCCTCCA
1 TGGCGTGTCACAAATTTCCTCCA
* * **
23151579 TGCCGTGTCACCAACTCTTAAT-C-
1 TGGCGTGTCA-CAAAT-TTCCTCCA
23151602 TGGCGTGTCACAAATTTCCTCCA
1 TGGCGTGTCACAAATTTCCTCCA
*
23151625 TGGCGTCTCAC
1 TGGCGTGTCAC
23151636 CAACTTTGAA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
21 3 0.07
22 5 0.12
23 28 0.67
24 4 0.10
25 2 0.05
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.29
Consensus pattern (23 bp):
TGGCGTGTCACAAATTTCCTCCA
Found at i:23151707 original size:140 final size:141
Alignment explanation
Indices: 23151435--23151738 Score: 359
Period size: 140 Copynumber: 2.2 Consensus size: 141
23151425 CTAAACATGA
* *
23151435 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAAC
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
* * * *
23151500 TCTTAACTCTAGCGTCTAACAGATTCAATCCGTGGCGTCTCACCAACCCTGAACGTTGGCGTGTC
66 TCTTAACTCTAGCGTCTAACACATTCAATCCATGGCGTCTCACCAACCCTGAACGTTAGCGTCTC
23151565 ACAGATTCCCT
131 ACAGATTCCCT
* * * *
23151576 CCATGCCGTGTCACCAACTCTTAA-TCTGGCGTGTCACAAATTTCCTCCATGGCGTCTCACCAAC
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
* * * * * *
23151640 T-TTGAACGT-T-GCCGTGTCACACATTCCCA-CCATGGCGTGTCACCAACTCTTAAC-TCTAGC
66 TCTT-AAC-TCTAG-CGTCTAACACATT-CAATCCATGGCGTCTCACCAACCCTGAACGT-TAGC
23151700 GTCTCACAGATTCCCT
126 GTCTCACAGATTCCCT
* *
23151716 CCATGGTGTCTCACCAACTCTGA
1 CCATGGCGTGTCACCAACTCTGA
23151739 GCGGTGCCGT
Statistics
Matches: 138, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
139 4 0.03
140 109 0.79
141 25 0.18
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (141 bp):
CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
TCTTAACTCTAGCGTCTAACACATTCAATCCATGGCGTCTCACCAACCCTGAACGTTAGCGTCTC
ACAGATTCCCT
Found at i:23151762 original size:94 final size:94
Alignment explanation
Indices: 23151435--23151785 Score: 440
Period size: 94 Copynumber: 3.8 Consensus size: 94
23151425 CTAAACATGA
* * *
23151435 CCATGGCGTGTCACCAACTCTGAAC-TCTAG-CGTGTCACAGATTCCCTCCATGGCGTGTCACCA
1 CCATGGCGTCTCACCAACTCTGAACGT-T-GCCGTGTCACACATTCCCACCATGGCGTGTCACCA
* **
23151498 ACTCTTAACTCTAGCGTCTAACAGATTCAAT
64 ACTCTTAACTCTAGCGTCTCACAGATTCCCT
* * * * * *
23151529 CCGTGGCGTCTCACCAACCCTGAACGTTGGCGTGTCACAGATTCCCTCCATGCCGTGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGTTGCCGTGTCACACATTCCCACCATGGCGTGTCACCAAC
* * * *
23151594 TCTTAA-TCTGGCGTGTCACAAATTTCCT
66 TCTTAACTCTAGCGTCTCACAGATTCCCT
*
23151622 CCATGGCGTCTCACCAACTTTGAACGTTGCCGTGTCACACATTCCCACCATGGCGTGTCACCAAC
1 CCATGGCGTCTCACCAACTCTGAACGTTGCCGTGTCACACATTCCCACCATGGCGTGTCACCAAC
23151687 TCTTAACTCTAGCGTCTCACAGATTCCCT
66 TCTTAACTCTAGCGTCTCACAGATTCCCT
* * * * * * *
23151716 CCATGGTGTCTCACCAACTCTGAGCGGTGCCGTGTCACACATTCCCAACATGACGTTTCACAAAC
1 CCATGGCGTCTCACCAACTCTGAACGTTGCCGTGTCACACATTCCCACCATGGCGTGTCACCAAC
23151781 T-TTAA
66 TCTTAA
23151786 ACCCTGCCCT
Statistics
Matches: 224, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
93 84 0.38
94 139 0.62
95 1 0.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (94 bp):
CCATGGCGTCTCACCAACTCTGAACGTTGCCGTGTCACACATTCCCACCATGGCGTGTCACCAAC
TCTTAACTCTAGCGTCTCACAGATTCCCT
Found at i:23156861 original size:8 final size:8
Alignment explanation
Indices: 23156845--23156887 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
23156835 AGATGGCTAG
23156845 AAAAAAAT
1 AAAAAAAT
*
23156853 AAAATAAT
1 AAAAAAAT
*
23156861 AAAAAATT
1 AAAAAAAT
*
23156869 AAAAAGAT
1 AAAAAAAT
23156877 AAATAAAAT
1 AAA-AAAAT
23156886 AA
1 AA
23156888 TTATATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAAAT
Found at i:23178028 original size:12 final size:13
Alignment explanation
Indices: 23178006--23178034 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23177996 TTTATGTGAA
23178006 ATTTGAATATTTT
1 ATTTGAATATTTT
23178019 ATTT-AATATTTT
1 ATTTGAATATTTT
23178031 ATTT
1 ATTT
23178035 TATTATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
ATTTGAATATTTT
Found at i:23179857 original size:24 final size:23
Alignment explanation
Indices: 23179803--23179863 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
23179793 TGTTATAATT
23179803 CTTTTTTT-TAAAATAAAAATAA
1 CTTTTTTTATAAAATAAAAATAA
* *
23179825 ATTTTTTTATAATAATAAAAGTAA
1 CTTTTTTTATAA-AATAAAAATAA
*
23179849 CTTTTTTTAAAAAAT
1 CTTTTTTTATAAAAT
23179864 TATTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 7 0.21
23 6 0.18
24 20 0.61
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (23 bp):
CTTTTTTTATAAAATAAAAATAA
Found at i:23181147 original size:20 final size:19
Alignment explanation
Indices: 23181118--23181158 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
23181108 CTCTAAATAC
23181118 TTTTTTTTATAGTTGTTCT
1 TTTTTTTTATAGTTGTTCT
23181137 TTTTCTTTTATAGTTGTTCT
1 TTTT-TTTTATAGTTGTTCT
23181157 TT
1 TT
23181159 CAGTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (19 bp):
TTTTTTTTATAGTTGTTCT
Found at i:23181167 original size:19 final size:19
Alignment explanation
Indices: 23181123--23181167 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
23181113 AATACTTTTT
*
23181123 TTTATAGTTGTTCTTTTTCT
1 TTTATAGTTGTTC-TTTTCG
23181143 TTTATAGTTGTTC-TTTCAG
1 TTTATAGTTGTTCTTTTC-G
23181162 TTTATA
1 TTTATA
23181168 TTTCAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 6 0.26
20 13 0.57
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTATAGTTGTTCTTTTCG
Found at i:23183145 original size:34 final size:34
Alignment explanation
Indices: 23183102--23183169 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23183092 GAACCAGCCC
23183102 ACTGCAGCAAGCTAAACCCACCATACAATAAAAA
1 ACTGCAGCAAGCTAAACCCACCATACAATAAAAA
23183136 ACTGCAGCAAGCTAAACCCACCATACAATAAAAA
1 ACTGCAGCAAGCTAAACCCACCATACAATAAAAA
23183170 TTCAACAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.29, G:0.09, T:0.12
Consensus pattern (34 bp):
ACTGCAGCAAGCTAAACCCACCATACAATAAAAA
Found at i:23190083 original size:40 final size:40
Alignment explanation
Indices: 23190037--23190238 Score: 210
Period size: 40 Copynumber: 5.0 Consensus size: 40
23190027 AAAGATCTTA
* * *
23190037 AACATAAACTTAAATAACTAAAAACAAAGATCCATACAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAT
* * *
23190077 GACATAAACTTAAATAACTATACACAAA-ATCCAAATAAT
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAT
*
23190116 AACATAAATTTAAATAACTAAACACAAAGATCCAAACAAAT
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAAC-AAT
* * * * * *
23190157 AACATAAACTTAAATATCCAAACACATATATCAAAACAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAT
* *
23190197 AACAATATAAACTTAAATAACTACAA-ATAAATATCCAAACAA
1 AAC---ATAAACTTAAATAACTA-AACACAAAGATCCAAACAA
23190239 CTAGTTAAAC
Statistics
Matches: 134, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
39 33 0.25
40 37 0.28
41 34 0.25
43 28 0.21
44 2 0.01
ACGTcount: A:0.59, C:0.19, G:0.01, T:0.20
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAT
Found at i:23190170 original size:41 final size:41
Alignment explanation
Indices: 23190037--23190238 Score: 205
Period size: 41 Copynumber: 5.0 Consensus size: 41
23190027 AAAGATCTTA
* *
23190037 AACATAAACTTAAATAACTAAAAACAAAGATCCATAC-AAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
* * * *
23190077 GACATAAACTTAAATAACTATACACAAA-ATCCAAA-TAAT
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
* *
23190116 AACATAAATTTAAATAACTAAACACAAAGATCCAAACAAAT
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
* * * * *
23190157 AACATAAACTTAAATATCCAAACACATATATCAAAACAACAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAAC-A-AAC
* * *
23190200 AATATAAACTTAAATAACTACAA-ATAAATATCCAAACAA
1 AACATAAACTTAAATAACTA-AACACAAAGATCCAAACAA
23190239 CTAGTTAAAC
Statistics
Matches: 134, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.25
40 32 0.24
41 35 0.26
42 2 0.01
43 30 0.22
44 2 0.01
ACGTcount: A:0.59, C:0.19, G:0.01, T:0.20
Consensus pattern (41 bp):
AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
Found at i:23190175 original size:27 final size:26
Alignment explanation
Indices: 23190127--23190180 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
23190117 ACATAAATTT
23190127 AAATAACTAAACACAAAGATCCAAAC
1 AAATAACTAAACACAAAGATCCAAAC
** *
23190153 AAATAACATAAACTTAAATATCCAAAC
1 AAATAAC-TAAACACAAAGATCCAAAC
23190180 A
1 A
23190181 CATATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.17
Consensus pattern (26 bp):
AAATAACTAAACACAAAGATCCAAAC
Found at i:23196793 original size:13 final size:13
Alignment explanation
Indices: 23196775--23196799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23196765 GGAGAAATTG
23196775 TGATTTTATAAAA
1 TGATTTTATAAAA
23196788 TGATTTTATAAA
1 TGATTTTATAAA
23196800 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:23198482 original size:29 final size:29
Alignment explanation
Indices: 23198449--23198506 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
23198439 TACTTGTTGT
