Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:1105682 original size:51 final size:53
Alignment explanation
Indices: 1105586--1105704 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
1105576 AACGGGGTTG
* * *
1105586 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
1105640 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
1105691 GAATATCCTCGATT
1 GAGTATCCCCGATT
1105705 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:1109242 original size:43 final size:43
Alignment explanation
Indices: 1109195--1109393 Score: 152
Period size: 43 Copynumber: 4.7 Consensus size: 43
1109185 CTGAGCTGAT
1109195 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
* ** * * *
1109238 GGGCAGACGATGGATGTAGTAA-TCTCTTGGGTCT-AGGTCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGG-CGAC
** * ** * * * * ** *
1109280 AAGTAGATAATGGATGAAGAAA-TCTCCCGAGTTTGAGTCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
* * *
1109322 AGGCAGACGATTGATAAAGAAAGTCTCCCGGGACTGAGCCGAC
1 GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
* * *
1109365 GGGTAGACAATTGATAAAGGAAGTCTCCT
1 GGGCAGACGATTGATAAAGAAAGTCTCCT
1109394 AGGCCTAAGC
Statistics
Matches: 120, Mismatches: 33, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
41 3 0.03
42 57 0.47
43 60 0.50
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (43 bp):
GGGCAGACGATTGATAAAGAAAGTCTCCTGGGACTGAGGCGAC
Found at i:1109515 original size:42 final size:42
Alignment explanation
Indices: 1109468--1109549 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
1109458 CGAAAGATAA
* *
1109468 AGAGGTCT-CCAAGGACTAAGTCGACGGCCAAACGATGGATGG
1 AGAGGTCTCCCAA-GACTAAGCCGACGGCCAAACAATGGATGG
* *
1109510 AGAGGTCTCCCAAGTCTAAGCCGACGGGCAAACAATGGAT
1 AGAGGTCTCCCAAGACTAAGCCGACGGCCAAACAATGGAT
1109550 AAAAACTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.32, C:0.23, G:0.30, T:0.15
Consensus pattern (42 bp):
AGAGGTCTCCCAAGACTAAGCCGACGGCCAAACAATGGATGG
Found at i:1109773 original size:42 final size:42
Alignment explanation
Indices: 1109707--1110258 Score: 201
Period size: 42 Copynumber: 13.1 Consensus size: 42
1109697 ACTGATGGGA
** * * **
1109707 GTCTAAGTTAATGGGCAGACAAAAGATAAAGAAGTCTCCTGG
1 GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAAGTCTCCCAG
* * *
1109749 GTCTAAGCCAATGGGGAAAGAAAAGATGAAGAAGGTCTCCCAA
1 GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAA-GTCTCCCAG
* * *
1109792 GTCTAAG-C--T-GACAAGTAGACGGAAGATAAA-AGAGTTTCCCAG
1 GTCTAAGCCAATGGGCAA--AGA--AAAGATAAAGA-AGTCTCCCAG
* * *
1109834 GTCTAAGCCAACT-GGAAAATAAAA-A-AAA-AAGTCT-CCTG
1 GTCTAAGCCAA-TGGGCAAAGAAAAGATAAAGAAGTCTCCCAG
*** ** * *
1109872 AGTCTAAGTTGACAGGCAAACAAAAGATAAAGAAGTCTCCTAG
1 -GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAAGTCTCCCAG
*** * *
1109915 GTCTAAGTTGATGGGCAAATG-AAAGATAAAAAAGTCTCCCGG
1 GTCTAAGCCAATGGGCAAA-GAAAAGATAAAGAAGTCTCCCAG
* * * * *
1109957 GTCTGAGTCGATGGGCAAATAAAAGAAAAAGAAGTTCTCCCAG
1 GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAAG-TCTCCCAG
* * * **
1110000 GTCTAAGCTAATGGGCAGACG-AAAGATGAAGAAGTCT-CTTG
1 GTCTAAGCCAATGGGCA-AAGAAAAGATAAAGAAGTCTCCCAG
*
1110041 AGTCTAAGCTGACA-GGG-AAAGAAAAGATGAAA-AAGGTCTCCCAG
1 -GTCTAAGC-CA-ATGGGCAAAGAAAAGAT-AAAGAA-GTCTCCCAG
* ** * * * *
1110085 ATCTAAGCTGACGGGTAGATG-AAAGATAAAGGAGTCTCCCAG
1 GTCTAAGCCAATGGGCA-AAGAAAAGATAAAGAAGTCTCCCAG
* * * * *
1110127 GTCTAAGCCGACGGGCAAACAAAGAAAGGATAAAGAAGTCTTCGAG
1 GTCTAAGCCAATGGG----CAAAGAAAAGATAAAGAAGTCTCCCAG
** * * *
1110173 GTCTAAGCTGAT-GG--ATG-AAAGATAAAGAAGTCACCCGG
1 GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAAGTCTCCCAG
*** * * * * *
1110211 GTCTAAGTTGATGGGCCAACAAAAAATAAATAAGTCTCCCAC
1 GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAAGTCTCCCAG
1110253 GTCTAA
1 GTCTAA
1110259 ACTAACGGGC
Statistics
Matches: 385, Mismatches: 85, Indels: 80
0.70 0.15 0.15
Matches are distributed among these distances:
38 30 0.08
