Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 183 of 333
Found at i:60092224 original size:23 final size:23
Alignment explanation
Indices: 60092194--60092239 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60092184 CCTAAGGGGG
*
60092194 AGAGAGTTGTAACAGCTCGTTTT
1 AGAGAGTTGTAACAGCTCATTTT
60092217 AGAGAGTTGTAACAGCTCATTTT
1 AGAGAGTTGTAACAGCTCATTTT
60092240 TAGTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (23 bp):
AGAGAGTTGTAACAGCTCATTTT
Found at i:60103276 original size:15 final size:14
Alignment explanation
Indices: 60103232--60103283 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
60103222 TCGTATATAG
60103232 GGTTTGCACATACA
1 GGTTTGCACATACA
* **
60103246 GGTTCGCATTTACA
1 GGTTTGCACATACA
60103260 GGATTTGCACATACA
1 GG-TTTGCACATACA
60103275 GGGTTTGCA
1 -GGTTTGCA
60103284 TGTAGGGTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 13 0.43
15 15 0.50
16 2 0.07
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (14 bp):
GGTTTGCACATACA
Found at i:60103337 original size:23 final size:24
Alignment explanation
Indices: 60103287--60103350 Score: 103
Period size: 23 Copynumber: 2.7 Consensus size: 24
60103277 GTTTGCATGT
60103287 AGGGTTCGCATAATAAATCACATA
1 AGGGTTCGCATAATAAATCACATA
*
60103311 AGGGTTCGCATATTAAATC-CATA
1 AGGGTTCGCATAATAAATCACATA
*
60103334 AGGGTTTGCATAATAAA
1 AGGGTTCGCATAATAAA
60103351 ACATATAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (24 bp):
AGGGTTCGCATAATAAATCACATA
Found at i:60103410 original size:24 final size:24
Alignment explanation
Indices: 60103383--60103465 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
60103373 AAATTCAAAA
60103383 AGGTTTGCATAATAAAACATATGG
1 AGGTTTGCATAATAAAACATATGG
* * *
60103407 AGGTTTGCATACTAAATCATAT-T
1 AGGTTTGCATAATAAAACATATGG
* * *
60103430 AGAGTTTTCATATTAAAACATAAGG
1 AG-GTTTGCATAATAAAACATATGG
*
60103455 GGGTTTGCATA
1 AGGTTTGCATA
60103466 CCAAATCCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.94
25 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (24 bp):
AGGTTTGCATAATAAAACATATGG
Found at i:60103483 original size:95 final size:94
Alignment explanation
Indices: 60103287--60103484 Score: 204
Period size: 95 Copynumber: 2.1 Consensus size: 94
60103277 GTTTGCATGT
* * *
60103287 AGGGTTCGCATAATAAATCACATAAGGGTTCGCATATTAAATCCATAAGGGTTTGCATAATAAAA
1 AGGGTTTGCATAATAAA-CACATAAGGGTTCGCATACTAAATCCATAAGAGTTTGCATAATAAAA
* * *
60103352 CATATAGGGGGTTCACATTCTAAATTCAAA
65 CATATAGGGGGTTCACATACCAAATCCAAA
* * * * *
60103382 AAGGTTTGCATAATAAA-ACATATGGAGGTTTGCATACTAAAT-CATATTAGAGTTTTCATATTA
1 AGGGTTTGCATAATAAACACATA-AG-GGTTCGCATACTAAATCCATA--AGAGTTTGCATAATA
** *
60103445 AAACATA-AGGGGGTTTGCATACCAAATCCATA
62 AAACATATAGGGGGTTCACATACCAAATCCAAA
60103477 AGGGTTTG
1 AGGGTTTG
60103485 TATGTAGGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
93 5 0.06
94 5 0.06
95 55 0.65
96 19 0.23
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (94 bp):
AGGGTTTGCATAATAAACACATAAGGGTTCGCATACTAAATCCATAAGAGTTTGCATAATAAAAC
ATATAGGGGGTTCACATACCAAATCCAAA
Found at i:60106867 original size:18 final size:18
Alignment explanation
Indices: 60106844--60106879 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60106834 AAATTACTTT
60106844 TCAAAAACACTTTCGGAG
1 TCAAAAACACTTTCGGAG
* *
60106862 TCAAAAGCACTTTTGGAG
1 TCAAAAACACTTTCGGAG
60106880 CTATAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (18 bp):
TCAAAAACACTTTCGGAG
Found at i:60108158 original size:19 final size:19
Alignment explanation
Indices: 60108133--60108259 Score: 176
Period size: 19 Copynumber: 6.9 Consensus size: 19
60108123 ATAATCTTCA
60108133 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
60108152 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
60108171 ATGATA--CAATCTTTAGAT
1 ATGATATGCAATC-TTAGAT
*
60108189 ATGAT-TGCAATCTTTGAT
1 ATGATATGCAATCTTAGAT
60108207 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
60108224 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
60108242 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
60108260 AGATATGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
17 20 0.21
18 37 0.39
19 39 0.41
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:60108188 original size:18 final size:17
Alignment explanation
Indices: 60108141--60108259 Score: 139
Period size: 18 Copynumber: 6.6 Consensus size: 17
60108131 CAATGATATG
*
60108141 CAATCTTAGATGTGATA
1 CAATCTTAGATATGATA
60108158 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
60108177 CAATCTTTAGATATGATTG
1 CAATC-TTAGATATGA-TA
*
60108196 CAATCTTTGATATGATA
1 CAATCTTAGATATGATA
*
60108213 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
60108231 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
60108250 CAATCTTAGA
1 CAATCTTAGA
60108260 AGATATGATT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
17 20 0.23
18 34 0.39
19 33 0.38
20 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:60110360 original size:93 final size:93
Alignment explanation
Indices: 60110247--60110418 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
60110237 CGCCCATAAG
* *
60110247 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCAGACTCAACTCA
60110312 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
60110340 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCAGACTCAACTCA
60110405 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
60110419 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60110415 original size:46 final size:46
Alignment explanation
Indices: 60110240--60110415 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
60110230 TGTAACCCGC
* * *
60110240 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
** * *
60110286 CCATAAGTAAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60110336 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
60110379 CCATAAGTGAACTCTGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60110416 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60110434 original size:46 final size:44
Alignment explanation
Indices: 60110295--60110434 Score: 115
Period size: 46 Copynumber: 3.0 Consensus size: 44
60110285 TCCATAAGTA
*
60110295 AACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-CG
1 AACTCAGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGTG
* * * *
60110342 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGTG
1 AACTCAGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGTG
*
60110388 AACTCTGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCAGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGTG
60110434 A
1 A
60110435 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 29 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (44 bp):
AACTCAGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGTG
Found at i:60117436 original size:43 final size:41
Alignment explanation
Indices: 60117389--60117530 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 41
60117379 ACCTTAATCG
60117389 CCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTC
1 CCTAAGCAGTAGGGTAACAGG-TAAAATTAC-GATCTTATCTC
* * * **
60117432 CCTAAGCAGTAGGGGAACAGAT-CAACGACGACTCGCCTTAATC-C
1 CCTAAGCAGTAGGGTAACAGGTAAAATTACGA-T---CTT-ATCTC
*
60117476 CCTAAGCAGTAGGGTAACAGGTCAAAATTGCCGATCTTATCTC
1 CCTAAGCAGTAGGGTAACAGGT-AAAATT-ACGATCTTATCTC
*
60117519 CCTAAGTAGTAG
1 CCTAAGCAGTAG
60117531 TGGAGCAGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
40 2 0.03
41 5 0.06
42 4 0.05
43 34 0.44
44 24 0.31
45 3 0.04
46 3 0.04
47 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (41 bp):
CCTAAGCAGTAGGGTAACAGGTAAAATTACGATCTTATCTC
Found at i:60117530 original size:87 final size:85
Alignment explanation
Indices: 60117380--60117584 Score: 251
Period size: 87 Copynumber: 2.4 Consensus size: 85
60117370 AAATTCAGAA
*
60117380 CCTTAATCGCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
60117444 GGGAACAGATC-AACGACGACT-CG
66 GGGAACAGATCGAA--A--A-TGCG
* * *
60117467 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTC-AAAATTGCCGATCTTATCTCCCTAAGTAGTAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
60117531 TGGAGCAGATCGAAAATGCG
66 GGGAACAGATCGAAAATGCG
* *
60117551 CCTTAACCCCCTAAGCAGTA-GGTAAAAGGT-TAAA
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
60117585 GTATAGCAGA
Statistics
Matches: 106, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
83 13 0.12
84 22 0.21
86 1 0.01
87 67 0.63
88 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (85 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
GGGAACAGATCGAAAATGCG
Found at i:60117571 original size:41 final size:42
Alignment explanation
Indices: 60117380--60117572 Score: 117
Period size: 43 Copynumber: 4.5 Consensus size: 42
60117370 AAATTCAGAA
* * * * *
60117380 CCTTAATCGCCTAAGCAGTAGGGTAACAG-GCTAAAATTACAG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGATC-AAAATTGCCG
* * * * * *
60117422 ATCTTATCTCCCTAAGCAGTAGGGGAACAGATCAACGA-CGACTCG
1 -CCTTAACCCCCTAAGCAGTAGGGTAACAGATCAA-AATTG-C-CG
* *
60117467 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCCG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGATCAAAATTGCCG
* * * * *
60117509 ATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAAA-TG-CG
1 -CCTTAACCCCCTAAGCAGTAG-GGTAACAGATC-AAAATTGCCG
60117551 CCTTAACCCCCTAAGCAGTAGG
1 CCTTAACCCCCTAAGCAGTAGG
60117573 TAAAAGGTTA
Statistics
Matches: 112, Mismatches: 30, Indels: 19
0.70 0.19 0.12
Matches are distributed among these distances:
40 1 0.01
41 17 0.15
42 4 0.04
43 51 0.46
44 38 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (42 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGATCAAAATTGCCG
Found at i:60118064 original size:207 final size:207
Alignment explanation
Indices: 60117709--60118405 Score: 1069
Period size: 207 Copynumber: 3.4 Consensus size: 207
60117699 CGGAGAGCAG
*
60117709 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTT-C-TGATGAAGCAAATCTAAGATGATTTGG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAT--TGAAGCAAATCTAAGATGATTTGG
* * * * * *
60117772 CATCTCTATATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGAAGGGCAGACAC
64 CATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACAA
*
60117837 ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTATG
129 ATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTG
*
60117902 CTTATAAGGAACAA
194 CTTACAAGGAACAA
* *
60117916 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACATTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
*
60117981 TCTCTGTATTGTCAGAGAACAAATTGAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACAAAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACAAAT
* * *
60118046 AGCAAATCTGGCCTTCAGATGTTTATACTGCAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
60118111 TACAAGGAACAA
196 TACAAGGAACAA
* * *