23198449 GAACTTGACCTTACATATACTAACGATTA
1 GAACTTGACCTTACATATACTAACGATTA
23198478 GAACTTGACCTTACATATACTAACGATTA
1 GAACTTGACCTTACATATACTAACGATTA
23198507 AAAGAGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (29 bp):
GAACTTGACCTTACATATACTAACGATTA
Found at i:23199354 original size:15 final size:15
Alignment explanation
Indices: 23199314--23199355 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23199304 GTTGGTAGTG
*
23199314 GCTGGGGAAGAAGGA
1 GCTGGGGAAGAAAGA
*
23199329 GC-GGCGAAGAAAGA
1 GCTGGGGAAGAAAGA
23199343 GCTGGGGAAGAAA
1 GCTGGGGAAGAAA
23199356 AAAAAGAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.38, C:0.10, G:0.48, T:0.05
Consensus pattern (15 bp):
GCTGGGGAAGAAAGA
Found at i:23199621 original size:32 final size:30
Alignment explanation
Indices: 23199580--23199653 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
23199570 AATATATTAT
23199580 TATTATTATTATTAAATTATAAAAATCAATAA
1 TATTATTATTATTAAA--ATAAAAATCAATAA
* * * *
23199612 TATTATTATTTTTAGAATAAAAATTAATAT
1 TATTATTATTATTAAAATAAAAATCAATAA
23199642 TATT-TTATTATT
1 TATTATTATTATT
23199654 TAATAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.19
30 16 0.43
32 14 0.38
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTATTATTATTAAAATAAAAATCAATAA
Found at i:23199808 original size:15 final size:17
Alignment explanation
Indices: 23199788--23199820 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23199778 ATTCTAATTA
23199788 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
23199803 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
23199820 A
1 A
23199821 ACAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:23199854 original size:17 final size:16
Alignment explanation
Indices: 23199831--23199874 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23199821 ACAAAAAATA
23199831 AAAAGTAAATATATATT
1 AAAAGT-AATATATATT
*
23199848 TAAAGT-ATATATATT
1 AAAAGTAATATATATT
*
23199863 AAAAGTATTATA
1 AAAAGTAATATA
23199875 GTGTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 14 0.61
16 4 0.17
17 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (16 bp):
AAAAGTAATATATATT
Found at i:23199859 original size:15 final size:15
Alignment explanation
Indices: 23199839--23199874 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23199829 TAAAAAGTAA
*
23199839 ATATATATTTAAAGT
1 ATATATATTAAAAGT
23199854 ATATATATTAAAAGT
1 ATATATATTAAAAGT
23199869 AT-TATA
1 ATATATA
23199875 GTGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
ATATATATTAAAAGT
Found at i:23203284 original size:15 final size:15
Alignment explanation
Indices: 23203264--23203301 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23203254 TATATATATA
23203264 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
23203279 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
23203295 TTATAAT
1 TTATAAT
23203302 GTTAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:23203359 original size:15 final size:15
Alignment explanation
Indices: 23203327--23203355 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23203317 AAAGTAAATA
23203327 TATATATATTTAAAG
1 TATATATATTTAAAG
23203342 TATATATA-TTAAAG
1 TATATATATTTAAAG
23203356 GTATTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
TATATATATTTAAAG
Found at i:23213313 original size:13 final size:13
Alignment explanation
Indices: 23213295--23213319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23213285 TTTCAGAAAA
23213295 TTTATAAAATCAT
1 TTTATAAAATCAT
23213308 TTTATAAAATCA
1 TTTATAAAATCA
23213320 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23213979 original size:19 final size:19
Alignment explanation
Indices: 23213952--23213989 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23213942 CCATTTGACT
23213952 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
23213971 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
23213990 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:23214654 original size:2 final size:2
Alignment explanation
Indices: 23214647--23214679 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23214637 TGTGTTGTTT
*
23214647 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23214680 GATTTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:23214662 original size:12 final size:12
Alignment explanation
Indices: 23214645--23214684 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
23214635 AATGTGTTGT
23214645 TTTATATATATA
1 TTTATATATATA
23214657 TTTATATATATA
1 TTTATATATATA
*
23214669 TATATATATATGA
1 TTTATATATAT-A
23214682 TTT
1 TTT
23214685 GAAACAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TTTATATATATA
Found at i:23221058 original size:42 final size:42
Alignment explanation
Indices: 23221012--23221234 Score: 215
Period size: 42 Copynumber: 5.2 Consensus size: 42
23221002 ATAGTTCATG
*
23221012 TAATATAAATTAATTTTACATTTATTAGTTTACAAGTTCAAC
1 TAATATAAATTAATTTTATATTTATTAGTTTACAAGTTCAAC
* * * *
23221054 TAATATAAA--ACTTTTATATATT-TAAATTTACATCATAGTTCAAG
1 TAATATAAATTAATTTTATAT-TTATTAGTTT--A-CA-AGTTCAAC
*
23221098 TAATATAAATTAATTTTATATTTATTAGTTTACTAGTTCAAC
1 TAATATAAATTAATTTTATATTTATTAGTTTACAAGTTCAAC
* *
23221140 TAATATAAA--AATTTTATATATT-TTAGTTTGCATCATAGTTCTAG
1 TAATATAAATTAATTTTATAT-TTATTAGTTT--A-CA-AGTTCAAC
* * *
23221184 TAATATAAATTAAATTTACATTAATTAGTTTACAAGTTCAAC
1 TAATATAAATTAATTTTATATTTATTAGTTTACAAGTTCAAC
23221226 TAATATAAA
1 TAATATAAA
23221235 AATTTTGGGT
Statistics
Matches: 147, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
40 30 0.20
41 4 0.03
42 42 0.29
43 6 0.04
44 33 0.22
45 3 0.02
46 29 0.20
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (42 bp):
TAATATAAATTAATTTTATATTTATTAGTTTACAAGTTCAAC
Found at i:23221104 original size:44 final size:43
Alignment explanation
Indices: 23220989--23221240 Score: 204
Period size: 42 Copynumber: 5.9 Consensus size: 43
23220979 TGACATGTTA
** *
23220989 TTTAGTTTGCATCATAGTTCATGTAATATAAATTAATTTTACAT-T
1 TTTAGTTT-CATCATAGTTCAACTAATATAAA--AATTTTATATAT
*
23221034 TATTAGTTT-A-CA-AGTTCAACTAATATAAAACTTTTATATAT
1 T-TTAGTTTCATCATAGTTCAACTAATATAAAAATTTTATATAT
* * *
23221075 TTAAATTTACATCATAGTTCAAGTAATATAAATTAATTTTATAT-T
1 TTTAGTTT-CATCATAGTTCAACTAATATAAA--AATTTTATATAT
23221120 TATTAGTTT-A-C-TAGTTCAACTAATATAAAAATTTTATATAT
1 T-TTAGTTTCATCATAGTTCAACTAATATAAAAATTTTATATAT
* * * *
23221161 TTTAGTTTGCATCATAGTTCTAGTAATATAAATTAAATTTACAT-T
1 TTTAGTTT-CATCATAGTTCAACTAATATAAA--AATTTTATATAT
*
23221206 AATTAGTTT-A-CA-AGTTCAACTAATATAAAAATTTT
1 -TTTAGTTTCATCATAGTTCAACTAATATAAAAATTTT
23221241 GGGTCTATTT
Statistics
Matches: 171, Mismatches: 19, Indels: 39
0.75 0.08 0.17
Matches are distributed among these distances:
40 35 0.20
41 4 0.02
42 49 0.29
43 8 0.05
44 35 0.20
45 4 0.02
46 36 0.21
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (43 bp):
TTTAGTTTCATCATAGTTCAACTAATATAAAAATTTTATATAT
Found at i:23221143 original size:86 final size:86
Alignment explanation
Indices: 23220998--23221240 Score: 396
Period size: 86 Copynumber: 2.8 Consensus size: 86
23220988 ATTTAGTTTG
*
23220998 CATCATAGTTCATGTAATATAAATTAATTTTACATTTATTAGTTTACAAGTTCAACTAATATAAA
1 CATCATAGTTCAAGTAATATAAATTAATTTTACATTTATTAGTTTACAAGTTCAACTAATATAAA
*
23221063 ACTTTTATATATTTAAATTTA
66 AATTTTATATATTTAAATTTA
* *
23221084 CATCATAGTTCAAGTAATATAAATTAATTTTATATTTATTAGTTTACTAGTTCAACTAATATAAA
1 CATCATAGTTCAAGTAATATAAATTAATTTTACATTTATTAGTTTACAAGTTCAACTAATATAAA
* * *
23221149 AATTTTATATATTTTAGTTTG
66 AATTTTATATATTTAAATTTA
* * *
23221170 CATCATAGTTCTAGTAATATAAATTAAATTTACATTAATTAGTTTACAAGTTCAACTAATATAAA
1 CATCATAGTTCAAGTAATATAAATTAATTTTACATTTATTAGTTTACAAGTTCAACTAATATAAA
23221235 AATTTT
66 AATTTT
23221241 GGGTCTATTT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 145 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (86 bp):
CATCATAGTTCAAGTAATATAAATTAATTTTACATTTATTAGTTTACAAGTTCAACTAATATAAA
AATTTTATATATTTAAATTTA
Found at i:23221515 original size:29 final size:29
Alignment explanation
Indices: 23221458--23221515 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
23221448 CAGAATAGGT
** **
23221458 TTGATGAATATTAATATTGCTTTTTAAAA
1 TTGATGAATATTAATATTGAATTAAAAAA
*
23221487 TTGATGAATATTAATATTTAATTAAAAAA
1 TTGATGAATATTAATATTGAATTAAAAAA
23221516 ATTAAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (29 bp):
TTGATGAATATTAATATTGAATTAAAAAA
Found at i:23222491 original size:27 final size:27
Alignment explanation
Indices: 23222453--23222504 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23222443 AGTAAAATCA
23222453 TTGAACATGGCATATAGAAATTTTTGG
1 TTGAACATGGCATATAGAAATTTTTGG
* *
23222480 TTGAAGATGGCATGTAGAAATTTTT
1 TTGAACATGGCATATAGAAATTTTT
23222505 TTTTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (27 bp):
TTGAACATGGCATATAGAAATTTTTGG
Found at i:23222667 original size:23 final size:23
Alignment explanation
Indices: 23222595--23222732 Score: 87