39 28 0.07
40 6 0.02
41 13 0.03
42 184 0.48
43 80 0.21
44 8 0.02
45 4 0.01
46 32 0.08
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.18
Consensus pattern (42 bp):
GTCTAAGCCAATGGGCAAAGAAAAGATAAAGAAGTCTCCCAG
Found at i:1110024 original size:85 final size:84
Alignment explanation
Indices: 1109862--1110311 Score: 349
Period size: 85 Copynumber: 5.3 Consensus size: 84
1109852 ATAAAAAAAA
* * * * * * *
1109862 AAGTCTCCTGAGTCTAAGTTGACAGGCAAACAAAAGATAAAGAAGTCTCCTAGGTCTAAGTTGAT
1 AAGTCTCCCGGGTCTAAGTCGACGGGCAAACAAAAGAAAAAGAAGTCTCCCAGGTCTAAGCTGAT
* *
1109927 GGGCAAATGAAAGATAAAA
66 GGGCAGATGAAAGATAAAG
* * * *
1109946 AAGTCTCCCGGGTCTGAGTCGATGGGCAAATAAAAGAAAAAGAAGTTCTCCCAGGTCTAAGCTAA
1 AAGTCTCCCGGGTCTAAGTCGACGGGCAAACAAAAGAAAAAGAAG-TCTCCCAGGTCTAAGCTGA
* *
1110011 TGGGCAGACGAAAGATGAAG
65 TGGGCAGATGAAAGATAAAG
** * * * *
1110031 AAGTCTCTTGAGTCTAAG-CTGACAGGG-AAAGAAAAGATGAAAA-AGGTCTCCCAGATCTAAGC
1 AAGTCTCCCGGGTCTAAGTC-GAC-GGGCAAACAAAAGA--AAAAGAAGTCTCCCAGGTCTAAGC
* *
1110093 TGACGGGTAGATGAAAGATAAAG
62 TGATGGGCAGATGAAAGATAAAG
* * * * * *
1110116 GAGTCTCCCAGGTCTAAGCCGACGGGCAAACAAAGAAAGGATAAAGAAGTCTTCGAGGTCTAAGC
1 AAGTCTCCCGGGTCTAAGTCGACGGGCAAAC--A-AAA-GAAAAAGAAGTCTCCCAGGTCTAAGC
1110181 TGAT--G--GATGAAAGATAAAG
62 TGATGGGCAGATGAAAGATAAAG
* * * * * * * *
1110200 AAGTCACCCGGGTCTAAGTTGATGGGCCAACAAAA-AATAAATAAGTCTCCCACGTCTAAACTAA
1 AAGTCTCCCGGGTCTAAGTCGACGGGCAAACAAAAGAA-AAAGAAGTCTCCCAGGTCTAAGCTGA
*
1110264 CGGGCAGATGAAAGAAAGGATAAAG
65 TGGGCAGAT----GAAA-GATAAAG
*
1110289 AAGGTCTCCCGAGTCTAAGTCGA
1 AA-GTCTCCCGGGTCTAAGTCGA
1110312 TGGGTAGAAA
Statistics
Matches: 285, Mismatches: 58, Indels: 40
0.74 0.15 0.10
Matches are distributed among these distances:
79 1 0.00
80 20 0.07
81 3 0.01
82 2 0.01
84 82 0.29
85 109 0.38
86 7 0.02
87 8 0.03
88 25 0.09
89 11 0.04
90 17 0.06
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (84 bp):
AAGTCTCCCGGGTCTAAGTCGACGGGCAAACAAAAGAAAAAGAAGTCTCCCAGGTCTAAGCTGAT
GGGCAGATGAAAGATAAAG
Found at i:1110046 original size:127 final size:126
Alignment explanation
Indices: 1109894--1110278 Score: 356
Period size: 127 Copynumber: 3.0 Consensus size: 126
1109884 CAGGCAAACA
* *
1109894 AAAGATAAAGAAGTCTCCT-AGGTCTAAGTTGATGGGCAAATGAAAGATAAAAAAGTCTCCCGGG
1 AAAGATAAAGAAGTCTCTTGAGGTCTAAGCTGATGGG-AAATGAAAGATAAAAAAGTCTCCCGGG
* *
1109958 TCTGAGTCGATGGGCAAATAAAAGAAAAAGAAGTTCTCCCAGGTCTAAGCTAATGGGCAGACG
65 TCTAAGTCGATGGGCAAATAAAAGAAAAAGAAG-TCTCCCAGGTCTAAGCTAACGGGCAGACG
* * * *
1110021 AAAGATGAAGAAGTCTCTTGA-GTCTAAGCTGACAGGGAAA-GAAAAGATGAAAAAGGTCTCCCA
1 AAAGATAAAGAAGTCTCTTGAGGTCTAAGCTGA-TGGGAAATG-AAAGAT-AAAAAAGTCTCCCG
* * * * * * * ** *
1110084 GATCTAAG-CTGACGGGTAGATGAAAGATAAAGGAGTCTCCCAGGTCTAAGCCGACGGGCAAACA
63 GGTCTAAGTC-GATGGGCAAATAAAAGAAAAAGAAGTCTCCCAGGTCTAAGCTAACGGGCAGAC-
1110148 AAG
126 --G
* * *
1110151 AAAGGATAAAGAAGTCT-TCGAGGTCTAAGCTGAT-GG--ATGAAAGATAAAGAAGTCACCCGGG
1 AAA-GATAAAGAAGTCTCTTGAGGTCTAAGCTGATGGGAAATGAAAGATAAAAAAGTCTCCCGGG
* * * * * * *
1110212 TCTAAGTTGATGGGCCAACAAAA-AATAAATAAGTCTCCCACGTCTAAACTAACGGGCAGATG
65 TCTAAGTCGATGGGCAAATAAAAGAA-AAAGAAGTCTCCCAGGTCTAAGCTAACGGGCAGACG
1110274 AAAGA
1 AAAGA
1110279 AAGGATAAAG
Statistics
Matches: 203, Mismatches: 42, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
122 2 0.01
123 4 0.02
125 1 0.00
126 54 0.27
127 68 0.33
128 42 0.21
129 2 0.01
130 7 0.03
131 23 0.11
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (126 bp):
AAAGATAAAGAAGTCTCTTGAGGTCTAAGCTGATGGGAAATGAAAGATAAAAAAGTCTCCCGGGT
CTAAGTCGATGGGCAAATAAAAGAAAAAGAAGTCTCCCAGGTCTAAGCTAACGGGCAGACG
Found at i:1110214 original size:38 final size:39
Alignment explanation
Indices: 1110150--1110224 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 39
1110140 GGCAAACAAA
**
1110150 GAAAGGATAAAGAAGTCTTCGAGGTCTAAGCTGATGGAT
1 GAAAGGATAAAGAAGTCCCCGAGGTCTAAGCTGATGGAT
*
1110189 GAAA-GATAAAGAAGTCACCCG-GGTCTAAGTTGATGG