60118123 ATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
* *
60118188 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG-AGTCTCCATATTCGACGGAGGATAGACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCA-TCTCCATATTCGACGGAGGGTAGACAAA
* * * *
60118252 TAGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGC
130 TAGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGC
*
60118316 TTACAAGGAGCAA
195 TTACAAGGAACAA
* * * * *
60118329 ATCGAAGACATAGCTGATTGGGCTTTCGCGTGTTTACACTAAAGCAAATATAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
60118394 TCTCTGTATTGT
66 TCTCTGTATTGT
60118406 AAGGGACCAA
Statistics
Matches: 450, Mismatches: 37, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
206 110 0.24
207 338 0.75
208 1 0.00
209 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACAAAT
AGCAGATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:60118732 original size:17 final size:18
Alignment explanation
Indices: 60118719--60118861 Score: 77
Period size: 19 Copynumber: 7.9 Consensus size: 18
60118709 TAATCTTCAA
60118719 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
*
60118738 TGATATGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
* *
60118757 TGAT-TACAATATTAGA-
1 TGATATGCAATCTTAGAG
* *
60118773 T-ATGATACAATCATATATA-
1 TGAT-ATGCAATC-T-TAGAG
60118792 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
60118808 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
60118827 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
60118845 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
60118862 AGATATGATT
Statistics
Matches: 103, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
15 4 0.04
16 5 0.05
17 18 0.17
18 34 0.33
19 38 0.37
20 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:60118771 original size:18 final size:18
Alignment explanation
Indices: 60118726--60118861 Score: 177
Period size: 18 Copynumber: 7.6 Consensus size: 18
60118716 CAATGATATG
* *
60118726 CAATCTTAGATGTGATATG
1 CAATCTTAGATATGAT-TA
60118745 CAATCTTAGATATGATTA
1 CAATCTTAGATATGATTA
*
60118763 CAATATTAGATATGA-TA
1 CAATCTTAGATATGATTA
* * *
60118780 CAATCATATATATGATTG
1 CAATCTTAGATATGATTA
60118798 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
60118815 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
60118833 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
60118852 CAATCTTAGA
1 CAATCTTAGA
60118862 AGATATGATT
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
17 30 0.29
18 46 0.45
19 26 0.25
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:60118793 original size:35 final size:35
Alignment explanation
Indices: 60118718--60118861 Score: 198
Period size: 35 Copynumber: 4.0 Consensus size: 35
60118708 ATAATCTTCA
*
60118718 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATA--CAATCTTAGAT
* * * *
60118756 ATGATTACAATATTAGATATGATACAATCATATAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
60118791 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
60118826 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
60118862 AGATATGATT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
35 61 0.64
37 29 0.31
38 5 0.05
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:60121128 original size:36 final size:36
Alignment explanation
Indices: 60121059--60121131 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
60121049 AATAATTTTC
* *
60121059 TATATTATAGGAAATAGAGGGTAAATAGAAGTAGTT
1 TATATTATAGGAAATAGAAGGCAAATAGAAGTAGTT
* *
60121095 TATATTATAGGAAGTAGAAGGCAACTA-AGAGTAGTT
1 TATATTATAGGAAATAGAAGGCAAATAGA-AGTAGTT
60121131 T
1 T
60121132 TCCTATGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (36 bp):
TATATTATAGGAAATAGAAGGCAAATAGAAGTAGTT
Found at i:60121157 original size:23 final size:23
Alignment explanation
Indices: 60121127--60121170 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
60121117 AACTAAGAGT
60121127 AGTTTTCCTATGTCAATTCTAAG
1 AGTTTTCCTATGTCAATTCTAAG
*
60121150 AGTTTTCCTATTTCAATTCTA
1 AGTTTTCCTATGTCAATTCTA
60121171 GGTACGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (23 bp):
AGTTTTCCTATGTCAATTCTAAG
Found at i:60132705 original size:19 final size:20
Alignment explanation
Indices: 60132683--60132721 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
60132673 ATATAAATAA
60132683 ATTTTTT-AAAAAATATTTT
1 ATTTTTTAAAAAAATATTTT
60132702 ATTTTTTAAAAAAATATTTT
1 ATTTTTTAAAAAAATATTTT
60132722 CCTTCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTTAAAAAAATATTTT
Found at i:60132732 original size:20 final size:20
Alignment explanation
Indices: 60132690--60132738 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
60132680 TAAATTTTTT
* * *
60132690 AAAAAATATTTTATTTTTTA
1 AAAAAATATTTTACTTCTAA
*
60132710 AAAAAATATTTTCCTTCTAA
1 AAAAAATATTTTACTTCTAA
*
60132730 AAATAATAT
1 AAAAAATAT
60132739 CATAATACCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAAATATTTTACTTCTAA
Found at i:60133305 original size:17 final size:17
Alignment explanation
Indices: 60133276--60133308 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60133266 ACTCTTTTTG
60133276 TTAAATAATTTGGAACC
1 TTAAATAATTTGGAACC
60133293 TTAAA-AATGTTGGAAC
1 TTAAATAAT-TTGGAAC
60133309 ATTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (17 bp):
TTAAATAATTTGGAACC
Found at i:60140468 original size:38 final size:38
Alignment explanation
Indices: 60140417--60140493 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
60140407 CATAACAGGT
*
60140417 TATACTATAAAGAATGACGTTGGGTATGTCACAGTCTA
1 TATACTATAAAGAATGACGTTGGGTATGTCACAATCTA
*
60140455 TATACTATAAAGAATGATGTTGGGTATGTCACAATCTA
1 TATACTATAAAGAATGACGTTGGGTATGTCACAATCTA
60140493 T
1 T
60140494 GTAGTGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (38 bp):
TATACTATAAAGAATGACGTTGGGTATGTCACAATCTA
Found at i:60145749 original size:28 final size:27
Alignment explanation
Indices: 60145690--60145745 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
60145680 AGATTAAAAT
60145690 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAATTGTTAAAAATTAGTTTTTAAC
60145717 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAATTGTTAAAAATTAGTTTTTAAC
60145744 AT
1 AT
60145746 TAAAGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (27 bp):
ATAAATTGTTAAAAATTAGTTTTTAAC
Found at i:60145762 original size:28 final size:26
Alignment explanation
Indices: 60145690--60145755 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
60145680 AGATTAAAAT
*
60145690 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAA-TGTAAAAAATTAGTTTTTAAC
*
60145717 ATAAATTGTTAAAAATTAGTTTTTAAC
1 ATAAA-TGTAAAAAATTAGTTTTTAAC
60145744 ATTAAA-GTAAAA
1 A-TAAATGTAAAA
60145756 GAAATTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 5 0.14
27 28 0.76
28 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (26 bp):
ATAAATGTAAAAAATTAGTTTTTAAC
Found at i:60146218 original size:9 final size:9
Alignment explanation
Indices: 60146204--60146286 Score: 71
Period size: 9 Copynumber: 9.0 Consensus size: 9
60146194 ACACCGCTCA
*
60146204 AAATCATTT
1 AAATAATTT
*
60146213 AAATCATTTT
1 AAAT-AATTT
*
60146223 AATTAATTT
1 AAATAATTT
60146232 AAATAATTTT
1 AAATAA-TTT
* *
60146242 AATTAGCTTT
1 AAATA-ATTT
60146252 --ATAATTT
1 AAATAATTT
60146259 AAATAATTT
1 AAATAATTT
60146268 AAATAATTT
1 AAATAATTT
60146277 AAATTAATTT
1 AAA-TAATTT
60146287 TCTTGTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
7 3 0.05
8 2 0.03
9 32 0.54
10 22 0.37
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (9 bp):
AAATAATTT
Found at i:60151747 original size:40 final size:40
Alignment explanation
Indices: 60151687--60151870 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
60151677 TATTCGAATG
*
60151687 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
60151727 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
60151767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
60151807 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
60151847 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
60151871 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:60151820 original size:80 final size:80
Alignment explanation
Indices: 60151687--60151870 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
60151677 TATTCGAATG
* * *
60151687 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
60151751 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
60151767 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
60151832 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
60151847 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
60151871 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:60161393 original size:13 final size:13
Alignment explanation
Indices: 60161375--60161401 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60161365 TAATTTGAGG
60161375 TCAGAGAAAGTAT
1 TCAGAGAAAGTAT
60161388 TCAGAGAAAGTAT
1 TCAGAGAAAGTAT
60161401 T
1 T
60161402 TTATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TCAGAGAAAGTAT
Found at i:60166222 original size:42 final size:43
Alignment explanation
Indices: 60166112--60166226 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
60166102 AAAGTAAATA
* * * * *
60166112 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACAT
* * * * *
60166155 CAATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACAT
*
60166198 GAA-GCCAATGTCCCAGACATGGTCTTACA
1 CAATGCCAATGTCCCAGACATGGTCTTACA
60166227 TGTAAAATAG
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAACAT
Found at i:60172516 original size:28 final size:28
Alignment explanation
Indices: 60172484--60172567 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
60172474 AACTGTGATC
60172484 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
60172512 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
60172534 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
60172562 ACGTGT
1 ACGTGT
60172568 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:60172557 original size:50 final size:49
Alignment explanation
Indices: 60172436--60172624 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
60172426 TGAGGTCGCA
* * * * *
60172436 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
60172487 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
60172537 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
60172586 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
60172625 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 41 0.34
50 45 0.38
51 33 0.28
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:60173825 original size:47 final size:47
Alignment explanation
Indices: 60173761--60174083 Score: 443
Period size: 47 Copynumber: 6.7 Consensus size: 47
60173751 CCCTTCGGGA
* * * *