Period size: 23 Copynumber: 5.8 Consensus size: 23
23222585 ATTGTTATGC
* * *
23222595 ACATTGCGTGTAACATATTGTTA
1 ACATGGCGTGTAACATTTTGTCA
* * * * *
23222618 AAATGGCGTGTTAGATTTTTTTGA
1 ACATGGCGTGTAACA-TTTTGTCA
23222642 ACATGGCGTGTAACATTTTGTCA
1 ACATGGCGTGTAACATTTTGTCA
* * * * *
23222665 ACATGGCATGCAACTTTTATTTTTA
1 ACATGGCGTGTAAC-ATT-TTGTCA
* *
23222690 ACATGGTGTGTAACATATTGTCA
1 ACATGGCGTGTAACATTTTGTCA
* *
23222713 ATATGGTGTGTAACAATTTT
1 ACATGGCGTGTAAC-ATTTT
23222733 TTTTGAACAT
Statistics
Matches: 85, Mismatches: 26, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
23 46 0.54
24 24 0.28
25 15 0.18
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (23 bp):
ACATGGCGTGTAACATTTTGTCA
Found at i:23222736 original size:48 final size:47
Alignment explanation
Indices: 23222595--23222753 Score: 165
Period size: 48 Copynumber: 3.3 Consensus size: 47
23222585 ATTGTTATGC
* * * * *
23222595 ACATTGCGTGTAACATATTGTTAAAATGGCGTGTTAGATTTTTTTGA
1 ACATGGCGTGTAACATATTGTCAAAATGGCGTGTAACATTTTTTTTA
* * * * *
23222642 ACATGGCGTGTAACATTTTGTCAACATGGCATGCAACTTTTATTTTTA
1 ACATGGCGTGTAACATATTGTCAAAATGGCGTGTAACATTT-TTTTTA
* * *
23222690 ACATGGTGTGTAACATATTGTCAATATGGTGTGTAACAATTTTTTTTGA
1 ACATGGCGTGTAACATATTGTCAAAATGGCGTGTAAC-ATTTTTTTT-A
*
23222739 ACATGGCATGTAACA
1 ACATGGCGTGTAACA
23222754 ACATGTTTTC
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
47 32 0.36
48 41 0.46
49 17 0.19
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (47 bp):
ACATGGCGTGTAACATATTGTCAAAATGGCGTGTAACATTTTTTTTA
Found at i:23226112 original size:41 final size:41
Alignment explanation
Indices: 23226051--23226137 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
23226041 TATATGTCAT
* * *
23226051 TTACATGTTGTTACATGCCATTTCGTTTTACTCATACAATG
1 TTACATGTTCTTACAAGCCATTTCATTTTACTCATACAATG
* * **
23226092 TTACATTTTCTTACAAGCCATTTCATTTTAGTCATACCGTG
1 TTACATGTTCTTACAAGCCATTTCATTTTACTCATACAATG
23226133 TTACA
1 TTACA
23226138 CGGCATGGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (41 bp):
TTACATGTTCTTACAAGCCATTTCATTTTACTCATACAATG
Found at i:23226347 original size:30 final size:31
Alignment explanation
Indices: 23226308--23226374 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
23226298 TTACATATTC
*
23226308 TTGTAACATGCCATTTC-AAAAAGTCTTATA
1 TTGTTACATGCCATTTCAAAAAAGTCTTATA
23226338 TTGTTACATGCCATTTCAAAAAAGTCTTATA
1 TTGTTACATGCCATTTCAAAAAAGTCTTATA
23226369 TTGTTA
1 TTGTTA
23226375 TACACTAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (31 bp):
TTGTTACATGCCATTTCAAAAAAGTCTTATA
Found at i:23226364 original size:101 final size:101
Alignment explanation
Indices: 23226258--23226449 Score: 285
Period size: 101 Copynumber: 1.9 Consensus size: 101
23226248 CATTTTGTTG
* ** * **
23226258 AAGTCTTATATGGTTACACACCACGCTTGTTAGATATTGTTTACATATTCTTGTAACATGCCATT
1 AAGTCTTATATGGTTACACACCAAGCTTGTTAGATATCATTTACATATTCTTCTAACACACCATT
23226323 TCAAAAAGTCTTATATTGTTACATGCCATTTCAAAA
66 TCAAAAAGTCTTATATTGTTACATGCCATTTCAAAA
* * * *
23226359 AAGTCTTATATTGTTATACACTAAGCTTGTTAGATATCATTTACATATTCTTCTGACACACCATT
1 AAGTCTTATATGGTTACACACCAAGCTTGTTAGATATCATTTACATATTCTTCTAACACACCATT
*
23226424 TCAAAAAGTCTTATATTGTTGCATGC
66 TCAAAAAGTCTTATATTGTTACATGC
23226450 TAAGCTTGTT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 80 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (101 bp):
AAGTCTTATATGGTTACACACCAAGCTTGTTAGATATCATTTACATATTCTTCTAACACACCATT
TCAAAAAGTCTTATATTGTTACATGCCATTTCAAAA
Found at i:23226480 original size:171 final size:167
Alignment explanation
Indices: 23226171--23226482 Score: 358
Period size: 171 Copynumber: 1.8 Consensus size: 167
23226161 TAACATCTTC
** *
23226171 TTGTTACACACCATTTAAAAAAGTCTTATTTGTTATATGTCAAGCTTGTTAGATGTCATTTACAT
1 TTGTTACACACCATTTAAAAAAGTCTTATTTGTTATAACTCAAGCTTGTTAGATATCATTTACAT
** **** * **
23226236 CTTATGACATGCCATTTTGTTGAAGTCTTATATGGTTACACACCACGCTTGTTAGATATTGTTTA
66 CTTATGACACACCATTTTCAAAAAGTCTTATATGGTTACACACCAAGCTTGTTAGATATCATTTA
23226301 CATATTCTTGTAACATGCCATTTCAAAAAGTCTTATA
131 CATATTCTTGTAACATGCCATTTCAAAAAGTCTTATA
**
23226338 TTGTTACATGCCATTTCAAAAAAGTCTTATATTGTTATACACT-AAGCTTGTTAGATATCATTTA
1 TTGTTACACACCATTT-AAAAAAGTCTTAT-TTGTTATA-ACTCAAGCTTGTTAGATATCATTTA
* * * ** * *
23226402 CATATTCTTCTGACACACCA-TTTCAAAAAGTCTTATATTGTTGCATGCTAAGCTTGTTAGATGT
63 C--A-TCTTATGACACACCATTTTCAAAAAGTCTTATATGGTTACACACCAAGCTTGTTAGATAT
*
23226466 CATTTTCATATTCTTGT
125 CATTTACATATTCTTGT
23226483 GACACTCCAT
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
167 14 0.12
168 13 0.11
169 29 0.25
170 1 0.01
171 48 0.41
172 12 0.10
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (167 bp):
TTGTTACACACCATTTAAAAAAGTCTTATTTGTTATAACTCAAGCTTGTTAGATATCATTTACAT
CTTATGACACACCATTTTCAAAAAGTCTTATATGGTTACACACCAAGCTTGTTAGATATCATTTA
CATATTCTTGTAACATGCCATTTCAAAAAGTCTTATA
Found at i:23226552 original size:72 final size:71
Alignment explanation
Indices: 23226359--23226584 Score: 275
Period size: 70 Copynumber: 3.2 Consensus size: 71
23226349 CATTTCAAAA
* * * *
23226359 AAGTCTTATATTGTTATA-CACTAAGCTTGTTAGATATCATTTACATATTCTTCTGACACACCAT
1 AAGTCTTATATTGTTA-AGCGCTAAGCTTGTTAGATGTCATTTACATATTCTTGTGACACTCCAT
**
23226423 TTCA--AA
65 TT-AGTTG
*
23226429 AAGTCTTATATTGTT--GCATGCTAAGCTTGTTAGATGTCATTTTCATATTCTTGTGACACTCCA
1 AAGTCTTATATTGTTAAGC--GCTAAGCTTGTTAGATGTCATTTACATATTCTTGTGACACTCCA
23226492 TTTAGTTG
64 TTTAGTTG
* *
23226500 AAGTCTTATATTGTTAAGCGCTACAGCTTGTTAGATGTCGTTTACATCTTCTTGTGACA-TGCCA
1 AAGTCTTATATTGTTAAGCGCTA-AGCTTGTTAGATGTCATTTACATATTCTTGTGACACT-CCA
23226564 TTTAGTTG
64 TTTAGTTG
23226572 AAGTCTTATATTG
1 AAGTCTTATATTG
23226585 GTACACACCA
Statistics
Matches: 137, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
68 1 0.01
69 1 0.01
70 57 0.42
71 20 0.15
72 56 0.41
73 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (71 bp):
AAGTCTTATATTGTTAAGCGCTAAGCTTGTTAGATGTCATTTACATATTCTTGTGACACTCCATT
TAGTTG
Found at i:23226604 original size:72 final size:72
Alignment explanation
Indices: 23226454--23226622 Score: 209
Period size: 72 Copynumber: 2.3 Consensus size: 72
23226444 GCATGCTAAG
* * *
23226454 CTTGTTAGATGTCATTTTCATATTCTTGTGACACTCCATTTAGTTGAAGTCTTATATTGTTAAGC
1 CTTGTTAGATGTCATTTACATCTTCTTGTGACACTCCATTTAGTTGAAGTCTTATATTGGTAAGC
* * *
23226519 GCTACAG
66 ACCACAA
*
23226526 CTTGTTAGATGTCGTTTACATCTTCTTGTGACA-TGCCATTTAGTTGAAGTCTTATATTGGTACA
1 CTTGTTAGATGTCATTTACATCTTCTTGTGACACT-CCATTTAGTTGAAGTCTTATATTGGTA-A
*
23226590 -CACCATGAA
64 GCACCA-CAA
*
23226599 C-TGTTAGACGTCATTTACATCTTC
1 CTTGTTAGATGTCATTTACATCTTC
23226623 CTGTTCCTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 1 0.01
72 80 0.95
73 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (72 bp):
CTTGTTAGATGTCATTTACATCTTCTTGTGACACTCCATTTAGTTGAAGTCTTATATTGGTAAGC
ACCACAA
Found at i:23227889 original size:28 final size:28
Alignment explanation
Indices: 23227857--23227937 Score: 139
Period size: 28 Copynumber: 2.9 Consensus size: 28
23227847 TTTGGAGTAT
23227857 AGGGGTAAAATGATAATTTTGCCACCCC
1 AGGGGTAAAATGATAATTTTGCCACCCC
23227885 AGGGGTAAAATGATAATTTTGCCACCCC
1 AGGGGTAAAATGATAATTTTGCCACCCC
23227913 AGGGGTAAAATTG-TAATTTT-CCACC
1 AGGGGTAAAA-TGATAATTTTGCCACC
23227938 ACTAGGATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
27 5 0.10
28 45 0.87
29 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (28 bp):
AGGGGTAAAATGATAATTTTGCCACCCC
Found at i:23234350 original size:237 final size:237
Alignment explanation
Indices: 23233085--23234340 Score: 1618
Period size: 236 Copynumber: 5.3 Consensus size: 237
23233075 TGTAAGCTAA
* * * *
23233085 ACCTAAAAACAGTTAACCCA-T-AATGTGCAACACGTCAGATAGAAGAAATTTATTGTTGTTACA
1 ACCTAAAAACAGTTAACCCACTCAA--AGAAACACGCCAGATAGAAGAAATTTATTATTGTTACA
* * * **
23233148 CGCTATGCAGACCAAGTAAAATGTTGTTACACACCATGCCTATATGTTCTTACAT-GTTAAGTTT
64 CGCTATGCAAACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTAC-TCGCCAAGTTT
* * * * **
23233212 AATGATTTATTTGTTACACGTCATGAATAAAATACCCACGTTGTTACACGCTATGCCATGCCAAG
128 AATTACTTATTTGTTACACGCCATGAATGAAATACCCACGTTGTTACACGCTATGCCATGCTGAG
* * * *
23233277 TATGTAGTTTCCACACTACACGTCATATATGTAATGCTAAGATAC
193 TATGCAGTTTACACACTACACGCCATACATGTAATGCTAAGATAC
* * * * *
23233322 ACCTAAAAATAGTTAACCCACTCAAAGAAACACGCCAAAAAGAATAAATTTATTATTGTTACACA
1 ACCTAAAAACAGTTAACCCACTCAAAGAAACACGCCAGATAGAAGAAATTTATTATTGTTACACG
* * * *
23233387 CTATGCAAACCAAATAAAATATTATTACACGCCATGCCTATATGTTCTTACACGCCAAGTTTGAT
66 CTATGCAAACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTACTCGCCAAGTTTAAT
* * * * *
23233452 GACTTATTTGTTACACAG-TATGAATAAAATACCCACATTGTTACACGCTATGCCATTAC-GAGT
131 TACTTATTTGTTACAC-GCCATGAATGAAATACCCACGTTGTTACACGCTATGCCA-TGCTGAGT
* * *
23233515 ATGTAGTTCACACACTACATGCCATACATGTAATGCTAAGATAC
194 ATGCAGTTTACACACTACACGCCATACATGTAATGCTAAGATAC
* * *
23233559 ACC-AAAAATAGTTAACCCACTCGAAGAAACACGCAAGATAGAAGAAATTTATTATTGTTACACG