1 GAAAGGATAAAGAAGTC-CCCGAGGTCTAAGCTGATGG
1110225 GCCAACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 26 0.81
39 6 0.19
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (39 bp):
GAAAGGATAAAGAAGTCCCCGAGGTCTAAGCTGATGGAT
Found at i:1110380 original size:42 final size:41
Alignment explanation
Indices: 1110292--1110391 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 41
1110282 GATAAAGAAG
* *
1110292 GTCTCCCGAGTCTAAGTCGATGGGTAGAAAAGAGCTAAAAAT
1 GTCTCTCGAGTCTAAGTCGACGGGTAGAAAAGAGC-AAAAAT
*
1110334 GTCTCTCGAGTTTAAGTCGACGGGTAGATGAAAGATG-AAAAA-
1 GTCTCTCGAGTCTAAGTCGACGGGTAGA--AAAGA-GCAAAAAT
1110376 GTCTCTC-AGGTCTAAG
1 GTCTCTCGA-GTCTAAG
1110392 CTGATGAGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.02
42 38 0.76
43 5 0.10
44 5 0.10
45 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (41 bp):
GTCTCTCGAGTCTAAGTCGACGGGTAGAAAAGAGCAAAAAT
Found at i:1110388 original size:258 final size:256
Alignment explanation
Indices: 1109888--1110392 Score: 564
Period size: 258 Copynumber: 2.0 Consensus size: 256
1109878 AGTTGACAGG
* * *
1109888 CAAACAAAAGATAAAGAAGTCTCCTAGGTCTAAGTTGATGGGCAAATGAAAGATAAAAAAGTCTC
1 CAAACAAAAGATAAAGAAGTCTCCGAGGTCTAAGCTGATGGG--AATGAAAGATAAAAAAGTCAC
* * * * *
1109953 CCGGGTCTGAGTCGATGGGCAAATAAAAGAAAAAGAAGTTCTCCCAGGTCTAAGCTAATGGGCAG
64 CCGGGTCTAAGTCGATGGGCAAACAAAAGAAAAAGAAGTTCTCCCACGTCTAAACTAACGGGCAG
* * **
1110018 ACGAAAGATGAAGAAGTCTCTTGAGTCTAAGCTGACAGGGAAAGAAAAGATGAAAAAGGTCTCCC
129 AAGAAAGATAAAGAAGTCTCCCGAGTCTAAGCTGACAGGGAAAGAAAAGATGAAAAAGGTCTCCC
*
1110083 AGATCTAAGCTGACGGGTAGATGAAAGATAAAGGAGTCTCCCAGGTCTAAGCCGACGGGCAAA
194 AGATCTAAGCTGACGGGTAGATGAAAGATAAAGAAGTCTCCCAGGTCTAAGCCGACGGGCAAA
* * * *
1110146 CAAAGAAAGGATAAAGAAGTCTTCGAGGTCTAAGCTGAT-GG-ATGAAAGATAAAGAAGTCACCC
1 CAAACAAAAGATAAAGAAGTCTCCGAGGTCTAAGCTGATGGGAATGAAAGATAAAAAAGTCACCC
* * *
1110209 GGGTCTAAGTTGATGGGCCAACAAAA-AATAAATAAG-TCTCCCACGTCTAAACTAACGGGCAGA
66 GGGTCTAAGTCGATGGGCAAACAAAAGAA-AAAGAAGTTCTCCCACGTCTAAACTAACGGGC--A
* *
1110272 TGAAAGAAAGGATAAAGAAGGTCTCCCGAGTCTAAG-TCGA-TGGG-TAGAAAAGA-GCTAAAAA
128 -G-AAGAAA-GATAAAGAA-GTCTCCCGAGTCTAAGCT-GACAGGGAAAGAAAAGATG--AAAAA
* * * *
1110333 TGTCTCTC-GAGTTTAAG-TCGACGGGTAGATGAAAGATGAAA-AAGTCTCTCAGGTCTAAGC
186 GGTCTCCCAGA-TCTAAGCT-GACGGGTAGATGAAAGAT-AAAGAAGTCTCCCAGGTCTAAGC
1110393 TGATGAGCAG
Statistics
Matches: 208, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
253 23 0.11
254 48 0.23
255 1 0.00
256 2 0.01
257 18 0.09
258 97 0.47
259 19 0.09
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (256 bp):
CAAACAAAAGATAAAGAAGTCTCCGAGGTCTAAGCTGATGGGAATGAAAGATAAAAAAGTCACCC
GGGTCTAAGTCGATGGGCAAACAAAAGAAAAAGAAGTTCTCCCACGTCTAAACTAACGGGCAGAA
GAAAGATAAAGAAGTCTCCCGAGTCTAAGCTGACAGGGAAAGAAAAGATGAAAAAGGTCTCCCAG
ATCTAAGCTGACGGGTAGATGAAAGATAAAGAAGTCTCCCAGGTCTAAGCCGACGGGCAAA
Found at i:1111037 original size:78 final size:79
Alignment explanation
Indices: 1110954--1111388 Score: 446
Period size: 78 Copynumber: 5.6 Consensus size: 79
1110944 GTGCCCTTCA
* * *
1110954 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAAGAATAAGGGATATGA-TACGAAGTGAGTG
1 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAAGGGATATGACTACGAAGCGAGTG
**
1111018 GGAAATGCCCCTTT
66 GGAGGTGCCCCTTT
* * * *
1111032 TGGCCATATAATGCATCAAAATCATCTAGTGTTTAGGAAGGAGGGATATGACTA-GAAGCGAGTG
1 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAAGGGATATGACTACGAAGCGAGTG
* *
1111096 GGAGGTGCCTCTCT
66 GGAGGTGCCCCTTT
* ** * * * *
1111110 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGGAGATATAGGACT-GGAAACGAGTA
1 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAAGGGATATGACTACGAAGCGAGTG
*
1111174 GGAGGTGCCCCTCT
66 GGAGGTGCCCCTTT
* * *
1111188 TGGCCATGTGATGCATAAACATCATCTAGTGTTTAGGAATAAGGGATATGACT--GAAAGCGAGT
1 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAAGGGATATGACTACG-AAGCGAGT
*
1111251 GGGAGGTGCCCTTTT
65 GGGAGGTGCCCCTTT
* * * *
