Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 140 of 352
Found at i:45569097 original size:104 final size:104
Alignment explanation
Indices: 45568969--45569191 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
45568959 AATGGATATC
45568969 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
45569033 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
45569072 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
45569137 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
45569176 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
45569192 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 11 0.10
104 100 0.89
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:45569553 original size:29 final size:29
Alignment explanation
Indices: 45569520--45569583 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
45569510 TAATCCACCA
45569520 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
45569549 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
45569579 CCCAA
1 CCCAA
45569584 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:45569557 original size:30 final size:30
Alignment explanation
Indices: 45569527--45569583 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45569517 CCACCCAACT
45569527 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
45569556 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
45569584 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:45572736 original size:22 final size:22
Alignment explanation
Indices: 45572696--45572737 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45572686 AGGACCAATT
*
45572696 TGTAAAAATGTTATAAAATGTG
1 TGTAAAAATGTGATAAAATGTG
* *
45572718 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
45572738 AAAAATGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTAAAAATGTGATAAAATGTG
Found at i:45573263 original size:42 final size:42
Alignment explanation
Indices: 45573204--45573357 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 42
45573194 CTAAGTCTAT
*
45573204 GTGTAAGACCATATCTAGAATATGGCATCAATATGAGACTAC
1 GTGTAAGACCATATCTAGAATATGGCATCAATACGAGACTAC
* * * **
45573246 GTGTAAGCCCATATCTAGGATATGGCATCGATACGAGACTTT
1 GTGTAAGACCATATCTAGAATATGGCATCAATACGAGACTAC
* ** * *
45573288 GTGTAACACCATAGT-T-GGCTATTGGCATCAATACGAGATTCC
1 GTGTAAGACCATA-TCTAGAATA-TGGCATCAATACGAGACTAC
* * * *
45573330 ATGTAAGACCATGTCTGGGATATGGCAT
1 GTGTAAGACCATATCTAGAATATGGCAT
45573358 TGGCATGGTA
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 5 0.05
42 81 0.89
43 5 0.05
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGAATATGGCATCAATACGAGACTAC
Found at i:45583338 original size:71 final size:71
Alignment explanation
Indices: 45583203--45583366 Score: 197
Period size: 71 Copynumber: 2.3 Consensus size: 71
45583193 AGTACTACCT
* * * * ** * *
45583203 ATACCTTGACGACTTCTACCAAAATAAGTCTAGTCAATAGCCAAAGTTCAGCATCTCCTGCACTT
1 ATACTTTGAGGACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCCCCTACACTT
45583268 CTA-CTA
66 CTATC-A
*
45583274 ATACTTTGAGGACTTCTACCGAAACAAGTAAAGTCAGTAGCCAAAGTTCAGCATCCCCTACACTT
1 ATACTTTGAGGACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCCCCTACACTT
45583339 CTATCA
66 CTATCA
* *
45583345 ATACTCTGAAGG-GTTCTACCGA
1 ATACTTTG-AGGACTTCTACCGA
45583367 TAAATGAAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 76 0.95
72 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (71 bp):
ATACTTTGAGGACTTCTACCGAAACAAGTAAAGTCAATAGCCAAAGTTCAGCATCCCCTACACTT
CTATCA
Found at i:45586505 original size:48 final size:48
Alignment explanation
Indices: 45586272--45586505 Score: 254
Period size: 48 Copynumber: 4.8 Consensus size: 48
45586262 TAAAATGTCA
* *
45586272 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACACATCGATGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-A-CAATGCTG
* * * * * * *
45586322 AAGCCATGTCCCAGATATGGTCTTACACTGACACAT-ATAACAAAGCTT
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAACAATGCTG
* * * ** * *
45586370 ATGCCATGTTCCAAATATGGTCTTACACTGGCTCGCATATTAAGGTTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACAATGCTG
* * *
45586418 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAACAATGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACAATGCTG
*
45586466 ATGTCATGTCCCAAACATGGTCTTACACTGGCTCTCATAA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAA
45586506 TGTGGCCGAT
Statistics
Matches: 148, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
48 115 0.78
49 1 0.01
50 31 0.21
51 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACAATGCTG
Found at i:45586522 original size:96 final size:96
Alignment explanation
Indices: 45586272--45586524 Score: 287
Period size: 96 Copynumber: 2.6 Consensus size: 96
45586262 TAAAATGTCA
* * *
45586272 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACACATCGAT-GCTGAAGCCATGTCCCAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-AT-G-TGGCTGATGCCATGTCTCAG
* *
45586336 ATATGGTCTTACACTGACACATATAACAAAGCTT
63 ACATGGTCTTACACTGACACATATAACAAAGCTG
* * * * ** *
45586370 ATGCCATGTTCCAAATATGGTCTTACACTGGCTCGCATATTAAGGTTGATGCCATGTCTCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCTCAGACA
* *
45586435 TGGTCTTACACT-AGCTC-TCATAACAATGCTG
66 TGGTCTTACACTGA-CACAT-ATAACAAAGCTG
* * *
45586466 ATGTCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTCATGTCT
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCT
45586525 TAGATGTAAC
Statistics
Matches: 128, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
95 2 0.02
96 90 0.70
97 1 0.01
98 35 0.27
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCTCAGACA
TGGTCTTACACTGACACATATAACAAAGCTG
Found at i:45597440 original size:24 final size:24
Alignment explanation
Indices: 45597421--45597471 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
45597411 ATACTTGTGT
45597421 ATGCTTAATTACACTTACTTATAC
1 ATGCTTAATTACACTTACTTATAC
45597445 ATGCTTAATTACACTTACTTATAC
1 ATGCTTAATTACACTTACTTATAC
45597469 ATG
1 ATG
45597472 AATATATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (24 bp):
ATGCTTAATTACACTTACTTATAC
Found at i:45600735 original size:40 final size:40
Alignment explanation
Indices: 45600656--45600859 Score: 263
Period size: 40 Copynumber: 5.1 Consensus size: 40
45600646 CGAGATTTAA
* *
45600656 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45600695 CCGGATATAGTAACTCGCGCCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45600735 CTGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
45600775 CCAGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45600815 CCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
45600856 CCGG
1 CCGG
45600860 TTATCATCCA
Statistics
Matches: 147, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.12
40 101 0.69
41 24 0.16
42 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45620098 original size:487 final size:487
Alignment explanation
Indices: 45619180--45620161 Score: 1750
Period size: 487 Copynumber: 2.0 Consensus size: 487
45619170 CGTAAACAAC
*
45619180 TTGTGTTTTTATTTAGTTGTTCTTGATGCAATGCTACCATCAATGGGCACCACAACCATTACTTC
1 TTGT-TTTTTATTTAGTTGTTCTTGATGCAATACTACCATCAATGGGCACCACAACCATTACTTC
*
45619245 CATTCAGACACTCTATTTTCTTAGTTAATTAACAAATGTAGATTCCAACATTATATATATAAGCT
65 CAATCAGACACTCTATTTTCTTAGTTAATTAACAAATGTAGATTCCAACATTATATATATAAGCT
*
45619310 TTTGTTAAATTTCAGATTTTTCTTTGTTGGTAGTAACATTGGCAAACATTGGCAACCATGTCTTT
130 TTTGTTAAATTTCAGATTTTTCTTTGTTGGTAGTAACATTGACAAACATTGGCAACCATGTCTTT
* *
45619375 ATTCTCTGCAATATTTAATTTGGAGAAGCCTTTAAGATGATATTACCTTTGCTTATGTTGATTGA
195 ATTCTCTGCAATATTTAATTTGGAGAAACCTTTAAGATGATATTACCTTTGCTTATATTGATTGA
** *
45619440 AAGCTAAGGAAATGATGGTGTTGAATTAGGATAATATTTCTATGAGATCTATAATCATGATATTG
260 AAGCTAAGGAAATGATGGTGTTGAATTAGGATAATACCTATATGAGATCTATAATCATGATATTG
45619505 AGCTCAAAGTATTTAAATTTGCAGTATGTATATTAATTTATGCATTTCTTTATTTCATATGAAAA
325 AGCTCAAAGTATTTAAATTTGCAGTATGTATATTAATTTATGCATTTCTTTATTTCATATGAAAA
*
45619570 TAAAAGTTGTGGAATAAAATATTGATGCATTCTTGTAGCATTAATTACAAATTGTGCTACAAATA
390 TAAAAGTTGTGAAATAAAATATTGATGCATTCTTGTAGCATTAATTACAAATTGTGCTACAAATA
45619635 TTGATTTTAACACCTTTAATATCTAAGATTCTG-
455 TTGATTTTAACACC-TTAATATCTAAGATTCTGT
* *
45619668 TTGTTTTTTATTTAGTTGTTCTTGATGCAATACTGCCATTAATGGGCACCACAACCATTACTTCC
1 TTGTTTTTTATTTAGTTGTTCTTGATGCAATACTACCATCAATGGGCACCACAACCATTACTTCC
45619733 AATCAGACACTCTATTTTCTTAGTTAATTAACAAATGTAGATTCCAACATTATATATATAAGCTT
66 AATCAGACACTCTATTTTCTTAGTTAATTAACAAATGTAGATTCCAACATTATATATATAAGCTT
*
45619798 TTGTTAAATTTCATATTTTTCTTTGTTGGTAGTAACATTGACAAACATTGGCAACCATGTCTTTA
131 TTGTTAAATTTCAGATTTTTCTTTGTTGGTAGTAACATTGACAAACATTGGCAACCATGTCTTTA
* *
45619863 TTCTGTGCAATATTTAATTTGGAGAAACCTTTAAGATGATATTATCTTTGCTTATATTGATTGAA
196 TTCTCTGCAATATTTAATTTGGAGAAACCTTTAAGATGATATTACCTTTGCTTATATTGATTGAA
* *
45619928 AGCTAAGGAAATGATGTTGTTGAATTAGGATAATACCTATATGAGATTTATAATCATGATATTGA
261 AGCTAAGGAAATGATGGTGTTGAATTAGGATAATACCTATATGAGATCTATAATCATGATATTGA
* *
45619993 GCTCAAAGTATTTAAATTTGCAGTATGTATATTAATTTATTCATTTCTTTATTTCATATGACAAT
326 GCTCAAAGTATTTAAATTTGCAGTATGTATATTAATTTATGCATTTCTTTATTTCATATGAAAAT
*
45620058 AAAAGTTGTGAAATCAAATATTGATGCATTCTTGTAGCATTAATTACAAATTGTGCTACAAATAT
391 AAAAGTTGTGAAATAAAATATTGATGCATTCTTGTAGCATTAATTACAAATTGTGCTACAAATAT
* *
45620123 TGATTTTAATACCTTAATATCTAATATTCTGT
456 TGATTTTAACACCTTAATATCTAAGATTCTGT
45620155 TTGTTTT
1 TTGTTTT
45620162 CTAGAAATTA
Statistics
Matches: 472, Mismatches: 21, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
486 17 0.04
487 451 0.96
488 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (487 bp):