1 ACCTAAAAACAGTTAACCCACTCAAAGAAACACGCCAGATAGAAGAAATTTATTATTGTTACACG
** *
23233623 CTATGCAAACCAAATAAAATGTTGTTACATACCATGTCTATATGTTCTTACAT-GCCAAGTTTAA
66 CTATGCAAACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTAC-TCGCCAAGTTTAA
** * *
23233687 TTACTTATTTGTTACATACCATGAATGAAATGCCCACGTTGTTACATGCTATGCCATGCTGAGTA
130 TTACTTATTTGTTACACGCCATGAATGAAATACCCACGTTGTTACACGCTATGCCATGCTGAGTA
* *
23233752 TGCGGTTTACACACTACATGCCATACATGTAATGCTAAGATAC
195 TGCAGTTTACACACTACACGCCATACATGTAATGCTAAGATAC
** * * * *
23233795 ACC-AAAAACAGTTAACCCACTTGAAGAAACATGCAAGATAGAAAAAATTTATTGTTGTTACACG
1 ACCTAAAAACAGTTAACCCACTCAAAGAAACACGCCAGATAGAAGAAATTTATTATTGTTACACG
* * *
23233859 TTATGCAGACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTACACGCCAAGTTTAAT
66 CTATGCAAACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTACTCGCCAAGTTTAAT
* * ** *
23233924 TACTTATTTGTTACATGCCATGAATGAAATGCCCACGTTGTTACACATTAT---ATGTTGAGTAT
131 TACTTATTTGTTACACGCCATGAATGAAATACCCACGTTGTTACACGCTATGCCATGCTGAGTAT
* *
23233986 GC-GATTTACATACTACACGCCATACATGTAATGCTAAGCTAC
196 GCAG-TTTACACACTACACGCCATACATGTAATGCTAAGATAC
* ** * *
23234028 ACCCAAAAACAGTTAACCCACTTGAAGAAACACGCCAGATAGAAGAAATTTATTATTATTACACA
1 ACCTAAAAACAGTTAACCCACTCAAAGAAACACGCCAGATAGAAGAAATTTATTATTGTTACACG
* * * * * * *
23234093 CTATGCAGATCAAGTAAAATGATGTTATACGCCATGCCTATATGTTCTTACTCACCAAATTTAAT
66 CTATGCAAACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTACTCGCCAAGTTTAAT
23234158 TACTTATTTGTTACACGCCATGAATGAAATACCCACGTTGTTACACGCTATGCCATGCTGAGTAT
131 TACTTATTTGTTACACGCCATGAATGAAATACCCACGTTGTTACACGCTATGCCATGCTGAGTAT
*
23234223 GCAGTTTACACACTACACGCCATACATGTAATGCTAAGCTAC
196 GCAGTTTACACACTACACGCCATACATGTAATGCTAAGATAC
* * *** *
23234265 ACCTAAAAACAATTAACCCACTCAAATAAACACATTAGATAGAAGAAATTTATTGTTGTTACACG
1 ACCTAAAAACAGTTAACCCACTCAAAGAAACACGCCAGATAGAAGAAATTTATTATTGTTACACG
23234330 CTATGCAAACC
66 CTATGCAAACC
23234341 CTTTAAAATG
Statistics
Matches: 899, Mismatches: 105, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
232 1 0.00
233 50 0.06
234 159 0.18
235 2 0.00
236 367 0.41
237 313 0.35
238 5 0.01
239 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (237 bp):
ACCTAAAAACAGTTAACCCACTCAAAGAAACACGCCAGATAGAAGAAATTTATTATTGTTACACG
CTATGCAAACCAAATAAAATGTTGTTACACGCCATGCCTATATGTTCTTACTCGCCAAGTTTAAT
TACTTATTTGTTACACGCCATGAATGAAATACCCACGTTGTTACACGCTATGCCATGCTGAGTAT
GCAGTTTACACACTACACGCCATACATGTAATGCTAAGATAC
Found at i:23234442 original size:13 final size:14
Alignment explanation
Indices: 23234420--23234454 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
23234410 GCAACATAAT
23234420 AAACAAAAAACACA
1 AAACAAAAAACACA
23234434 AAA-AAAAAACACA
1 AAACAAAAAACACA
23234447 AAACAAAA
1 AAACAAAA
23234455 GAAAATTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACAAAAAACACA
Found at i:23246483 original size:20 final size:20
Alignment explanation
Indices: 23246458--23246495 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23246448 AAGTGAAAAA
23246458 TTTATTCAATAAAATAATAT
1 TTTATTCAATAAAATAATAT
*
23246478 TTTATTTAATAAAATAAT
1 TTTATTCAATAAAATAAT
23246496 GAAGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTATTCAATAAAATAATAT
Found at i:23247138 original size:23 final size:23
Alignment explanation
Indices: 23247112--23247208 Score: 158
Period size: 23 Copynumber: 4.2 Consensus size: 23
23247102 GTGCTGCCAA
23247112 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
* *
23247135 TTTGTGCAAAAAAATTGGAGTTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
23247158 TTTGCTGCAGAAAAATTGGAGCTA
1 TTTG-TGCAGAAAAATTGGAGCTG
23247182 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
23247205 TTTG
1 TTTG
23247209 CTACCAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 47 0.70
24 20 0.30
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (23 bp):
TTTGTGCAGAAAAATTGGAGCTG
Found at i:23247170 original size:47 final size:47
Alignment explanation
Indices: 23247112--23247210 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
23247102 GTGCTGCCAA
* *
23247112 TTTG-TGCAGAAAAATTGGAGCTGTTTGTGCAAAAAAATTGGAGTTG
1 TTTGCTGCAGAAAAATTGGAGCTATTTGTGCAAAAAAATTGGAGCTG
*
23247158 TTTGCTGCAGAAAAATTGGAGCTATTTGTGCAGAAAAATTGGAGCTG
1 TTTGCTGCAGAAAAATTGGAGCTATTTGTGCAAAAAAATTGGAGCTG
23247205 TTTGCT
1 TTTGCT
23247211 ACCAATTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 4 0.08
47 45 0.92
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.33
Consensus pattern (47 bp):
TTTGCTGCAGAAAAATTGGAGCTATTTGTGCAAAAAAATTGGAGCTG
Found at i:23247374 original size:22 final size:22
Alignment explanation
Indices: 23247346--23247393 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23247336 ACGGCCCAAG
* *
23247346 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAAGAAGACACGGTGGT
*
23247368 GAAGAGAAGAAGACATGGTGGT
1 GAAGAGAAGAAGACACGGTGGT
23247390 GAAG
1 GAAG
23247394 GGAGTGACGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.44, T:0.10
Consensus pattern (22 bp):
GAAGAGAAGAAGACACGGTGGT
Found at i:23247509 original size:25 final size:25
Alignment explanation
Indices: 23247449--23247537 Score: 124
Period size: 25 Copynumber: 3.4 Consensus size: 25
23247439 AGAAAAGAAG
23247449 TAGAAAATAAAAATGGGCATGACCCAAA
1 TAGAAAAT--AAATGGGCATGACCC-AA
*
23247477 TAGAAAATAAATGGGTATGACCCAA
1 TAGAAAATAAATGGGCATGACCCAA
* *
23247502 TAGAAAATAAGTGGGCATGGCCCAA
1 TAGAAAATAAATGGGCATGACCCAA
23247527 TAGAAAATAAA
1 TAGAAAATAAA
23247538 AATAAATAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
25 34 0.61
26 14 0.25
28 8 0.14
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (25 bp):
TAGAAAATAAATGGGCATGACCCAA
Found at i:23255104 original size:15 final size:15
Alignment explanation
Indices: 23255080--23255114 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
23255070 ATGACTACTT
23255080 TTTTTATTTTTTTG-
1 TTTTTATTTTTTTGC
23255094 TTTTTACTTTTTTTGC
1 TTTTTA-TTTTTTTGC
23255110 TTTTT
1 TTTTT
23255115 TTATGTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTTTTGC
Found at i:23258399 original size:2 final size:2
Alignment explanation
Indices: 23258392--23258425 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23258382 NNNNNNNNNN
23258392 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23258426 ACAAAGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23261954 original size:2 final size:2
Alignment explanation
Indices: 23261947--23261998 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
23261937 TGTCAGTTTC
* *
23261947 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA GA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23261988 TA TA TA TA TA T
1 TA TA TA TA TA T
23261999 TTGTTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23262950 original size:18 final size:18
Alignment explanation
Indices: 23262927--23262975 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
23262917 AACGTGTCAT
23262927 GTATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
23262945 GTATACACGTTTAAACAC
1 GTATACACGTTTAAACAC
* *
23262963 ATA-ACACGATTAA
1 GTATACACGTTTAA
23262976 GTAAACGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (18 bp):
GTATACACGTTTAAACAC
Found at i:23262992 original size:10 final size:10
Alignment explanation
Indices: 23262977--23263008 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
23262967 CACGATTAAG
23262977 TAAACGTGTT
1 TAAACGTGTT
23262987 TAAACGTGTTT
1 TAAACGTG-TT
23262998 TAAACGTGTT
1 TAAACGTGTT
23263008 T
1 T
23263009 GTCGTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (10 bp):
TAAACGTGTT
Found at i:23263001 original size:11 final size:11
Alignment explanation
Indices: 23262977--23263008 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
23262967 CACGATTAAG
23262977 TAAACGTG-TT
1 TAAACGTGTTT
23262987 TAAACGTGTTT
1 TAAACGTGTTT
23262998 TAAACGTGTTT
1 TAAACGTGTTT
23263009 GTCGTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (11 bp):
TAAACGTGTTT
Found at i:23271465 original size:17 final size:16
Alignment explanation
Indices: 23271405--23271465 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
23271395 CTTAATTTTT
23271405 AATTATAATTTTAAATA
1 AATTATAATTTT-AATA
23271422 AATTTATTAATTTTAA-A
1 AA-TTA-TAATTTTAATA
*
23271439 AATTGT--TTTTATATA
1 AATTATAATTTTA-ATA
23271454 AATTATAATTTT
1 AATTATAATTTT
23271466 TTATTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 5 0.14
14 1 0.03
15 7 0.19
16 2 0.06
17 9 0.25
18 5 0.14
19 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
AATTATAATTTTAATA
Found at i:23286041 original size:20 final size:20
Alignment explanation
Indices: 23286016--23286061 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
23286006 CTTTTAAACC
23286016 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
23286036 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
23286056 TCAAAT
1 TCAAAT