60173761 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATT-TACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60173808 CCTGTCACATATTTACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
*
60173855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
60173902 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT-T-TACACTTTCACATTCATCACATCGGCCATTAGGC
60173953 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-T-TACACTTTCACATTCATCACATCGGCCATTAGGC
*
60174002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
60174049 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATTTACACT-TTCACATTCATCACAT
60174084 AGAATCCTAA
Statistics
Matches: 254, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.00
47 152 0.60
48 2 0.01
49 57 0.22
51 42 0.17
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60174037 original size:147 final size:145
Alignment explanation
Indices: 60173772--60174062 Score: 492
Period size: 147 Copynumber: 2.0 Consensus size: 145
60173762 TTATCACATT
* * * *
60173772 TATACACTTTCACATCCATCACGTTGGCCATTCGGCCCTGTCACATATTTACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCCTATCACATATTTACACTTTCACATTCA
*
60173837 TCATATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60173902 CTTATCACATATATA
131 CTTATCACATATATA
* *
60173917 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCCTATCACATAT-T-TACACTTTCACATT
60173982 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
64 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
*
60174047 GCCTTATCTCATATAT
129 GCCTTATCACATATAT
60174063 GCATGTTCAC
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
145 42 0.31
146 1 0.01
147 93 0.68
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (145 bp):
TATACACTTTCACATCCATCACATCGGCCATTAGGCCCTATCACATATTTACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATA
Found at i:60178169 original size:40 final size:40
Alignment explanation
Indices: 60178125--60178533 Score: 579
Period size: 40 Copynumber: 10.2 Consensus size: 40
60178115 CCAGCATGAT
* * * * * *
60178125 TGCTCTTCGGGACCTAGCCCTGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
***
60178165 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATATATCACTAGCACGAA
*
60178205 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
* * *
60178245 TGCTCTTCGGGATTTA-ACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCC-GGATATATCACTAGCACGAA
*
60178285 TGCTCTTCGGAACTTAGTCCGAATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
* * *
60178325 TGCTGTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
* * *
60178365 TTCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
*
60178405 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
*
60178445 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
*
60178485 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
60178525 TGCTCTTCG
1 TGCTCTTCG
60178534 AGATTTAGCC
Statistics
Matches: 337, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
39 3 0.01
40 331 0.98
41 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
Found at i:60180007 original size:47 final size:47
Alignment explanation
Indices: 60179929--60180343 Score: 634
Period size: 47 Copynumber: 8.7 Consensus size: 47
60179919 CCCTTCGGGA
* * * * * *
60179929 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60179976 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60180023 CTTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60180070 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60180117 CTTATCACATATACAAACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60180164 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60180211 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60180262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60180309 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
60180344 AGAATCCTAA
Statistics
Matches: 342, Mismatches: 21, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 294 0.86
51 47 0.14
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60180031 original size:22 final size:22
Alignment explanation
Indices: 60180004--60180079 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
60179994 TTTCACATTC
60180004 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
60180026 ATCACATACATACACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
60180050 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
60180073 ATCACAT
1 ATCACAT
60180080 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:60185981 original size:71 final size:71
Alignment explanation
Indices: 60185865--60186004 Score: 271
Period size: 71 Copynumber: 2.0 Consensus size: 71
60185855 TTTTTACTCG
*
60185865 GATTTTGTGTGAAGGTTCATCAAGAAGTGTTTTCTGGCTCAAATATATATGCTAAGGATGAATAA
1 GATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATAA
60185930 ATGGCA
66 ATGGCA
60185936 GATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATAA
1 GATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATAA
60186001 ATGG
66 ATGG
60186005 GGTTAGCTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (71 bp):
GATTTTGTGTGAAGGTTCATCAAGAAATGTTTTCTGGCTCAAATATATATGCTAAGGATGAATAA
ATGGCA
Found at i:60196619 original size:40 final size:40
Alignment explanation
Indices: 60196570--60196773 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 40
60196560 CAGAATTTAA
**
60196570 CCGGATATAGCT-ACTCATTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCACACAAATGCCTTCGGGACATAGC
* * * *
60196610 CCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAGC
* * * * * *
60196650 CCGAATTTGGTAACCCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAGC
* *
60196690 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCACACAAATGCCTTCGGGACATAGC
* * *
60196730 CC-GAAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCACACAAATGCCTTCGGGACATAGC
60196770 CCGG
1 CCGG
60196774 TTATCATCCA
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 140 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAGC
Found at i:60196722 original size:80 final size:80
Alignment explanation
Indices: 60196589--60196773 Score: 300
Period size: 80 Copynumber: 2.3 Consensus size: 80
60196579 GCTACTCATT
* * *
60196589 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGA
* *
60196654 ATTTGGTAACCCGCA
66 AATTAGTAACCCGCA
60196669 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
60196733 AAATTAGTAACTCGCA
65 AAATTAGTAACCCGCA
60196749 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
60196774 TTATCATCCA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 1 0.01
80 97 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGA
AATTAGTAACCCGCA
Found at i:60201276 original size:31 final size:31
Alignment explanation
Indices: 60201229--60201374 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
60201219 TTAGTCTTGA
*
60201229 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
60201259 TATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
60201290 CATATCACTGAGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
60201321 CATATCACTGAGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
60201352 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
60201375 ACTGTAAACG
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 4 0.04
31 104 0.96
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:60201445 original size:42 final size:42
Alignment explanation
Indices: 60201398--60201489 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
60201388 TGGCCCTTAG
* * **
60201398 GCCCATTTCAATTTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATATAATGTCAATAAATGTATGCAA
60201440 GCCCATTTCAATATCACATATAATGTCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATATAATGTCAATAAATGTATGCAA
60201482 GCCCATTT
1 GCCCATTT
60201490 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATGTCAATAAATGTATGCAA
Found at i:60201651 original size:24 final size:24
Alignment explanation
Indices: 60201624--60201707 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
60201614 CTGGAGGCCT
*
60201624 AGCCTCTTTTAAT-AGCTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
60201648 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
60201673 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
60201698 AGCCCTTTTA
1 AGCCCTTTTA
60201708 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 40 0.77
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:60201667 original size:25 final size:25
Alignment explanation
Indices: 60201639--60201706 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
60201629 CTTTTAATAG
60201639 CTGGGGCAAAGCCC-TTTCTGATAAA
1 CTGGGGCAAAGCCCTTTTC-GATAAA
*
60201664 CTGGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
60201689 CTGGGGCAGAGCCCTTTT
1 CTGGGGCAAAGCCCTTTT
60201707 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:60202583 original size:26 final size:28
Alignment explanation
Indices: 60202539--60202590 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
60202529 TACAAGGGTA
60202539 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
60202566 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
60202591 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:60202655 original size:27 final size:27
Alignment explanation
Indices: 60202625--60202677 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
60202615 GGGTGTTTTG
60202625 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* ** *
60202652 GTAATTCTGTAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
60202678 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:60202683 original size:27 final size:26
Alignment explanation
Indices: 60202635--60202732 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 26
60202625 GTAAATCTAC
60202635 AAACCAAGGGTATTTC-AGTAATTCTGT
1 AAACCAAGGGTATTTCTA-TAATT-TGT
* *
60202662 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTGT
*
60202688 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAA-TTTGT
* *
60202718 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
60202733 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.03
27 31 0.52
28 7 0.12
29 16 0.27
30 4 0.07
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTGT
Found at i:60202739 original size:27 final size:27
Alignment explanation
Indices: 60202723--60202855 Score: 151
Period size: 27 Copynumber: 4.9 Consensus size: 27
60202713 TTTGTAAATC
60202723 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
60202749 TGAGGGTATTTTGGTAATTTCACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
60202777 AGTGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
60202804 AGGGGTATTTTGGTAATTCTATCCTACA
1 AGGGGTATTTTGGTAATTTTA-CAAACT
* *
60202832 AGGGGTATTTTAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTACAA
60202856 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 64 0.74
28 22 0.25
