Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 165 of 444
Found at i:45494318 original size:29 final size:29
Alignment explanation
Indices: 45494251--45494319 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
45494241 GAGTTATATC
* *
45494251 GATTTGGCTTTGGGCCATGCATATCGGAT
1 GATTTGGCTTCGGGCCATGCATATAGGAT
*
45494280 GATATGGCTTCGGGCCATGCATATAGGAT
1 GATTTGGCTTCGGGCCATGCATATAGGAT
*
45494309 GATTTAGCTTC
1 GATTTGGCTTC
45494320 AGGCAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.33
Consensus pattern (29 bp):
GATTTGGCTTCGGGCCATGCATATAGGAT
Found at i:45497762 original size:58 final size:58
Alignment explanation
Indices: 45497689--45497812 Score: 223
Period size: 58 Copynumber: 2.2 Consensus size: 58
45497679 GGCTTATATA
*
45497689 CAACAACATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAATTC
1 CAACAACATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAAATC
*
45497747 CAACAATATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAAATC
1 CAACAACATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAAATC
45497805 CAA-AACAT
1 CAACAACAT
45497813 AATAGCACCA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
57 4 0.06
58 59 0.94
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.30
Consensus pattern (58 bp):
CAACAACATCTCAAAATATCATTCACTTACGTCTATTCTATACATGCCATACGAAATC
Found at i:45498463 original size:43 final size:43
Alignment explanation
Indices: 45498415--45498564 Score: 246
Period size: 43 Copynumber: 3.5 Consensus size: 43
45498405 CGACATTTCT
45498415 CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
* * *
45498458 CCTGCTAGGCCCGAAGCCCGATATCATCTCACAGGAATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
* *
45498501 CCTGCTAGGCTCGAAGCCCGATATCATCTCATCAGCATTATAG
1 CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
*
45498544 CCTGCTAGGCTCAAAGCCCGA
1 CCTGCTAGGCTCGAAGCCCGA
45498565 ATGTCACATT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 98 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (43 bp):
CCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAG
Found at i:45501734 original size:19 final size:19
Alignment explanation
Indices: 45501706--45501743 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45501696 TCGCTTCTTG
*
45501706 TCTGAAAAAAATCTTAAGC
1 TCTGAAAAAAACCTTAAGC
*
45501725 TCTGACAAAAACCTTAAGC
1 TCTGAAAAAAACCTTAAGC
45501744 ATGTCATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.24
Consensus pattern (19 bp):
TCTGAAAAAAACCTTAAGC
Found at i:45506251 original size:2 final size:2
Alignment explanation
Indices: 45506244--45506274 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45506234 GAGACTAGTC
45506244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45506275 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45508304 original size:30 final size:30
Alignment explanation
Indices: 45508270--45508330 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45508260 TCCTTAACTC
45508270 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45508300 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45508330 A
1 A
45508331 GGCTCGGGAA
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:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:45511398 original size:78 final size:79
Alignment explanation
Indices: 45511236--45511448 Score: 213
Period size: 78 Copynumber: 2.7 Consensus size: 79
45511226 GAATCACGTA
*** * **
45511236 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATA
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG-CCGGTTATA
*
45511299 GTAACTCGCACGAATG
64 GTAACTCGCACGAACG
* *
45511315 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCGGATT-TA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGG-TTATA
*
45511377 TTAACTCGCACGAACG
64 GTAACTCGCACGAACG
** * *
45511393 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
45511449 CGGACATCAT
Statistics
Matches: 111, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
77 3 0.03
78 49 0.44
79 30 0.27
80 29 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGTTATAGT
AACTCGCACGAACG
Found at i:45511452 original size:40 final size:39
Alignment explanation
Indices: 45511262--45511452 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 39
45511252 GGATATAACG
* ** *
45511262 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
45511302 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
45511342 ACTCGCACAAATGCCTTCGGG-CTTAG-CCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
45511380 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
45511420 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
45511453 CATCATTCAA
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.02
38 24 0.19
39 13 0.10
40 76 0.61
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:45520462 original size:40 final size:39
Alignment explanation
Indices: 45520417--45520542 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 39
45520407 CGGAATACAA
45520417 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
45520457 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
45520497 CCGGATGTAGCCGCT--A-GCAATGCCTTC-GGTCTTAAC
1 CCGGATATAACCACTGCACG-AATGCCTTCGGGTCTTAGC
45520533 CCGGATATAA
1 CCGGATATAA
45520543 TTTCCAGCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
36 17 0.23
37 10 0.14
39 1 0.01
40 46 0.62
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:45533222 original size:43 final size:42
Alignment explanation
Indices: 45533083--45533242 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
45533073 TTAGGGTTAC
* * *
45533083 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATA
1 TGAGACTTCATGTAAGACCATATATGGGATATGGCATCGATA
* * *
45533125 TGAGACTTCGTGTAAGACCATATATGGGGTATGGCATTGATA
1 TGAGACTTCATGTAAGACCATATATGGGATATGGCATCGATA
*
45533167 TGAGACTTCATGTAAGACCATAGT-TGGGTTATTGGCATCGATA
1 TGAGACTTCATGTAAGACCATA-TATGGGATA-TGGCATCGATA
* *
45533210 CGAGA-TTACATGTAAGACCATATCTGGGATATG
1 TGAGACTT-CATGTAAGACCATATATGGGATATG
45533243 ACATTGGTAC
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
42 70 0.67
43 35 0.33
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGAGACTTCATGTAAGACCATATATGGGATATGGCATCGATA
Found at i:45533231 original size:85 final size:84
Alignment explanation
Indices: 45533083--45533248 Score: 210
Period size: 85 Copynumber: 2.0 Consensus size: 84
45533073 TTAGGGTTAC
* * *
45533083 TGAGACTACGTGTAAGACCATATATGGGATATGGCATCAATATGAGACTTCGTGTAAGACCATAT
1 TGAGACTACATGTAAGACCATATATGGGATATGGCATCAATACGAGACTTCATGTAAGACCATAT
* *
45533148 ATGGGGTATGGCATTGATA
66 ATGGGATATGACATTGATA
* * *
45533167 TGAGACTTCATGTAAGACCATAGT-TGGGTTATTGGCATCGATACGAGA-TTACATGTAAGACCA
1 TGAGACTACATGTAAGACCATA-TATGGGATA-TGGCATCAATACGAGACTT-CATGTAAGACCA
*
45533230 TATCTGGGATATGACATTG
63 TATATGGGATATGACATTG
45533249 GTACGGTACC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
84 28 0.40
85 42 0.60
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (84 bp):
TGAGACTACATGTAAGACCATATATGGGATATGGCATCAATACGAGACTTCATGTAAGACCATAT
ATGGGATATGACATTGATA
Found at i:45539665 original size:30 final size:30
Alignment explanation
Indices: 45539631--45539691 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
45539621 TTCCCGAACC
45539631 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
45539661 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
45539691 T
1 T
45539692 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:45540277 original size:68 final size:64
Alignment explanation
Indices: 45540155--45540305 Score: 151
Period size: 68 Copynumber: 2.3 Consensus size: 64
45540145 ATACAGATGG
* * * * *
45540155 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAACAGAGCTACGAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAACAGAGCTACG-G-CA-
45540220 TA
63 TA
* * * * *
45540222 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGT-GTACAACAGAGCTACGGCAT
45540286 A
64 A
*
45540287 TATGTAGCTAGGTTGCATG
1 TATGTAGCTAGGTCGCATG
45540306 CGTGGTTCCA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
64 17 0.24
65 3 0.04
66 1 0.01
67 2 0.03
68 47 0.66
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAACAGAGCTACGGCATA
Found at i:45547157 original size:19 final size:17
Alignment explanation
Indices: 45547107--45547151 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
45547097 AGTTGGGCCA
*
45547107 TGTGGG-CCTCACAGGCT
1 TGTGGGCCCT-ACGGGCT
45547124 TGTGGGCCCTACGGGCT
1 TGTGGGCCCTACGGGCT
45547141 TGTGGGCCCTA
1 TGTGGGCCCTA
45547152 TACGGGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (17 bp):
TGTGGGCCCTACGGGCT
Found at i:45552243 original size:47 final size:47
Alignment explanation
Indices: 45552189--45552426 Score: 341
Period size: 47 Copynumber: 5.1 Consensus size: 47
45552179 GATTTTATGA
** * * * *
45552189 GATGAATGTGAATGTGTATACATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
45552236 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
45552283 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
45552330 GATGAATGTGAACATGCATATGTGTGATATGGCCAAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * ** *
45552377 GATGAATGTGAACATGCATATGTGTGAAAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
45552424 GAT
1 GAT
45552427 AAACATGGAA
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:45552285 original size:22 final size:22
Alignment explanation
Indices: 45552258--45552332 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
45552248 CATGCATATG
45552258 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
45552280 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
45552305 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
45552327 TGTGAT
1 TGTGAT
45552333 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:45554743 original size:219 final size:220
Alignment explanation
Indices: 45554362--45554765 Score: 605
Period size: 219 Copynumber: 1.8 Consensus size: 220
45554352 CAGACAGGTG
** *
45554362 TGTAAACACTACCTAAACTGTGGAAATCGGTAAAAAGCCGAAAGGTGCGATTAGATGACACCACA
1 TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTACGATTAGATGACACCACA
* *
45554427 CGGGCATACGGCTACCCATGTGGTAACCCGTGTGACCAAACATGGGCGGATGGTAGACGAGGCCG
66 CGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCCG
* * *
45554492 TCATGAGCGAATTCGTGGGCCGAGGCCGTATTGGCT-ATTTTGGGCTAAGTTGGGCTATGTGGGC
131 TCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGGCTATGTGGGC
45554556 CCCACACGGTTAAACCACATAGACA
196 CCCACACGGTTAAACCACATAGACA
* * *
45554581 TGTAAACACTATCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTACGATTAG-TCGGCACCAT
1 TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTACGATTAGAT-GACACCAC
* * * * * * *
45554645 ACGGGCGTGCGGTTACCCATGTGGTAGCCCGTGTAACTAAACATGAGTGGATGGTCGACGAGGCC
65 ACGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCC
* *
45554710 GTCATGAGAGAATTCATGGGCCGAGGTCGTATTGGGTAATTTTGGGCCAAGTTGGG
130 GTCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGG
45554766 TCGTGTAGGC
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
218 1 0.01
219 145 0.89
220 17 0.10
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (220 bp):