TTGTTTTTTATTTAGTTGTTCTTGATGCAATACTACCATCAATGGGCACCACAACCATTACTTCC
AATCAGACACTCTATTTTCTTAGTTAATTAACAAATGTAGATTCCAACATTATATATATAAGCTT
TTGTTAAATTTCAGATTTTTCTTTGTTGGTAGTAACATTGACAAACATTGGCAACCATGTCTTTA
TTCTCTGCAATATTTAATTTGGAGAAACCTTTAAGATGATATTACCTTTGCTTATATTGATTGAA
AGCTAAGGAAATGATGGTGTTGAATTAGGATAATACCTATATGAGATCTATAATCATGATATTGA
GCTCAAAGTATTTAAATTTGCAGTATGTATATTAATTTATGCATTTCTTTATTTCATATGAAAAT
AAAAGTTGTGAAATAAAATATTGATGCATTCTTGTAGCATTAATTACAAATTGTGCTACAAATAT
TGATTTTAACACCTTAATATCTAAGATTCTGT
Found at i:45626680 original size:43 final size:43
Alignment explanation
Indices: 45626579--45626770 Score: 219
Period size: 43 Copynumber: 4.5 Consensus size: 43
45626569 TTTATTTGAA
* * * **
45626579 AAACGCCGCTAAAGATCATGACTTTTAACGGCAATTTTCC-AC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCTAC
** *
45626621 AAACATCGCTAAAGATCAAGACCTTTAGCGACGCTTTTCCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCTAC
* * *
45626664 AAATGCCGCTAAAGATCATGACCTTTAGCAACGCTTTTTCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCTAC
* * *
45626707 AAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTTT-CTCAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCT-AC
45626750 AAACGCCGCTAAA-AGTCATGA
1 AAACGCCGCTAAAGA-TCATGA
45626771 AATTCAAAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 35 0.28
43 92 0.72
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCTAC
Found at i:45626730 original size:86 final size:85
Alignment explanation
Indices: 45626577--45626770 Score: 243
Period size: 86 Copynumber: 2.3 Consensus size: 85
45626567 CGTTTATTTG
* *
45626577 AAAAACGCCGCTAAAGATCATGACTTTTAACGGCAATTTTCCACAAACATCGCTAAAGATCAAGA
1 AAAAACGCCGCTAAAGATCATGACTTTCAACGGCAATTTTCCACAAACACCGCTAAAGATCAAGA
45626642 CCTTTAGCGACGCTTTTC-C
66 CCTTTAGCGACGCTTTTCTC
* * * *
45626661 TACAAATGCCGCTAAAGATCATGACCTTTAGCAAC-GC-TTTTTCTACAAACACCGCTAAAGATC
1 -AAAAACGCCGCTAAAGATCATGA-CTTT--CAACGGCAATTTTCCACAAACACCGCTAAAGATC
* *
45626724 ATGACCTTTAGCGGCGCTTTTCTC
62 AAGACCTTTAGCGACGCTTTTCTC
45626748 AAAAACGCCGCTAAA-AGTCATGA
1 AAAAACGCCGCTAAAGA-TCATGA
45626771 AATTCAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
85 22 0.23
86 66 0.70
87 3 0.03
88 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGATCATGACTTTCAACGGCAATTTTCCACAAACACCGCTAAAGATCAAGA
CCTTTAGCGACGCTTTTCTC
Found at i:45630986 original size:6 final size:7
Alignment explanation
Indices: 45630969--45631009 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
45630959 AATATTTAAG
45630969 TTTTTTA
1 TTTTTTA
45630976 TTTTTTA
1 TTTTTTA
45630983 TTTTTTA
1 TTTTTTA
*
45630990 TTTTTAA
1 TTTTTTA
* *
45630997 ATTTTAA
1 TTTTTTA
45631004 TTTTTT
1 TTTTTT
45631010 TTGAAGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:45631505 original size:24 final size:24
Alignment explanation
Indices: 45631477--45631525 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
45631467 CCAAAATAAC
45631477 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
45631501 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
45631525 A
1 A
45631526 TAAATACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:45631528 original size:11 final size:12
Alignment explanation
Indices: 45631484--45631529 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
45631474 AACAATTAAT
45631484 TTTTATATAAAC
1 TTTTATATAAAC
* * *
45631496 TTTTAAATTAAT
1 TTTTATATAAAC
45631508 TTTTATATAAAC
1 TTTTATATAAAC
45631520 TTTTA-ATAAA
1 TTTTATATAAA
45631530 TACATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:45632184 original size:41 final size:41
Alignment explanation
Indices: 45632139--45632266 Score: 166
Period size: 41 Copynumber: 3.1 Consensus size: 41
45632129 TGTTTATAAC
*
45632139 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
45632180 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * * *
45632221 CTTTAGCAGCGTTTTAACAAAAAGCGCCACTATTTCTCTGTGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTG-GT
45632264 TTT
1 TTT
45632267 ACAATTTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
41 51 0.68
42 20 0.27
43 4 0.05
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:45632706 original size:31 final size:34
Alignment explanation
Indices: 45632668--45632741 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 34
45632658 AGGTAAGAGT
45632668 GTTTAAGTATC-AACTT-AAAAAAAAA-TGTCAA
1 GTTTAAGTATCTAACTTAAAAAAAAAAGTGTCAA
*
45632699 GTTTAAGTA-CTAATTTAAAAAAAAAAGTGTCAA
1 GTTTAAGTATCTAACTTAAAAAAAAAAGTGTCAA
45632732 GTTTAAGTAT
1 GTTTAAGTAT
45632742 TAAATTGGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 1 0.03
31 13 0.34
32 9 0.24
33 15 0.39
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (34 bp):
GTTTAAGTATCTAACTTAAAAAAAAAAGTGTCAA
Found at i:45633776 original size:20 final size:19
Alignment explanation
Indices: 45633742--45633782 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45633732 GGATTAATAA
45633742 TAAATAATTTTTATTAAAT
1 TAAATAATTTTTATTAAAT
* *
45633761 TAAATTATTTTATATTTAAT
1 TAAATAATTTT-TATTAAAT
45633781 TA
1 TA
45633783 TTTTATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAATAATTTTTATTAAAT
Found at i:45635918 original size:19 final size:19
Alignment explanation
Indices: 45635894--45635936 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
45635884 ATTTTCTCAT
*
45635894 AAAAATGATTAAAAACATA
1 AAAAATCATTAAAAACATA
**
45635913 AAAAATCATTAAAATTATA
1 AAAAATCATTAAAAACATA
45635932 AAAAA
1 AAAAA
45635937 AAATAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATCATTAAAAACATA
Found at i:45636675 original size:29 final size:27
Alignment explanation
Indices: 45636616--45636749 Score: 108
Period size: 29 Copynumber: 4.7 Consensus size: 27
45636606 TTATATGATT
* * *
45636616 TTTTTATAAGTTTTAATAA-ATTTATAT
1 TTTTTATAA-TTTTTATAATATTTAAAA
* * *
45636643 TTTTTATAATTTATTAGAATTTATTAGAA
1 TTTTTATAATTT-TTATAATAT-TTAAAA
45636672 TTTTTATAAGTTTTTATAATATCTTAAATA
1 TTTTTATAA-TTTTTATAATAT-TTAAA-A
* *
45636702 TATTTTATAATTTTTTATAATCTTTATAAG
1 T-TTTTATAA-TTTTTATAATATTTA-AAA
45636732 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
45636750 GTTTATATCA
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
26 3 0.03
27 13 0.15
28 10 0.11
29 32 0.36
30 9 0.10
31 21 0.24
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTTATAATTTTTATAATATTTAAAA
Found at i:45636716 original size:9 final size:9
Alignment explanation
Indices: 45636616--45636749 Score: 108
Period size: 10 Copynumber: 14.0 Consensus size: 9
45636606 TTATATGATT
45636616 TTTTTATAA
1 TTTTTATAA
*
45636625 GTTTTAATAA
1 -TTTTTATAA
* *
45636635 -ATTTATAT
1 TTTTTATAA
45636643 TTTTTATAA
1 TTTTTATAA
*
45636652 TTTATTAGAA
1 TTT-TTATAA
*
45636662 TTTATTAGAA
1 TTT-TTATAA
45636672 TTTTTATAA
1 TTTTTATAA
45636681 GTTTTTATAA
1 -TTTTTATAA
* *
45636691 TATCTTAAATA
1 T-TTTTATA-A
45636702 TATTTTATAA
1 T-TTTTATAA
45636712 TTTTTTATAA
1 -TTTTTATAA
*
45636722 TCTTTATAA
1 TTTTTATAA
45636731 GTTTTTATAA
1 -TTTTTATAA
45636741 TTTTTATAA
1 TTTTTATAA
45636750 GTTTATATCA
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.05
9 32 0.31
10 57 0.55
11 9 0.09
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45636729 original size:19 final size:19
Alignment explanation
Indices: 45636705--45636753 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
45636695 TTAAATATAT
*
45636705 TTTATAATTTTTTATAATC
1 TTTATAAGTTTTTATAATC
*
45636724 TTTATAAGTTTTTATAATT
1 TTTATAAGTTTTTATAATC
45636743 TTTATAAGTTT
1 TTTATAAGTTT
45636754 ATATCAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATC
Found at i:45639677 original size:20 final size:21
Alignment explanation
Indices: 45639654--45639694 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45639644 AATACATGAG
45639654 TATTTTG-ATGTTTGATGATA
1 TATTTTGAATGTTTGATGATA
45639674 TATTTTGAATGTTTGATGATA
1 TATTTTGAATGTTTGATGATA
45639695 GTTATAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TATTTTGAATGTTTGATGATA
Found at i:45644736 original size:19 final size:20
Alignment explanation
Indices: 45644708--45644749 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
45644698 TATTTAATTG
45644708 TGATTGAATTGTT-TATGAAT
1 TGATTGAATT-TTATATGAAT
*
45644728 TGATT-AATTTTATGTGAAT
1 TGATTGAATTTTATATGAAT
45644747 TGA
1 TGA
45644750 ATGTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (20 bp):
TGATTGAATTTTATATGAAT
Found at i:45647917 original size:47 final size:48
Alignment explanation
Indices: 45647858--45647972 Score: 178
Period size: 48 Copynumber: 2.4 Consensus size: 48
45647848 TTTAAATTGA
* *
45647858 AAATACTGGTGGTTCATCCAT-TTTTTTACTACTGGCAGTTTATCTGC
1 AAATACTAGTGGTTCATCCATAATTTTTACTACTGGCAGTTTATCTGC
* *
45647905 AAATACTAGTGGTTCATTCATAATTTTTACTACTGGTAGTTTATCTGC
1 AAATACTAGTGGTTCATCCATAATTTTTACTACTGGCAGTTTATCTGC
*
45647953 AAATACTAGTGATTCATCCA
1 AAATACTAGTGGTTCATCCA
45647973 CAAACTTGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 19 0.31
48 42 0.69
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (48 bp):
AAATACTAGTGGTTCATCCATAATTTTTACTACTGGCAGTTTATCTGC
Found at i:45652164 original size:120 final size:120
Alignment explanation
Indices: 45651865--45652344 Score: 750
Period size: 120 Copynumber: 4.0 Consensus size: 120
45651855 ATTATTAATC
* * * *
45651865 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
45651930 TTTTATTAAATTATATATTTT-ATTA-AATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * *
45651984 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
45652049 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * *
45652104 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