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:60202888 original size:27 final size:27
Alignment explanation
Indices: 60202854--60202945 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
60202844 GTAATTTCAC
60202854 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
60202881 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
60202908 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
60202935 AGTCGAGGGTA
1 AATCGAGGGTA
60202946 CTTTGATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:60202899 original size:81 final size:82
Alignment explanation
Indices: 60202752--60202902 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 82
60202742 TACAAATTGA
* * **** ***
60202752 GGGTATTTTGGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTCACAAACGAGTGGTAAAACGGTAATTTTATAAACTAGGGGTAAAATGG
60202817 TAATTCTATCCTACAAG
66 TAATTCTATCCTACAAG
* *
60202834 GGGTATTTTAGTAATTTCACAATCGAG-GGTAAAACGGTAATTTTGTAAACT-GAGGGTAAAATG
1 GGGTATTTTAGTAATTTCACAAACGAGTGGTAAAACGGTAATTTTATAAACTAG-GGGTAAAATG
60202897 GTAATT
65 GTAATT
60202903 TTGTAAATCG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
80 1 0.02
81 32 0.56
82 24 0.42
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.38
Consensus pattern (82 bp):
GGGTATTTTAGTAATTTCACAAACGAGTGGTAAAACGGTAATTTTATAAACTAGGGGTAAAATGG
TAATTCTATCCTACAAG
Found at i:60202982 original size:108 final size:107
Alignment explanation
Indices: 60202870--60203099 Score: 264
Period size: 108 Copynumber: 2.1 Consensus size: 107
60202860 GGGTAAAACG
** *
60202870 GTAATTTTGTAAACTGAGGGTAAAAT-GGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTAT
1 GTAATTTTGTAAACTGAGGGT-AAATCGGTAATTTTACAAATCGAGGATAAAACGATAATTCTAT
**
60202934 AAGTCGAGGGTACTTTGATAATTTTACAAGTTGAGGCTATTTCA
65 AAACCGAGGGTACTTTGATAATTTTACAA-TTGAGGCTATTTCA
* ** **** * *
60202978 GTAATTTTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATA
1 GTAATTTTGTAAACTGAGGGTAAATCGGTAATTTTACAAATCGAGGATAAAACGATAATTCTATA
* * * *
60203043 AACCGGGGGTACTTTGGTAATTTTACAATTGGGGGTATTTCA
66 AACCGAGGGTACTTTGATAATTTTACAATTGAGGCTATTTCA
*
60203085 GTAATTTGGTAAACT
1 GTAATTTTGTAAACT
60203100 AAAGTATTCT
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
107 27 0.27
108 74 0.73
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (107 bp):
GTAATTTTGTAAACTGAGGGTAAATCGGTAATTTTACAAATCGAGGATAAAACGATAATTCTATA
AACCGAGGGTACTTTGATAATTTTACAATTGAGGCTATTTCA
Found at i:60202983 original size:54 final size:53
Alignment explanation
Indices: 60202925--60203091 Score: 167
Period size: 54 Copynumber: 3.1 Consensus size: 53
60202915 GGTAAAACGA
* * * *
60202925 TAATTCTATAAGTCGAGGGTACTTTGATAATTTTACAAGTTGAGGCTATTTCAG
1 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAA-TTGAGGATATTTCAG
** * **
60202979 TAATTTTGCAAA-CTGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTATAAATC-GAGGGTACTTT-GGTAATTTTAC-AATTGAGGATATTTCAG
* * * *
60203033 TAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAATTGGGGGTATTTCAG
1 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAATTGAGGATATTTCAG
60203086 TAATTT
1 TAATTT
60203092 GGTAAACTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
53 22 0.24
54 63 0.69
55 6 0.07
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (53 bp):
TAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAATTGAGGATATTTCAG
Found at i:60203077 original size:27 final size:27
Alignment explanation
Indices: 60202698--60203091 Score: 115
Period size: 27 Copynumber: 14.6 Consensus size: 27
60202688 AGAAAGTCAA
** ** *
60202698 GGGTATTTCTATAATTTTGTAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCGG
* * *
60202725 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGG
* * *
60202752 GGGTATTTTGGTAATTTCACAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATC-GG
* * * *
60202779 TGGTATTTTGGTAATTTTATAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATC-GG
* * ** *
60202806 GGGTATTTTGGTAATTCTATCCTA-CAAG
1 GGGTATTTCGGTAATTTTA-CAAATC-GG
** * *
60202834 GGGTATTTTAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGG
*** ** *
60202860 GGGTAAAACGGTAATTTTGTAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATC-GG
** ** *
60202887 GGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTACAAATCGG
*** * * * * *
60202914 GGGTAAAACGATAATTCTATAAGTCGA
1 GGGTATTTCGGTAATTTTACAAATCGG
* * * *
60202941 GGGTACTTT-GATAATTTTACAAGTTGA
1 GGGTA-TTTCGGTAATTTTACAAATCGG
* * * *
60202968 GGCTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATC-GG
*
60202995 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGG
* * * *
60203022 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCGGTAATTTTACAAATCGG
*
60203049 GGGTACTTT-GGTAATTTTAC-AATTGG
1 GGGTA-TTTCGGTAATTTTACAAATCGG
*
60203075 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
60203092 GGTAAACTAA
Statistics
Matches: 287, Mismatches: 66, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
25 3 0.01
26 36 0.13
27 220 0.77
28 28 0.10
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGG
Found at i:60224169 original size:40 final size:39
Alignment explanation
Indices: 60224082--60224289 Score: 181
Period size: 39 Copynumber: 5.3 Consensus size: 39
60224072 ACCCAAGTAT
* ** * *
60224082 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCAAAATGC
* * * * *
60224120 CTTCAGGTCTTAGGCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCA-AAATGC
* *
60224160 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTCGCAAAATGC
* *
60224199 CTTCGGGACTTAGCCCGAAT-TAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCA-AAATGC
* * * *
60224238 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACACATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCA-AAATGC
60224278 CTTCGGGACTTA
1 CTTCGGGACTTA
60224290 ACCCCGTTAG
Statistics
Matches: 139, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
38 20 0.14
39 62 0.45
40 57 0.41
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCAAAATGC
Found at i:60224211 original size:39 final size:39
Alignment explanation
Indices: 60224082--60224256 Score: 185
Period size: 39 Copynumber: 4.5 Consensus size: 39
60224072 ACCCAAGTAT
* * * *
60224082 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAATGC
* * * * * *
60224120 CTTCAGGTCTTAGGCCGGATATGGTC-ACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCA-CAATGC
*
60224160 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAATGC
* *
60224199 CTTCGGGACTTAGCCCGAAT-TAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCAC-AATGC
60224238 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
60224257 ATTAATCACT
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 22 0.19
39 61 0.53
40 32 0.28
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAATGC
Found at i:60224272 original size:78 final size:78
Alignment explanation
Indices: 60224082--60224289 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 78
60224072 ACCCAAGTAT
* * * * * * * *
60224082 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGCCTTCAGGTCTTAGGCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGAT-TAACCACTCGCACAATGCCTTCGGGACTTAGCCCGAATATAGTA
*
60224146 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* * *
60224160 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAATGCCTTCGGGACTTAGCCCGAAT-TAGTA
1 CTTCGGGACTTAGCCCGGAT-TAACCACTCGCACAATGCCTTCGGGACTTAGCCCGAATATAGTA
*
60224224 ACTCGCACAAATGC
65 ACTAGCACAAATGC
* * *
60224238 CTTCGGGACTTAGCCCGGAATTAATCACTAGCACACATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGG-ATTAACCACTCGCACA-ATGCCTTCGGGACTTA
60224290 ACCCCGTTAG
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 53 0.49
79 55 0.51
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATTAACCACTCGCACAATGCCTTCGGGACTTAGCCCGAATATAGTAA
CTAGCACAAATGC
Found at i:60232077 original size:29 final size:29
Alignment explanation
Indices: 60232021--60232128 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
60232011 ATGCATATAA
* * *
60232021 CCCACTAGGCCCAA-TCTTATTCAAATGG
1 CCCATTAGGCCCAATTCATATTCATATGG
* *
60232049 TCCATCT-GGCCCAATTCATATTCTTATGG
1 CCCAT-TAGGCCCAATTCATATTCATATGG
**
60232078 CCCATTAGGCCCAATTCACCTTCATATGG
1 CCCATTAGGCCCAATTCATATTCATATGG
*
60232107 CCCATTAGGCCCAAATCATATT
1 CCCATTAGGCCCAATTCATATT
60232129 ATACTCATAC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 11 0.17
29 54 0.83
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (29 bp):
CCCATTAGGCCCAATTCATATTCATATGG
Found at i:60232371 original size:8 final size:8
Alignment explanation
Indices: 60232360--60232394 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
60232350 TTTTTCGACA
*
60232360 TTTCAGCT
1 TTTCGGCT
60232368 TTTCGGCT
1 TTTCGGCT
*
60232376 TTTCGGCA
1 TTTCGGCT
60232384 TTTCGGCT
1 TTTCGGCT
60232392 TTT
1 TTT
60232395 TCTGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.06, C:0.23, G:0.20, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:60232379 original size:24 final size:23
Alignment explanation
Indices: 60232343--60232394 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
60232333 CGTAGCCCAA
*
60232343 CTTTTGGTTTTTCGACATTTCAG
1 CTTTTGGCTTTTCGACATTTCAG
* *
60232366 CTTTTCGGCTTTTCGGCATTTCGG
1 CTTTT-GGCTTTTCGACATTTCAG
60232390 CTTTT
1 CTTTT
60232395 TCTGATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.08, C:0.21, G:0.19, T:0.52
Consensus pattern (23 bp):
CTTTTGGCTTTTCGACATTTCAG
Found at i:60236594 original size:47 final size:49
Alignment explanation
Indices: 60236479--60236657 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 49
60236469 GTAACCCGCC
* * * * *
60236479 CATAACCGAACTCAGACTCAACTCAACGAGCTCGG--G-CTTTCACATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATT
* *
60236525 CATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA-T
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATT
* *
60236574 C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATT
*
60236618 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
60236658 CAAACATCCT
Statistics
Matches: 109, Mismatches: 12, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 59 0.54
47 29 0.27
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (49 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATT
Found at i:60236644 original size:93 final size:93
Alignment explanation
Indices: 60236485--60236657 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
60236475 CGCCCATAAC
* * *
60236485 CGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCACATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
60236550 ACGAGTTCGGATGCCTAGTTACATCTTA
66 ACGAGTTCGGATGCCTAGTTACATCTTA
* * * *
60236578 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
60236643 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
60236658 CAAACATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTTA
Found at i:60240092 original size:28 final size:27