1111266 TAGCCATGTGATGCATCAATATCATCTAGTGTTT-----G-AGGGATACGACT-GGAAGTGAGTG
1 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAAGGGATATGACTACGAAGCGAGTG
* *
1111324 GGAAGTGCCCTTTT
66 GGAGGTGCCCCTTT
* * * * * *
1111338 TGGCCATATGATGCATTAATATCTTCTAGGGATT-GGATGAAGGGGATATGA
1 TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAA-GGGATATGA
1111389 TTGGGAATAT
Statistics
Matches: 302, Mismatches: 45, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
72 60 0.20
73 1 0.00
76 1 0.00
77 2 0.01
78 236 0.78
79 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (79 bp):
TGGCCATGTGATGCATCAATATCATCTAGTGTTTAGGAAGAAGGGATATGACTACGAAGCGAGTG
GGAGGTGCCCCTTT
Found at i:1111502 original size:90 final size:90
Alignment explanation
Indices: 1111348--1111516 Score: 216
Period size: 90 Copynumber: 1.9 Consensus size: 90
1111338 TGGCCATATG
* * *
1111348 ATGCATTAATATCTTCTAGGGATTGGATGAAGGGGATATGATTGGGAATATGCAGGCTAAACCCT
1 ATGCATCAATATCATCTAGGGATTGGATAAAGGGGATATGATTGGGAATATGCAGGCTAAACCCT
*
1111413 TGGCCCAAGGAAATTAGGTTTTGTA
66 TGCCCCAAGGAAATTAGGTTTTGTA
* * * * * *
1111438 ATGCATCAATGTCATCTAGTGG-TTGGATAAAGGGGGTATGATTGGGTATGTG-TGGTCTACACC
1 ATGCATCAATATCATCTAG-GGATTGGATAAAGGGGATATGATTGGGAATATGCAGG-CTAAACC
1111501 CTTGCCCCAAGGAAAT
64 CTTGCCCCAAGGAAAT
1111517 CTGGTATAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 2 0.03
90 63 0.94
91 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (90 bp):
ATGCATCAATATCATCTAGGGATTGGATAAAGGGGATATGATTGGGAATATGCAGGCTAAACCCT
TGCCCCAAGGAAATTAGGTTTTGTA
Found at i:1112068 original size:88 final size:88
Alignment explanation
Indices: 1111954--1112121 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 88
1111944 ATGCATACGG
* * * * * *
1111954 AATGATGTAAATGCAAGCATCAATAAAAAGGCAGATGCATATGCAATGATGCAAATACTATTATT
1 AATGATGCAAAAGCAAACATCAATAAAAAGGCAAATGCATATGCAATAATGCAAATACTAATATT
1112019 ATCTAAAATGCAGATGCAAGTGA
66 ATCTAAAATGCAGATGCAAGTGA
* * * *
1112042 AATGATGCAAAAGCAAACATCCATAAAAGGGCAAATGCATATGGAATAATGCAAATACTAATGTT
1 AATGATGCAAAAGCAAACATCAATAAAAAGGCAAATGCATATGCAATAATGCAAATACTAATATT
*
1112107 ATCTAAAATGTAGAT
66 ATCTAAAATGCAGAT
1112122 ACAGGTCAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (88 bp):
AATGATGCAAAAGCAAACATCAATAAAAAGGCAAATGCATATGCAATAATGCAAATACTAATATT
ATCTAAAATGCAGATGCAAGTGA
Found at i:1112138 original size:88 final size:88
Alignment explanation
Indices: 1111966--1112154 Score: 227
Period size: 88 Copynumber: 2.1 Consensus size: 88
1111956 TGATGTAAAT
* * * *
1111966 GCAAGCATCAATAAAAAGGCAGATGCATATGCAATGATGCAAATACTATTATTATCTAAAATGCA
1 GCAAACATCAATAAAAAGGCAAATGCATATGCAATAATGCAAATACTAATATTATCTAAAATGCA
* * **
1112031 GATGCAAGTGAAATGATGCAAAA
66 GATACAAGTCAAACAATGCAAAA
* * * * *
1112054 GCAAACATCCATAAAAGGGCAAATGCATATGGAATAATGCAAATACTAATGTTATCTAAAATGTA
1 GCAAACATCAATAAAAAGGCAAATGCATATGCAATAATGCAAATACTAATATTATCTAAAATGCA
*
1112119 GATACAGGTCAAACAATGCAAATA
66 GATACAAGTCAAACAATGCAAA-A
*
1112143 -CAAGCATCAATA
1 GCAAACATCAATA
1112155 GGAAGATAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 83 0.99
89 1 0.01
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (88 bp):
GCAAACATCAATAAAAAGGCAAATGCATATGCAATAATGCAAATACTAATATTATCTAAAATGCA
GATACAAGTCAAACAATGCAAAA
Found at i:1112963 original size:45 final size:48
Alignment explanation
Indices: 1112895--1113003 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 48
1112885 TGAACAGTAC
* *
1112895 ATGTATCGATACATTCTGCTTTTT-ACCTAGATGTATC-GATTTTT-A
1 ATGTATCGATACATTCTACTTTTTCACCTAGATGTATCACATTTTTCA
* *
1112940 ATGTATCGATACATTTTATTTTTTCACCTAGATGTATCATACATTTTTCA
1 ATGTATCGATACATTCTACTTTTTCACCTAGATGTATC--ACATTTTTCA
1112990 ATGTATCGATACAT
1 ATGTATCGATACAT
1113004 CTAGTTAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 21 0.38
46 13 0.24
49 6 0.11
50 15 0.27
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.46
Consensus pattern (48 bp):
ATGTATCGATACATTCTACTTTTTCACCTAGATGTATCACATTTTTCA