45652169 TATTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
* *
45652224 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
45652289 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
45652345 ATGATTAAAT
Statistics
Matches: 343, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 86 0.25
120 250 0.73
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:45652186 original size:15 final size:13
Alignment explanation
Indices: 45652177--45652232 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
45652167 AATATTATTA
45652177 AATTATATATTTT
1 AATTATATATTTT
45652190 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
45652205 AATAATAATTATGTT
1 AATTAT-A-TATTTT
45652220 AATT-TATATTTT
1 AATTATATATTTT
45652232 A
1 A
45652233 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:45652202 original size:16 final size:16
Alignment explanation
Indices: 45652181--45652223 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
45652171 TTATTAAATT
45652181 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
45652197 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
45652212 AT-TATGTTAATT
1 ATATATTTTAATT
45652224 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:45652580 original size:16 final size:16
Alignment explanation
Indices: 45652559--45652626 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
45652549 GATTTGCTAT
45652559 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
45652575 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
45652591 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45652607 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45652623 TACA
1 TACA
45652627 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45654966 original size:16 final size:16
Alignment explanation
Indices: 45654947--45654981 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45654937 AATTATTTAC
*
45654947 AATTAGTCATATAATA
1 AATTAGTAATATAATA
*
45654963 AATTATTAATATAATA
1 AATTAGTAATATAATA
45654979 AAT
1 AAT
45654982 ATAATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATTAGTAATATAATA
Found at i:45654990 original size:22 final size:22
Alignment explanation
Indices: 45654960--45655003 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45654950 TAGTCATATA
45654960 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
45654982 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
45655004 TATTTAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:45655049 original size:16 final size:14
Alignment explanation
Indices: 45655023--45655063 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
45655013 TTTCAATTTT
45655023 ATTTT-AATAATAA
1 ATTTTAAATAATAA
45655036 ATTTTGAAAATAAT-A
1 ATTTT--AAATAATAA
45655051 ATTTTAAATAATA
1 ATTTTAAATAATA
45655064 TTATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:45655114 original size:15 final size:15
Alignment explanation
Indices: 45655096--45655152 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
45655086 ATTAAATATT
45655096 AATATTTTAATAATA
1 AATATTTTAATAATA
*
45655111 AATATTTATTACACTTATA
1 AATA-TT-TTA-A-TAATA
*
45655130 AATATATTAATAATA
1 AATATTTTAATAATA
45655145 AATATTTT
1 AATATTTT
45655153 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 15 0.44
16 3 0.09
17 6 0.18
18 2 0.06
19 8 0.24
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:45655693 original size:10 final size:10
Alignment explanation
Indices: 45655678--45655702 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45655668 ATGTGGTCGA
45655678 ATAAATTTTC
1 ATAAATTTTC
45655688 ATAAATTTTC
1 ATAAATTTTC
45655698 ATAAA
1 ATAAA
45655703 ATAAGTGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATTTTC
Found at i:45658634 original size:47 final size:47
Alignment explanation
Indices: 45658576--45659169 Score: 1003
Period size: 47 Copynumber: 12.6 Consensus size: 47
45658566 GATAATTGTG
* *
45658576 ATGTG-AA-TGTATAAATGTGATAAGGCCTAATGGCCGATATGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658621 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658668 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658717 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658764 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658811 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658858 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45658907 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45658956 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45659003 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45659050 ATGTGAAAGTCTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
45659097 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45659144 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
45659170 TCCCGAAGGG
Statistics
Matches: 527, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
45 5 0.01
46 2 0.00
47 377 0.72
49 143 0.27
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45658957 original size:239 final size:237
Alignment explanation
Indices: 45658576--45659169 Score: 1034
Period size: 239 Copynumber: 2.5 Consensus size: 237
45658566 GATAATTGTG
* *
45658576 ATGTG-AA-TGTATAAATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
45658639 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
45658704 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
*
45658769 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
196 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
45658811 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
45658876 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
45658941 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
129 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
45659006 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
194 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
45659050 ATGTGAAAGTCTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
45659115 GTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
45659170 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 12, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
235 15 0.04
236 3 0.01
237 92 0.27
239 233 0.68
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (237 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:45661419 original size:57 final size:57
Alignment explanation
Indices: 45661308--45661447 Score: 131
Period size: 57 Copynumber: 2.5 Consensus size: 57
45661298 ATTTATATAA
* * * * * *
45661308 CAGGATTACCTGTCAAGGCTAAATCCCATCCTTAGCGTTTGCTCTCAAGTGCTTATT
1 CAGGATTACCAGTCAAGGCTAAATCCCATCCATAACGTTAGCTCTCAAGAGCTTACT
* ** *
45661365 CAGGATTACCAGTCTAGGCTAAATCCTTTCGATAACGTTAGCTCT-AATGAGCTTACT
1 CAGGATTACCAGTCAAGGCTAAATCCCATCCATAACGTTAGCTCTCAA-GAGCTTACT
* * *
45661422 -ATTGATTACCCGTCCAGGCTAAATCC
1 CA-GGATTACCAGTCAAGGCTAAATCC
45661448 ATTTAATGAC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
56 3 0.04
57 65 0.96
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (57 bp):
CAGGATTACCAGTCAAGGCTAAATCCCATCCATAACGTTAGCTCTCAAGAGCTTACT
Found at i:45665186 original size:30 final size:30
Alignment explanation
Indices: 45665152--45665212 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45665142 TCTTTAACTC
*
45665152 AAACTTTGGCAAAATTACAATTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
45665182 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
45665212 A
1 A
45665213 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:45668466 original size:52 final size:52
Alignment explanation
Indices: 45668365--45668466 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 52
45668355 GAACCCAATT
*
45668365 ACATGTATCACATCCATAATGAACTCAAACCAACTCAACGAGCTCGGATGTC
1 ACATGTATCACATCCATAATGAACTCAAACCAACTCAACAAGCTCGGATGTC
* * * * * *
45668417 ACATGTATCGCATCCATTATGAACTTAGACCAACTCAATAAGCTTGGATG
1 ACATGTATCACATCCATAATGAACTCAAACCAACTCAACAAGCTCGGATG
45668467 CTTTACATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (52 bp):
ACATGTATCACATCCATAATGAACTCAAACCAACTCAACAAGCTCGGATGTC
Found at i:45668509 original size:45 final size:45
Alignment explanation
Indices: 45668437--45668615 Score: 225
Period size: 45 Copynumber: 4.0 Consensus size: 45
45668427 CATCCATTAT
* * * *
45668437 GAACTTAGACCAACTCAATAAGCTTGGATGCTTTACATATATCAC
1 GAACTTGGACCAACTCAACAAGCTCGGATGCTTCACATATATCAC
* * * *
45668482 GAATTTGGACCAACTCAACAAGTTTGGAT-TTCTCACATATATCAC
1 GAACTTGGACCAACTCAACAAGCTCGGATGCT-TCACATATATCAC
** *
45668527 GAACTCAGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
1 GAACTTGGACCAACTCAACAAGCTCGGATGCTTCACATATATCAC
* *
45668572 GAACTTGGACCAACTCAACAAGTTCAGATGCTTCACATATATCA
1 GAACTTGGACCAACTCAACAAGCTCGGATGCTTCACATATATCA
45668616 TATAATATCA
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.01
45 112 0.98
46 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (45 bp):
GAACTTGGACCAACTCAACAAGCTCGGATGCTTCACATATATCAC
Found at i:45668608 original size:90 final size:90
Alignment explanation
Indices: 45668437--45668615 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 90
45668427 CATCCATTAT
* * * * *
45668437 GAACTTAGACCAACTCAATAAGCTTGGATGCTTTACATATATCACGAATTTGGACCAACTCAACA
1 GAACTCAGACCAACTCAACAAGCTCGGATGCTTCACATATATCACGAACTTGGACCAACTCAACA
** *
45668502 AGTTTGGATTTCTCACATATATCAC
66 AGTTCAGATCTCTCACATATATCAC
*
45668527 GAACTCAGACCAACTCAACGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAACTCAACA
1 GAACTCAGACCAACTCAACAAGCTCGGATGCTTCACATATATCACGAACTTGGACCAACTCAACA
45668592 AGTTCAGATGCT-TCACATATATCA
66 AGTTCAGAT-CTCTCACATATATCA