Alignment explanation
Indices: 60240028--60240190 Score: 229
Period size: 28 Copynumber: 5.9 Consensus size: 27
60240018 TCAAAAATAT
* *
60240028 ATAAT-AACTCCGCACACTCAGTGCTAT
1 ATAATCAACT-CGCACACTTAGTGCTAC
*
60240055 ATAATCAACTCGCACACTTAGTGCTAT
1 ATAATCAACTCGCACACTTAGTGCTAC
60240082 ATAATCAAACTCGCACACTTAGTGCTAC
1 ATAATC-AACTCGCACACTTAGTGCTAC
60240110 ATAATCAAGCTCGCACACTTAGTGCTAC
1 ATAATCAA-CTCGCACACTTAGTGCTAC
*
60240138 ATAGTCAAACTCGCACACTTAGTGCTAC
1 ATAATC-AACTCGCACACTTAGTGCTAC
* *
60240166 ATAGTCAATTCGCACACTTAGTGCT
1 ATAATCAACTCGCACACTTAGTGCT
60240191 GCACAATTTA
Statistics
Matches: 128, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
27 47 0.37
28 79 0.62
29 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (27 bp):
ATAATCAACTCGCACACTTAGTGCTAC
Found at i:60240209 original size:56 final size:53
Alignment explanation
Indices: 60240037--60240215 Score: 214
Period size: 56 Copynumber: 3.2 Consensus size: 53
60240027 TATAATAACT
* * *
60240037 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGC--TACAATCAAAC
*
60240092 TCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAAC
1 CCGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTACA-A-TCAAAC
* * * *
60240148 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCT--ACAA-TCAAAC
60240204 CCGCACACTTAG
1 CCGCACACTTAG
60240216 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
54 3 0.03
55 40 0.36
56 64 0.58
57 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (53 bp):
CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACAATCAAAC
Found at i:60248201 original size:28 final size:28
Alignment explanation
Indices: 60248138--60248315 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
60248128 ATAATAAGTC
* *
60248138 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60248165 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60248193 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
60248221 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
60248249 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
60248276 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
60248305 CGCACACTTAG
1 CGCACACTTAG
60248316 CGCCAATCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 43 0.32
28 80 0.59
29 13 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:60250971 original size:39 final size:40
Alignment explanation
Indices: 60250876--60251098 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
60250866 TTGAATGATG
*
60250876 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
60250914 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
60250955 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
60250994 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
60251033 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
60251072 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60251099 AACGAGGAGT
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 91 0.57
40 57 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60251070 original size:79 final size:81
Alignment explanation
Indices: 60250876--60251098 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
60250866 TTGAATGATG
* * *
60250876 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
60250938 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
60250955 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATATCCGGGCTAAGACCCGAAGGCATT
*
60251017 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
60251033 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAA-TTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAATATCCGGGCTAAGACCCGAAGGCAT
60251096 TTG
65 TTG
60251099 AACGAGGAGT
Statistics
Matches: 126, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 46 0.37
79 55 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:60251115 original size:79 final size:78
Alignment explanation
Indices: 60250928--60251120 Score: 189
Period size: 78 Copynumber: 2.5 Consensus size: 78
60250918 GGACTAAGAT
** * * *
60250928 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCAAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCAAAGGCATTTGTGCAAGATACTA
*
60250992 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** * *
60251006 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAA-TTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCAAAGGCATTTGTGC-AAGATACT
*
60251070 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAG-C
* *
60251086 CCGAAGGCATTTGAACGAG-GAGTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAA
60251121 ATTCCGAAGG
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 42 0.42
79 36 0.36
80 20 0.20
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCAAAGGCATTTGTGCAAGATACTAA
TACCGGGCTAAGC
Found at i:60253657 original size:15 final size:15
Alignment explanation
Indices: 60253637--60253714 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
60253627 AGGAAACCGA
60253637 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
60253652 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
60253666 AATAAAGAATTCC-AG
1 -ATAAAGAAATCCAAG
* *
60253681 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
* *
60253697 ATAAATAAACCCAAG
1 ATAAAGAAATCCAAG
60253712 ATA
1 ATA
60253715 TGATACTATG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
14 2 0.04
15 50 0.94
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60253671 original size:30 final size:30
Alignment explanation
Indices: 60253635--60253714 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
60253625 CAAGGAAACC
60253635 GAATAAAGAAATCCAAGATAAAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
* *
60253665 GAATAAAGAATTCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* * *
60253695 GGATAAATAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
60253715 TGATACTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.56, C:0.14, G:0.15, T:0.15
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:60256706 original size:46 final size:45
Alignment explanation
Indices: 60256632--60256808 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
60256622 GTAACCCGCC
* * *
60256632 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
60256677 CCATGAGTGAACTCGGACCCAACTCAACGAGTTCGGATGCCTAGTCACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * **
60256727 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCA-T
*
60256771 CATAAGTGAACTCGGACTCAACCCAACGAGTTCGGATG
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
60256809 CCCAAACATC
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 3 0.03
46 61 0.57
47 28 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:60256798 original size:93 final size:93
Alignment explanation
Indices: 60256638--60256810 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
60256628 CGCCCATAAG
*** * *
60256638 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGACCCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACCCA
60256703 ACGAGTTCGGATGCCTAGTCACATCTCA
66 ACGAGTTCGGATGCCTAGTCACATCTCA
* * *
60256731 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACCCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACCCA
60256796 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
60256811 CAAACATCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACCCA
ACGAGTTCGGATGCCTAGTCACATCTCA
Found at i:60259509 original size:29 final size:29
Alignment explanation
Indices: 60259435--60259549 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
60259425 TACATACATG
*
60259435 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* **
60259463 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
* * * **
60259492 CTTATGGCCTACTAGGCCCAATTCACCTT
1 CATATGGCCCACTAGGCCCAAATCATATT
*
60259521 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
60259550 ATAATCATTC
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
28 17 0.25
29 51 0.75
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:60259547 original size:58 final size:57
Alignment explanation
Indices: 60259437--60259549 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 57
60259427 CATACATGCA
* **
60259437 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* *
60259494 TATGGCCTACTAGGCCCAAT-TCACCTTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATCT-GGCCCAAATCATATT
60259550 ATAATCATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
56 2 0.04
57 20 0.42
58 26 0.54
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:60259816 original size:16 final size:16
Alignment explanation
Indices: 60259782--60259832 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
60259772 CTTTTCGACA
**
60259782 TTTT-GGCATTTCAAT
1 TTTTCGGCATTTCAGC
60259797 TTTTCGGCATTTCAGC
1 TTTTCGGCATTTCAGC
* * *
60259813 TTTTCAGCTTTTCGGC
1 TTTTCGGCATTTCAGC
60259829 TTTT
1 TTTT
60259833 GCCGATTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.12, C:0.20, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTTCGGCATTTCAGC
Found at i:60266315 original size:43 final size:43
Alignment explanation
Indices: 60266236--60266359 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
60266226 GTAAGACCAC
* * * *
60266236 GTCTGGGACATTGGCATCG-TATTTGATTTA-GTGTAAGAACCT
1 GTCTGGGATAGTGGCATCGATGTTTGA-TTACATGTAAGAACCT
* *
60266278 GTCTGGGATAGTGGCTTCGATGTTTGATTACATGTAAGACCCT
1 GTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGAACCT
60266321 GTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGA
1 GTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGA
60266360 TCACGTCTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 19 0.26
43 54 0.74
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (43 bp):
GTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGAACCT
Found at i:60266379 original size:43 final size:42
Alignment explanation
Indices: 60266181--60266382 Score: 139
Period size: 43 Copynumber: 4.7 Consensus size: 42
60266171 TGTGTTATCG
* * * * * *
60266181 TGTAAGAGCACGTCTAGGATGTTGGCATCGACT-TCTGTTTTGCG
1 TGTAAGA-CACGTCTGGGAAGTTGGCATCGA-TGTTTG-ATTACA
* *
60266225 TGTAAGACCACGTCTGGGACA-TTGGCATCG-TATTTGATTTA-G
1 TGTAAGA-CACGTCTGGGA-AGTTGGCATCGATGTTTGA-TTACA
*
60266267 TGTAAGA-ACCTGTCTGGGATAG-TGGCTTCGATGTTTGATTACA
1 TGTAAGACA-C-GTCTGGGA-AGTTGGCATCGATGTTTGATTACA
*
60266310 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACAC-GTCTGGGA-AGTTGGCATCGATGTTTGATTACA
* *
60266353 TGTAAGATCACGTCTAGGACGTTGGCATCG
1 TGTAAGA-CACGTCTGGGAAGTTGGCATCG
60266383 TATATGCTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 23
0.78 0.09 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 29 0.22
43 73 0.55
44 28 0.21
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
TGTAAGACACGTCTGGGAAGTTGGCATCGATGTTTGATTACA
Found at i:60278878 original size:88 final size:88
Alignment explanation