TGTAAACACTACCTAAACTGTGGAAATCGACAAAAAGCCGAAAGGTACGATTAGATGACACCACA
CGGGCATACGGCTACCCATGTGGTAACCCGTGTAACCAAACATGAGCGGATGGTAGACGAGGCCG
TCATGAGAGAATTCATGGGCCGAGGCCGTATTGGCTAATTTTGGGCCAAGTTGGGCTATGTGGGC
CCCACACGGTTAAACCACATAGACA
Found at i:45560296 original size:4 final size:4
Alignment explanation
Indices: 45560287--45560311 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45560277 ATATCAATAA
45560287 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
45560312 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:45561411 original size:289 final size:290
Alignment explanation
Indices: 45560875--45561416 Score: 1050
Period size: 289 Copynumber: 1.9 Consensus size: 290
45560865 TGAACTGCCG
*
45560875 CATAGGACCGTTGTTAGGGAAGTAACGGAGCTTAATGGTAGAGTGACTATTTCGTAACAAAACGA
1 CATAGGACCGTTGTTAGGGAAGTAACGGAGCTTAATGGTAGAGTGACTATTTCGTAACAAAACAA
45560940 TAAGTGACTAAAACGTATCATTTCAAACATAAGTGATTACAATGTAATTTAAGGTAAAAAAAAAG
66 TAAGTGACTAAAACGTATCATTTCAAACATAAGTGATTACAATGTAATTTAAGGTAAAAAAAAAG
45561005 TGATTATTTTTATAGTTTATCCTATATTCAAAATTATATTAATGTAAAAGAGTTATATTTGTTGG
131 TGATTATTTTTATAGTTTATCCTATATTCAAAATTATATTAATGTAAAAGAGTTATATTTGTTGG
45561070 ACACAACTTATGCATACAAAATAGTTGTAAAAGTGAGCAAAAATAAAATACTTGAAGACATCTAA
196 ACACAACTTATGCATACAAAATAGTTGTAAAAGTGAGCAAAAATAAAATACTTGAAGACATCTAA
45561135 GTTGGAATTAAAAAACTATTTGGACTGCTA
261 GTTGGAATTAAAAAACTATTTGGACTGCTA
45561165 CATAGGACCGTTGTTAGGGAAGTAACGGAGCTTAATGGTAGAGTGACTATTTCGTAACAAAACAA
1 CATAGGACCGTTGTTAGGGAAGTAACGGAGCTTAATGGTAGAGTGACTATTTCGTAACAAAACAA
*
45561230 TAAGTGACTAAAACGTATCATTTCAAACATAAGTGATTACAATGTAATTTAAGGT-AAACAAAAG
66 TAAGTGACTAAAACGTATCATTTCAAACATAAGTGATTACAATGTAATTTAAGGTAAAAAAAAAG
*
45561294 TGATTATTTTTATAGTTTATCCTATATTCAAAATTATATTAATGTAATAGAGTTATATTTGTTGG
131 TGATTATTTTTATAGTTTATCCTATATTCAAAATTATATTAATGTAAAAGAGTTATATTTGTTGG
45561359 ACACAACTTATGCATACAAAATAGTTGTAAAAGTGAGCAAAAATAAAATACTTGAAGA
196 ACACAACTTATGCATACAAAATAGTTGTAAAAGTGAGCAAAAATAAAATACTTGAAGA
45561417 TTTTCAGTAG
Statistics
Matches: 249, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
289 130 0.52
290 119 0.48
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (290 bp):
CATAGGACCGTTGTTAGGGAAGTAACGGAGCTTAATGGTAGAGTGACTATTTCGTAACAAAACAA
TAAGTGACTAAAACGTATCATTTCAAACATAAGTGATTACAATGTAATTTAAGGTAAAAAAAAAG
TGATTATTTTTATAGTTTATCCTATATTCAAAATTATATTAATGTAAAAGAGTTATATTTGTTGG
ACACAACTTATGCATACAAAATAGTTGTAAAAGTGAGCAAAAATAAAATACTTGAAGACATCTAA
GTTGGAATTAAAAAACTATTTGGACTGCTA
Found at i:45571793 original size:47 final size:47
Alignment explanation
Indices: 45571724--45572111 Score: 629
Period size: 47 Copynumber: 8.3 Consensus size: 47
45571714 CCCTTTGGGA
* * *
45571724 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45571771 CTTATCACATATATACACTTTCACATCCATCACA-TGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
45571817 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45571864 CTTATCACACGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45571911 CTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45571958 CTTATCACACATATGCACTTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45572004 CTTATCACATATATACACTTTCACATTCATCACATTGG-CATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
45572050 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
45572097 CTTATCACACATATA
1 CTTATCACACATATA
45572112 TGTATATCAT
Statistics
Matches: 319, Mismatches: 19, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
46 127 0.40
47 192 0.60
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:45571883 original size:93 final size:93
Alignment explanation
Indices: 45571724--45572111 Score: 634
Period size: 93 Copynumber: 4.2 Consensus size: 93
45571714 CCCTTTGGGA
* * * *
45571724 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAC
* *
45571789 TTTCACATCCATCACATGGCCATTCGGC
66 TTTCACATTCATCACATGGCCATTAGGC
*
45571817 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACGTATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAC
*
45571882 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACA-TGGCCATTAGGC
* * *
45571911 CTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAC
45571976 TTTCACATTCATCACATGGCCATTAGGC
66 TTTCACATTCATCACATGGCCATTAGGC
* *
45572004 CTTATCACATATATACACTTTCACATTCATCACATTGG-CATTCGGCCTTATCACACATATGCAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAC
45572068 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACAT-GGCCATTAGGC
45572097 CTTATCACACATATA
1 CTTATCACACATATA
45572112 TGTATATCAT
Statistics
Matches: 278, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
92 43 0.15
93 146 0.53
94 89 0.32
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (93 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAC
TTTCACATTCATCACATGGCCATTAGGC
Found at i:45571919 original size:22 final size:22
Alignment explanation
Indices: 45571892--45571966 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
45571882 TTTCACATTC
45571892 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
45571914 ATCACACGTAT-GCACTTTC-ACATT
1 ATCACA--T-TGGC-CATTCGGCCTT
45571938 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
45571961 ATCACA
1 ATCACA
45571967 CATATGCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:45572039 original size:187 final size:186
Alignment explanation
Indices: 45571724--45572110 Score: 657
Period size: 187 Copynumber: 2.1 Consensus size: 186
45571714 CCCTTTGGGA
*
45571724 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
45571789 TTTCACATCCATCACATGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATTG
66 TTTCACATCCATCACATGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATTG
* * *
45571854 GCCATTCGGCCTTATCACACGTATACACTTTCACATTCATCACATTGGCCATTCGGC
131 G-CATTCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
45571911 CTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
* *
45571976 TTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTG
66 TTTCACATCCATCACATGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATTG
*
45572041 GCATTCGGCCTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
131 GCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45572097 CTTATCACACATAT
1 CTTATCACACATAT
45572111 ATGTATATCA
Statistics
Matches: 187, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
186 64 0.34
187 123 0.66
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (186 bp):
CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
TTTCACATCCATCACATGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATTG
GCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45575298 original size:40 final size:40
Alignment explanation
Indices: 45575153--45575299 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
45575143 CCAGCATGAT
* ** * *
45575153 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCTGGATACAACACTAGCACGAA
** * * *
45575193 TGCTCTTCGGGGTTTAACAC-GGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGC-CTGGATACAACACTAGCACGAA
* *
45575233 TGCTCTTCGGAACTTAGCCTGGATACAACACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCTGGATACAACACTAGCACGAA
45575273 TGCTCTTCGGGACTTAGCCTGGATACA
1 TGCTCTTCGGGACTTAGCCTGGATACA
45575300 TCGTTGAGAC
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 88 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCTGGATACAACACTAGCACGAA
Found at i:45575424 original size:38 final size:38
Alignment explanation
Indices: 45575355--45575429 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
45575345 GAATTTTAAT
*
45575355 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
45575393 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
45575430 AACTCGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:45577921 original size:47 final size:47
Alignment explanation
Indices: 45577852--45578238 Score: 620
Period size: 47 Copynumber: 8.3 Consensus size: 47
45577842 CCCTTCGGGA
* * *
45577852 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45577899 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45577946 CTTATCACACGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45577993 CTTATCACACGTAT-CACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45578039 CTTAT--CACATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45578084 CTTATCACACATATGCACTTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45578130 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
45578177 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
45578224 CTTATCACACATATA
1 CTTATCACACATATA
45578239 TGTATATCAT
Statistics
Matches: 318, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
44 6 0.02
45 37 0.12
46 80 0.25
47 195 0.61
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:45578117 original size:138 final size:138
Alignment explanation
Indices: 45577852--45578238 Score: 614
Period size: 138 Copynumber: 2.8 Consensus size: 138
45577842 CCCTTCGGGA
* * * *
45577852 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATGCAC
* *
45577917 TTTCACATCCATCACATTGGCCATTCGGCCTTATCACACGTATACACTTTCACATTCATCACATT
64 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACA-T
*
45577982 GGCCATTCGGC
128 GGCCATTAGGC
*
45577993 CTTATCACACGTAT-CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATGCACTT
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATGCACTT
*
45578057 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTCATCACATGGC
66 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATGGC
45578122 CATTAGGC
131 CATTAGGC
*
45578130 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CACATATGCAC
* *
45578195 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
64 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATA
45578239 TGTATATCAT
Statistics
Matches: 230, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
137 23 0.10
138 104 0.45
140 90 0.39
141 13 0.06
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (138 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATGCACTT
TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATGGC
CATTAGGC
Found at i:45581322 original size:40 final size:40
Alignment explanation
Indices: 45581266--45581416 Score: 167
Period size: 40 Copynumber: 3.8 Consensus size: 40
45581256 GAATACACGT
* * *
45581266 CACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
** * * * *
45581306 CACCAGCACGAATGCTCTTCGGGGTTTAACACGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
* * * *
45581346 CACTAGCACGAATGCTCTTCGGAACTTAGCCTAGATACAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
* *
45581386 CACTAGCATGAATGCTCTTCGGGACTTAGCC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCC
45581417 TGGATACATC
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
Found at i:45584056 original size:47 final size:47
Alignment explanation
Indices: 45583978--45584179 Score: 307
Period size: 47 Copynumber: 4.3 Consensus size: 47
45583968 CCCTTCGGGA
*
45583978 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
45584025 CTTATCACATATATACACTTTGACATCCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45584072 CTTATCACACGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45584119 CTTATCACACATATGCAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