Found at i:1113887 original size:21 final size:20
Alignment explanation
Indices: 1113855--1113902 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
1113845 TCTAAACAGC
1113855 CTATGTCCATGCATTTTAAG
1 CTATGTCCATGCATTTTAAG
1113875 CTATGTACCATGCATTTTAA-
1 CTATGT-CCATGCATTTTAAG
1113895 C-ATGTCCA
1 CTATGTCCA
1113903 ACATCTAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.11
19 4 0.15
20 7 0.26
21 13 0.48
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (20 bp):
CTATGTCCATGCATTTTAAG
Found at i:1120117 original size:19 final size:21
Alignment explanation
Indices: 1120071--1120124 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
1120061 TTTCAACAAT
1120071 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
1120092 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAACAGTAA
1120111 TTGTATCGATACAA
1 TTGTATCGATACAA
1120125 TGTATCGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:1120222 original size:20 final size:20
Alignment explanation
Indices: 1120153--1120208 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1120143 CTGCCAAGGA
1120153 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1120173 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1120193 AATGTATCGATACATT
1 AATGTATCGATACATT
1120209 GATCTTTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:1122139 original size:76 final size:77
Alignment explanation
Indices: 1121857--1122137 Score: 318
Period size: 79 Copynumber: 3.6 Consensus size: 77
1121847 GAGATAATAA
* * * * *
1121857 CGGGGTTGGAGTACCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC-G-TATGAAAAATTGATGT
**
1121922 TTCGGAAATAAAAT
64 TTTAGAAATAAAAT
** * * *
1121936 CGGGACTGGAGCA-CCCCTTC-AGAAATAACGGGGTTGAAGTATCCCCGACTATAAAAAATTGAT
1 CGGGGTTGGAGTATCCCC-TCGA-AAATAACGGGGTTGGAGTATCCCCG--TATGAAAAATTGAT
* *
1121999 GTTTTCGAAATAATAT
62 GTTTTAGAAATAAAAT
* *
1122015 CAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCG-ATGAAAAATTGATGTTT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGTATGAAAAATTGATGTTT
1122079 TAGAAATAAAA-
66 TAGAAATAAAAT
*
1122090 CTGGGGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG
1 C-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG
1122138 ATTGTGAAAA
Statistics
Matches: 172, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
75 1 0.01
76 68 0.40
78 6 0.03
79 92 0.53
80 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (77 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGTATGAAAAATTGATGTTT
TAGAAATAAAAT
Found at i:1122756 original size:79 final size:79
Alignment explanation
Indices: 1122654--1122991 Score: 357
Period size: 76 Copynumber: 4.3 Consensus size: 79
1122644 TATTTTGGAG
* * *
1122654 ATAATAAT-GGGGTTGGAGTACCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAA
1 ATAA-AATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
** * *
1122718 ATCAATGATTTGGAA
65 ATTGATGTTTTAGAA
* * * * * *
1122733 ATAAAATCGGGATTGGAGCA-CCCCTTCGAAAGTAACGGGGTTGAAGTATCCCCGACTATAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCCGATTAT-GAAA
1122797 AATTGATGTTTTAGAA
64 AATTGATGTTTTAGAA
** *
1122813 ATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTAGAGTATCCCCG---ATGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
1122875 TTGATGTTTTAGAA
66 TTGATGTTTTAGAA
* * * * * * *
1122889 ATAAAA-CTAGGGTTGGAGTGTCCCCTCGGAAATAATGTGGTTGGAGTATCCCCGATTGTGAAAA
1 ATAAAATC-GGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
*
1122953 GTTGATGTTTT-GAA
65 ATTGATGTTTTAGAA
* *
1122967 ATAAAATCGGAGTTGGAATATCCCC
1 ATAAAATCGGGGTTGGAGTATCCCC
1122992 GATTGCGGAG
Statistics
Matches: 216, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.00
76 63 0.29
77 2 0.01
78 31 0.14
79 58 0.27
80 56 0.26
81 5 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
ATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA
TTGATGTTTTAGAA
Found at i:1122989 original size:50 final size:51