Indices: 60278724--60278913 Score: 272
Period size: 88 Copynumber: 2.2 Consensus size: 88
60278714 GTGCAGGGCT
* * *
60278724 CACACGCCCGTGTGTTCCAAGGGACACTCCTGTGCTAGAGGCCGTGTTCGACCCCGTGTAACTCT
1 CACACGCCCGTGTGGTCCAAGGGACACGCCTGTGCTAGAGACCGTGTTCGACCCCGTGTAACTCT
60278789 CTGACTTGAACACACGGCAATGC
66 CTGACTTGAACACACGGCAATGC
* * * * *
60278812 CACATGCCCGTGTGGTCTAAGGGACACGCTTGTTCTAGAGACTGTGTTCGACCCCGTGTAACTCT
1 CACACGCCCGTGTGGTCCAAGGGACACGCCTGTGCTAGAGACCGTGTTCGACCCCGTGTAACTCT
* *
60278877 CTGACTTGAACACATGGCCATGC
66 CTGACTTGAACACACGGCAATGC
* *
60278900 CACACACCCATGTG
1 CACACGCCCGTGTG
60278914 CAAGGCCATG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.23
Consensus pattern (88 bp):
CACACGCCCGTGTGGTCCAAGGGACACGCCTGTGCTAGAGACCGTGTTCGACCCCGTGTAACTCT
CTGACTTGAACACACGGCAATGC
Found at i:60282930 original size:46 final size:46
Alignment explanation
Indices: 60282829--60283133 Score: 202
Period size: 47 Copynumber: 6.5 Consensus size: 46
60282819 TTGTGTGTGG
* *
60282829 GCCAATGTAAGACCATGTCTGGGACATGGCATCGG-T-ATTGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCATT--GATGAGA
* *
60282877 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCT-CATTGATGAGA
* *
60282923 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGG--CATTGA-GACGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCATTGATGA-GA
* *
60282969 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGC-C-TTGAGTCGTA-A
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCATTGA-T-G-AGA
* * * *
60283017 GCCTGTGTAAGACATGTCTGGGACATGCATCGGCT-ATGAGACGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAT-TGATGAGA
* ** * * *
60283063 GTCAGTGTAAGACCATGTCTGGCTCATGGCATCGACT--TGCGATGTGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCAT-TGATGAGA
60283110 GCCAGTGTAAGACCATGTCTGGGA
1 GCCAGTGTAAGA-CATGTCTGGGA
60283134 TATAACATCG
Statistics
Matches: 210, Mismatches: 27, Indels: 41
0.76 0.10 0.15
Matches are distributed among these distances:
45 7 0.03
46 79 0.38
47 81 0.39
48 38 0.18
49 4 0.02
50 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCATTGATGAGA
Found at i:60283025 original size:94 final size:93
Alignment explanation
Indices: 60282829--60283133 Score: 331
Period size: 94 Copynumber: 3.3 Consensus size: 93
60282819 TTGTGTGTGG
* * *
60282829 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGT
*
60282894 CTAGGACATGCATCGGCTACATT-A-TG-AGA
66 CTGGGACATGCATCGGC--C-TTGAGTGTA-A
* *
60282923 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGACGAGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGT
*
60282988 TTGGGACATGCATCGGCCTTGAGTCGTAA
66 CTGGGACATGCATCGGCCTTGAGT-GTAA
*
60283017 GCCTGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATGAGACGA-TAG-TCAGTGTAAGACC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGT-GCT-AGTGTAAGA-C
** * * *
60283077 ATGTCTGGCTCATGGCATC-GACTTGCGATGTGA
62 ATGTCTGGGACAT-GCATCGGCCTTGAG-TGTAA
60283110 GCCAGTGTAAGACCATGTCTGGGA
1 GCCAGTGTAAGACCATGTCTGGGA
60283134 TATAACATCG
Statistics
Matches: 183, Mismatches: 17, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
91 5 0.03
92 27 0.15
93 45 0.25
94 105 0.57
95 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (93 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCGGCCTTGAGTGTAA
Found at i:60283127 original size:140 final size:142
Alignment explanation
Indices: 60282824--60283133 Score: 339
Period size: 140 Copynumber: 2.2 Consensus size: 142
60282814 GTCATTTGTG
* * * *
60282824 TGTGGGCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGTGCTAGTGTAAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGTCCTAGTGTAAGA
* *
60282889 CATGTCTAGGACATGCATCGGCTACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
66 CATGTCTAGGACATGCATCGGCTACATGACGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
* *
60282954 TTGGCATTGAGA
131 TCGACATTGAGA
* * * * * *
60282966 CGAGTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTTGAG-TCGTAAG-CCT-GTGTA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-G--AGTCCTAGTGTA
* * * * *
60283026 AGACATGTCTGGGACATGCATCGGCTATGA-GACGATAGTCAGTGTAAGACCATGTCT-GGCTCA
63 AGACATGTCTAGGACATGCATCGGCTA-CATGACGAGAGCCAGTGTAAGACCATGTCTAGG-ACA
*
60283089 TGGCATCGAC-TTGCGA
126 TGGCATCGACATTGAGA
60283105 TGTGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGA
60283134 TATAACATCG
Statistics
Matches: 138, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
139 21 0.15
140 87 0.63
141 16 0.12
142 14 0.10
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (142 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGTCCTAGTGTAAGA
CATGTCTAGGACATGCATCGGCTACATGACGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
TCGACATTGAGA
Found at i:60292384 original size:40 final size:41
Alignment explanation
Indices: 60292340--60292483 Score: 227
Period size: 41 Copynumber: 3.5 Consensus size: 41
60292330 TACCGGCGTT
* * *
60292340 TTTTGTTAAAACGCCGCTAAAAA-CAAAGAAATAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
60292380 TTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
* * *
60292421 TTTTGGTAAAGCGACGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
60292462 TTTTGGTAAAACGCCGCTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
60292484 GTCATATAAC
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 22 0.23
41 73 0.77
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGC
Found at i:60293064 original size:32 final size:32
Alignment explanation
Indices: 60293009--60293101 Score: 80
Period size: 32 Copynumber: 2.8 Consensus size: 32
60292999 GAGTTACTAT
* *
60293009 TTTAAGGTTTAGGGATTATGGTTTAAGTGTGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* * *
60293041 TTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTAGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTG-T-GG
* *
60293075 TGTTAGGGGTTAGAGG-TTAAGGGTTAA
1 T-TTAAGGGTTAG-GGATTAAGGTTTAA
60293102 AGGTTCATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 24 0.50
33 1 0.02
34 3 0.06
35 18 0.38
36 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.40
Consensus pattern (32 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
Found at i:60297931 original size:58 final size:58
Alignment explanation
Indices: 60297868--60297983 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
60297858 TGCTTAGTAA
60297868 GTTTTAAGCAAAATAAAGTGTTCTCAATCACTATCATTGGTCATTCATTTCAACTGTT
1 GTTTTAAGCAAAATAAAGTGTTCTCAATCACTATCATTGGTCATTCATTTCAACTGTT
60297926 GTTTTAAGCAAAATAAAGTGTTCTCAATCACTATCATTGGTCATTCATTTCAACTGTT
1 GTTTTAAGCAAAATAAAGTGTTCTCAATCACTATCATTGGTCATTCATTTCAACTGTT
60297984 CGATGAAGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (58 bp):
GTTTTAAGCAAAATAAAGTGTTCTCAATCACTATCATTGGTCATTCATTTCAACTGTT
Found at i:60298771 original size:22 final size:22
Alignment explanation
Indices: 60298743--60298864 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
60298733 TTCCACATCC
60298743 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
60298765 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
60298789 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
60298812 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
60298836 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60298859 ATCACA
1 ATCACA
60298865 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:60298778 original size:47 final size:47
Alignment explanation
Indices: 60298715--60299375 Score: 694
Period size: 47 Copynumber: 13.6 Consensus size: 47
60298705 CCCTTCGGGA
* * * *
60298715 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
60298762 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
60298809 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* * *
60298856 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* * * *
60298903 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
*
60298950 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
60298999 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
60299046 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
**
60299093 CTTATCACATATATATACACTTTCACATTCATCACTTTCACATTCATCACATT-GGC
1 CTTATCAC--ATATATACACTTTCACA-T--TCA---TCACATT-GGC-CATTAGGC
* * * ** **
60299149 CAT-TCGGCCT-TAT-CACATATAT-ACACTT--TCACATTCATCACATCGGCCATTAGAC
1 CTTATC-ACATATATACAC-T-T-TCACA-TTCATCACATT-GGC-CATTAG------G-C
*
60299204 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
60299251 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
60299300 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
60299349 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
60299376 TATTCAAATA
Statistics
Matches: 548, Mismatches: 32, Indels: 68
0.85 0.05 0.10
Matches are distributed among these distances:
46 1 0.00
47 319 0.58
48 2 0.00
49 154 0.28
50 2 0.00
52 7 0.01
53 4 0.01
54 14 0.03
55 19 0.03
56 19 0.03
57 7 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:60299028 original size:143 final size:143
Alignment explanation
Indices: 60298715--60299375 Score: 918
Period size: 143 Copynumber: 4.5 Consensus size: 143
60298705 CCCTTCGGGA
* * * *
60298715 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* * * *
60298780 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ATATATGCA-TGTTCACATTCATCAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATCAC
60298842 ATTGGCCATTCGGC
130 ATTGGCCATTCGGC
* * * * *
60298856 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
* * *
60298920 -TGTTCACATTCATCACATTGGCCATTCGACCTTATCACATATATATACACTTTCACATTCATCA
65 CT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
60298984 CATTGGCCATTCGGC
129 CATTGGCCATTCGGC
*
60298999 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
60299064 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATAT--A---T---A-T-A-CACT
60299129 TTCACATTCATCACATTGGCCATTCGGC
116 TTCACATTCATCACATTGGCCATTCGGC
* *
60299157 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
60299222 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
60299287 TCGGCCATTAGGC
131 TTGGCCATTCGGC
60299300 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
60299365 ACTTTCACATT
64 ACTTTCACATT
60299376 TATTCAAATA
Statistics
Matches: 472, Mismatches: 24, Indels: 44
0.87 0.04 0.08
Matches are distributed among these distances:
140 2 0.00
141 89 0.19
143 163 0.35
144 4 0.01
145 65 0.14
146 1 0.00
147 4 0.01
149 2 0.00
152 2 0.00
154 4 0.01
155 1 0.00
156 1 0.00
157 1 0.00
158 133 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTCGGC
Found at i:60299130 original size:15 final size:15
Alignment explanation
Indices: 60299110--60299189 Score: 67
Period size: 15 Copynumber: 5.2 Consensus size: 15
60299100 CATATATATA
60299110 CACTTTCACATTCAT
1 CACTTTCACATTCAT
60299125 CACTTTCACATTCAT
1 CACTTTCACATTCAT
* **
60299140 CACATTGGC-CATTCGG
1 CAC-TT-TCACATTCAT
60299156 C-CTTATCACATAT-AT