45668616 TATAATATCA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 78 0.99
91 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (90 bp):
GAACTCAGACCAACTCAACAAGCTCGGATGCTTCACATATATCACGAACTTGGACCAACTCAACA
AGTTCAGATCTCTCACATATATCAC
Found at i:45671584 original size:46 final size:45
Alignment explanation
Indices: 45671517--45671686 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 45
45671507 TAACTGCCCC
* * * *
45671517 TAAGTGAAATCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATACA
* * *
45671563 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATACA
*** * *
45671609 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATACA
45671656 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
45671687 AGATGCTCAA
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 63 0.62
47 35 0.35
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATACA
Found at i:45671708 original size:46 final size:44
Alignment explanation
Indices: 45671565--45671708 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
45671555 CGCATCCATA
*
45671565 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC-A---ACATC-CT
* * * * *
45671614 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGC-CA-ACATCCT
45671658 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CAA-CATCCT
45671704 AGTGA
1 AGTGA
45671709 CATGTCACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
44 9 0.12
46 31 0.41
47 30 0.40
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCAACATCCT
Found at i:45678045 original size:44 final size:44
Alignment explanation
Indices: 45677976--45678254 Score: 234
Period size: 44 Copynumber: 6.2 Consensus size: 44
45677966 ATTACATGTA
* *
45677976 TCGCATCTATAATGAACTCGGACCAACTTAATAAGCTCGGATGC
1 TCGCATATATAATGAACTCGGACCAACTCAATAAGCTCGGATGC
* ** *
45678020 TCGCATCTATAATGAACTCAAACCAACTCAATGAGCTCGGATGC
1 TCGCATATATAATGAACTCGGACCAACTCAATAAGCTCGGATGC
* * * * * * ** *
45678064 TTCACATATATGACGAACTGGGACCAACTCAACAAGTTCAAATTTC
1 -TCGCATATATAATGAACTCGGACCAACTCAATAAGCTCGGA-TGC
* * * * *
45678110 TCACATATATCACGAACTCGGACCAACTCAATGAGCTCGGATGT
1 TCGCATATATAATGAACTCGGACCAACTCAATAAGCTCGGATGC
* * ** *
45678154 TCGCATGTATAATGAACTCAGACCAACTCAACGAGCTCGAATGC
1 TCGCATATATAATGAACTCGGACCAACTCAATAAGCTCGGATGC
* * * * *
45678198 TTCACATATAATCATGAACTTGGACCAACTCAACAAGTTCGGATGC
1 -TCGCATAT-ATAATGAACTCGGACCAACTCAATAAGCTCGGATGC
*
45678244 TTCACATATAT
1 -TCGCATATAT
45678255 CACATAATAT
Statistics
Matches: 189, Mismatches: 42, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
44 77 0.41
45 71 0.38
46 41 0.22
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (44 bp):
TCGCATATATAATGAACTCGGACCAACTCAATAAGCTCGGATGC
Found at i:45678171 original size:134 final size:135
Alignment explanation
Indices: 45677989--45678237 Score: 401
Period size: 134 Copynumber: 1.9 Consensus size: 135
45677979 CATCTATAAT
* *
45677989 GAACTCGGACCAACTTAATAAGCTCGGATGCTCGCATCTATAATGAACTCAAACCAACTCAATGA
1 GAACTCGGACCAACTCAATAAGCTCGGATGCTCGCATCTATAATGAACTCAAACCAACTCAACGA
* *
45678054 GCTCGGATGCTTCACATAT-ATGACGAACTGGGACCAACTCAACAAGTTCAAATTTCTCACATAT
66 GCTCGAATGCTTCACATATAATCACGAACTGGGACCAACTCAACAAGTTCAAATTTCTCACATAT
45678118 ATCAC
131 ATCAC
* * * *
45678123 GAACTCGGACCAACTCAATGAGCTCGGATGTTCGCATGTATAATGAACTCAGACCAACTCAACGA
1 GAACTCGGACCAACTCAATAAGCTCGGATGCTCGCATCTATAATGAACTCAAACCAACTCAACGA
* *
45678188 GCTCGAATGCTTCACATATAATCATGAACTTGGACCAACTCAACAAGTTC
66 GCTCGAATGCTTCACATATAATCACGAACTGGGACCAACTCAACAAGTTC
45678238 GGATGCTTCA
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
134 77 0.74
135 27 0.26
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (135 bp):
GAACTCGGACCAACTCAATAAGCTCGGATGCTCGCATCTATAATGAACTCAAACCAACTCAACGA
GCTCGAATGCTTCACATATAATCACGAACTGGGACCAACTCAACAAGTTCAAATTTCTCACATAT
ATCAC
Found at i:45678228 original size:46 final size:45
Alignment explanation
Indices: 45677989--45678257 Score: 247
Period size: 45 Copynumber: 6.0 Consensus size: 45
45677979 CATCTATAAT
* ** * * * *
45677989 GAACTCGGACCAACTTAATAAGCTCGGATGC-TCGCATCTATAAT
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
** * *
45678033 GAACTCAAACCAACTCAATGAGCTCGGATGCTTCACATATATGAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
* * * ** *
45678078 GAACTGGGACCAACTCAACAAGTTCAAAT-TTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCT-TCACATATATCAC
* * * * *
45678123 GAACTCGGACCAACTCAATGAGCTCGGATG-TTCGCATGTATAAT
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
* * *
45678167 GAACTCAGACCAACTCAACGAGCTCGAATGCTTCACATATAATCAT
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATAT-ATCAC
* * *
45678213 GAACTTGGACCAACTCAACAAGTTCGGATGCTTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
45678258 ATAATATCAA
Statistics
Matches: 180, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
44 64 0.36
45 77 0.43
46 39 0.22
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (45 bp):
GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
Found at i:45678734 original size:19 final size:18
Alignment explanation
Indices: 45678698--45678747 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
45678688 CTATAACAGC
*
45678698 TCACAGTTT-CAATTATT
1 TCACAATTTACAATTATT
45678715 TCACAATTTACAACTTATT
1 TCACAATTTACAA-TTATT
*
45678734 TTACAACTTTACAA
1 TCACAA-TTTACAA
45678748 AATAGCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.29
18 3 0.11
19 10 0.36
20 7 0.25
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:45679907 original size:14 final size:14
Alignment explanation
Indices: 45679888--45679926 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
45679878 CCAGAAAAGT
45679888 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
45679902 AAATCATTTTCCAT
1 AAATCATTTTCCAG
*
45679916 AAGTCATTTTC
1 AAATCATTTTC
45679927 TGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:45682886 original size:11 final size:11
Alignment explanation
Indices: 45682870--45682896 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45682860 ATTAAAATCG
45682870 AATCGGGACTT
1 AATCGGGACTT
45682881 AATCGGGACTT
1 AATCGGGACTT
45682892 AATCG
1 AATCG
45682897 TGACATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (11 bp):
AATCGGGACTT
Found at i:45686439 original size:38 final size:39
Alignment explanation
Indices: 45686350--45686440 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 39
45686340 AGAAAAAGAC
*
45686350 AAATTAAATCACAGAAATTTCACAAACATAAATTCACAT
1 AAATTAAATCACAGAAATTTCACAAACATAAATTCACAG
** * *
45686389 ATCTCAGA-CACAGAAATTTCACAAACATAAA-TCACAG
1 AAATTAAATCACAGAAATTTCACAAACATAAATTCACAG
45686426 AAATTAAATCACAGA
1 AAATTAAATCACAGA
45686441 CTCGGATTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
37 9 0.21
38 29 0.69
39 4 0.10
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.22
Consensus pattern (39 bp):
AAATTAAATCACAGAAATTTCACAAACATAAATTCACAG
Found at i:45693056 original size:46 final size:45
Alignment explanation
Indices: 45693004--45693174 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 45
45692994 TCATCTCATA
* *
45693004 GCCGATGCATGTCCTAGACATGTCTTACATTGGCTTACGTCTTAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTAAG
* * ** * *
45693050 GTCGATGCATGTCCCAAACATGTCTTACACTAACTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTCTTAAG
*
45693096 GCCGATGCCATGTCCCAGACATGATCTTACACTGGC-TC-TCATAATGTG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCTTCGTCTTAA---G
45693144 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
45693175 AGCTCACAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
45 4 0.04
46 53 0.51
47 30 0.29
48 17 0.16
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTAAG
Found at i:45693165 original size:94 final size:92
Alignment explanation
Indices: 45692956--45693175 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 92
45692946 TGGGTAAGGT
* * * *
45692956 GCCGATGCCATGTCCCAAACACGGTCTTGCACTGACTATCATCTCATAGCCGATGCATGTCCTAG
1 GCCGATG-CATGTCCCAAACA-TGTCTTACACTAACTATCATCTCATAGCCGATGCATGTCCCAG
* *
45693021 ACATGTCTTACATTGGCTTACGTCTTAAG
64 ACATGTCTTACACTGGCTTACGTCATAAG
* * *
45693050 GTCGATGCATGTCCCAAACATGTCTTACACTAACTCTCGTCTCA-ATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAACTATCATCTCATA-GCCGATG-CATGTCCCAG
45693114 ACATGATCTTACACTGGC-T-C-TCATAATGTG
64 ACATG-TCTTACACTGGCTTACGTCATAA---G
*
45693144 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAAACATGTCTTACACTA
45693176 GCTCACAAAC
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
91 6 0.06
92 27 0.25
93 28 0.26
94 48 0.44
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAACTATCATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTTACGTCATAAG
Found at i:45721661 original size:46 final size:46
Alignment explanation
Indices: 45721611--45721784 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
45721601 GGTTGAGCAT
45721611 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
45721657 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* ***
45721704 CGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAAAAAC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* *
45721750 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45721785 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:45721770 original size:93 final size:92
Alignment explanation
Indices: 45721607--45721777 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
45721597 GGATGGTTGA
***
45721607 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAAACCGAACTCGTTGAGTT
45721672 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
45721699 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAAAAACCGAGCTCGTTGAGT
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAAACCGAACTCGTTGAGT
45721764 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
45721778 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAAACCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45729216 original size:46 final size:46
Alignment explanation
Indices: 45729166--45729341 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
45729156 TGGTTGAGCA
45729166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45729212 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
45729257 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45729305 CCCGAGCTCGTTGAGTTGATTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45729342 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45729322 original size:93 final size:93
Alignment explanation
Indices: 45729163--45729334 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45729153 GGATGGTTGA
* *
45729163 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45729228 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
45729256 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
45729321 TGATTCCGAGTTCG
66 TGAGTCCGAGTTCG
45729335 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45743897 original size:5 final size:5
Alignment explanation
Indices: 45743879--45743915 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
45743869 GATTTAGGTT
*
45743879 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTAC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC T
45743916 CTTCATCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:45743907 original size:15 final size:16
Alignment explanation
Indices: 45743879--45743940 Score: 74
Period size: 15 Copynumber: 3.9 Consensus size: 16
45743869 GATTTAGGTT
*
45743879 TTTTCTTCTTCTTTTC
1 TTTTCTTCTTCTTTAC
45743895 TTTTCTT-TTCTTTAC
1 TTTTCTTCTTCTTTAC
*
45743910 TTTTC-TCTTCATCTAC
1 TTTTCTTCTTC-TTTAC
45743926 TTTCTCTTCTTCTTT
1 TTT-TCTTCTTCTTT
45743941 TCCCCCATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.03
15 15 0.38
16 14 0.36
17 4 0.10
18 5 0.13
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTCTTCTTCTTTAC
Found at i:45747840 original size:49 final size:49
Alignment explanation
Indices: 45747787--45748246 Score: 808
Period size: 49 Copynumber: 9.5 Consensus size: 49
45747777 ATTTAGGATT
*
45747787 CAATGTGATGAATGTGAAAGTGTATGTGTATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
*
45747836 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGAC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
45747885 CAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
45747932 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
45747981 CAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
45748028 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
45748077 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
*
45748126 CAATGTGATGAATGTGAACGTGTATGTATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
* *
45748175 CAATGTGATGAATGTGAAA--GTATATATATATGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
*
45748222 CAATGTGATGGAA-GTGGAAGTGTAT
1 CAATGTGAT-GAATGTGAAAGTGTAT
45748247 AACTGTGATA
Statistics
Matches: 396, Mismatches: 8, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
47 133 0.34
48 3 0.01
49 260 0.66
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGC
Found at i:45747942 original size:96 final size:96
Alignment explanation
Indices: 45747787--45748246 Score: 814
Period size: 96 Copynumber: 4.8 Consensus size: 96
45747777 ATTTAGGATT
45747787 CAATGTGATGAATGTGAAAGTGTATGTGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 CAATGTGATGAATGTGAAAGTGTA--TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
45747852 AAAGTGTATGTATATGTGATAAGGCCGAATGAC
64 AAAGTGTATGTATATGTGATAAGGCCGAATGGC
45747885 CAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 CAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
45747950 AGTGTATGTATATGTGATAAGGCCGAATGGC
66 AGTGTATGTATATGTGATAAGGCCGAATGGC
45747981 CAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 CAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
45748046 AGTGTATGTATATGTGATAAGGCCGAATGGC
66 AGTGTATGTATATGTGATAAGGCCGAATGGC
45748077 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 CAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
45748142 AACGTGTATGTATATGTGATAAGGCCGAATGGC
64 AAAGTGTATGTATATGTGATAAGGCCGAATGGC
* * * *
45748175 CAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGATGGAA-GTGG
1 CAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGA
45748239 AAGTGTAT
65 AAGTGTAT
45748247 AACTGTGATA
Statistics
Matches: 352, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
96 232 0.66
97 3 0.01
98 117 0.33
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (96 bp):
CAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
AGTGTATGTATATGTGATAAGGCCGAATGGC
Found at i:45747952 original size:145 final size:145
Alignment explanation
Indices: 45747787--45748246 Score: 809
Period size: 145 Copynumber: 3.2 Consensus size: 145
45747777 ATTTAGGATT
*
45747787 CAATGTGATGAATGTGAAAGTGTATGTGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
45747852 AAAGTGTATGTATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATGTATGTG
66 AAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTG
45747917 ATAAGGCCGAATGGC
131 ATAAGGCCGAATGGC
45747932 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
45747997 AAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATG
66 AAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATG
45748060 TGATAAGGCCGAATGGC
129 TGATAAGGCCGAATGGC
45748077 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
45748142 AACGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATG
66 AAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTG
45748207 ATAAGGCCGAATGGC
131 ATAAGGCCGAATGGC
*
45748222 CAATGTGATGGAA-GTGGAAGTGTAT
1 CAATGTGAT-GAATGTGAAAGTGTAT
45748247 AACTGTGATA
Statistics
Matches: 303, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
143 46 0.15
145 209 0.69
146 3 0.01
147 45 0.15
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (145 bp):
CAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTG
ATAAGGCCGAATGGC
Found at i:45752780 original size:5 final size:5
Alignment explanation
Indices: 45752762--45752793 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
45752752 GATTCAGTTT
45752762 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC T
45752794 CTTCATCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:45759126 original size:31 final size:31
Alignment explanation
Indices: 45759091--45759152 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
45759081 TGGCTAGGCT
45759091 TGGGTAACTTAGAAATTTCATGCATTTCTTA
1 TGGGTAACTTAGAAATTTCATGCATTTCTTA
45759122 TGGGTAACTTAGAAATTTCATGCATTTCTTA
1 TGGGTAACTTAGAAATTTCATGCATTTCTTA
45759153 ATACGAGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (31 bp):
TGGGTAACTTAGAAATTTCATGCATTTCTTA
Found at i:45765173 original size:53 final size:53
Alignment explanation
Indices: 45765093--45765199 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
45765083 GAATTTGTGT
45765093 GCCGAGAAATTCTAAACTTATTTAGAAAATTCTACATGAAGCACACAGTAGTA
1 GCCGAGAAATTCTAAACTTATTTAGAAAATTCTACATGAAGCACACAGTAGTA
*
45765146 GCCGAGAAATTCTAAGCTTATTTAGAAAATTCTACATGAAGCACACAGTAGTA
1 GCCGAGAAATTCTAAACTTATTTAGAAAATTCTACATGAAGCACACAGTAGTA
45765199 G
1 G
45765200 TTTATCTGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (53 bp):
GCCGAGAAATTCTAAACTTATTTAGAAAATTCTACATGAAGCACACAGTAGTA
Found at i:45768470 original size:24 final size:24
Alignment explanation
Indices: 45768438--45768487 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
45768428 CAAATGGTTG
45768438 AATTTGAGAATGTATTAGTATGCT
1 AATTTGAGAATGTATTAGTATGCT
45768462 AATTTGAGAATGTATTAGTATGCT
1 AATTTGAGAATGTATTAGTATGCT
45768486 AA
1 AA
45768488 GTGTTAGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (24 bp):
AATTTGAGAATGTATTAGTATGCT
Found at i:45771390 original size:22 final size:22
Alignment explanation
Indices: 45771354--45771395 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45771344 GTTCAATTGA
*
45771354 TTTTTAGCTTCGTTCAACCAAT
1 TTTTTAACTTCGTTCAACCAAT
*
45771376 TTTTTAACTTGGTTCAACCA
1 TTTTTAACTTCGTTCAACCA
45771396 GTGTGTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (22 bp):
TTTTTAACTTCGTTCAACCAAT
Found at i:45780547 original size:25 final size:24
Alignment explanation
Indices: 45780519--45780569 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
45780509 AAAACTTGAA
*
45780519 AAAAAATCAAGATAGAAAAAGTCTC
1 AAAAAATCAAG-CAGAAAAAGTCTC
* *
45780544 AAAATATTAAGCAGAAAAAGTCTC
1 AAAAAATCAAGCAGAAAAAGTCTC
45780568 AA
1 AA
45780570 TCCAACATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.18
Consensus pattern (24 bp):
AAAAAATCAAGCAGAAAAAGTCTC
Found at i:45784210 original size:66 final size:66
Alignment explanation
Indices: 45784104--45784236 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
45784094 AAGCTCAGAG
*
45784104 ATTGTCAAGGATCATCACTACACTATCGAACTATATTTTGGTACCTTTTGAAAATGTATATATTG
1 ATTGTCAAAGATCATCACTACACTATCGAACTATATTTTGGTACCTTTTGAAAATGTATATATTG
45784169 A
66 A
*
45784170 ATTGTCAAAGATCATCACTACACTATCGAATTATATTTTGGTACCTTTTGAAAATGTATATATTG
1 ATTGTCAAAGATCATCACTACACTATCGAACTATATTTTGGTACCTTTTGAAAATGTATATATTG
45784235 A
66 A
45784236 A
1 A
45784237 GTATGGCATG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (66 bp):
ATTGTCAAAGATCATCACTACACTATCGAACTATATTTTGGTACCTTTTGAAAATGTATATATTG