Alignment explanation
Indices: 1122928--1123042 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
1122918 AAATAATGTG
* *
1122928 GTTGGAGTATCCCCGATTG-TGAAAAGTTGATGTTT-TGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGCGGAAAA-TTGATGTTTCAGAAATAAAATCGGA
* * * *
1122978 GTTGGAATATCCCCGATTGCGGAGAATTGGTGTTTCAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGCGGAAAATTGATGTTTCAGAAATAAAATCGGA
1123029 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1123043 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
50 26 0.46
51 30 0.54
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGCGGAAAATTGATGTTTCAGAAATAAAATCGGA
Found at i:1125033 original size:13 final size:13
Alignment explanation
Indices: 1125015--1125040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1125005 CAATTTTTTG
1125015 TGTATCGATACAT
1 TGTATCGATACAT
1125028 TGTATCGATACAT
1 TGTATCGATACAT
1125041 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1125125 original size:20 final size:20
Alignment explanation
Indices: 1125100--1125172 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1125090 CATCCTTTTT
1125100 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1125120 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1125141 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1125161 ATGTATCGATAC
1 ATGTATCGATAC
1125173 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1125145 original size:21 final size:21
Alignment explanation
Indices: 1125079--1125155 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1125069 CTGCCAAGAA
*
1125079 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1125100 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1125120 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1125141 ATGTATCGATACATT
1 ATGTATCGATACATT
1125156 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1125145 original size:41 final size:41
Alignment explanation
Indices: 1125079--1125172 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1125069 CTGCCAAGAA
1125079 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1125120 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1125161 ATGTATCGATAC
1 ATGTATCGATAC
1125173 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1127630 original size:13 final size:13
Alignment explanation
Indices: 1127612--1127650 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1127602 ATAATCACCC
*
1127612 TGTATCGATACAG
1 TGTATCGATACAA
1127625 TGTATCGATACAA
1 TGTATCGATACAA
1127638 TGTATCGATACAA
1 TGTATCGATACAA
1127651 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1129749 original size:15 final size:15
Alignment explanation
Indices: 1129729--1129759 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1129719 ATTTCGTTTG
*
1129729 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1129744 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1129759 G
1 G
1129760 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1133839 original size:13 final size:13
Alignment explanation
Indices: 1133821--1133846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1133811 CAATTTTTTG
1133821 TGTATCGATACAT
1 TGTATCGATACAT
1133834 TGTATCGATACAT
1 TGTATCGATACAT
1133847 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1133931 original size:20 final size:20
Alignment explanation
Indices: 1133906--1133978 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1133896 CATCCTTTTT
1133906 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1133926 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1133947 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1133967 ATGTATCGATAC
1 ATGTATCGATAC
1133979 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1133951 original size:21 final size:21
Alignment explanation
Indices: 1133885--1133961 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1133875 CTGCCAAGAA