45584165 CTTATCACACATATA
1 CTTATCACACATATA
45584180 TGTATATCAT
Statistics
Matches: 140, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
46 40 0.29
47 100 0.71
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45587270 original size:40 final size:40
Alignment explanation
Indices: 45587214--45587370 Score: 179
Period size: 40 Copynumber: 3.9 Consensus size: 40
45587204 GAATACACGT
* * * *
45587214 CACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
** * * *
45587254 CACCAGCACGAATGCTCTTCGGGGTTTAACACGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
45587294 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
45587334 CACTAGCATGAATGCTCTTCGGGACTTAGCCTGGATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
45587371 CATCGTTGAG
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:45587497 original size:38 final size:38
Alignment explanation
Indices: 45587428--45587502 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
45587418 GAATTTTAAT
*
45587428 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
45587466 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
45587503 AACTCGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:45589995 original size:47 final size:47
Alignment explanation
Indices: 45589926--45590268 Score: 553
Period size: 47 Copynumber: 7.3 Consensus size: 47
45589916 CCCTTCGGGA
* * *
45589926 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45589973 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45590020 CTTATCACACGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45590067 CTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45590114 CTTATCACACATATGCACTTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45590160 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
45590207 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
45590254 CTTATCACACATATA
1 CTTATCACACATATA
45590269 TGTATATCAT
Statistics
Matches: 276, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 43 0.16
47 233 0.84
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:45590075 original size:22 final size:22
Alignment explanation
Indices: 45590048--45590122 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
45590038 TTTCACATTC
45590048 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
45590070 ATCACACGTAT-GCACTTTC-ACATT
1 ATCACA--T-TGGC-CATTCGGCCTT
45590094 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
45590117 ATCACA
1 ATCACA
45590123 CATATGCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:45590240 original size:25 final size:25
Alignment explanation
Indices: 45590070--45590147 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
45590060 ATTCGGCCTT
*
45590070 ATCACACGTATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
* * *
45590095 AT--CACAT-TGGC-CATTCGGCCTT-
1 ATCACACATAT-GCACTTTC-ACATTC
45590117 ATCACACATATGCACTTTCACATTC
1 ATCACACATATGCACTTTCACATTC
45590142 ATCACA
1 ATCACA
45590148 TGGCCATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 10 0.26
25 13 0.33
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCACTTTCACATTC
Found at i:45590249 original size:187 final size:188
Alignment explanation
Indices: 45589926--45590263 Score: 624
Period size: 187 Copynumber: 1.8 Consensus size: 188
45589916 CCCTTCGGGA
45589926 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
45589991 TTTCACATCCATCACATTGGCCATTCGGCCTTATCACACGTATACACTTTCACATTCATCACATT
66 TTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
45590056 GGCCATTCGGCCTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGC
45590114 CTTATCACACATATGCACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
45590178 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTCATCACATC
66 TTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATC
45590243 GGCCATTAGGCCTTATCACAC
131 GGCCATTAGGCCTTATCACAC
45590264 ATATATGTAT
Statistics
Matches: 145, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
187 110 0.76
188 35 0.24
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (188 bp):
CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACACGTATGCACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:45594766 original size:25 final size:25
Alignment explanation
Indices: 45594738--45594816 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
45594728 CGAATGGCCA
45594738 ATGTGATGAATGCGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
* *
45594763 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-CGAACAT-GCATAT
**
45594785 ATGTGATGAATATGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
45594810 ATGTGAT
1 ATGTGAT
45594817 AAGGCCGAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 9 0.22
25 16 0.39
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (25 bp):
ATGTGATGAATGCGAACATGCATAT
Found at i:45594781 original size:47 final size:47
Alignment explanation
Indices: 45594712--45594837 Score: 207
Period size: 47 Copynumber: 2.7 Consensus size: 47
45594702 TTTTATGTGT
* *
45594712 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGCGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATACGAACATGC
*
45594759 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATACGAACATGC
* *
45594806 ATATATGTGATAAGGCCGAACGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
45594838 AATATGTATG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATACGAACATGC
Found at i:45594791 original size:22 final size:22
Alignment explanation
Indices: 45594720--45594791 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 22
45594710 GTATATATGA
45594720 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
45594742 GATGAATG-CGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
45594767 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
45594789 GAT
1 GAT
45594792 GAATATGAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
22 12 0.31
23 9 0.23
24 9 0.23
25 9 0.23
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:45594826 original size:25 final size:25
Alignment explanation
Indices: 45594750--45594826 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
45594740 GTGATGAATG
45594750 CGAACATGCATATATGTGATAAGGC
1 CGAACATGCATATATGTGATAAGGC
* **
45594775 CG-A-ATGGC-CA-ATGTGATGAA-TA
1 CGAACAT-GCATATATGTGAT-AAGGC
*
45594797 TGAACATGCATATATGTGATAAGGC
1 CGAACATGCATATATGTGATAAGGC
45594822 CGAAC
1 CGAAC
45594827 GGCTAATGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 8 0.22
25 13 0.35
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (25 bp):
CGAACATGCATATATGTGATAAGGC
Found at i:45594879 original size:48 final size:48
Alignment explanation
Indices: 45594807--45595039 Score: 333
Period size: 48 Copynumber: 4.8 Consensus size: 48
45594797 TGAACATGCA
* * *
45594807 TATATGTGATAAGGCCGAACGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
45594855 TATATGTGGTAAAGTCGAGTGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
45594903 CATATGTGGTAAAGCCGAATGG-TCGATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
45594953 TATATGTGGTAAAGCCGAATTGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
45595001 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
45595040 GGCGATGTGC
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
47 1 0.01
48 120 0.73
49 4 0.02
50 39 0.24
51 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:45595055 original size:98 final size:96
Alignment explanation
Indices: 45594807--45595039 Score: 333
Period size: 98 Copynumber: 2.4 Consensus size: 96
45594797 TGAACATGCA
* * * * *
45594807 TATATGTGATAAGGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
45594872 AGTGGCTAATGTGAAATATGTATGAGATATG
66 AATGGCTAATGTGAAATATGTATGAGATATG
* * *
45594903 CATATGTGGTAAAGCCGAATGG-TCGATGTGAAATATATATATGAGATATGTATATGTGGTAAAG
1 TATATGTGGTAAAGCCGAATGGCTAG-TGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAG
* *
45594967 CCGAATTGCTAGTGTGAAATATGTATGAGATATG
63 CCGAATGGCTAATGTGAAATATGTATGAGATATG
45595001 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
45595040 GGCGATGTGC
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
95 1 0.01
96 28 0.24
97 4 0.03
98 84 0.71
99 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATGTATGAGATATG
Found at i:45595236 original size:37 final size:37
Alignment explanation
Indices: 45595186--45595257 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
45595176 GGAAATATAT
*
45595186 TCCGGGTAAGACCCGATGACTAT-GTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACT-TCGTGTGGAGATTTTG
45595223 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
45595258 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
Found at i:45606667 original size:2 final size:2
Alignment explanation
Indices: 45606660--45606697 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
45606650 AATAAGTAGG
*
45606660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45606698 TTATGTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45613278 original size:50 final size:49
Alignment explanation
Indices: 45613191--45613357 Score: 234
Period size: 48 Copynumber: 3.4 Consensus size: 49
45613181 ATCCTAGATG
* *
45613191 TGGTCTTACATGGGA-CCACATAACGATGCCAACGCCATGTCCCAGACA
1 TGGTCTTACATGGGATCCACATAACGATACCAAAGCCATGTCCCAGACA
*
45613239 TGGTCTTACATGGGATCACACATAACGATACCAATGCCATGTCCC-GAACA
1 TGGTCTTACATGGGATC-CACATAACGATACCAAAGCCATGTCCCAG-ACA
* * *
45613289 TGGTCTTACATAGGAT-CACATAACAATACGAAAGCCATGTCCCAGACA
1 TGGTCTTACATGGGATCCACATAACGATACCAAAGCCATGTCCCAGACA
45613337 TGGTCTTACATGGGAT-CACAT
1 TGGTCTTACATGGGATCCACAT
45613358 GTCACTGCCG
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
48 62 0.57
49 3 0.03
50 43 0.40
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (49 bp):
TGGTCTTACATGGGATCCACATAACGATACCAAAGCCATGTCCCAGACA
Found at i:45613372 original size:48 final size:48
Alignment explanation
Indices: 45613191--45613388 Score: 197
Period size: 48 Copynumber: 4.1 Consensus size: 48
45613181 ATCCTAGATG
*
45613191 TGGTCTTACATGGGACCACATAACGA-TGCCAACGCCATGTCCCAGACA
1 TGGTCTTACATGGGATCACATAAC-ACTGCCAACGCCATGTCCCAGACA
* *
45613239 TGGTCTTACATGGGATCACACATAACGA-TACCAATGCCATGTCCC-GAACA
1 TGGTCTTACATGGGAT--CACATAAC-ACTGCCAACGCCATGTCCCAG-ACA
* * * * *
45613289 TGGTCTTACATAGGATCACATAACAATACGAAAGCCATGTCCCAGACA
1 TGGTCTTACATGGGATCACATAACACTGCCAACGCCATGTCCCAGACA
** * * *
45613337 TGGTCTTACATGGGATCACATGTCACTGCCGAA-GCCATATCCTAGATA
1 TGGTCTTACATGGGATCACATAACACTGCC-AACGCCATGTCCCAGACA
45613385 TGGT
1 TGGT
45613389 ATTATATAAG
Statistics
Matches: 129, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 43 0.33
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (48 bp):
TGGTCTTACATGGGATCACATAACACTGCCAACGCCATGTCCCAGACA
Found at i:45621722 original size:16 final size:16
Alignment explanation
Indices: 45621653--45621714 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
45621643 TGAATTACTG
45621653 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
45621669 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