23286062 GGGGCCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:23287719 original size:30 final size:30
Alignment explanation
Indices: 23287675--23287741 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
23287665 TTGATCCTCT
*
23287675 TCATCATAATTTCTATGATCATTTTGAATC
1 TCATCATAATTTCTATGATAATTTTGAATC
* *
23287705 TCTTCATGATTTCTATGATAATTTTGAATC
1 TCATCATAATTTCTATGATAATTTTGAATC
23287735 TCATCAT
1 TCATCAT
23287742 TAACTTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.48
Consensus pattern (30 bp):
TCATCATAATTTCTATGATAATTTTGAATC
Found at i:23289921 original size:30 final size:28
Alignment explanation
Indices: 23289865--23289921 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
23289855 CTATGGGCAA
* *
23289865 TTTTCAGTTTTTTGGGCAAAAATGTAAT
1 TTTTCACTTTTTGGGGCAAAAATGTAAT
*
23289893 TTTTCACTTTTATGGGGACAAAAGTGTAA
1 TTTTCACTTTT-TGGGG-CAAAAATGTAA
23289922 ATTTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.42
29 4 0.17
30 10 0.42
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (28 bp):
TTTTCACTTTTTGGGGCAAAAATGTAAT
Found at i:23299433 original size:34 final size:34
Alignment explanation
Indices: 23299390--23299466 Score: 154
Period size: 34 Copynumber: 2.3 Consensus size: 34
23299380 TTTGTAGTTG
23299390 GATTCTCTTCCAATAGCTTCCAAATCAATGGAGT
1 GATTCTCTTCCAATAGCTTCCAAATCAATGGAGT
23299424 GATTCTCTTCCAATAGCTTCCAAATCAATGGAGT
1 GATTCTCTTCCAATAGCTTCCAAATCAATGGAGT
23299458 GATTCTCTT
1 GATTCTCTT
23299467 TTTCTCTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (34 bp):
GATTCTCTTCCAATAGCTTCCAAATCAATGGAGT
Found at i:23302787 original size:22 final size:22
Alignment explanation
Indices: 23302747--23302790 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23302737 TTTAAAACAA
*
23302747 CTTTAAAACTAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
**
23302769 CTTTAAAACCAAATGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
23302791 ACCAATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:23305651 original size:21 final size:21
Alignment explanation
Indices: 23305603--23305651 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
23305593 TTCTTAAAGT
23305603 AATTTAAAATAAAATAACATA
1 AATTTAAAATAAAATAACATA
* ** * *
23305624 AAATTAAGCTAAAATAGCTTA
1 AATTTAAAATAAAATAACATA
23305645 AATTTAA
1 AATTTAA
23305652 CTGATCAACA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (21 bp):
AATTTAAAATAAAATAACATA
Found at i:23311094 original size:28 final size:27
Alignment explanation
Indices: 23311058--23311110 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
23311048 ATATCCTGGT
*
23311058 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
23311085 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
23311111 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:23311178 original size:20 final size:20
Alignment explanation
Indices: 23311155--23311200 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
23311145 CTTCTAAACC
23311155 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
23311175 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
23311195 TCAAAT
1 TCAAAT
23311201 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:23322965 original size:21 final size:21
Alignment explanation
Indices: 23322941--23322985 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23322931 ATTGTTCCAA
23322941 TTATGATTTCAAATATTAATT
1 TTATGATTTCAAATATTAATT
* * *
23322962 TTATTATTTTATATATTAATT
1 TTATGATTTCAAATATTAATT
23322983 TTA
1 TTA
23322986 ATTTATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATGATTTCAAATATTAATT
Found at i:23322994 original size:14 final size:14
Alignment explanation
Indices: 23322956--23322997 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23322946 ATTTCAAATA
23322956 TTAATTTTATT-ATT
1 TTAA-TTTATTAATT
*
23322970 TT-ATATATTAATT
1 TTAATTTATTAATT
23322983 TTAATTTATTAATT
1 TTAATTTATTAATT
23322997 T
1 T
23322998 ATTTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTATTAATT
Found at i:23327931 original size:23 final size:23
Alignment explanation
Indices: 23327905--23327954 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
23327895 GTTGGTTCAA
23327905 GTTTATATAATGTTTAGGGTAGT
1 GTTTATATAATGTTTAGGGTAGT
**
23327928 GTTTATATGGTGTTTAGGGTAGT
1 GTTTATATAATGTTTAGGGTAGT
23327951 GTTT
1 GTTT
23327955 GGGGTATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (23 bp):
GTTTATATAATGTTTAGGGTAGT
Found at i:23328038 original size:12 final size:11
Alignment explanation
Indices: 23328005--23328075 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
23327995 TGTTTCATAA
*
23328005 TGTTTATATTG
1 TGTTTATATAG
23328016 TGTTTATATAG
1 TGTTTATATAG
23328027 TGTTTCATATAG
1 TGTTT-ATATAG
**
23328039 TG-TT-TAGGG
1 TGTTTATATAG
* *
23328048 TGTTTAGGACAG
1 TGTTTA-TATAG
23328060 TGTTTATATAG
1 TGTTTATATAG
23328071 TGTTT
1 TGTTT
23328076 CAAGTTGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 25 0.52
12 16 0.33
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.52
Consensus pattern (11 bp):
TGTTTATATAG
Found at i:23331369 original size:112 final size:111
Alignment explanation
Indices: 23331102--23331396 Score: 351
Period size: 112 Copynumber: 2.6 Consensus size: 111
23331092 AGAATCTACT
* * * *
23331102 AATAGATGTTGTCATCTATCGATAGCTACCGGGGCTGTCTTACTCGCAGGTGAAAAACTATCGAT
1 AATAGATGTTGTCATCTATCAATAGCTACC-GGGCTGTCTTGCTCGCGGGTGAAGAACTATCGAT
* *
23331167 AGATACCGAGATATATCGATAGTTTAACAAAAGCTCTCTGAACTATC
65 AGATATCGAGATATATCGATAGTTTAACAAAAGCTCTCCGAACTATC
* * **
23331214 AATAGATTTTGTCATCTAT-AGATTGCTACCAGGGCTACCTTGCTCGCGGGTGAAGAACTATCGA
1 AATAGATGTTGTCATCTATCA-ATAGCTACC-GGGCTGTCTTGCTCGCGGGTGAAGAACTATCGA
* * * *
23331278 TAGATATCGTGATCTATTGATAGTTTCACAAAAGCTCTCCGAACTAT-
64 TAGATATCGAGATATATCGATAGTTTAACAAAAGCTCTCCGAACTATC
* * * ** *
23331325 AGATAGATGTTGTCATTTATCAATAGTTACCGGGCCTGTGTTGCTCATGGGTGGAGAACTATCGA
1 A-ATAGATGTTGTCATCTATCAATAGCTACCGGG-CTGTCTTGCTCGCGGGTGAAGAACTATCGA
23331390 TAGATAT
64 TAGATAT
23331397 TGATAACTAT
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
111 4 0.03
112 149 0.97
113 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (111 bp):
AATAGATGTTGTCATCTATCAATAGCTACCGGGCTGTCTTGCTCGCGGGTGAAGAACTATCGATA
GATATCGAGATATATCGATAGTTTAACAAAAGCTCTCCGAACTATC
Found at i:23331406 original size:20 final size:21
Alignment explanation
Indices: 23331381--23331420 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23331371 ATGGGTGGAG
*
23331381 AACTATCGATAGAT-ATTGAT
1 AACTATCAATAGATGATTGAT
23331401 AACTATCAATAGATGATTGA
1 AACTATCAATAGATGATTGA
23331421 GTTGTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AACTATCAATAGATGATTGAT
Found at i:23331537 original size:21 final size:21
Alignment explanation
Indices: 23331513--23331568 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
23331503 TTGCAATATG
*
23331513 AATCTATCGATAGATAT-TCTT
1 AATCTATCGATAGATATGAC-T
23331534 AATCTATCGAT-G-TATGACT
1 AATCTATCGATAGATATGACT
23331553 ACATCTATCGATAGAT
1 A-ATCTATCGATAGAT
23331569 TCATACTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.17
20 12 0.40
21 12 0.40
22 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
AATCTATCGATAGATATGACT
Found at i:23333314 original size:35 final size:35
Alignment explanation
Indices: 23333217--23333382 Score: 130
Period size: 32 Copynumber: 4.9 Consensus size: 35
23333207 TTTTCACAAA
* * * **
23333217 CTCAACTACAACTTTTAACAATAGTTTTTCACGGGG
1 CTCAACCACAACCTTTAACAATGGTTTTTCA-AAGG
* * * *
23333253 ATCAACCAAAACC--CAA-AATGGCTTTTCAAAGG
1 CTCAACCACAACCTTTAACAATGGTTTTTCAAAGG
**
23333285 CTCAACCACAACCTTTAACAATGGTTTTTCACGGG
1 CTCAACCACAACCTTTAACAATGGTTTTTCAAAGG
* * *
23333320 ATCAACCAAAACC--CAA-AATGGCTTTTT-AAAGG
1 CTCAACCACAACCTTTAACAATGG-TTTTTCAAAGG
*
23333352 CTTAACCACAACCTTTAACAATGGTTTTTCA
1 CTCAACCACAACCTTTAACAATGGTTTTTCA
23333383 TGAGATCAAC
Statistics
Matches: 98, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
32 31 0.32
33 17 0.17
34 11 0.11
35 30 0.31
36 9 0.09
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.28
Consensus pattern (35 bp):
CTCAACCACAACCTTTAACAATGGTTTTTCAAAGG
Found at i:23333394 original size:35 final size:34
Alignment explanation
Indices: 23333230--23333399 Score: 111
Period size: 35 Copynumber: 5.0 Consensus size: 34
23333220 AACTACAACT
* *
23333230 TTTAACAATAGTTTTTCACGGGGATCAACCAAAACC
1 TTTAACAATGGTTTTTCA--GAGATCAACCAAAACC
* * * * *
23333266 --CAA-AATGGCTTTTCAAAGGCTCAACCACAACC
1 TTTAACAATGGTTTTTCAGA-GATCAACCAAAACC
*
23333298 TTTAACAATGGTTTTTCACGGGATCAACCAAAACC
1 TTTAACAATGGTTTTTCA-GAGATCAACCAAAACC
* * * * *
23333333 --CAA-AATGGCTTTTT-AAAGGCTTAACCACAACC
1 TTTAACAATGG-TTTTTCAGA-GATCAACCAAAACC
23333365 TTTAACAATGGTTTTTCATGAGATCAACCAAAACC
1 TTTAACAATGGTTTTTCA-GAGATCAACCAAAACC
23333400 CAAACTAACT
Statistics
Matches: 98, Mismatches: 24, Indels: 25
0.67 0.16 0.17
Matches are distributed among these distances:
32 29 0.30
33 17 0.17
34 11 0.11