A
Found at i:45794669 original size:55 final size:54
Alignment explanation
Indices: 45794603--45794713 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 54
45794593 CCTGACGCTT
45794603 ATTGTGAATGGGAATCTAAGATTGAACTCATGTGGTCGGTATTATAAATGTCCGG
1 ATTGTGAATGGGAATCTAAGATTGAACTCATGT-GTCGGTATTATAAATGTCCGG
*
45794658 ATTGTGAATGGGAATCTAAGATTGAACTCATGTTTCGGTATTATAAATGTCCGG
1 ATTGTGAATGGGAATCTAAGATTGAACTCATGTGTCGGTATTATAAATGTCCGG
45794712 AT
1 AT
45794714 GATGAAAAGG
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 22 0.40
55 33 0.60
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (54 bp):
ATTGTGAATGGGAATCTAAGATTGAACTCATGTGTCGGTATTATAAATGTCCGG
Found at i:45814048 original size:25 final size:28
Alignment explanation
Indices: 45813996--45814048 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
45813986 TTATCGCTAT
* *
45813996 TATGTGTTGAATGATTGATTTTGCATAA
1 TATGTGTTGAATGATTGATTATGAATAA
45814024 TATG-GTTGAAT-A-TGATTATGAATAA
1 TATGTGTTGAATGATTGATTATGAATAA
45814049 AGCATGACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 1 0.04
27 7 0.30
28 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (28 bp):
TATGTGTTGAATGATTGATTATGAATAA
Found at i:45814213 original size:48 final size:48
Alignment explanation
Indices: 45814138--45814362 Score: 193
Period size: 48 Copynumber: 4.7 Consensus size: 48
45814128 TATGTACACT
*
45814138 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * ** * * *
45814186 AGTGTAAGACCGTGTTTGGAACGTGGCATTGGTAATG-TAATAAAAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGAT-ATGAGAGCC
* ** * * * * *
45814234 AGTGTAAGACCATTTTTGGGACATGGCATC-GATATTGAGACGAGAACT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * * * * *
45814282 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
*
45814330 AGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
45814363 AATTCACCCT
Statistics
Matches: 134, Mismatches: 39, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
47 3 0.02
48 130 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:45823900 original size:21 final size:21
Alignment explanation
Indices: 45823876--45823918 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
45823866 CACCTAGATA
45823876 TGTTCACAC-TAACAATTAAAT
1 TGTTCACACTTAAC-ATTAAAT
45823897 TGTTCACACTTAACATTAAAT
1 TGTTCACACTTAACATTAAAT
45823918 T
1 T
45823919 TGGTTCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (21 bp):
TGTTCACACTTAACATTAAAT
Found at i:45827570 original size:27 final size:27
Alignment explanation
Indices: 45827493--45827563 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
45827483 TGATCAAAAT
* *
45827493 AAAATAA-AACAAAATAAAGTTATATA
1 AAAATAATTACAAACTAAAGTTATATA
45827519 AAAATAATTACAAACTAAAGTTATATA
1 AAAATAATTACAAACTAAAGTTATATA
45827546 AAAATAATTACAAACTAA
1 AAAATAATTACAAACTAA
45827564 CTTTATAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
26 7 0.17
27 35 0.83
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAATAATTACAAACTAAAGTTATATA
Found at i:45829783 original size:7 final size:6
Alignment explanation
Indices: 45829753--45829807 Score: 56
Period size: 6 Copynumber: 8.5 Consensus size: 6
45829743 AACAAAAGCG
* *
45829753 AAAGGA AAAGAA AAAGAA AAAGAA AAGAGAA GGGAAAGGA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA ---AAAGAA AAAGAA AAAGAA
45829805 AAA
1 AAA
45829808 CATAAAGAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
6 33 0.79
7 4 0.10
9 3 0.07
10 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:45829790 original size:34 final size:32
Alignment explanation
Indices: 45829752--45829827 Score: 116
Period size: 34 Copynumber: 2.3 Consensus size: 32
45829742 AAACAAAAGC
*
45829752 GAAAGGAAAAGAAAAAGAAAAAGAAAAGAGAAGG
1 GAAAGGAAAAGAAAAAGAAAAACAAAA-AG-AGG
*
45829786 GAAAGGAAAAGAAAAAGAAAAACATAAAGAGG
1 GAAAGGAAAAGAAAAAGAAAAACAAAAAGAGG
45829818 GAAAGGAAAA
1 GAAAGGAAAA
45829828 ACATTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 13 0.32
33 2 0.05
34 25 0.62
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (32 bp):
GAAAGGAAAAGAAAAAGAAAAACAAAAAGAGG
Found at i:45831717 original size:46 final size:46
Alignment explanation
Indices: 45831667--45831839 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
45831657 TGGTTGAGCA
*
45831667 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
45831713 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
45831760 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45831806 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45831840 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45831823 original size:93 final size:93
Alignment explanation
Indices: 45831664--45831834 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45831654 GGATGGTTGA
* *
45831664 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
45831729 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
45831757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
45831822 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
45831835 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:45839245 original size:46 final size:46
Alignment explanation
Indices: 45839195--45839370 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
45839185 TGGTTGAGCA
45839195 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45839241 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
45839286 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45839334 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45839371 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45839351 original size:93 final size:93
Alignment explanation
Indices: 45839192--45839363 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
45839182 GGATGGTTGA
* * *
45839192 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
45839257 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
45839285 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
45839350 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45839364 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:45841741 original size:14 final size:14
Alignment explanation
Indices: 45841718--45841759 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
45841708 ATTTAAATTT
*
45841718 TATATTAATATTTA
1 TATATTAATATTAA
45841732 TCAT-TTAATATTAA
1 T-ATATTAATATTAA
45841746 TATATTAATATTAA
1 TATATTAATATTAA
45841760 ATAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATTAATATTAA
Found at i:45842305 original size:25 final size:26
Alignment explanation
Indices: 45842246--45842299 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
45842236 GGGTTCTAAT
*
45842246 TTAAATGAAACGGGGAGTTTTAGGGA
1 TTAAATAAAACGGGGAGTTTTAGGGA
45842272 TTAAATAAAACGGGGAG-TTTAGGGA
1 TTAAATAAAACGGGGAGTTTTAGGGA
45842297 TTA
1 TTA
45842300 CTTAAACGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.28
Consensus pattern (26 bp):
TTAAATAAAACGGGGAGTTTTAGGGA
Found at i:45842445 original size:21 final size:22
Alignment explanation
Indices: 45842420--45842461 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
45842410 CAGATCTCTC
* *
45842420 TCTCTTTTCTT-CTCTATTCTT
1 TCTCTTCTCTTCCTCAATTCTT
45842441 TCTCTTCTCTTCCTCAATTCT
1 TCTCTTCTCTTCCTCAATTCT
45842462 CTACTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (22 bp):
TCTCTTCTCTTCCTCAATTCTT
Found at i:45846955 original size:10 final size:10
Alignment explanation
Indices: 45846942--45846970 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
45846932 AATTTTAAAC
45846942 CTTTTTTTTT
1 CTTTTTTTTT
45846952 C-TTTTTTTT
1 CTTTTTTTTT
45846961 CTTTTTTTTT
1 CTTTTTTTTT
45846971 TTGAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:45846956 original size:9 final size:9
Alignment explanation
Indices: 45846944--45846969 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45846934 TTTTAAACCT
45846944 TTTTTTTTC
1 TTTTTTTTC
45846953 TTTTTTTTC
1 TTTTTTTTC
45846962 TTTTTTTT
1 TTTTTTTT
45846970 TTTGAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:45848092 original size:47 final size:47
Alignment explanation
Indices: 45848026--45848521 Score: 834
Period size: 47 Copynumber: 10.4 Consensus size: 47
45848016 TATCACAGTT
* * * *
45848026 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
45848073 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
45848122 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
45848169 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
45848216 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
45848265 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
45848312 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
45848359 ATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
45848406 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
45848455 ATACACTTTCACATT-ATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
45848503 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
45848522 GTAACAAAAT
Statistics
Matches: 431, Mismatches: 10, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
47 268 0.62
48 50 0.12
49 113 0.26
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:45848272 original size:143 final size:143
Alignment explanation
Indices: 45848026--45848521 Score: 856
Period size: 143 Copynumber: 3.5 Consensus size: 143
45848016 TATCACAGTT
* * * * *
45848026 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
45848090 TCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCG
65 TCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCG
45848155 GCCTTATCACATAC
130 GCCTTATCACATAC