45621685 ATTAGAGCTGC-ATTCA
1 ATTACAGCT-CTATTCA
*
45621701 ATTACAGCCCTATT
1 ATTACAGCTCTATT
45621715 ACATTACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.10
16 35 0.88
17 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:45622394 original size:48 final size:48
Alignment explanation
Indices: 45622323--45622441 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
45622313 AGCTCCCGTA
* * * **
45622323 TAAGACTATATCTAGGATATGGCTTCGGTAGTGACATGTAATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* * ** *
45622371 TAAGACCATGTCTAGGACATGGCTTTGCCATTGTTATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* *
45622419 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
45622442 ATTAGCATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
Found at i:45623488 original size:16 final size:16
Alignment explanation
Indices: 45623419--45623480 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
45623409 TGAATTACTG
45623419 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
45623435 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
45623451 ATTAGAGCTGC-ATTCA
1 ATTACAGCT-CTATTCA
*
45623467 ATTACAGCCCTATT
1 ATTACAGCTCTATT
45623481 ACATTACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.10
16 35 0.88
17 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:45624160 original size:48 final size:48
Alignment explanation
Indices: 45624089--45624207 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
45624079 AGCTCCCGTA
* * * **
45624089 TAAGACTATATCTAGGATATGGCTTCGGTAGTGACATGTAATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* * ** *
45624137 TAAGACCATGTCTAGGACATGGCTTTGCCATTGTTATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* *
45624185 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
45624208 ATTAGCATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
Found at i:45625252 original size:16 final size:16
Alignment explanation
Indices: 45625183--45625244 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
45625173 TGAATTACTG
45625183 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
45625199 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
45625215 ATTAGAGCTGC-ATTCA
1 ATTACAGCT-CTATTCA
*
45625231 ATTACAGCCCTATT
1 ATTACAGCTCTATT
45625245 ACATTACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.10
16 35 0.88
17 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:45625924 original size:48 final size:48
Alignment explanation
Indices: 45625853--45625971 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
45625843 AGCTCCCGTA
* * * **
45625853 TAAGACTATATCTAGGATATGGCTTCGGTAGTGACATGTAATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* * ** *
45625901 TAAGACCATGTCTAGGACATGGCTTTGCCATTGTTATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* *
45625949 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
45625972 ATTAGCATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
Found at i:45627017 original size:16 final size:16
Alignment explanation
Indices: 45626948--45627009 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
45626938 TGAATTACTG
45626948 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
45626964 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
45626980 ATTAGAGCTGC-ATTCA
1 ATTACAGCT-CTATTCA
*
45626996 ATTACAGCCCTATT
1 ATTACAGCTCTATT
45627010 ACATTACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.10
16 35 0.88
17 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:45627689 original size:48 final size:48
Alignment explanation
Indices: 45627618--45627736 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
45627608 AGCTCCCGTA
* * * **
45627618 TAAGACTATATCTAGGATATGGCTTCGGTAGTGACATGTAATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* * ** *
45627666 TAAGACCATGTCTAGGACATGGCTTTGCCATTGTTATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* *
45627714 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
45627737 ATTAGCATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
Found at i:45628740 original size:16 final size:16
Alignment explanation
Indices: 45628713--45628773 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
45628703 TGAATTACTG
45628713 ATTACA-CTCTATTTC-
1 ATTACAGCTCTA-TTCA
45628728 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
45628744 ATTAGAGCTGC-ATTCA
1 ATTACAGCT-CTATTCA
*
45628760 ATTACAGCCCTATT
1 ATTACAGCTCTATT
45628774 ACATTACAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 10 0.26
16 28 0.72
17 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:45629452 original size:48 final size:48
Alignment explanation
Indices: 45629381--45629499 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
45629371 AGCTCCCGTA
* * * **
45629381 TAAGACTATATCTAGGATATGGCTTCGGTAGTGACATGTAATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* * ** *
45629429 TAAGACCATGTCTAGGACATGGCTTTGCCATTGTTATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
* *
45629477 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGC
45629500 ATTAGCATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCTTCGCCAGTGACATGTAATCCCATG
Found at i:45630546 original size:16 final size:16
Alignment explanation
Indices: 45630477--45630538 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
45630467 TGAATTACTG
45630477 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
45630493 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
45630509 ATTAGAGCTGC-ATTCA
1 ATTACAGCT-CTATTCA
*
45630525 ATTACAGCCCTATT
1 ATTACAGCTCTATT
45630539 ACATTACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.10
16 35 0.88
17 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:45636729 original size:33 final size:33
Alignment explanation
Indices: 45636687--45636755 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
45636677 TGACAAAGTA
45636687 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
1 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
45636720 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
1 TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
45636753 TGT
1 TGT
45636756 TTTTCGGCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (33 bp):
TGTAGGAATTGCCCTTTGATGATTAGAGGACAC
Found at i:45659757 original size:48 final size:48
Alignment explanation
Indices: 45659698--45659830 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 48
45659688 GTGGATGAGC
* * * * *
45659698 TCCCATATAAGACTATATCTGGTATATGGCTTTGGCAGTGACATATGA
1 TCCCATGTAAGACCATATCTGGGACATGGCTTTGGCAGTGACATACGA
* * ** *
45659746 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGCGA
1 TCCCATGTAAGACCATATCTGGGACATGGCTTTGGCAGTGACATACGA
** * *
45659794 TCCCATGTAAGACCATGCCCGGGACATGGCATTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCTTTGGCA
45659831 TTAGAATGAG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (48 bp):
TCCCATGTAAGACCATATCTGGGACATGGCTTTGGCAGTGACATACGA
Found at i:45659857 original size:48 final size:48
Alignment explanation
Indices: 45659744--45659841 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
45659734 AGTGACATAT
* * * * *
45659744 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGC
1 GATCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATTGTAATGA
45659792 GATCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATTAG-AATGA
1 GATCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATT-GTAATGA
45659840 GA
1 GA
45659842 CATCGTGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGCCCGGGACATGGCATTGGCATTGTAATGA
Found at i:45659945 original size:48 final size:48
Alignment explanation
Indices: 45659882--45659973 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
45659872 CTCCGATATG
*
45659882 TGTGATCCCAAGTAAGACCATGTCTAGGACATGGCATTGGCACCGTTA
1 TGTGATCCCAAGTAAGACCATATCTAGGACATGGCATTGGCACCGTTA
* * * *
45659930 TGTGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCACC
1 TGTGATCCCAAGTAAGACCATATCTAGGACATGGCATTGGCACC
45659974 CTACCTTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (48 bp):
TGTGATCCCAAGTAAGACCATATCTAGGACATGGCATTGGCACCGTTA
Found at i:45662726 original size:21 final size:22
Alignment explanation
Indices: 45662700--45662740 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
45662690 ACACTTGACA
45662700 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCGACACGCCCGTGTGGG
45662721 AGGGGCGACACGCCCGTGTG
1 AGGGGCGACACGCCCGTGTG
45662741 ACCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.15, C:0.29, G:0.46, T:0.10
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGG
Found at i:45663934 original size:47 final size:45
Alignment explanation
Indices: 45663862--45664125 Score: 162
Period size: 47 Copynumber: 5.6 Consensus size: 45
45663852 GTGGGTAAGG
*
45663862 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCA
* * * *
45663909 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-GATTATCATCTCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCAT-ATCTCA
* * *
45663956 TAGCCGATGCATGTCTCAGACATGTCTTACAC-AGGT-TTACGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATA--TCTC-A
* * * **
45664003 GGCCGATGCATGTCCCATACATGTCTTACACTAGCACCCATCTCGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTC-A
* * * * * *
45664049 TGCTGATTCCATGTACCA-AGCATGGTCTTACACTGGCTC-T-CCTAA
1 TGCCGA-TGCATGTCCCAGA-CAT-GTCTTACACTAGCTCATATCTCA
*
45664094 TGTAGCTGATGCATGTCCCAGACATGTCTTAC
1 --T-GCCGATGCATGTCCCAGACATGTCTTAC
45664126 TTTAGCCCAC
Statistics
Matches: 174, Mismatches: 28, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 67 0.39
47 78 0.45
48 26 0.15
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCA
Found at i:45664047 original size:46 final size:47
Alignment explanation
Indices: 45663863--45664082 Score: 170
Period size: 47 Copynumber: 4.7 Consensus size: 47
45663853 TGGGTAAGGT
* * *
45663863 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTC-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCGA
* *
45663909 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ATTATCATCTCGTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCA-CA-CATCTCG-A
* *** *
45663958 GCCGATG-CATGTCTCAGACAT-GTCTTACAC-AGGTTTACGTCTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA-GCACACATCTCGA
* *
45664003 GGCCGATG-CATGTCCCATACAT-GTCTTACACTAGCACCCATCTCGA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCGA
* * *
45664049 TGCTGATTCCATGTACCA-AGCATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGA-CATGGTCTTACACT
45664083 GGCTCTCCTA
Statistics
Matches: 141, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 59 0.42
47 64 0.45
48 16 0.11
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATCTCGA
Found at i:45664123 original size:140 final size:141
Alignment explanation
Indices: 45663863--45664125 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 141
45663853 TGGGTAAGGT
* * *
45663863 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATCTCATGTCGATGCCATGTCCAAG
* * *
45663928 ACATGGTCTTACACTGATTATCATCTCGTAGCCGATGCATGTCTCAGACATGTCTTACACAGGTT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACAGGTT
45663993 TACGTCTCGAG