1 CACTT-TCACAT-TCAT
60299171 ACACTTTCACATTCAT
1 -CACTTTCACATTCAT
60299187 CAC
1 CAC
60299190 ATCGGCCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
14 3 0.06
15 26 0.51
16 18 0.35
17 4 0.08
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (15 bp):
CACTTTCACATTCAT
Found at i:60299133 original size:64 final size:62
Alignment explanation
Indices: 60299061--60299189 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 62
60299051 CACATATATA
60299061 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
* *
60299125 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCAT
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
60299187 CAC
1 CAC
60299190 ATCGGCCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 25 0.40
64 38 0.60
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (62 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
Found at i:60299137 original size:111 final size:109
Alignment explanation
Indices: 60299014--60299236 Score: 401
Period size: 111 Copynumber: 2.0 Consensus size: 109
60299004 CACATATATA
60299014 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
60299079 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ATCGGCCATTAGACCTTATCAC--ATATATACACTTTCACATTCAT
* *
60299125 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
60299190 ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCAT
66 ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCAT
60299234 CAC
1 CAC
60299237 ATCGGCCATT
Statistics
Matches: 109, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
109 25 0.23
111 84 0.77
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (109 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCAT
Found at i:60299145 original size:158 final size:158
Alignment explanation
Indices: 60298967--60299285 Score: 629
Period size: 158 Copynumber: 2.0 Consensus size: 158
60298957 CATATATATA
60298967 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
*
60299032 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
60299097 TCACATATATATACACTTTCACATTCAT
131 TCACATATATATACACTTTCACATTCAT
60299125 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
60299190 ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
60299255 TCACATATATATACACTTTCACATTCAT
131 TCACATATATATACACTTTCACATTCAT
60299283 CAC
1 CAC
60299286 ATCGGCCATT
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 160 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (158 bp):
CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATATACACTTTCACATTCAT
Found at i:60299165 original size:31 final size:31
Alignment explanation
Indices: 60299066--60299166 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
60299056 ATATACACTT
* *
60299066 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATTGGCCATTCGGCCTTA
* * **
60299097 TCACATAT-ATATACACTT-TCACATTCATCACTT-
1 TCACAT-TCAT-CACA-TTGGC-CATTCGGC-CTTA
60299130 TCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATTCATCACATTGGCCATTCGGCCTTA
60299161 TCACAT
1 TCACAT
60299167 ATATACACTT
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
30 3 0.06
31 22 0.42
32 10 0.19
33 14 0.27
34 3 0.06
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (31 bp):
TCACATTCATCACATTGGCCATTCGGCCTTA
Found at i:60300889 original size:56 final size:56
Alignment explanation
Indices: 60300822--60300941 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
60300812 TATTAGTTTA
60300822 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
60300878 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
60300934 TTGCCCAT
1 TTGCCCAT
60300942 CATCCTTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:60303721 original size:49 final size:49
Alignment explanation
Indices: 60303649--60303832 Score: 208
Period size: 49 Copynumber: 3.7 Consensus size: 49
60303639 TGAGGTCACG
* *
60303649 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTGGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTGGCA
* * * * * * *
60303698 TGTGTAGTGCTAAGTGCAGGCTACCATACGTACCCGAAAACT-GTGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTG-GCA
* * * *
60303747 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTGGCA
*
60303798 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
60303833 AATAGCTTCG
Statistics
Matches: 109, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.03
49 69 0.63
51 35 0.32
52 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTGGCA
Found at i:60303821 original size:100 final size:100
Alignment explanation
Indices: 60303644--60303831 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
60303634 TATTGTGAGG
* * * *
60303644 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTGGCATGTGTAGTGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
60303709 AAGTGCAGGCTACCATACGTACCCGAAAACTGTGA
66 AAGTGCAAGCTACCATACGTACCCGAAAACTGTGA
*
60303744 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
60303809 AAGTGCAAGCTACTATGCGTACC
66 AAGTGCAAGCTACCATACGTACC
60303832 AAATAGCTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACCATACGTACCCGAAAACTGTGA
Found at i:60305205 original size:29 final size:29
Alignment explanation
Indices: 60305171--60305258 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
60305161 CAATATAAAT
*
60305171 GTGATTTGGGCCTAATGGGTCATATACAG
1 GTGATTTGGGCCTAATGGGCCATATACAG
* *
60305200 GTGATTTGGGCCTAAGGGGCCATATGA-AT
1 GTGATTTGGGCCTAATGGGCCATAT-ACAG
* * *
60305229 ATGA-TTGGGCTTAATGGGCCAGATACAG
1 GTGATTTGGGCCTAATGGGCCATATACAG
60305257 GT
1 GT
60305259 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 19 0.40
29 27 0.56
30 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATACAG
Found at i:60307490 original size:5 final size:5
Alignment explanation
Indices: 60307476--60307504 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
60307466 TTTAACTATG
60307476 TAAAA T-AAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
60307505 AGAAGCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:60314750 original size:48 final size:49
Alignment explanation
Indices: 60314673--60314800 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 49
60314663 ATTAATGAGA
* * * * *
60314673 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGTATTGATATGTG-T
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT
* ** * *
60314721 GCCAGTGTAAGACCATATCTGGGATATGGCGTTGGCCTCGGTATGTGAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT
**
60314770 TTCA-TGTAAGACCATATCTGGGATATGGCAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCAT
60314801 TGATATGAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
48 63 0.95
49 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
GCCAGTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT
Found at i:60314826 original size:42 final size:43
Alignment explanation
Indices: 60314725--60314897 Score: 152
Period size: 48 Copynumber: 3.8 Consensus size: 43
60314715 ATGTGTGCCA
* * *
60314725 GTGTAAGACCATATCTGGGATATGGCGTTGGCCTCGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGGC-AT---CT-GATATGAGATTTC
*
60314773 ATGTAAGACCATATCTGGGATATGGCAT-TGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCTGATATGAGATTTC
* * *
60314815 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCTG-A-T-A--TGAGATTTC
* * *
60314863 GTATAAGACCATATATGGGATATGACATC-GATATG
1 GTGTAAGACCATATCTGGGATATGGCATCTGATATG
60314898 TAGACCCATT
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 38 0.36
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
48 58 0.55
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGATATGGCATCTGATATGAGATTTC
Found at i:60314840 original size:90 final size:90
Alignment explanation
Indices: 60314725--60314935 Score: 219
Period size: 90 Copynumber: 2.3 Consensus size: 90
60314715 ATGTGTGCCA
* * * ** * * *
60314725 GTGTAAGACCATATCTGGGATATGGCGTTGGC-CTCGGTATGTGATTTCATGTAAGACCATATCT
1 GTGTAAGACCATGTCTGGGACATGGCATTGGCACT-GACATGAGATTTCATATAAGACCATATAT
* * **
60314789 GGGATATGGCATTGATATG-AGATTTC
65 GGGATATGACATCGATATGTAGA-CCC
* * *
60314815 GTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACGTGAGATTTCGTATAAGACCATATATG
1 GTGTAAGACCATGTCTGGGACATGGCATTGGCACTGACATGAGATTTCATATAAGACCATATATG
60314880 GGATATGACATCGATATGTAGACCC
66 GGATATGACATCGATATGTAGACCC
* * * *
60314905 ATTTAAAACCATGTCTGGGACATGGCTTTGG
1 GTGTAAGACCATGTCTGGGACATGGCATTGG
60314936 AATTCTATAT
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
90 94 0.95
91 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (90 bp):
GTGTAAGACCATGTCTGGGACATGGCATTGGCACTGACATGAGATTTCATATAAGACCATATATG
GGATATGACATCGATATGTAGACCC
Found at i:60317482 original size:16 final size:17
Alignment explanation
Indices: 60317461--60317492 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
60317451 CCTAGTTCAC
60317461 AAACTCATAAA-CATAT
1 AAACTCATAAATCATAT
60317477 AAACTCATAAATCATA
1 AAACTCATAAATCATA
60317493 ATATAGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (17 bp):
AAACTCATAAATCATAT
Found at i:60320546 original size:43 final size:43
Alignment explanation
Indices: 60320420--60320581 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
60320410 CGGTATGTCT
* * *
60320420 TTTCGTGTAAGATCACGTCTAGGACATTGGCATCGACT-TATGA
1 TTTCGTGTAAGACCACGTCTAGGACATTGGCATC-AATATTTGA
* * * * *
60320463 TTTATGTGTAAGACCACGTCTGGGACGTTGGAATC-GTATTTGA
1 TTT-CGTGTAAGACCACGTCTAGGACATTGGCATCAATATTTGA
*
60320506 TTTCGTGTAAGACC-CTGTCTAGGACACTGGCATCAATATTTGA
1 TTTCGTGTAAGACCAC-GTCTAGGACATTGGCATCAATATTTGA
* * *
60320549 TTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTTCGTGTAAGACCACGTCTAGGACATTGGCAT
60320582 TGTACGAGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 44 0.45
44 27 0.28
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TTTCGTGTAAGACCACGTCTAGGACATTGGCATCAATATTTGA
Found at i:60331018 original size:52 final size:50
Alignment explanation
Indices: 60330940--60331128 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
60330930 ATTGTGAGAA
* **
60330940 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATTGGTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAA-TGG-TTAGGT
* * * *
60330992 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
** ** *** * * *
60331042 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAAT-GGTTAGGT
* * *
60331093 CACATGTGTGGTATTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
60331129 AGAGATGGTT
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.37
51 37 0.33
52 34 0.30
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
Found at i:60331059 original size:50 final size:52
Alignment explanation
Indices: 60330940--60331071 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 52
60330930 ATTGTGAGAA
* * **
60330940 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATTGGTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATTGGTTTAGGT
* * *
60330992 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGA-TGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATTGGTTTAGGT
**
60331042 TGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
60331072 TGCATACCCG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 33 0.47
51 3 0.04
52 34 0.49
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (52 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATTGGTTTAGGT
Found at i:60331145 original size:51 final size:51
Alignment explanation
Indices: 60330940--60331177 Score: 194
Period size: 51 Copynumber: 4.7 Consensus size: 51
60330930 ATTGTGAGAA
* *
60330940 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAA-A-ATTGGTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TAACAGA-TGGTTTAGAT
* * * *
60330992 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTAGAT
** ** * * * * *
60331042 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTAGAT
* * * * *
60331093 CACATGTGTGGTATTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTAGAT
* * * * * *
60331144 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG
60331178 AAGAAGGTAG
Statistics
Matches: 151, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
50 44 0.29
51 75 0.50
52 32 0.21
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATGGTTTAGAT
Found at i:60331193 original size:51 final size:51
Alignment explanation
Indices: 60331081--60331222 Score: 162
Period size: 51 Copynumber: 2.8 Consensus size: 51
60331071 ATGCATACCC
* * * *
60331081 GATAGCTTCGATCACATGTGTGGTATTAAGTGCAGGCCACTATGTGTAAGA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAGA
* * * *
60331132 GATGGTTTTGATCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAG-A
* *
60331183 GGTAGCTTTGA-CTACAAGGGTGGTACTATGTGCAGGCCAC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGCCAC
60331223 CGGGTATCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
50 4 0.05
51 72 0.95
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAGA
Found at i:60336194 original size:20 final size:20
Alignment explanation
Indices: 60336169--60336211 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
60336159 AAAATTGCCT
60336169 AACTAGAAAAATGACTAGTC
1 AACTAGAAAAATGACTAGTC
60336189 AACTAGAAAAATGACTAGTC
1 AACTAGAAAAATGACTAGTC
60336209 AAC
1 AAC
60336212 AATTGCGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (20 bp):
AACTAGAAAAATGACTAGTC
Found at i:60357144 original size:30 final size:30
Alignment explanation
Indices: 60357104--60357164 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
60357094 CATATACATC
*
60357104 AAGTAAGGATAGATGAGCTCATCATGTAAT
1 AAGTAAGGATAGATGAGCTCATCATGCAAT
*
60357134 AAGTAGGGATAGATGAGCTCATCATGCAAT
1 AAGTAAGGATAGATGAGCTCATCATGCAAT
60357164 A
1 A
60357165 CTTTTTCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (30 bp):
AAGTAAGGATAGATGAGCTCATCATGCAAT
Found at i:60358577 original size:17 final size:17
Alignment explanation
Indices: 60358555--60358588 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60358545 GACCTCTAGT
*
60358555 TTTGATTCTCATAGCTA
1 TTTGATCCTCATAGCTA
*
60358572 TTTGATCCTTATAGCTA
1 TTTGATCCTCATAGCTA
60358589 CTAGAATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTGATCCTCATAGCTA
Found at i:60363744 original size:14 final size:15
Alignment explanation
Indices: 60363695--60363744 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
60363685 GTATCTTGGG
*
60363695 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
60363710 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
60363725 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
60363739 TTTCTT
1 TTTCTT
60363745 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:60366755 original size:40 final size:40
Alignment explanation
Indices: 60366700--60366884 Score: 311
Period size: 40 Copynumber: 4.6 Consensus size: 40
60366690 CAGATGATAA
* *
60366700 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
60366740 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60366780 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60366820 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
60366861 -CGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60366885 AGCAAGTAGT
Statistics
Matches: 139, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
40 136 0.98
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60366899 original size:80 final size:79
Alignment explanation
Indices: 60366696--60366916 Score: 295
Period size: 80 Copynumber: 2.8 Consensus size: 79
60366686 TATTCAGATG
* * *
60366696 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
*
60366760 ATTTGTGCGAGTTACT
64 ACTTGTGCGAGTTACT
* *
60366776 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATAAT-CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGC
60366840 ACTTGTGCGAGTTACT
64 ACTTGTGCGAGTTACT
* * *
60366856 ATAATCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
60366917 ATGCTTGGGT
Statistics
Matches: 128, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
79 17 0.13
80 107 0.84
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAC
TTGTGCGAGTTACT
Found at i:60367184 original size:22 final size:21
Alignment explanation
Indices: 60367143--60367186 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
60367133 GAATGTGCAT
60367143 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
60367165 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
60367187 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:60387857 original size:49 final size:49
Alignment explanation
Indices: 60387774--60388050 Score: 175
Period size: 49 Copynumber: 5.8 Consensus size: 49
60387764 GGTTAAGATA
* *
60387774 CCGATGCCATTTCCCAAACATGGTCTTACACTGGCTTTCATATAGCGAG-G
1 CCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCATATAGCG-GTG
* * *
60387824 CCGATTCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGTG
1 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGGTG
** * * * *
60387873 TTGATGCCATGTCCCAGACAGGTCTTACACTGACACACA-ATAAGC--T-
1 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATAT-AGCGGTG
* * * * *
60387919 --GACGCCATGTCCTAGACAGGTCTTACACTGGCT-TGTATATCGCGAG-G
1 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCT-CATATAGCG-GTG
* * * * * ** **
60387966 CTGAT-ACATGTCCCAGACATGTCTTACACTAGCTCT--TATCTCAATG
1 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGGTG
* *
60388012 CCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCAT
1 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCAT
60388051 GTTGTGGCTG
Statistics
Matches: 181, Mismatches: 31, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
44 32 0.18
45 2 0.01
46 39 0.22
47 1 0.01
48 28 0.15
49 61 0.34
50 18 0.10
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGGTG
Found at i:60387990 original size:48 final size:47
Alignment explanation
Indices: 60387924--60388045 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
60387914 AAGCTGACGC
* * * * *
60387924 CATGTCCTAGACAGGTCTTACACTGGCTTGTATATCGCGAGGCTGATA
1 CATGTCCCAGACATGTCTTACACTGGCTTCT-TATCGCAAGGCCGATA
* * * *
60387972 CATGTCCCAGACATGTCTTACACTAGC-TCTTATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTCTTATCGCAAGGCCGATA
60388018 CATGTCCCAGACATGTCTTACACTGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
60388046 CTCATGTTGT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 37 0.59
47 2 0.03
48 24 0.38
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCTTATCGCAAGGCCGATA
Found at i:60388032 original size:46 final size:46
Alignment explanation
Indices: 60387972--60388090 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
60387962 GAGGCTGATA
*
60387972 CATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGGCCGATG
* * ** *
60388018 CATGTCCCAGACATGTCTTACACTGGCTCTCATGTTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGGCCGATG
* *
60388064 CATGTCCCAGGCATATCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
60388091 ACACATATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGGCCGATG
Found at i:60393190 original size:23 final size:24
Alignment explanation
Indices: 60393143--60393190 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
60393133 TAAAATTTTA
*
60393143 AAAATACAAAAAAATTAACTAAATT
1 AAAATAC-AAAAAATTAAATAAATT
*
60393168 AAAATAC-AAAAATTAAATCAATT
1 AAAATACAAAAAATTAAATAAATT
60393191 TAGGCTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
25 7 0.33
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAATACAAAAAATTAAATAAATT
Found at i:60395044 original size:9 final size:9
Alignment explanation
Indices: 60395030--60395061 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
60395020 CCTATAGCAA
60395030 AAAAAAAAG
1 AAAAAAAAG
60395039 AAAAAAAAAG
1 -AAAAAAAAG
60395049 AAAAAAAAG
1 AAAAAAAAG
60395058 AAAA
1 AAAA
60395062 CCATAACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:60395044 original size:10 final size:10
Alignment explanation
Indices: 60395029--60395061 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
60395019 ACCTATAGCA
60395029 AAAAAAAAAG
1 AAAAAAAAAG
60395039 AAAAAAAAAG
1 AAAAAAAAAG
60395049 -AAAAAAAAG
1 AAAAAAAAAG
60395058 AAAA
1 AAAA
60395062 CCATAACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:60399361 original size:4 final size:4
Alignment explanation
Indices: 60399352--60399825 Score: 396
Period size: 4 Copynumber: 121.5 Consensus size: 4
60399342 TTTGTCTCTA
* ** **
60399352 TATG TATG TATG TTTG TATG TATG TGCG TATG TATG TATG TAAA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
60399400 TATG TGTG TATG TATG TATG TATG TATG TATG TGTG TATG T-T- TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
60399446 TGTG TATG TATG TATG TCTG TATG --TG TATG TATA TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
60399492 T-T- TGTG TATG TATG TATG TGTG TGTA TGTG TATA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
60399538 TATG TATG TATG TATG TATG TATG TATG TGTG TGTG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
60399586 TATG TATG TATG TATG TATG TATG TATG TATG --TG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
60399632 TATG TATG TATG TATG TATG TGTG TGTG TATG --TG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * *
60399678 TA-- TATA TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * *
60399724 TATA TGTA TATG TATA TGTA TATG TATA TGTA TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * ** ** * *
60399772 TATG TATG TATA TAAG TACA TATG TATG TACA TATG TATA TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
60399820 TATG TA
1 TATG TA
60399826 AGTACATGCG
Statistics
Matches: 386, Mismatches: 72, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
2 10 0.03
3 4 0.01
4 372 0.96
ACGTcount: A:0.24, C:0.01, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Done.