*
45848169 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATATACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
45848234 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
45848299 CCTTATCACATAC
131 CCTTATCACATAC
45848312 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
*
45848377 CACATTGGCCATTCGACCTTATCAC--ATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
45848440 CCTTATCACATATAC
131 CCTTATCAC--ATAC
45848455 ATACACTTTCACATT-ATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTC
45848519 ATC
64 ATC
45848522 GTAACAAAAT
Statistics
Matches: 342, Mismatches: 6, Indels: 9
0.96 0.02 0.03
Matches are distributed among these distances:
141 47 0.14
142 27 0.08
143 243 0.71
144 25 0.07
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (143 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
CCTTATCACATAC
Found at i:45848337 original size:190 final size:191
Alignment explanation
Indices: 45848026--45848521 Score: 876
Period size: 190 Copynumber: 2.6 Consensus size: 191
45848016 TATCACAGTT
* * * *
45848026 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
45848088 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
65 CATCACATTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTCATCACATTGGCCATT
*
45848153 CGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
129 CGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATAC
*
45848216 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
45848281 ATCACATTGGCCATTCGGCCTTATCAC-ATACATACACTTTCACATTCATCACATTGGCCATTCG
66 ATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCATCACATTGGCCATTCG
45848345 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATAC
131 GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATAC
45848406 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT-
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
45848470 ATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATC
66 ATCACATTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTCATC
45848522 GTAACAAAAT
Statistics
Matches: 294, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
189 27 0.09
190 194 0.66
191 25 0.09
192 48 0.16
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (191 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATAC
Found at i:45848372 original size:16 final size:17
Alignment explanation
Indices: 45848347--45848419 Score: 50
Period size: 16 Copynumber: 4.6 Consensus size: 17
45848337 GCCATTCGGC
45848347 CTTATCACATACATACA
1 CTTATCACATACATACA
*
45848364 CTT-TCACATTCAT-CA
1 CTTATCACATACATACA
** * *
45848379 CATTGGC-CATTC-GAC-
1 C-TTATCACATACATACA
45848394 CTTATCACATACATACA
1 CTTATCACATACATACA
45848411 CTT-TCACAT
1 CTTATCACAT
45848420 TCATCACATT
Statistics
Matches: 43, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
14 3 0.07
15 8 0.19
16 25 0.58
17 7 0.16
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.33
Consensus pattern (17 bp):
CTTATCACATACATACA
Found at i:45851795 original size:25 final size:26
Alignment explanation
Indices: 45851743--45851796 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
45851733 GGTTTCTAGT
45851743 TTAAATGAAACGGGGAGTTTTAGGGA
1 TTAAATGAAACGGGGAGTTTTAGGGA
45851769 TTAAATGAAACGGGGAG-TTTAGGGA
1 TTAAATGAAACGGGGAGTTTTAGGGA
45851794 TTA
1 TTA
45851797 CTTAAACGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.28
Consensus pattern (26 bp):
TTAAATGAAACGGGGAGTTTTAGGGA
Found at i:45851942 original size:21 final size:22
Alignment explanation
Indices: 45851917--45851958 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
45851907 CAGATCTCTC
* *
45851917 TCTCTTTTCTT-CTCTATTCTT
1 TCTCTTCTCTTCCTCAATTCTT
45851938 TCTCTTCTCTTCCTCAATTCT
1 TCTCTTCTCTTCCTCAATTCT
45851959 CTACTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (22 bp):
TCTCTTCTCTTCCTCAATTCTT
Found at i:45852118 original size:25 final size:24
Alignment explanation
Indices: 45852090--45852173 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
45852080 ATAAATTTAA
45852090 ATTTATTATTATATTTTTTGAAAAT
1 ATTTATTATTATATTTTTT-AAAAT
* * *
45852115 ATTTATTTTTATATATTTTATAA-
1 ATTTATTATTATATTTTTTAAAAT
45852138 ATTTATTATTATATTTTTTAAAAAT
1 ATTTATTATTATATTTTTT-AAAAT
45852163 ATTTATATATT
1 ATTTAT-TATT
45852174 TTGTATATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 17 0.34
24 6 0.12
25 23 0.46
26 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (24 bp):
ATTTATTATTATATTTTTTAAAAT
Found at i:45852149 original size:23 final size:23
Alignment explanation
Indices: 45852088--45852175 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
45852078 ATATAAATTT
45852088 AAATTTATTATTATATTTTTTGAA
1 AAATTTATTATTATATTTTTT-AA
* * *
45852112 AATATTTATTTTTATATATTTTAT
1 AA-ATTTATTATTATATTTTTTAA
45852136 AAATTTATTATTATATTTTTTAA
1 AAATTTATTATTATATTTTTTAA
*
45852159 AAATAT-TTA-TATATTTT
1 AAATTTATTATTATATTTT
45852176 GTATATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
21 8 0.14
22 3 0.05
23 23 0.41
24 5 0.09
25 17 0.30
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (23 bp):
AAATTTATTATTATATTTTTTAA
Found at i:45852165 original size:21 final size:21
Alignment explanation
Indices: 45852093--45852175 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 21
45852083 AATTTAAATT
45852093 TATTATTATATTTTTTGAAAATA
1 TATTATTATATTTTTT-AAAA-A
* **
45852116 TTTATTTTTATATATTTTATAAATT
1 --TATTATTATAT-TTTT-TAAAAA
45852141 TATTATTATATTTTTTAAAAA
1 TATTATTATATTTTTTAAAAA
45852162 TATT-TATATATTTT
1 TATTAT-TATATTTT
45852176 GTATATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 4 0.08
23 10 0.20
25 10 0.20
26 7 0.14
27 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (21 bp):
TATTATTATATTTTTTAAAAA
Found at i:45855939 original size:18 final size:17
Alignment explanation
Indices: 45855909--45855942 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45855899 CCAGCATTTT
*
45855909 AGAATGGTTACTTAAAA
1 AGAATGGTCACTTAAAA
45855926 AGAACTGGTCACTTAAA
1 AGAA-TGGTCACTTAAA
45855943 GACAAACTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (17 bp):
AGAATGGTCACTTAAAA
Found at i:45862804 original size:23 final size:23
Alignment explanation
Indices: 45862778--45862833 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
45862768 AACTTATCAA
45862778 TTTAAATATTATAATATAAA-ATT
1 TTTAAATATTATAAT-TAAACATT
45862801 TTTAAATA--ATAATTAAAGCATT
1 TTTAAATATTATAATTAAA-CATT
45862823 TTTAATATATT
1 TTTAA-ATATT
45862834 CAACATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 8 0.29
23 11 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAATATTATAATTAAACATT
Found at i:45862812 original size:21 final size:22
Alignment explanation
Indices: 45862778--45862832 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
45862768 AACTTATCAA
45862778 TTTAAATATTATAATATAAA-ATT
1 TTTAAATA-TATAAT-TAAACATT
45862801 TTTAAATA-ATAATTAAAGCATT
1 TTTAAATATATAATTAAA-CATT
45862823 TTT-AATATAT
1 TTTAAATATAT
45862833 TCAACATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.14
21 9 0.31
22 8 0.28
23 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAAATATATAATTAAACATT
Found at i:45867921 original size:29 final size:29
Alignment explanation
Indices: 45867879--45867936 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45867869 GAAGTTAATG
45867879 ACTTAGGCCACTATCTCGGGGTTCCACTT
1 ACTTAGGCCACTATCTCGGGGTTCCACTT
45867908 ACTTAGGCCACTATCTCGGGGTTCCACTT
1 ACTTAGGCCACTATCTCGGGGTTCCACTT
45867937 CTTCATAAAA
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:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (29 bp):
ACTTAGGCCACTATCTCGGGGTTCCACTT
Found at i:45871173 original size:19 final size:19
Alignment explanation
Indices: 45871124--45871173 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
45871114 CACGATTATA
* *
45871124 TAATTTAAATTAAAAATAT
1 TAATTTACATAAAAAATAT
45871143 TAA-TTACTATAAAAAATAT
1 TAATTTAC-ATAAAAAATAT
45871162 TAATTTACATAA
1 TAATTTACATAA
45871174 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATTTACATAAAAAATAT
Found at i:45877023 original size:20 final size:22
Alignment explanation
Indices: 45876985--45877024 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
45876975 AGTTGATATC
45876985 TTTCAACAAAAATATAAATAAT
1 TTTCAACAAAAATATAAATAAT
*
45877007 TTTCAA-AAAATTA-AAATA
1 TTTCAACAAAAATATAAATA
45877025 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTCAACAAAAATATAAATAAT
Found at i:45877027 original size:19 final size:21
Alignment explanation
Indices: 45876980--45877027 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
45876970 AAAAAAGTTG
45876980 ATATCTTTCAACAAAAATATAA
1 ATAT-TTTCAACAAAAATATAA
*
45877002 ATAATTTTCAA-AAAATTA-AA
1 AT-ATTTTCAACAAAAATATAA
45877022 ATATTT
1 ATATTT
45877028 ATAAAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 6 0.25
22 8 0.33
23 2 0.08
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTTTCAACAAAAATATAA
Found at i:45885216 original size:40 final size:39
Alignment explanation
Indices: 45885118--45885267 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 39
45885108 GGATGATAAC
* * * * *
45885118 CGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
45885157 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
* *
45885197 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAATT
* *
45885237 CGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
45885268 AGCTATATCC
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 30 0.31
40 62 0.65
41 2 0.02
42 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:45898016 original size:19 final size:19