131 TACGTCTCGAG
* * *
45664004 GCCGATG-CATGTCCCATACAT-GTCTTACACTAGCACCCATCTCGATG-CTGATTCCATGTACC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATCTC-ATGTC-GATGCCATGT-CC
* * * *
45664066 AAG-CATGGTCTTACACTGGCTCTCCTAAT-GTAGCTGATGCATGTCCCAGACATGTCTTAC
63 AAGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTAC
45664126 TTTAGCCCAC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
139 20 0.19
140 73 0.70
141 12 0.11
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATCTCATGTCGATGCCATGTCCAAG
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACAGGTT
TACGTCTCGAG
Found at i:45665445 original size:28 final size:28
Alignment explanation
Indices: 45665400--45665470 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
45665390 TAGGATATGA
*
45665400 CATTGTGCTAAGTGAAATAAGTCCATGG
1 CATTGTGCTAAGTGAAATAAGCCCATGG
45665428 CAATT-TGCTAAGTGAAATAAGCCCATGG
1 C-ATTGTGCTAAGTGAAATAAGCCCATGG
45665456 CATTGTGCTAAGTGA
1 CATTGTGCTAAGTGA
45665471 GAAATTTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.08
28 34 0.85
29 3 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (28 bp):
CATTGTGCTAAGTGAAATAAGCCCATGG
Found at i:45665549 original size:51 final size:51
Alignment explanation
Indices: 45665494--45665742 Score: 403
Period size: 51 Copynumber: 4.9 Consensus size: 51
45665484 TGAACCTTAG
*
45665494 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
45665545 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
45665596 GAATATAATAGCTTCGGACACAAGTGTGGTACTATGTAAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
45665647 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTG-AGAGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAG-GCCACTTTGT
*
45665698 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCA
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCA
45665743 TCGTGTATCC
Statistics
Matches: 185, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
50 3 0.02
51 180 0.97
52 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:45668597 original size:23 final size:22
Alignment explanation
Indices: 45668537--45668605 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
45668527 TCATTCATTC
* *
45668537 ATTAAGGCCAAATTGTTTACAAA
1 ATTAAGG-CAAACTATTTACAAA
*
45668560 ATGAAGG-AAACTATTTACAAA
1 ATTAAGGCAAACTATTTACAAA
*
45668581 ATTAAGGTCAAACTA-TTACCAA
1 ATTAAGG-CAAACTATTTACAAA
45668603 ATT
1 ATT
45668606 TATCTACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.46
22 9 0.23
23 12 0.31
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (22 bp):
ATTAAGGCAAACTATTTACAAA
Found at i:45668975 original size:21 final size:21
Alignment explanation
Indices: 45668949--45668995 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45668939 AGCTTTTGCC
* *
45668949 TTGGGGCAGCTTGTTGGTAAG
1 TTGGGGCAGCTTCTTGATAAG
* *
45668970 TTGGGGTAGCTTCTTGATGAG
1 TTGGGGCAGCTTCTTGATAAG
45668991 TTGGG
1 TTGGG
45668996 ACAAACACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.09, G:0.43, T:0.36
Consensus pattern (21 bp):
TTGGGGCAGCTTCTTGATAAG
Found at i:45669680 original size:63 final size:65
Alignment explanation
Indices: 45669599--45669744 Score: 190
Period size: 65 Copynumber: 2.3 Consensus size: 65
45669589 GTAAAGGCAT
* * *
45669599 CATGTGATGGCAT-AATAA-G-CATGTGATATTAAAAAATAGTAAATGCGGGATGGGAAACACCA
1 CATGTGATGG-ATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCAGGATAGGAAACACCA
45669661 A
65 A
* * * *
45669662 CATGTGATGGATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCATGCTAGGACACACCAG
1 CATGTGATGGATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCAGGATAGGAAACACCAA
*
45669727 CATGTGATGGAAGAATAA
1 CATGTGATGGATGAATAA
45669745 AGGCTTACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
62 2 0.03
63 15 0.21
64 1 0.01
65 54 0.75
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (65 bp):
CATGTGATGGATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCAGGATAGGAAACACCAA
Found at i:45673419 original size:22 final size:22
Alignment explanation
Indices: 45673391--45673443 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
45673381 AGATTAATTC
45673391 AGCTCAACTAAGCTCGTTTTTG
1 AGCTCAACTAAGCTCGTTTTTG
*
45673413 AGCTCAACTAAGCTTGTTTTTG
1 AGCTCAACTAAGCTCGTTTTTG
45673435 AGCTCAACT
1 AGCTCAACT
45673444 TTTCCTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (22 bp):
AGCTCAACTAAGCTCGTTTTTG
Found at i:45677565 original size:42 final size:43
Alignment explanation
Indices: 45677504--45677586 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
45677494 ACGACCTACT
*
45677504 CACATGGTCCTGTACCTCAG-CTGCACGGGTGTGT-CCCCTAGC
1 CACATGGTCCTGTACCTCAGTC-GCACGGCTGTGTACCCCTAGC
* * *
45677546 CACATGGTCGTTTATCTCAGTCGCACGGCTGTGTACCCCTA
1 CACATGGTCCTGTACCTCAGTCGCACGGCTGTGTACCCCTA
45677587 TCATATGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 28 0.80
43 7 0.20
ACGTcount: A:0.16, C:0.34, G:0.24, T:0.27
Consensus pattern (43 bp):
CACATGGTCCTGTACCTCAGTCGCACGGCTGTGTACCCCTAGC
Found at i:45679529 original size:25 final size:25
Alignment explanation
Indices: 45679501--45679550 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45679491 TAACCAAAGA
*
45679501 AATCTAATTCACTACATATTCATAT
1 AATCCAATTCACTACATATTCATAT
* *
45679526 AATCCAATTCATTGCATATTCATAT
1 AATCCAATTCACTACATATTCATAT
45679551 TTGTACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (25 bp):
AATCCAATTCACTACATATTCATAT
Found at i:45682367 original size:27 final size:27
Alignment explanation
Indices: 45682327--45682492 Score: 181
Period size: 27 Copynumber: 6.1 Consensus size: 27
45682317 AGGAAGCGTC
* *
45682327 CTGGTGGCTATGCCACAAATATCTGAA
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
45682354 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
45682381 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
45682408 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
45682435 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
* * * *
45682463 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
45682489 CTGG
1 CTGG
45682493 CAGCCATGCT
Statistics
Matches: 117, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.04
27 97 0.83
28 15 0.13
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:45682412 original size:54 final size:54
Alignment explanation
Indices: 45682327--45682492 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
45682317 AGGAAGCGTC
* * * *
45682327 CTGGTGGCTATGCCACAAATATCTGAACTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
45682381 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
45682435 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCT-GATCTGGTGGCTCTGCCACATATATCTGTT
45682489 CTGG
1 CTGG
45682493 CAGCCATGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 86 0.83
55 18 0.17
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:45682483 original size:81 final size:81
Alignment explanation
Indices: 45682327--45682492 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
45682317 AGGAAGCGTC
* *
45682327 CTGGTGGCTATGCCACAAATATCTGAACTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGAACTGGTGGCTCTGCCACATATATCTATTCTGGTGACTCT
45682392 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* * **
45682408 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTATATCTGGTGACT
1 CTGGTGGCTATGCCACAAATATCTGAACTGGTGGCTCTGCCAC-ATATATCTAT-TCTGGTGACT
* *
45682472 CTGTCAC-ATTATCTGTT
64 CTGCCACGATTATCTGAT
45682489 CTGG
1 CTGG
45682493 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 58 0.77
82 17 0.23
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGAACTGGTGGCTCTGCCACATATATCTATTCTGGTGACTCT
GCCACGATTATCTGAT
Found at i:45686271 original size:79 final size:78
Alignment explanation
Indices: 45686137--45686376 Score: 353
Period size: 79 Copynumber: 3.1 Consensus size: 78
45686127 CGGATGATAA
* *
45686137 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTATATTCCGGGCTAAGTCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTA-ATTCCGGGCTAAGTCCGAAGGCATTTGT
45686202 GCGAGTTACTA-ATT
65 GCGAGTTACTATA-T
45686216 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCCGGGCTAAGT-CCGAAGGCATTTG
45686280 TGCGAGTTACTATAT
64 TGCGAGTTACTATAT
*
45686295 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCCGGGCTAAGTCCGAAGGCATTTG
* *
45686359 AGCGAG-TGCTATAT
64 TGCGAGTTACTATAT
45686373 CCGG
1 CCGG
45686377 TTAAATCCGA
Statistics
Matches: 150, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
78 33 0.22
79 92 0.61
80 24 0.16
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGTCCGAAGGCATTTGTG
CGAGTTACTATAT
Found at i:45686298 original size:40 final size:41
Alignment explanation
Indices: 45686137--45686365 Score: 357
Period size: 40 Copynumber: 5.8 Consensus size: 41
45686127 CGGATGATAA
* *
45686137 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTATATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
45686177 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
45686216 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
45686255 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
**
45686295 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATA-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
*
45686335 CCGGGCTAAGT-CCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
45686366 GCTATATCCG
Statistics
Matches: 178, Mismatches: 7, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
39 88 0.49
40 89 0.50
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
Found at i:45693403 original size:40 final size:40
Alignment explanation
Indices: 45693348--45693557 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
45693338 AACATTGGAA
45693348 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45693388 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45693428 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45693468 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45693507 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45693548 CTATATCCGG
1 ATATATCCGG
45693558 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45700621 original size:40 final size:40
Alignment explanation
Indices: 45700566--45700775 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
45700556 AACATTGGAA
45700566 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45700606 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45700646 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45700686 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45700725 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45700766 CTATATCCGG
1 ATATATCCGG
45700776 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45703856 original size:40 final size:40
Alignment explanation
Indices: 45703801--45703989 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
45703791 ATTCGGATGA
*
45703801 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* * *
45703841 TAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
45703881 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
**
45703921 T-ATATCCGGGCTAAGTCCCGAA-GCATTTGTGCGAACTAC
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