35 40 0.41
36 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (34 bp):
TTTAACAATGGTTTTTCAGAGATCAACCAAAACC
Found at i:23333420 original size:67 final size:67
Alignment explanation
Indices: 23333217--23333403 Score: 302
Period size: 67 Copynumber: 2.8 Consensus size: 67
23333207 TTTTCACAAA
* * * *
23333217 CTCAACTACAACTTTTAACAATAGTTTTTCACGGGGATCAACCAAAACCCAAAATGGCTTTTCAA
1 CTCAACCACAACCTTTAACAATGGTTTTTCAC-GGGATCAACCAAAACCCAAAATGGCTTTTTAA
23333282 AGG
65 AGG
23333285 CTCAACCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAAATGGCTTTTTAAA
1 CTCAACCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAAATGGCTTTTTAAA
23333350 GG
66 GG
* * *
23333352 CTTAACCACAACCTTTAACAATGGTTTTTCATGAGATCAACCAAAACCCAAA
1 CTCAACCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAA
23333404 CTAACTTTTT
Statistics
Matches: 112, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 83 0.74
68 29 0.26
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (67 bp):
CTCAACCACAACCTTTAACAATGGTTTTTCACGGGATCAACCAAAACCCAAAATGGCTTTTTAAA
GG
Found at i:23333892 original size:73 final size:73
Alignment explanation
Indices: 23333788--23333990 Score: 262
Period size: 73 Copynumber: 2.8 Consensus size: 73
23333778 CTGACAATGT
** * * ** * *
23333788 GCTCTTAGTTTACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTATCTCTGAACTCAGTTTCT
1 GCTCTTAGTCGACTAACAATGCTCCTTAGTCGATTAAGTTGTCTCTATTTCTGAACCCAGTTTCT
* *
23333853 GGCAGTAA
66 AGCAATAA
* * * *
23333861 GCTCTTAGTCGACTAACAATGCTCCTTAGTCGTTTAAGTTGTCTTTGTTTTTGAACCCAGTTTCT
1 GCTCTTAGTCGACTAACAATGCTCCTTAGTCGATTAAGTTGTCTCTATTTCTGAACCCAGTTTCT
23333926 AGCAATAA
66 AGCAATAA
* *
23333934 GATCTTAGTCGACTAACAATGCTCCTTAGTCAATTAAGTTGTCTCTATTTCTGAACC
1 GCTCTTAGTCGACTAACAATGCTCCTTAGTCGATTAAGTTGTCTCTATTTCTGAACC
23333991 AGCCACCTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATGCTCCTTAGTCGATTAAGTTGTCTCTATTTCTGAACCCAGTTTCT
AGCAATAA
Found at i:23336397 original size:15 final size:15
Alignment explanation
Indices: 23336377--23336410 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
23336367 GCAAAGTTAT
*
23336377 ATTCTCAGCAATCAC
1 ATTCTCAGCAATCAA
23336392 ATTCTCAGCAATCAA
1 ATTCTCAGCAATCAA
23336407 ATTC
1 ATTC
23336411 CTTGCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (15 bp):
ATTCTCAGCAATCAA
Found at i:23340027 original size:26 final size:26
Alignment explanation
Indices: 23339998--23340056 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
23339988 ATTTTCTAGT
* *
23339998 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
23340024 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
23340050 TTTCCTT
1 TTTCCTT
23340057 ATGGCCGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:23342279 original size:77 final size:77
Alignment explanation
Indices: 23342184--23342358 Score: 242
Period size: 77 Copynumber: 2.3 Consensus size: 77
23342174 AATAGTTAAA
* *
23342184 AATGCAAAAAAAAGTGATAAGCCGATGCTTGCTAATAAAAATAGATATATAGGCTAATACTAATA
1 AATGC-AAAGAAAGTGATAAGCCGATGCTTGCTAATAAAAATAAATATATAGGCTAATACTAATA
* *
23342249 TTATACTAATATT
65 TTATACCAATACT
* * * * *
23342262 AATGCAAAGAAAGTGATAATCTGATGCTTGCTAATAAAAATAAATATATTGGCTAATTCTAATTT
1 AATGCAAAGAAAGTGATAAGCCGATGCTTGCTAATAAAAATAAATATATAGGCTAATACTAATAT
23342327 TATACCAATACT
66 TATACCAATACT
* *
23342339 AATGCCAAGAAAGTAATAAG
1 AATGCAAAGAAAGTGATAAG
23342359 TTGTGCAACT
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
77 80 0.94
78 5 0.06
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (77 bp):
AATGCAAAGAAAGTGATAAGCCGATGCTTGCTAATAAAAATAAATATATAGGCTAATACTAATAT
TATACCAATACT
Found at i:23345893 original size:7 final size:7
Alignment explanation
Indices: 23345881--23345905 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23345871 TTTGGTTCTT
23345881 ATTAATG
1 ATTAATG
23345888 ATTAATG
1 ATTAATG
23345895 ATTAATG
1 ATTAATG
23345902 ATTA
1 ATTA
23345906 TTTGTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
ATTAATG
Found at i:23347529 original size:34 final size:34
Alignment explanation
Indices: 23347479--23347659 Score: 127
Period size: 34 Copynumber: 5.1 Consensus size: 34
23347469 CTTCGGCGTA
*
23347479 TAACATTTAGTGTTGAAGCTTTGGTCTTGGCATG
1 TAACATTTGGTGTTGAAGCTTTGGTCTTGGCATG
* *
23347513 TAACATTTGGTATTGAAGCTTT-GACATTGGCATG
1 TAACATTTGGTGTTGAAGCTTTGGTC-TTGGCATG
* * **
23347547 TAGCATCTTCTGTTTTAGTTTTGGTGCTTTGG-CTTTGGCATG
1 TAACA--TT-TG-----GTGTTGAAGCTTTGGTC-TTGGCATG
* * *
23347589 TAACATCTAGTGCT-AAGCTTTGGTCTTGGCATG
1 TAACATTTGGTGTTGAAGCTTTGGTCTTGGCATG
* * *
23347622 TAACATCTGGTGCTGAAGCTTTGGCCTTGGC-TG
1 TAACATTTGGTGTTGAAGCTTTGGTCTTGGCATG
23347655 TAACA
1 TAACA
23347660 CATGCAACGA
Statistics
Matches: 118, Mismatches: 17, Indels: 25
0.74 0.11 0.16
Matches are distributed among these distances:
33 37 0.31
34 51 0.43
36 2 0.02
37 2 0.02
39 1 0.01
40 1 0.01
42 23 0.19
43 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (34 bp):
TAACATTTGGTGTTGAAGCTTTGGTCTTGGCATG
Found at i:23347609 original size:33 final size:34
Alignment explanation
Indices: 23347572--23347659 Score: 128
Period size: 33 Copynumber: 2.6 Consensus size: 34
23347562 TAGTTTTGGT
23347572 GCTTTGGCTTTGGCATGTAACATCTAGTGCT-AA
1 GCTTTGGCTTTGGCATGTAACATCTAGTGCTGAA
*
23347605 GCTTTGG-TCTTGGCATGTAACATCTGGTGCTGAA
1 GCTTTGGCT-TTGGCATGTAACATCTAGTGCTGAA
*
23347639 GCTTTGGCCTTGGC-TGTAACA
1 GCTTTGGCTTTGGCATGTAACA
23347660 CATGCAACGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
32 1 0.02
33 35 0.70
34 14 0.28
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (34 bp):
GCTTTGGCTTTGGCATGTAACATCTAGTGCTGAA
Found at i:23363060 original size:26 final size:27
Alignment explanation
Indices: 23363031--23363105 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 27
23363021 AACTATTAAT
23363031 TATAAAGATTTATTTGACTTAAAAAA-
1 TATAAAGATTTATTTGACTTAAAAAAG
* *
23363057 TATAAAAATTTGA-TTGAACATAAAAAAAG
1 TATAAAGATTT-ATTTG-AC-TTAAAAAAG
* *
23363086 AATAAAGACTTATTTGACTT
1 TATAAAGATTTATTTGACTT
23363106 TTTTAAAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
26 13 0.34
27 4 0.11
28 10 0.26
29 11 0.29
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (27 bp):
TATAAAGATTTATTTGACTTAAAAAAG
Found at i:23364381 original size:357 final size:352
Alignment explanation
Indices: 23363651--23364696 Score: 1481
Period size: 357 Copynumber: 3.0 Consensus size: 352
23363641 CAAAATCACA
* *
23363651 TCATTACGGAACTTCTCAACATAACATGTAGTTTGTATCTCATTTCATATAAATATTCACAATGT
1 TCATTACGGAACTTCTCAACATAACATGTGGTTTCTATCTCATTTCATATAAATATTCACAATGT
* ** * *
23363716 TTATATCAACTGTGATCCAGCACACATCCCGTGTCTATATCGCCATAGTTCATCTATCATAGTCT
66 TTATATCAACTATGATCCAGCACGTAT-CCGTGTCTATATCGCTATAGTTCATCTACCATAGTCT
* *
23363781 TAACATTTATATGTACCTATTTTCAAGGCTCAACATAATATTCACAAACATAAACAAGTACAAGG
130 CAACATTTATATGTACCTATTTTCGAGGCTCAACATAATATTCACAAACATAAACAAGTACAA-G
** * *
23363846 TGGAAAAAGAAACGAAAAAAGAAT-TTTGTTTTTTCTATTTTTTAAAAAAATGTTATTTTGACAC
194 ACGAAAAAGAAATGAAAAAA-AATATTT-TTATTT-TA--TTTTAAAAAAA-GTTATTTTGACAC
*
23363910 GTGTTATTTTTGTTTTATCAAAAAGAAAAGCTGCTAGGACAAAATTGTTCCTTCATGTGTCTAAA
253 GTGTTATTTTTGTTTTATCAAAAAG-AAGGCTGCTAGGACAAAATTGTTCCTTCATGTGTCTAAA
*
23363975 AATAGGGTGTACTCTTCATGACATAATGTGTACTCT
317 ATTAGGGTGTACTCTTCATGACATAATGTGTACTCT
*
23364011 TCATTATGGAACTTCTCAACATAACATGTGGTTTCTATCTCATTTCATATAAATATTCACAATGT
1 TCATTACGGAACTTCTCAACATAACATGTGGTTTCTATCTCATTTCATATAAATATTCACAATG-
* * *
23364076 TTTATAGCAACTATGATCCAGCATGTATCCTGTGTTTATATCGCTATAGTTCATCTACCATAGTC
65 TTTATATCAACTATGATCCAGCACGTATCC-GTGTCTATATCGCTATAGTTCATCTACCATAGTC
* * * * *
23364141 TCAACATTAATATGTACTTATTTTTGAGGCTCAACGTAATATTCACAAATATAAAACAAGTACAA
129 TCAACATTTATATGTACCTATTTTCGAGGCTCAACATAATATTCACAAACAT-AAACAAGTACAA
*
23364206 GACAGAAAAAGAAATGAAAAAAAATATTTTTATTTTATTTTAAAAAAAGGTTTTTTTGACACGTG
193 GAC-GAAAAAGAAATGAAAAAAAATATTTTTATTTTATTTTAAAAAAA-GTTATTTTGACACGTG
* * * *
23364271 TTATTTTTGTTTTATCCAAAAGAAGGTTGTTAGGACAAAATTGTTCTTTCATGTGTCTAAAATTA
256 TTATTTTTGTTTTATCAAAAAGAAGGCTGCTAGGACAAAATTGTTCCTTCATGTGTCTAAAATTA
* *
23364336 AGGTGTACTCTTTATGACATAATGTGTACTCT
321 GGGTGTACTCTTCATGACATAATGTGTACTCT
*
23364368 TCATTACGGAACTTCTCAACATAACGTGTGGTTTCTATCTCATTTCATATAAATATTCACAATGT
1 TCATTACGGAACTTCTCAACATAACATGTGGTTTCTATCTCATTTCATATAAATATTCACAATGT
* *
23364433 TTATATCAACTATGATCCAGCACGCATTTCC-TGTCTATATCGCTATAGTTCATTTACCATAGTC
66 TTATATCAACTATGATCCAGCACG--TATCCGTGTCTATATCGCTATAGTTCATCTACCATAGTC
* *
23364497 TCAACATTTATATATACCTATTTTCGAGACTCAACATAATATTCACAAACATAAACAAGTACAAG
129 TCAACATTTATATGTACCTATTTTCGAGGCTCAACATAATATTCACAAACATAAACAAGTACAAG
23364562 ACGAAAAAAGAAATG--AAAAAATA----TATTTT-TTTT--AAAAAGTTATTTTGACAC--GTT
194 ACG-AAAAAGAAATGAAAAAAAATATTTTTATTTTATTTTAAAAAAAGTTATTTTGACACGTGTT
* *
23364616 ATTTTT-TATTTATCAAAAAGAAGGCTACTAAGACAAAATTGTTCCTTCATGTGTCTAAAATTAG
258 ATTTTTGT-TTTATCAAAAAGAAGGCTGCTAGGACAAAATTGTTCCTTCATGTGTCTAAAATTAG
*