Alignment explanation
Indices: 45897992--45898031 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
45897982 AGATGTTGAG
45897992 ATGCAGAATGATTTGATGT
1 ATGCAGAATGATTTGATGT
45898011 ATGCAGAATGATTTGATGT
1 ATGCAGAATGATTTGATGT
45898030 AT
1 AT
45898032 AGTGAGGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (19 bp):
ATGCAGAATGATTTGATGT
Found at i:45900571 original size:20 final size:21
Alignment explanation
Indices: 45900533--45900571 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
45900523 TTTATGGTTT
*
45900533 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
45900554 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
45900572 TTGGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:45901359 original size:49 final size:49
Alignment explanation
Indices: 45901306--45901404 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
45901296 GATAAAAAAC
45901306 ATGGATAATATTGCTGGAAAATTATGAAATGGATTAAATGATGAAATTA
1 ATGGATAATATTGCTGGAAAATTATGAAATGGATTAAATGATGAAATTA
*
45901355 ATGGATGATATTGCTGGAAAATTATGAAATGGATTAAATGATGAAATTA
1 ATGGATAATATTGCTGGAAAATTATGAAATGGATTAAATGATGAAATTA
45901404 A
1 A
45901405 CACTTAGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.32
Consensus pattern (49 bp):
ATGGATAATATTGCTGGAAAATTATGAAATGGATTAAATGATGAAATTA
Found at i:45903117 original size:32 final size:32
Alignment explanation
Indices: 45903076--45903139 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
45903066 AAGGTTATTT
45903076 ACCAAGCCAATTTGCCACCCCTGTAATGCACA
1 ACCAAGCCAATTTGCCACCCCTGTAATGCACA
45903108 ACCAAGCCAATTTGCCACCCCTGTAATGCACA
1 ACCAAGCCAATTTGCCACCCCTGTAATGCACA
45903140 CACCTCACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.38, G:0.12, T:0.19
Consensus pattern (32 bp):
ACCAAGCCAATTTGCCACCCCTGTAATGCACA
Found at i:45908555 original size:39 final size:39
Alignment explanation
Indices: 45908510--45908591 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
45908500 AAGCAAGACA
*
45908510 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGAGCTAAAGACCCGCAGGCTTCGTG
*
45908549 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGAGCTAAAGACCCGCAGGCTTCGTG
45908588 CTGG
1 CTGG
45908592 TAACATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGAGCTAAAGACCCGCAGGCTTCGTG
Found at i:45915854 original size:46 final size:46
Alignment explanation
Indices: 45915779--45915907 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
45915769 TGTAACCCGC
* * * *
45915779 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
45915825 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45915871 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45915908 TGCCCAAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45918329 original size:15 final size:15
Alignment explanation
Indices: 45918305--45918382 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45918295 AGGAAACCGA
45918305 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
45918320 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
45918334 AATAAAGAATTCC-AG
1 -ATAAAGAAATCCAAG
* *
45918349 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45918365 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45918380 ATA
1 ATA
45918383 TGATACTATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
14 2 0.04
15 49 0.94
16 1 0.02
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45918338 original size:30 final size:30
Alignment explanation
Indices: 45918303--45918382 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
45918293 CAAGGAAACC
*
45918303 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
* *
45918333 GAATAAAGAATTCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* *
45918363 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
45918383 TGATACTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:45921358 original size:46 final size:46
Alignment explanation
Indices: 45921283--45921411 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
45921273 TGTAACCCGC
* * *
45921283 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
*
45921329 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45921375 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45921412 TGCCCAAACA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45935220 original size:46 final size:46
Alignment explanation
Indices: 45935170--45935293 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
45935160 GGATATTTGG
*
45935170 ACATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* **
45935216 ACATCCAAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGA
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
** *
45935262 ATGTCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTC
45935294 GTGATATGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:45941921 original size:28 final size:28
Alignment explanation
Indices: 45941890--45941959 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
45941880 TACTCAATGC
* *
45941890 CTCGCACACTAAGTGTCATACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
*
45941918 CTCGCACACTAAGTGCCACATTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
45941946 CTCGCACACTAAGT
1 CTCGCACACTAAGT
45941960 ACTGTACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCGATAT
Found at i:45942061 original size:40 final size:40
Alignment explanation
Indices: 45941947--45942083 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
45941937 ATTCGATATC
* ** * * *
45941947 TCGCACACTAAGTACTGTACATAGCC-AAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAA-CTATGTCGAA
* * *
45941987 TCACACACTAAATGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAACTATGTCGAA
* * *
45942027 TCGCACACTAAGTGCCATATATAGCTGAAACTATGTTGTA
1 TCGCACACTAAGTGCCATATATAGCCGAAACTATGTCGAA
45942067 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
45942084 CACATAACCG
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 79 0.98
41 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAACTATGTCGAA
Found at i:45945955 original size:20 final size:21
Alignment explanation
Indices: 45945921--45945974 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
45945911 TGATGATATT
*
45945921 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
45945942 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
45945962 TTTTATTATTTTA
1 TTATATTATTTTA
45945975 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:45945980 original size:11 final size:11
Alignment explanation
Indices: 45945964--45945991 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45945954 ATGAGATATT
45945964 TTATTATTTTA
1 TTATTATTTTA
45945975 TTATTATTTTA
1 TTATTATTTTA
45945986 TTATTA
1 TTATTA
45945992 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:45948178 original size:46 final size:46
Alignment explanation
Indices: 45948125--45948674 Score: 854
Period size: 46 Copynumber: 12.0 Consensus size: 46
45948115 AGTGTGCTCT
*
45948125 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
45948171 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
45948217 CTGATATGAAATGTGTAAGACCATGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
45948263 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
45948309 CTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
45948355 TTGATATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
45948401 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
45948447 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
45948493 CTGACATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
45948539 CTGATATGAAATGTG-ACAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTA-AGACCATGGTTGAAAGATACCATGGCAAC
* ***
45948585 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
45948631 AC-GACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
45948675 TCATGTCAAA
Statistics
Matches: 469, Mismatches: 31, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.00
46 466 0.99
47 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:45954592 original size:38 final size:40
Alignment explanation
Indices: 45954550--45954641 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 40
45954540 TAAAATTATA
*
45954550 TTTAATACAATAAAAAAATTATTAT-TATTAT-TTA-TGTT
1 TTTAATACAATAAAAAAATTATTATAT-TTATGGTAGTGTT
* * *
45954588 TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTT
1 TTTAATACAATAAAAAAATTATTATATTTATGGTAGTGTT
45954628 TTTAATACGAATAA
1 TTTAATAC-AATAA
45954642 TTTTTAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 26 0.58
39 3 0.07
40 11 0.24
41 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (40 bp):
TTTAATACAATAAAAAAATTATTATATTTATGGTAGTGTT
Found at i:45955269 original size:32 final size:33
Alignment explanation
Indices: 45955205--45955270 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
45955195 AAATATCTCC
** *
45955205 TTACTTTACAAAATTATATTATTTTAACTATTT
1 TTACTTTACAAAATTATATTATTAAAAATATTT
45955238 TTAC-TTACAAAATTATATTATTAAAAATATTT
1 TTACTTTACAAAATTATATTATTAAAAATATTT
45955270 T
1 T
45955271 GATTATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.52
Consensus pattern (33 bp):
TTACTTTACAAAATTATATTATTAAAAATATTT
Found at i:45964442 original size:19 final size:19
Alignment explanation
Indices: 45964418--45964458 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
45964408 TTAAATTGTT
*
45964418 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
45964437 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
45964456 TTA
1 TTA
45964459 ATATTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Done.