45703960 T-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
45703990 AGTGAGTGGC
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
39 39 0.28
40 101 0.72
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:45710789 original size:27 final size:27
Alignment explanation
Indices: 45710759--45710924 Score: 190
Period size: 27 Copynumber: 6.1 Consensus size: 27
45710749 AGGAAGCGTC
*
45710759 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
45710786 CTGGTGGCTCTGCCACATATATCTGGT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
45710813 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
45710840 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
45710867 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
45710895 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
45710921 CTGG
1 CTGG
45710925 CAGCCATGCT
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.04
27 99 0.84
28 14 0.12
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:45710836 original size:54 final size:54
Alignment explanation
Indices: 45710759--45710924 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
45710749 AGGAAGCGTC
* * * *
45710759 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGGT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
45710813 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
45710867 CTAGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
45710921 CTGG
1 CTGG
45710925 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 85 0.83
55 18 0.17
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:45710915 original size:81 final size:81
Alignment explanation
Indices: 45710759--45710924 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
45710749 AGGAAGCGTC
* * *
45710759 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGGTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGATCTGGTGACTCT
45710824 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* * *
45710840 CTGGTGGCTCTGCCACATATATCTGTTCTAGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCAC-ATATATCTG-ATCTGGTGACT
* *
45710904 CTGTCAC-ATTATCTGTT
64 CTGCCACGATTATCTGAT
45710921 CTGG
1 CTGG
45710925 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 58 0.77
82 17 0.23
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGATCTGGTGACTCT
GCCACGATTATCTGAT
Found at i:45711010 original size:19 final size:22
Alignment explanation
Indices: 45710986--45711025 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
45710976 CTCCCCACAC
45710986 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
45711005 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
45711026 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:45712135 original size:14 final size:14
Alignment explanation
Indices: 45712116--45712144 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45712106 GAAGTTTGGC
45712116 AAAAATATCAATTT
1 AAAAATATCAATTT
45712130 AAAAATATCAATTT
1 AAAAATATCAATTT
45712144 A
1 A
45712145 GATTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAATATCAATTT
Found at i:45716574 original size:20 final size:20
Alignment explanation
Indices: 45716549--45716590 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
45716539 TATTTAATCT
45716549 AAGCGTTTGGGAATGTACTC
1 AAGCGTTTGGGAATGTACTC
45716569 AAGCGTTTGGGAATGTACTC
1 AAGCGTTTGGGAATGTACTC
45716589 AA
1 AA
45716591 CCATTTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
AAGCGTTTGGGAATGTACTC
Found at i:45718672 original size:2 final size:2
Alignment explanation
Indices: 45718665--45718721 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
45718655 TTAAAATCTA
45718665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45718707 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
45718722 CTTTCTATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45721366 original size:1 final size:1
Alignment explanation
Indices: 45721360--45721385 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
45721350 CTTCTTCTTC
45721360 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
45721386 ACTATTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45723644 original size:19 final size:19
Alignment explanation
Indices: 45723617--45723663 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
45723607 TTTACAAGAA
45723617 AATAT-TGAAAAATA-AAG
1 AATATATGAAAAATATAAG
45723634 AATATAGTGAAAAATATAAG
1 AATATA-TGAAAAATATAAG
45723654 AATATATGAA
1 AATATATGAA
45723664 TATTGTAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
19 13 0.48
20 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (19 bp):
AATATATGAAAAATATAAG
Found at i:45724224 original size:22 final size:22
Alignment explanation
Indices: 45724195--45724258 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
45724185 TGGTTAGTGA
45724195 TTTT-CATTTCGGTGCTTACTG
1 TTTTGCATTTCGGTGCTTACTG
* *
45724216 TTTTGCATTTCTGTGCTTATTG
1 TTTTGCATTTCGGTGCTTACTG
* * *
45724238 ATTTGCACTTCGGTGCCTACT
1 TTTTGCATTTCGGTGCTTACT
45724259 CTTCTATTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
21 4 0.11
22 31 0.89
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (22 bp):
TTTTGCATTTCGGTGCTTACTG
Found at i:45729141 original size:13 final size:13
Alignment explanation
Indices: 45729123--45729147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45729113 TTTCAATTCC
45729123 ATTTGAGTGATGG
1 ATTTGAGTGATGG
45729136 ATTTGAGTGATG
1 ATTTGAGTGATG
45729148 CAAAATGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (13 bp):
ATTTGAGTGATGG
Found at i:45731900 original size:22 final size:22
Alignment explanation
Indices: 45731875--45731936 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
45731865 TATTATTTTC
*
45731875 TACTATTGTCATTATTAATATA
1 TACTATTATCATTATTAATATA
*
45731897 TACTATTATTATTATTAATATA
1 TACTATTATCATTATTAATATA
* *
45731919 TTGCTATTATTATTATTA
1 -TACTATTATCATTATTA
45731937 TTACTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (22 bp):
TACTATTATCATTATTAATATA
Found at i:45731906 original size:3 final size:3
Alignment explanation
Indices: 45731885--45732063 Score: 105
Period size: 3 Copynumber: 58.7 Consensus size: 3
45731875 TACTATTGTC
* * * **
45731885 ATT ATT AAT ATAT ACT ATT ATT ATT ATT AAT A-T ATT GCT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * *
45731930 ATT ATT ATT ACT AAT ATC ACT ATT ACC ATT -TT -TT ATT ACT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
45731976 ATT ATT ATT ATT ATT ATTT ACT ATCT AAT A-T ATT ATT ATT ACCTT TTT
1 ATT ATT ATT ATT ATT A-TT ATT AT-T ATT ATT ATT ATT ATT A--TT ATT
* *
45732024 ATT ATT ATT ACT ACTGT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT AT
45732064 ATTTTCTTTT
Statistics
Matches: 133, Mismatches: 33, Indels: 20
0.72 0.18 0.11
Matches are distributed among these distances:
2 8 0.06
3 113 0.85
4 8 0.06
5 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:45732255 original size:3 final size:3
Alignment explanation
Indices: 45732226--45732436 Score: 95
Period size: 3 Copynumber: 69.7 Consensus size: 3
45732216 CAAACTTTAG
* * * **
45732226 ATT ATTT ATT ATT -TGT ATT GTT GTT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
45732273 ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * * *
45732317 ATT TTT ATT TTT ATT TTCT AAT ACT GTT ATC ATC ATT ATT AAT ACT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * **
45732363 AAT ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT AGC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
45732411 ATT TTT ACT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
45732437 CGTTTTCATT
Statistics
Matches: 152, Mismatches: 48, Indels: 16
0.70 0.22 0.07
Matches are distributed among these distances:
2 5 0.03
3 138 0.91
4 9 0.06
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:45732328 original size:29 final size:30
Alignment explanation
Indices: 45732275--45732331 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
45732265 TTATTACCAT
*
45732275 TATTATTACTATTATTTTTACTTTTATTAC
1 TATTACTACTATTATTTTTACTTTTATTAC
*
45732305 TATTACTA-TATTATTTTTATTTTTATT
1 TATTACTACTATTATTTTTACTTTTATT
45732332 TTCTAATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (30 bp):
TATTACTACTATTATTTTTACTTTTATTAC
Found at i:45742468 original size:40 final size:40
Alignment explanation
Indices: 45742371--45742577 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
45742361 TCTTCGGAAT
* ** *
45742371 TTAG-CCGGATATAACCACAAGCACAATTGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
45742409 TTAACCC-GAGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGA-TATAACAACTCGCACAAATGCCTTCGGGTC
45742449 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
45742489 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
45742529 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCAGGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTC-GGGTC
45742569 TTAGCCCGG
1 TTAGCCCGG
45742578 GTATCATTCA
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 5 0.03
39 22 0.15
40 116 0.78
41 6 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:45742512 original size:80 final size:80
Alignment explanation
Indices: 45742371--45742581 Score: 299
Period size: 80 Copynumber: 2.7 Consensus size: 80
45742361 TCTTCGGAAT
* *
45742371 TTAG-CCGGATATAACCACAAGCACAATTGCCTTC-GGTCTTAACCC-GAGTATAGCAACTCGCA
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGAGTATAGCAACTCGCA
45742433 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
*
45742449 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGA-TATAGCAACTCGCA
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGAGTATAGCAACTCGCA
45742513 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* *
45742529 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCAGGG-CTTAGCCCGG-GTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTC-GGGTCTTAACCCGGAGTAT
45742582 CATTCAAATG
Statistics
Matches: 120, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
78 5 0.04
79 25 0.21
80 84 0.70
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGAGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:45750462 original size:40 final size:40
Alignment explanation
Indices: 45750418--45750604 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
45750408 ATAACCACAA
* * *
45750418 GCACAATTGCTTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
45750458 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
45750498 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
45750538 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
45750578 GCACAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
45750605 GTATCATTCA
Statistics
Matches: 139, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 9 0.06
40 130 0.94
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:45750503 original size:80 final size:80
Alignment explanation
Indices: 45750398--45750608 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
45750388 TCTTCGGAAT
* ** * *
45750398 TTAG-CCGGATATAACCACAAGCACAATTGCTTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