*
1133885 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1133906 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1133926 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1133947 ATGTATCGATACATT
1 ATGTATCGATACATT
1133962 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1133951 original size:41 final size:41
Alignment explanation
Indices: 1133885--1133978 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1133875 CTGCCAAGAA
1133885 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1133926 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1133967 ATGTATCGATAC
1 ATGTATCGATAC
1133979 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1135451 original size:20 final size:21
Alignment explanation
Indices: 1135426--1135468 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
1135416 AAAATGCCTG
1135426 AATGTATCAATACAT-TGGGT
1 AATGTATCAATACATCTGGGT
1135446 AATGTATCAATACATCTGGGT
1 AATGTATCAATACATCTGGGT
1135467 AA
1 AA
1135469 AATTTTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
AATGTATCAATACATCTGGGT
Found at i:1135537 original size:21 final size:21
Alignment explanation
Indices: 1135511--1135552 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1135501 GTATCGATAC
*
1135511 AATGTATTAATACATTTCCTT
1 AATGTATCAATACATTTCCTT
*
1135532 AATGTATCGATACATTTCCTT
1 AATGTATCAATACATTTCCTT
1135553 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (21 bp):
AATGTATCAATACATTTCCTT
Found at i:1135587 original size:13 final size:13
Alignment explanation
Indices: 1135569--1135620 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1135559 AGCTTCGTAG
1135569 CGATACATTGTAT
1 CGATACATTGTAT
1135582 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1135601 CGATACATTGTAT
1 CGATACATTGTAT
1135614 CGATACA
1 CGATACA
1135621 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1135601 original size:19 final size:18
Alignment explanation
Indices: 1135577--1135639 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1135567 AGCGATACAT
1135577 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1135596 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1135609 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1135628 TGTATCGATACA
1 TGTATCGATACA
1135640 TTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1135610 original size:32 final size:32
Alignment explanation
Indices: 1135569--1135641 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1135559 AGCTTCGTAG
1135569 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1135601 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1135633 CGATACATT
1 CGATACATT
1135642 TACTGTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1136593 original size:61 final size:56
Alignment explanation
Indices: 1136496--1137034 Score: 619
Period size: 55 Copynumber: 9.4 Consensus size: 56
1136486 AGAGGAAAAT
* * * * *
1136496 AAAGTGCATCCTGCTCTTTAAGGACT-AAAAAGTGCCACCAACTCGTGTGGCCTTGGAAAAGA
1 AAAG-GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTT-----TGA
* * *
1136558 AAAGGCGTCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGA
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
1136614 AAAGAAAACGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-
1 AAAG-----GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
* *
1136674 AAAGGCATCTTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-A
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
* *
1136729 AAAGGCATCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTG-
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
* *
1136784 AAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTG-
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGA
*
1136839 AAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----GA
* *
1136900 AAAGGCGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-A