23364680 GGTGTACCCTTCATGAC
322 GGTGTACTCTTCATGAC
23364697 TTATTTGACT
Statistics
Matches: 621, Mismatches: 56, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
342 1 0.00
343 73 0.12
345 12 0.02
346 5 0.01
348 4 0.01
349 6 0.01
353 8 0.01
354 1 0.00
355 26 0.04
356 99 0.16
357 130 0.21
358 51 0.08
360 65 0.10
361 108 0.17
362 32 0.05
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (352 bp):
TCATTACGGAACTTCTCAACATAACATGTGGTTTCTATCTCATTTCATATAAATATTCACAATGT
TTATATCAACTATGATCCAGCACGTATCCGTGTCTATATCGCTATAGTTCATCTACCATAGTCTC
AACATTTATATGTACCTATTTTCGAGGCTCAACATAATATTCACAAACATAAACAAGTACAAGAC
GAAAAAGAAATGAAAAAAAATATTTTTATTTTATTTTAAAAAAAGTTATTTTGACACGTGTTATT
TTTGTTTTATCAAAAAGAAGGCTGCTAGGACAAAATTGTTCCTTCATGTGTCTAAAATTAGGGTG
TACTCTTCATGACATAATGTGTACTCT
Found at i:23365392 original size:74 final size:75
Alignment explanation
Indices: 23365308--23365449 Score: 191
Period size: 74 Copynumber: 1.9 Consensus size: 75
23365298 ATAATTACCA
* * *
23365308 AAATTCCATTTATTAGAATCCACCGA-ACATGAG-TGCCTTTATAACTCTGAC-AAAACGACATC
1 AAATTCCATTTATTAGAATCCACC-ATACATGAGCT-ACTTTACAACTCTAACGAAAACGACATC
23365370 GTTTTTGTCATC
64 GTTTTTGTCATC
* * *
23365382 AAATTCCATTTATTAGAATTCACCATTCATGAGCTATTTTACAACTCTAACGAAAACGACATCGT
1 AAATTCCATTTATTAGAATCCACCATACATGAGCTACTTTACAACTCTAACGAAAACGACATCGT
23365447 TTT
66 TTT
23365450 AACAAATTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 1 0.02
74 41 0.69
75 17 0.29
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (75 bp):
AAATTCCATTTATTAGAATCCACCATACATGAGCTACTTTACAACTCTAACGAAAACGACATCGT
TTTTGTCATC
Found at i:23378235 original size:59 final size:60
Alignment explanation
Indices: 23378131--23378245 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 60
23378121 GGTCAAACAG
* * * *
23378131 ATTCTCAGAAAGTCAAAATATAAATGTGTCCACTTGATACTTCAGTGGCAAGTAATGGAC
1 ATTCTCAGAAAGTAAAAACATAAATGTGTCCACTTAATACATCAGTGGCAAGTAATGGAC
* * *
23378191 ATTCTCA-AGAAGTAAAAACAT-AATGTGTCTAGTTAATACATCAGTGGTAAGTAAT
1 ATTCTCAGA-AAGTAAAAACATAAATGTGTCCACTTAATACATCAGTGGCAAGTAAT
23378246 AGTCATGGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 30 0.64
60 17 0.36
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (60 bp):
ATTCTCAGAAAGTAAAAACATAAATGTGTCCACTTAATACATCAGTGGCAAGTAATGGAC
Found at i:23381860 original size:88 final size:84
Alignment explanation
Indices: 23381706--23381914 Score: 208
Period size: 85 Copynumber: 2.4 Consensus size: 84
23381696 TAGAAATAAA
* * * * *
23381706 AAATCATGTTTTTTGATATATTAAAT--AAATGCTTGTCTTTGAAATTAAAAAGATAGTCTTCCA
1 AAATTATGTCTTTTGATATATTAAATAAAAAT-CATATCTTTGAAAATAAAAAGATAGTCTT-CA
* *
23381769 TTTTTTTTCTAAAAAAAAAAAGG
64 ATTTTTTCCT--AAAAAAAAAGG
* * *
23381792 AAGTTATGTCTTTTGATATATTAAATAGAAAATCATATCTTTGAAAATAGAAAGAT-GGCTTTCA
1 AAATTATGTCTTTTGATATATTAAATA-AAAATCATATCTTTGAAAATAAAAAGATAGTC-TTCA
* *
23381856 ATTTTTTCCTAAAAAAAATGT
64 ATTTTTTCCTAAAAAAAAAGG
* *
23381877 AAATTATGTCTTTTGATAGATTAAATACAAATTCATAT
1 AAATTATGTCTTTTGATATATTAAATA-AAAATCATAT
23381915 TACTTTTAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
85 43 0.42
86 23 0.22
87 12 0.12
88 21 0.20
89 4 0.04
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (84 bp):
AAATTATGTCTTTTGATATATTAAATAAAAATCATATCTTTGAAAATAAAAAGATAGTCTTCAAT
TTTTTCCTAAAAAAAAAGG
Found at i:23382136 original size:29 final size:29
Alignment explanation
Indices: 23382076--23382151 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
23382066 TTTTTATAAT
23382076 AAAATT-TATTTTCATCA-AAAACAAAAA
1 AAAATTCTATTTTCATCAGAAAACAAAAA
*
23382103 AAAATTCTATTTTCATCAGNAAACAAAAA
1 AAAATTCTATTTTCATCAGAAAACAAAAA
*
23382132 TAAATTCTATTTTCATCAGA
1 AAAATTCTATTTTCATCAGA
23382152 TATCAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.14
28 11 0.25
29 27 0.61
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTCTATTTTCATCAGAAAACAAAAA
Found at i:23382178 original size:11 final size:11
Alignment explanation
Indices: 23382172--23382226 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
23382162 TTATTATTAA
23382172 ATTATT-AA-T
1 ATTATTAAATT
* *
23382181 ATTTTTAATTT
1 ATTATTAAATT
23382192 ATTATTAAATT
1 ATTATTAAATT
* *
23382203 ATTGAATAATTT
1 ATT-ATTAAATT
23382215 ATTATTAAATT
1 ATTATTAAATT
23382226 A
1 A
23382227 ATTGTATGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 5 0.14
10 1 0.03
11 20 0.57
12 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTATTAAATT
Found at i:23382187 original size:23 final size:25
Alignment explanation
Indices: 23382157--23382226 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 25
23382147 TCAGATATCA
23382157 ATAATTTATTATTAAATTATT-AAT
1 ATAATTTATTATTAAATTATTGAAT
23382181 ATTTTTAATTTATTATTAAATTATTG-A-
1 A----TAATTTATTATTAAATTATTGAAT
23382208 ATAATTTATTATTAAATTA
1 ATAATTTATTATTAAATTA
23382227 ATTGTATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
23 18 0.44
24 1 0.02
27 1 0.02
28 21 0.51
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (25 bp):
ATAATTTATTATTAAATTATTGAAT
Found at i:23382188 original size:17 final size:17
Alignment explanation
Indices: 23382163--23382226 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 17
23382153 ATCAATAATT
23382163 TATTATTAAATTATTAA
1 TATTATTAAATTATTAA
*
23382180 TATTTTTAATTTATTATTAA
1 TATTATTAA---ATTATTAA
* *
23382200 -ATTATTGAATAATT--
1 TATTATTAAATTATTAA
23382214 TATTATTAAATTA
1 TATTATTAAATTA
23382227 ATTGTATGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
15 10 0.27
16 5 0.14
17 8 0.22
19 6 0.16
20 8 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATTAAATTATTAA
Found at i:23382197 original size:20 final size:21
Alignment explanation
Indices: 23382172--23382226 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
23382162 TTATTATTAA
23382172 ATTATTAATATT-TT-TAATTT
1 ATTATTAA-ATTATTATAATTT
23382192 ATTATTAAATTATTGAATAATTT
1 ATTATTAAATTATT--ATAATTT
23382215 ATTATTAAATTA
1 ATTATTAAATTA
23382227 ATTGTATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.10
20 10 0.32
23 18 0.58
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTAAATTATTATAATTT
Found at i:23382215 original size:28 final size:28
Alignment explanation
Indices: 23382158--23382215 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
23382148 CAGATATCAA
*
23382158 TAATTTATTATTAAATTATTAATATTTT
1 TAATTTATTATTAAATTATTAATATATT
23382186 TAATTTATTATTAAATTATTGAATA-ATT
1 TAATTTATTATTAAATTATT-AATATATT
23382214 TA
1 TA
23382216 TTATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
TAATTTATTATTAAATTATTAATATATT
Found at i:23382350 original size:14 final size:15
Alignment explanation
Indices: 23382321--23382352 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23382311 ATTAAACATC
23382321 AATAATTTATTATTA
1 AATAATTTATTATTA
23382336 AATAATTTA-TATTA
1 AATAATTTATTATTA
23382350 AAT
1 AAT
23382353 TAGTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATTTATTATTA
Found at i:23382397 original size:126 final size:129
Alignment explanation
Indices: 23382200--23382442 Score: 339
Period size: 126 Copynumber: 1.9 Consensus size: 129
23382190 TTATTATTAA
* * * *
23382200 ATTATTGAATAATTTATTATTAAATTAATTGTATGATTTTTAATTTTAACAATTGGAATCATTTT
1 ATTATTAAATAATTTATTATTAAATTAATTATATAATTTTTAACTTTAACAATTGGAATCATTTT
* *
23382265 TCTCTATTTGTATTTTTCATATTTTAATCTTTTAATTTTTATTTTCATTAAACATCAATAATTT
66 TCTCTATTTGTATTTTTCATATTTTAATCATTTAATTTCTATTTTCATTAAACATCAATAATTT
* * ** * *
23382329 ATTATTAAATAATTTA-TATTAAATTAGTTATATAATTTTT-ACTTTCATTATTTGAGT-ATTTT
1 ATTATTAAATAATTTATTATTAAATTAATTATATAATTTTTAACTTTAACAATTGGAATCATTTT
* *
23382391 TCTCTATTTGTATTTTTTATTTTTTAATCATTTAATTTCTATTTTCATTAAA
66 TCTCTATTTGTATTTTTCATATTTTAATCATTTAATTTCTATTTTCATTAAA
23382443 ATTTTAAAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
126 53 0.53
127 11 0.11
128 21 0.21
129 15 0.15
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (129 bp):
ATTATTAAATAATTTATTATTAAATTAATTATATAATTTTTAACTTTAACAATTGGAATCATTTT
TCTCTATTTGTATTTTTCATATTTTAATCATTTAATTTCTATTTTCATTAAACATCAATAATTT
Found at i:23382503 original size:19 final size:19
Alignment explanation
Indices: 23382479--23382519 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23382469 TTTTATTTTA
*
23382479 TTTTTTT-TCATTTTTCAT
1 TTTTTTTCTCATCTTTCAT
*
23382497 TTTTTTTCTCATCTTTCCT
1 TTTTTTTCTCATCTTTCAT
23382516 TTTT
1 TTTT
23382520 CTCTTCGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTCTCATCTTTCAT
Found at i:23403763 original size:34 final size:34
Alignment explanation
Indices: 23403720--23403831 Score: 188
Period size: 34 Copynumber: 3.3 Consensus size: 34
23403710 CAGGAAATTC
23403720 ACATCCTTGCACAGCTAAGGTGTTTTTTCAGTAG
1 ACATCCTTGCACAGCTAAGGTGTTTTTTCAGTAG
*
23403754 ACATCCTTGCATAGCTAAGGTGTTTTTTCAGTAG
1 ACATCCTTGCACAGCTAAGGTGTTTTTTCAGTAG
* * *
23403788 ACATCCTTCCACAGCTAAGGTGTTATTTCAGAAG
1 ACATCCTTGCACAGCTAAGGTGTTTTTTCAGTAG
23403822 ACATCCTTGC
1 ACATCCTTGC