45750462 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
45750477 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
45750542 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * *
45750557 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
45750609 CATTCAAATG
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
79 16 0.13
80 105 0.87
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:45751990 original size:26 final size:28
Alignment explanation
Indices: 45751936--45751993 Score: 102
Period size: 26 Copynumber: 2.1 Consensus size: 28
45751926 TTCTCTTTTC
45751936 TTCAACTCACGGCCAAAGGGGGGGAACA
1 TTCAACTCACGGCCAAAGGGGGGGAACA
45751964 TTCAACTCACGGCC-AA-GGGGGGAACA
1 TTCAACTCACGGCCAAAGGGGGGGAACA
45751990 TTCA
1 TTCA
45751994 CACCATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 14 0.47
27 2 0.07
28 14 0.47
ACGTcount: A:0.31, C:0.26, G:0.29, T:0.14
Consensus pattern (28 bp):
TTCAACTCACGGCCAAAGGGGGGGAACA
Found at i:45755783 original size:44 final size:44
Alignment explanation
Indices: 45755735--45756151 Score: 253
Period size: 44 Copynumber: 9.5 Consensus size: 44
45755725 GAAGTTTCAG
* * *
45755735 TGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTAAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
* * * **
45755779 TGGAGTGGCTCGAAG-T-CATAAT-TCATATCTCCTTGAAGTTTCAAC
1 TGGAGTAGATCGAAGCTACA-AATCTC-T-TCTCCTTGAAATGGC-AC
*
45755824 -GGAGTAGATCGAAGCTACAAATCTCTTCTGCTTGAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
* * * * * ** *
45755867 TGGAGTGGCTCGAAGCCAC-AATTTGTATCTCCTTGAAATTTCAG
1 TGGAGTAGATCGAAGCTACAAATCTCT-TCTCCTTGAAATGGCAC
* * * *
45755911 TAGAGAAGATCGAAGCTGCAAATCTCTTCTCCCTGAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
* * * * **
45755955 TAGAGTGGCTCGAAGC--CATAAT-TCATATCTCCTTGAAGTTTCAGC
1 TGGAGTAGATCGAAGCTACA-AATCTC-T-TCTCCTTGAAATGGCA-C
*
45756000 -GGAGTAGATCAAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
* * * * * * * **
45756043 TAGAGTAGCTCAAAGCCAC-AATTTGTATCTCCTTGAAGTTTCAGC
1 TGGAGTAGATCGAAGCTACAAATCTCT-TCTCCTTGAAATGGCA-C
* * * *
45756088 -GAAGAAGATCGAAGCTACAAATCTCTTCTCCATGAAATGGCGC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
* * * *
45756131 TAGAGTGGCTCGAAGCCACAA
1 TGGAGTAGATCGAAGCTACAA
45756152 GTCTTATCTA
Statistics
Matches: 275, Mismatches: 76, Indels: 44
0.70 0.19 0.11
Matches are distributed among these distances:
42 8 0.03
43 23 0.08
44 213 0.77
45 23 0.08
46 8 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAC
Found at i:45755828 original size:88 final size:88
Alignment explanation
Indices: 45755708--45756179 Score: 647
Period size: 88 Copynumber: 5.4 Consensus size: 88
45755698 GCTAGAAATT
* * *
45755708 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
45755773 TGGCACTGGAGTGGCTCGAAGTC
66 TGGCACTAGAGTGGCTCGAAGCC
* * * * *
45755796 ATAATTCATATCTCCTTGAAGTTTCAACGGAGTAGATCGAAGCTACAAATCTCTTCTGCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
45755861 TGGCACTGGAGTGGCTCGAAGCC
66 TGGCACTAGAGTGGCTCGAAGCC
* * ** * *
45755884 ACAATTTGTATCTCCTTGAAATTTCAGTAGAGAAGATCGAAGCTGCAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
45755949 TGGCACTAGAGTGGCTCGAAGCC
66 TGGCACTAGAGTGGCTCGAAGCC
* * * *
45755972 ATAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
45756037 TGGCACTAGAGTAGCTCAAAGCC
66 TGGCACTAGAGTGGCTCGAAGCC
* * * *
45756060 ACAATTTGTATCTCCTTGAAGTTTCAGCGAAGAAGATCGAAGCTACAAATCTCTTCTCCATGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
45756125 TGGCGCTAGAGTGGCTCGAAGCC
66 TGGCACTAGAGTGGCTCGAAGCC
* * * * *
45756148 ACAAGTCTTATCTACTTGAAGTTGCAGTGGAG
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAG
45756180 CAAACTGAAG
Statistics
Matches: 334, Mismatches: 50, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 334 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTAGAGTGGCTCGAAGCC
Found at i:45756009 original size:176 final size:176
Alignment explanation
Indices: 45755708--45756179 Score: 712
Period size: 176 Copynumber: 2.7 Consensus size: 176
45755698 GCTAGAAATT
* * * * *
45755708 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTAAAA
1 ACAATTTGTATCTCCTTGAAGTTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * * *
45755773 TGGCACTGGAGTGGCTCGAAGTCATAATTCATATCTCCTTGAAGTTTCAACGGAGTAGATCGAAG
66 TGGCACTAGAGTGGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAG
* * * *
45755838 CTACAAATCTCTTCTGCTTGAAATGGCACTGGAGTGGCTCGAAGCC
131 CTACAAATCTCTTCTCCTTGAAATGGCACTAGAGTAGCTCAAAGCC
* *
45755884 ACAATTTGTATCTCCTTGAAATTTCAGTAGAGAAGATCGAAGCTGCAAATCTCTTCTCCCTGAAA
1 ACAATTTGTATCTCCTTGAAGTTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
45755949 TGGCACTAGAGTGGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAG
66 TGGCACTAGAGTGGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAG
45756014 CTACAAATCTCTTCTCCTTGAAATGGCACTAGAGTAGCTCAAAGCC
131 CTACAAATCTCTTCTCCTTGAAATGGCACTAGAGTAGCTCAAAGCC
* *
45756060 ACAATTTGTATCTCCTTGAAGTTTCAG-CGAAGAAGATCGAAGCTACAAATCTCTTCTCCATGAA
1 ACAATTTGTATCTCCTTGAAGTTTCAGTAG-AGAAGATCGAAGCTACAAATCTCTTCTCCCTGAA
* * * * * * *
45756124 ATGGCGCTAGAGTGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTGCAGTGGAG
65 ATGGCACTAGAGTGGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAGCGGAG
45756180 CAAACTGAAG
Statistics
Matches: 269, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
175 1 0.00
176 268 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (176 bp):
ACAATTTGTATCTCCTTGAAGTTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTAGAGTGGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAG
CTACAAATCTCTTCTCCTTGAAATGGCACTAGAGTAGCTCAAAGCC
Found at i:45756219 original size:45 final size:45
Alignment explanation
Indices: 45756148--45756767 Score: 308
Period size: 45 Copynumber: 13.7 Consensus size: 45
45756138 GCTCGAAGCC
* * *
45756148 ACAAGTCTTATCTACT-TGAAGTTGCAGTGGAGCAAACTGAAGATA
1 ACAAATCTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
45756193 ACAAATCTTATTTCTCTGAAGCTGCAGTGAAACAGATTGAAGCTATA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG--ATA
* * * *
45756240 AGTCACGAATCTTATCTCTCTGAAGTTGCAATAGAGTAGA-T-CA-A-A
1 A--CA--AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
45756285 ACAAACCTTATCTCTCTGAAGTTGCAATGGAGCAGGTTGAAG-TC
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
45756329 GCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
45756374 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A
* * * *
45756423 TCACAAATCTTATCTCTCTGAAGTTGTAGTAGAGCATA-T-CA-A-A
1 --ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * *
45756466 ACAAACCTTATCTCCCTGAAGTTGTAATTGAGCAGGTTGAAG-TC
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
45756510 ACTAGTCTTATCTC-CTTGAAGTTGCAATGGAGCAGACTGAAGATA
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * * *
45756555 GTAGATCTTAT-TTTCTTGAAGTTGCAGTGGAACAGATTGAAACTATAA
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTG-AA-GAT-A
* * * *
45756603 GTAAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA-A-A
1 --ACA-A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
45756648 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAG-TC
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
45756692 ATAAGTCTTATCTC-CATGAAGTTGCAGTGGAGCAGGTTCAAAGCT-
1 ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT-GAAGATA
* * *
45756737 ACAAACCTTATTTCTCTGAAGTTGCACTGGA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGA
45756768 TTGGAATGAA
Statistics
Matches: 435, Mismatches: 99, Indels: 82
0.71 0.16 0.13
Matches are distributed among these distances:
41 85 0.20
42 4 0.01
43 10 0.02
44 101 0.23
45 127 0.29
46 6 0.01
47 9 0.02
48 1 0.00
49 6 0.01
50 3 0.01
51 56 0.13
52 24 0.06
53 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:45756243 original size:89 final size:87
Alignment explanation
Indices: 45756150--45756767 Score: 321
Period size: 89 Copynumber: 6.8 Consensus size: 87
45756140 TCGAAGCCAC
* *
45756150 AAGTCTTATCTACTTGAAGTTGCAGTGGAGCAAACTGAAGATAACAAATCTTATTTCTCTGAAGC
1 AAGTCTTATCT-CTTGAAGTTGCAGTGGAGCAGACTGAA-ATAACAAATCTTATTTCTCTGAAGT
*
45756215 TGCAGTGAAACAGATTGAAGCTAT
64 TGCAGTGGAACAGATTGAAGCTAT
* * * * * *
45756239 AAGTCACGAATCTTATCTCTCTGAAGTTGCAATAGAGTAGA-T-CAA-AACAAACCTTATCTCTC
1 -A---A-G--TCTTATCTCT-TGAAGTTGCAGTGGAGCAGACTGAAATAACAAATCTTATTTCTC
* * * **
45756301 TGAAGTTGCAATGGAGCAGGTTGAAGTCGCT
58 TGAAGTTGCAGTGGAACAGATTGAAG-CTAT
* * *
45756332 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATTTCCCTGAAGT
1 AAGTCTTATCT-CTTGAAGTTGCAGTGGAGCAGACTGAA-ATAACAAATCTTATTTCTCTGAAGT
*
45756396 TGCAGTGGAACAAATTGAAGCTATAAAT
64 TGCAGTGGAACAGATTGAAGC--T--AT
* * * * * * * *
45756424 CACAAATCTTATCTCTCTGAAGTTGTAGTAGAGCATA-T-CAA-AACAAACCTTATCTCCCTGAA
1 ---AAGTCTTATCTCT-TGAAGTTGCAGTGGAGCAGACTGAAATAACAAATCTTATTTCTCTGAA
* * * * *
45756486 GTTGTAATTGAGCAGGTTGAAG-TCACT
62 GTTGCAGTGGAACAGATTGAAGCT-A-T
* ** *
45756513 -AGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGATAGTAGATCTTATTT-TCTTGAAG
1 AAGTCTTATCT-CTTGAAGTTGCAGTGGAGCAGACTGAA-ATAACAAATCTTATTTCTC-TGAAG
*
45756576 TTGCAGTGGAACAGATTGAAACTATAAGT
63 TTGCAGTGGAACAGATTGAAGC--T-A-T
* * * * * *
45756605 AAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CAA-AACAAACCTTATCTCCCTGA
1 --A-AG-TCTTATCTCT-TGAAGTTGCAGTGGAGCAGACTGAAATAACAAATCTTATTTCTCTGA
** *
45756667 AGTTGCAGTGGAGTAGGTTGAAG-TCAT
61 AGTTGCAGTGGAACAGATTGAAGCT-AT
* ** * *
45756694 AAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGGTTCAAAGCT-ACAAACCTTATTTCTCTGAAG
1 AAGTCTTATCT-CTTGAAGTTGCAGTGGAGCAGACTGAAA--TAACAAATCTTATTTCTCTGAAG
*
45756758 TTGCACTGGA
63 TTGCAGTGGA
45756768 TTGGAATGAA
Statistics
Matches: 395, Mismatches: 88, Indels: 91
0.69 0.15 0.16
Matches are distributed among these distances:
85 75 0.19
86 9 0.02
87 6 0.02
88 6 0.02
89 95 0.24
90 3 0.01
92 74 0.19
93 36 0.09
94 5 0.01
95 6 0.02
96 55 0.14
97 25 0.06
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (87 bp):
AAGTCTTATCTCTTGAAGTTGCAGTGGAGCAGACTGAAATAACAAATCTTATTTCTCTGAAGTTG
CAGTGGAACAGATTGAAGCTAT
Found at i:45756354 original size:44 final size:44
Alignment explanation
Indices: 45756239--45756767 Score: 211
Period size: 44 Copynumber: 11.8 Consensus size: 44
45756229 TTGAAGCTAT
* * * * *
45756239 AAGTCACGAATCTTATCTCTCTGAAGTTGCAATAGAGTAGA-TC
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * *
45756282 AA--AACAAACCTTATCTCTCTGAAGTTGCAATGGAGCAGGTTG
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * *
45756324 AAGTCGCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * *
45756368 AA-TATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTG
1 AAGT-CA-CAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * * *
45756413 AAGCTATAAATCACAAATCTTATCTCTCTGAAGTTGTAGTAGAGCATA-TC
1 AAG-------TCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * *
45756463 AA--AACAAACCTTATCTCCCTGAAGTTGTAATTGAGCAGGTTG
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * *
45756505 AAGTCACTAGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTG
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * * * *
45756549 AAGAT-AGTAGATCTTATTTTCTTGAAGTTGCAGTGGAACAGATTG
1 AAG-TCA-CAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * * *
45756594 AAACTATAAGT-AAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TC
1 -------AAGTCACA-A-ATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * *
45756645 AA--AACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
* * * * * *
45756687 AAGTCATAAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGGTTCA
1 AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATT-G
* * * *
45756732 AAG-CTACAAACCTTATTTCTCTGAAGTTGCACTGGA
1 AAGTC-ACAAATCTTATCTCCCTGAAGTTGCAATGGA
45756768 TTGGAATGAA
Statistics
Matches: 363, Mismatches: 90, Indels: 64
0.70 0.17 0.12
Matches are distributed among these distances:
41 87 0.24
42 10 0.03
43 5 0.01
44 104 0.29
45 91 0.25
50 4 0.01
51 32 0.09
52 29 0.08
53 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
AAGTCACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTG
Found at i:45756466 original size:181 final size:180
Alignment explanation
Indices: 45756151--45756767 Score: 833
Period size: 181 Copynumber: 3.4 Consensus size: 180
45756141 CGAAGCCACA
* * * * *
45756151 AGTCTTATCTACTTGAAGTTGCAGTGGAGCAAACTGAAGATAACAAATCTTATTTCTCTGAAGCT
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* * * *
45756216 GCAGTGAAACAGATTGAAGCTATAAGTCACGAATCTTATCTCTCTGAAGTTGCAATAGAGTAGAT
66 GCAGTGGAACAGATTGAAGCTATAAGTCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
*
45756281 CAAAACAAACCTTATCTCTCTGAAGTTGCAATGGAGCAGGTTGAAGTCGCT
131 CAAAACAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTC-CT
* *
45756332 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATTTCCCTGAAGTT
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* * * *
45756397 GCAGTGGAACAAATTGAAGCTATAAATCACAAATCTTATCTCTCTGAAGTTGTAGTAGAGCATAT
66 GCAGTGGAACAGATTGAAGCTATAAGTCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
* *
45756462 CAAAACAAACCTTATCTCCCTGAAGTTGTAATTGAGCAGGTTGAAGTCACT
131 CAAAACAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTC-CT
* * * * *
45756513 AGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGATAGTAGATCTTATTTTCTTGAAGTT
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* * *
45756578 GCAGTGGAACAGATTGAAACTATAAGT-AAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAG
66 GCAGTGGAACAGATTGAAGCTATAAGTCACA-A-ATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* * *
45756642 ATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTCAT
129 ATCAAAACAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTCCT
* ** * * * *
45756694 AAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGGTTCAAAGCTA-CAAACCTTATTTCTCTGAAG
1 -AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAAATCTTATTTCCCTGAAG
*
45756758 TTGCACTGGA
64 TTGCAGTGGA
45756768 TTGGAATGAA
Statistics
Matches: 381, Mismatches: 51, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
180 2 0.01
181 246 0.65
182 128 0.34
183 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (180 bp):
AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
GCAGTGGAACAGATTGAAGCTATAAGTCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
CAAAACAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTCCT
Found at i:45759489 original size:3 final size:3
Alignment explanation
Indices: 45759472--45759746 Score: 148
Period size: 3 Copynumber: 90.0 Consensus size: 3
45759462 AGAAATTTAA
45759472 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
45759517 AAT -AT AAAT AGT AAT AGAA AAGC AAT AAC AGA- AAT AGT ACC AAT AAT
1 AAT AAT -AAT AAT AAT A-AT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
45759564 AAT AAAT AAT AA- AAGT AAT AAT AAT CAC AAT AAT AAT CAC AAT AAT
1 AAT -AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
45759610 AAT AAT AAT AAT AAAG AAT AAT AAT AAT -AC AAG AAC AA- AAG AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * * * * * *
45759654 GGT GAT AAT ACT ACT ACT ACT AAA AAT AAT AAT GAT AGT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
45759702 AAA AAT AAAT AAAT AAT AAT AAT AAT AAT AAT AAGT GAT AAT AAT
1 AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
45759747 TAGAATAACG
Statistics
Matches: 213, Mismatches: 43, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
2 10 0.05
3 177 0.83
4 26 0.12
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:45760999 original size:3 final size:3
Alignment explanation
Indices: 45760978--45761144 Score: 83
Period size: 3 Copynumber: 55.7 Consensus size: 3
45760968 CTCTACAGTC
* * * **
45760978 ATT ATT AAT ATAT ACT ATT ATT ATT AAT A-T ATT GCT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * *
45761023 ACT AAT ATC ACT ATT ACC ATT -TT -TT ATT ACT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
45761069 ATT ATT ATTT ACT ATCT AAT A-T ATT ATT ATT ACCTT TTT ATT ATT ATT
1 ATT ATT A-TT ATT AT-T ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* * *
45761117 ACT ATT -GT ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45761145 ATTTTCTTTT
Statistics
Matches: 120, Mismatches: 35, Indels: 18
0.69 0.20 0.10
Matches are distributed among these distances:
2 9 0.08
3 102 0.85
4 7 0.06
5 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:45761112 original size:17 final size:17
Alignment explanation
Indices: 45761090--45761131 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
45761080 CTATCTAATA
*
45761090 TATTATTATTACCT-TTT
1 TATTATTATTA-CTATTG
45761107 TATTATTATTACTATTG
1 TATTATTATTACTATTG
45761124 TATTATTA
1 TATTATTA
45761132 CTATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATTATTACTATTG
Found at i:45761127 original size:14 final size:13
Alignment explanation
Indices: 45760978--45761148 Score: 61
Period size: 13 Copynumber: 13.0 Consensus size: 13
45760968 CTCTACAGTC
* *
45760978 ATTATTAATATAT
1 ATTATTACTATTT
* * *
45760991 ACTATTATTATTA
1 ATTATTACTATTT
*
45761004 ATATATTGCTA-TT
1 AT-TATTACTATTT
*
45761017 ATTATTACTAATATC
1 ATTATTACT-AT-TT
* *
45761032 ACTATTACCATTT
1 ATTATTACTATTT
* *
45761045 TTTATTACT-GTT
1 ATTATTACTATTT
45761057 ATTA-T--TA-TT
1 ATTATTACTATTT
*
45761066 ATTATTATTATTT
1 ATTATTACTATTT
* *
45761079 ACTATCTAATATATT
1 ATTAT-TACTAT-TT
*
45761094 ATTATTACCTTTTTATT
1 ATTATTA-C--TAT-TT
45761111 ATTATTACTATTGT
1 ATTATTACTATT-T
45761125 ATTATTACTA-TT
1 ATTATTACTATTT
45761137 ATTATTA-TATTT
1 ATTATTACTATTT
45761149 TCTTTTTTTG
Statistics
Matches: 118, Mismatches: 24, Indels: 33
0.67 0.14 0.19
Matches are distributed among these distances:
9 7 0.06
10 1 0.01
11 3 0.03
12 23 0.19
13 29 0.25
14 28 0.24
15 14 0.12
16 1 0.01
17 12 0.10
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (13 bp):
ATTATTACTATTT
Found at i:45761265 original size:26 final size:26
Alignment explanation
Indices: 45761236--45761285 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
45761226 TTATTTATAT
45761236 ATCA-TTACTTTTATTGT-TATCATTTC
1 ATCATTTA-TTTTATT-TATATCATTTC
45761262 ATCATTTATTTTATTTATATCATT
1 ATCATTTATTTTATTTATATCATT
45761286 CTAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.05
26 18 0.82
27 3 0.14
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (26 bp):
ATCATTTATTTTATTTATATCATTTC
Found at i:45761328 original size:3 final size:3
Alignment explanation
Indices: 45761307--45761585 Score: 244
Period size: 3 Copynumber: 92.7 Consensus size: 3
45761297 CAAACTTTAG
* * **
45761307 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
45761354 ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
45761398 ATT TTT ATT TTT ATT TTCT ATT ACT ATT ATC ATC ATT ATT AAT ACT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
45761444 AAT ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT AGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
45761492 ATT -TT -TT ACT ACT ACT ATT ATT ATT ATT ATT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
45761536 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45761584 AT
1 AT
45761586 CGTTTTCATT
Statistics
Matches: 225, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
2 9 0.04
3 203 0.90
4 13 0.06
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:45761606 original size:6 final size:6
Alignment explanation
Indices: 45761508--45761607 Score: 56
Period size: 6 Copynumber: 16.5 Consensus size: 6
45761498 TACTACTACT
* * * * * * * *
45761508 ATTATT ATTATT ATTATTT ATTATT ATTATT ATTATT ATTATT ATTATT
1 ATTATC ATTATC ATTA-TC ATTATC ATTATC ATTATC ATTATC ATTATC
* * * * * * *
45761557 ATTATT ATTATT ATTATT ATTATT ATTATC GTTTTC ATTATC ATTGTC
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
45761605 ATT
1 ATT
45761608 TTTATGTTGT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
6 81 0.93
7 6 0.07
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (6 bp):
ATTATC
Found at i:45764730 original size:29 final size:28
Alignment explanation
Indices: 45764693--45764755 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
45764683 AACAAACATC
* *
45764693 TTTTCTTCTTTTAC-AAAATTTAATCATTT
1 TTTTTTTCTTTT-CTAAAAGTTAAT-ATTT
*
45764722 TTTTTTTCTTTTCTATAAGTTAATATTT
1 TTTTTTTCTTTTCTAAAAGTTAATATTT
45764750 TTTTTT
1 TTTTTT
45764756 ATTTTTGAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTTTCTTTTCTAAAAGTTAATATTT
Found at i:45766780 original size:29 final size:30
Alignment explanation
Indices: 45766730--45766787 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
45766720 TTAAAATTTA
* *
45766730 AAAAATAAAGAAATTAATTTTC-ATGAAAT
1 AAAAATAAAGAAACTAAATTTCAATGAAAT
* *
45766759 AAAAATAGATAAACTAAATTTCAATGAAA
1 AAAAATAAAGAAACTAAATTTCAATGAAA
45766788 GATATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (30 bp):
AAAAATAAAGAAACTAAATTTCAATGAAAT
Found at i:45768336 original size:2 final size:2
Alignment explanation
Indices: 45768329--45768363 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
45768319 TACGACATGC
45768329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45768364 TTGAAAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45771794 original size:19 final size:19
Alignment explanation
Indices: 45771762--45771802 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
45771752 AAAACGCATT
*
45771762 AAAATCTTTGAGGTTTATAA
1 AAAATATTTGAGGTTTA-AA
45771782 AAAATATTT-AGGTTTAAA
1 AAAATATTTGAGGTTTAAA
45771800 AAA
1 AAA
45771803 CACTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (19 bp):
AAAATATTTGAGGTTTAAA
Found at i:45771816 original size:19 final size:19
Alignment explanation
Indices: 45771794--45771835 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
45771784 AATATTTAGG
45771794 TTTAAAAAACACT-AAAAAT
1 TTTAAAAAA-ACTGAAAAAT
* *
45771813 TTTAATAAATCTGAAAAAT
1 TTTAAAAAAACTGAAAAAT
45771832 TTTA
1 TTTA
45771836 GTATGAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTAAAAAAACTGAAAAAT
Found at i:45773638 original size:15 final size:15
Alignment explanation
Indices: 45773618--45773649 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45773608 CATTTCACTA
*
45773618 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
45773633 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
45773648 TT
1 TT
45773650 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Done.