23403832 CCATGGTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (34 bp):
ACATCCTTGCACAGCTAAGGTGTTTTTTCAGTAG
Found at i:23405158 original size:253 final size:252
Alignment explanation
Indices: 23404709--23405218 Score: 704
Period size: 252 Copynumber: 2.0 Consensus size: 252
23404699 GGCATTACGG
* * *
23404709 AAAAAATAAATGAATAAATTAAAAGCACAAAGGGAGAGGAAAACTTTTTGAGAGAAAAAAAAATG
1 AAAAAATAAATAAATAAATGAAAAGAACAAAGGGAGAGGAAAACTTTTTGAGAGAAAAAAAAATG
* *
23404774 ATAATAATGAGAGTCCTACTAACAAAGAGAAGTTTCTAATTTGACCAGTTAATATCAATTAGTCA
66 ATAATAA-GAGAGTCATACAAACAAAGAGAAGTTTCTAATTTGACCAGTTAATATCAATTAGTCA
* *
23404839 ATTTCACAATACTTATCCTTCAAGGTCATTATTGACTAGACAATCCAAGAAGTAGATACATAAGC
130 ACTTCACAATACTTATCCTTCAAGGTCATTATTGACTAGACAATACAAGAAGTAGATACATAAGC
* * **
23404904 TTCCAGCAAATTTTAAAAACCAAAATTATAATTTAACGTTTAAAATCTCAGTGAAACAT
195 TTCCAGCAAA-TTTAAAAACCAAAATCATAATTTAACCTTTAAAAAATCAGTGAAACAT
* * *
23404963 AAAAATATAAATAAATTAATGAACAAGAACAACGGGAGAGGAAAACTTTTTG-G-GAGAAAAAAA
1 AAAAA-ATAAATAAATAAATGAA-AAGAACAAAGGGAGAGGAAAACTTTTTGAGAGAAAAAAAAA
* *
23405026 TGATAATAA-CGAGTCATACAAACAAAGAGAAGTTTGTAATTTGACCAGTTAATATCAACTTAGT
64 TGATAATAAGAGAGTCATACAAACAAAGAGAAGTTTCTAATTTGACCAGTTAATATCAA-TTAGT
* * * *
23405090 CAACTTCATAAT-TTTCATCCTTCAAGGTCATTATTGATTAGACAATACAAGAGGTAGATACATA
128 CAACTTCACAATACTT-ATCCTTCAAGGTCATTATTGACTAGACAATACAAGAAGTAGATACATA
** * * * *
23405154 AGCTTCCAGTGAATTTGAGAACTAAAATCATATTTTAACCTTTAAAAAATCAGTGAAACAT
192 AGCTTCCAGCAAATTTAAAAACCAAAATCATAATTTAACCTTTAAAAAATCAGTGAAACAT
23405215 AAAA
1 AAAA
23405219 CTAGCAACTT
Statistics
Matches: 226, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
252 91 0.40
253 71 0.31
254 23 0.10
255 15 0.07
256 26 0.12
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (252 bp):
AAAAAATAAATAAATAAATGAAAAGAACAAAGGGAGAGGAAAACTTTTTGAGAGAAAAAAAAATG
ATAATAAGAGAGTCATACAAACAAAGAGAAGTTTCTAATTTGACCAGTTAATATCAATTAGTCAA
CTTCACAATACTTATCCTTCAAGGTCATTATTGACTAGACAATACAAGAAGTAGATACATAAGCT
TCCAGCAAATTTAAAAACCAAAATCATAATTTAACCTTTAAAAAATCAGTGAAACAT
Found at i:23408843 original size:23 final size:23
Alignment explanation
Indices: 23408817--23408867 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
23408807 GTTGGTTTAA
* * *
23408817 GTTTATATAGTGTTTAGGGTAGT
1 GTTTATAGAGTGCTTAGGATAGT
*
23408840 GTTTATAGGGTGCTTAGGATAGT
1 GTTTATAGAGTGCTTAGGATAGT
23408863 GTTTA
1 GTTTA
23408868 GGTTGTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (23 bp):
GTTTATAGAGTGCTTAGGATAGT
Found at i:23408962 original size:12 final size:11
Alignment explanation
Indices: 23408925--23408999 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
23408915 CATGTGTTTC
23408925 ATAGTGTTTAT
1 ATAGTGTTTAT
*
23408936 ATTGTGTTTAT
1 ATAGTGTTTAT
23408947 ATAGTGTTTCAT
1 ATAGTGTTT-AT
23408959 ATAGTG-TT-T
1 ATAGTGTTTAT
** *
23408968 AGGGTGTTTAGG
1 ATAGTGTTTA-T
*
23408980 GTAGTGTTTAT
1 ATAGTGTTTAT
23408991 ATAGTGTTT
1 ATAGTGTTT
23409000 CAAGTTGAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 28 0.56
12 15 0.30
ACGTcount: A:0.21, C:0.01, G:0.25, T:0.52
Consensus pattern (11 bp):
ATAGTGTTTAT
Found at i:23408975 original size:32 final size:32
Alignment explanation
Indices: 23408939--23408999 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
23408929 TGTTTATATT
*
23408939 GTGTTTA-TATAGTGTTTCATATAGTGTTTAGG
1 GTGTTTAGGATAGTGTTT-ATATAGTGTTTAGG
*
23408971 GTGTTTAGGGTAGTGTTTATATAGTGTTT
1 GTGTTTAGGATAGTGTTTATATAGTGTTT
23409000 CAAGTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.51
Consensus pattern (32 bp):
GTGTTTAGGATAGTGTTTATATAGTGTTTAGG
Found at i:23412565 original size:21 final size:22
Alignment explanation
Indices: 23412536--23412582 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
23412526 TGTTTCTGGT
23412536 TGATCATCTATCGATAGATAAA
1 TGATCATCTATCGATAGATAAA
23412558 TGAT-ATCTATCGATAGATAAA
1 TGATCATCTATCGATAGATAAA
23412579 TGAT
1 TGAT
23412583 GTGCTATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (22 bp):
TGATCATCTATCGATAGATAAA
Found at i:23418136 original size:16 final size:15
Alignment explanation
Indices: 23418115--23418158 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
23418105 ATAAATTAAT
23418115 TTATACTTAATTTATG
1 TTATACTTAATTT-TG
23418131 TTATACTT-ATTTTG
1 TTATACTTAATTTTG
23418145 TGTATATCTTAATT
1 T-TATA-CTTAATT
23418159 ATTATTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 8 0.32
16 11 0.44
17 3 0.12
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (15 bp):
TTATACTTAATTTTG
Found at i:23423093 original size:30 final size:30
Alignment explanation
Indices: 23423044--23423102 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
23423034 ATATGGTTTT
*
23423044 AATGAGATTGTGATAATTACCCATTATTTG
1 AATGAGATTATGATAATTACCCATTATTTG
* *
23423074 AATGGGATTATGATTATTACCCATTATTT
1 AATGAGATTATGATAATTACCCATTATTT
23423103 TTAACATTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
AATGAGATTATGATAATTACCCATTATTTG
Found at i:23423675 original size:16 final size:16
Alignment explanation
Indices: 23423638--23423668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23423628 ATTGCACAAT
*
23423638 TATTTTATTTTACTGC
1 TATTTTATTTTAATGC
23423654 TATTTTATTTTAATG
1 TATTTTATTTTAATG
23423669 TTGTTTTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TATTTTATTTTAATGC
Found at i:23423682 original size:2 final size:2
Alignment explanation
Indices: 23423675--23423699 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23423665 AATGTTGTTT
23423675 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
23423700 AAATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23428843 original size:2 final size:2
Alignment explanation
Indices: 23428836--23428891 Score: 73
Period size: 2 Copynumber: 29.0 Consensus size: 2
23428826 CCCCAACGAG
*
23428836 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TT TC T-
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23428876 TC TC TC -C ATC TC TC TC
1 TC TC TC TC -TC TC TC TC
23428892 AAGTTGCAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
1 3 0.06
2 45 0.92
3 1 0.02
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23436229 original size:23 final size:23
Alignment explanation
Indices: 23436193--23436246 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
23436183 AAATCAATGT
*
23436193 AATAAAA-AATACAAATTA-AAAA
1 AATAAAAGAAAACAAA-TAGAAAA
23436215 AATAAAAGAAAACAAATAGAAAA
1 AATAAAAGAAAACAAATAGAAAA
*
23436238 AAGAAAAGA
1 AATAAAAGA
23436247 GAATGGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (23 bp):
AATAAAAGAAAACAAATAGAAAA
Found at i:23440934 original size:119 final size:119
Alignment explanation
Indices: 23440723--23440954 Score: 464
Period size: 119 Copynumber: 1.9 Consensus size: 119
23440713 GAAATTTTAG
23440723 AAAGGTGAAAAATATTTTGTTCCAAACATCTAGCATAGAAGCTTGGAATCTCATAAATTTAGCAG
1 AAAGGTGAAAAATATTTTGTTCCAAACATCTAGCATAGAAGCTTGGAATCTCATAAATTTAGCAG
23440788 TGAGGTAAGAGACAGAGATTATGATCTTATAAATTATGCCCATTACTTGTTAAA
66 TGAGGTAAGAGACAGAGATTATGATCTTATAAATTATGCCCATTACTTGTTAAA
23440842 AAAGGTGAAAAATATTTTGTTCCAAACATCTAGCATAGAAGCTTGGAATCTCATAAATTTAGCAG
1 AAAGGTGAAAAATATTTTGTTCCAAACATCTAGCATAGAAGCTTGGAATCTCATAAATTTAGCAG
23440907 TGAGGTAAGAGACAGAGATTATGATCTTATAAATTATGCCCATTACTT
66 TGAGGTAAGAGACAGAGATTATGATCTTATAAATTATGCCCATTACTT
23440955 ATATTTAACA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 113 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (119 bp):
AAAGGTGAAAAATATTTTGTTCCAAACATCTAGCATAGAAGCTTGGAATCTCATAAATTTAGCAG
TGAGGTAAGAGACAGAGATTATGATCTTATAAATTATGCCCATTACTTGTTAAA
Found at i:23452984 original size:18 final size:18
Alignment explanation
Indices: 23452957--23453003 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
23452947 CTCTCTCCAA
*
23452957 CCTCTCCTTTTCCATCT-T
1 CCTCTTCTTTTCC-TCTCT
23452975 CCTCTTCTTTT-CTCTCT
1 CCTCTTCTTTTCCTCTCT
*
23452992 CCTCCTCTTTTC
1 CCTCTTCTTTTC
23453004 TCCTCTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 10 0.40
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.53
Consensus pattern (18 bp):
CCTCTTCTTTTCCTCTCT
Found at i:23453000 original size:17 final size:18
Alignment explanation
Indices: 23452974--23453011 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
23452964 TTTTCCATCT
*
23452974 TCCTCTTCTTTTCT-CTC
1 TCCTCCTCTTTTCTCCTC
23452991 TCCTCCTCTTTTCTCCTC
1 TCCTCCTCTTTTCTCCTC
23453009 TCC
1 TCC
23453012 ATCTCCTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (18 bp):
TCCTCCTCTTTTCTCCTC
Found at i:23453842 original size:6 final size:6
Alignment explanation
Indices: 23453827--23453859 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
23453817 CTTTGTTTGC
*
23453827 CCTTCG CCTTCT CCTTCT CCTTCT CCTTCT CCT
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCT
23453860 AGAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.52, G:0.03, T:0.45
Consensus pattern (6 bp):
CCTTCT
Done.