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
* * * * * *
1136955 AGAGGCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTAGGCTTT-A
1 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
* *
1137010 AAAGGCGTCTTGCTCTTTGAGGACT
1 AAAGGCATCCTGCTCTTTGAGGACT
1137035 AAAGGGCGAA
Statistics
Matches: 432, Mismatches: 29, Indels: 39
0.86 0.06 0.08
Matches are distributed among these distances:
54 4 0.01
55 273 0.63
56 6 0.01
60 5 0.01
61 132 0.31
62 12 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (56 bp):
AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGA
Found at i:1136676 original size:28 final size:28
Alignment explanation
Indices: 1136645--1136786 Score: 66
Period size: 28 Copynumber: 5.1 Consensus size: 28
1136635 TTGAGGACTG
1136645 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* *** * *
1136673 G-AAA-GGCATCTTGCTT-TTTGAGGAC-TG
1 GAAAATGCCA-CCAACTTGTGTG-GG-CTTT
1136700 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * *
1136728 -AAAA-GGCATCCTGCTT-TTTGAGGAC-TG
1 GAAAATGCCA-CCAACTTGTGTG-GG-CTTT
*
1136755 GAAAATGCCACCAACTTGTGTAGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
1136783 GAAA
1 GAAA
1136787 GGCATCCTGC
Statistics
Matches: 77, Mismatches: 23, Indels: 28
0.60 0.18 0.22
Matches are distributed among these distances:
26 12 0.16
27 25 0.32
28 29 0.38
29 11 0.14
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1136869 original size:26 final size:26
Alignment explanation
Indices: 1136782--1136869 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
1136772 GTGTAGGCTT
1136782 TGAAAGGCATCCTGCTCTTTGAGGAC
1 TGAAAGGCATCCTGCTCTTTGAGGAC
** *
1136808 TGAAAGGTGCCA-CCAACTCGTGTG-GG-C
1 TGAAA-G-G-CATCCTGCTC-TTTGAGGAC
1136835 TTTGAAAGGCATCCTGCTCTTTGAGGAC
1 --TGAAAGGCATCCTGCTCTTTGAGGAC
1136863 TGAAAGG
1 TGAAAGG
1136870 TGCCACCAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
26 17 0.36
27 10 0.21
28 10 0.21
29 10 0.21
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (26 bp):
TGAAAGGCATCCTGCTCTTTGAGGAC
Found at i:1137242 original size:55 final size:54
Alignment explanation
Indices: 1137055--1137812 Score: 379
Period size: 55 Copynumber: 13.4 Consensus size: 54
1137045 AGGAGGGAGT
* * *
1137055 GTCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
* * * *
1137116 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G--AAAGGC
* * * *
1137176 ATCCTGTTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * * *
1137231 GTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAGT
1 GTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
1137286 GTCCAGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG-----G-C
* * * * * * ****
1137347 GTCCTGCTCTTTGAGGA-TTAAAGGGCGA--AA--GGAGAGGGC---GTCCTGC
1 GTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* ***** ** ** ** *
1137393 -TCTTTGAGGACTG-GGAAGC-GCCA---CCA--ACTTGTGTG-GGCTTTAAAAGGAAAAGGC
1 GTC-CTGCTCTTTGAGG-A-CTGAAAGTGCCACCAACT-TGTGTGGGCTT----TG-AAAGGC
* * * *
1137447 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGAAAAATGC
1 GTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG------GC
* *** * *
1137507 ATCCTGCTCTTTGAGGACTAGTGGGTGCCA-CAACTCGTGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
1137561 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
* * *
1137622 GTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT
1 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* *
1137677 GTCATGCTCTTTGAGGTCTGAAAGGTG---CCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
1137729 GTCCAGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1137790 GTCCTGCTCTTTGAGGACTGAAA
1 GTCCTGCTCTTTGAGGACTGAAA
1137813 AGTGAAAGGA
Statistics
Matches: 542, Mismatches: 96, Indels: 118
0.72 0.13 0.16
Matches are distributed among these distances:
44 3 0.01
45 4 0.01
46 8 0.01
47 4 0.01
52 49 0.09
53 3 0.01
54 46 0.08
55 166 0.31
56 1 0.00
57 6 0.01
58 3 0.01
59 14 0.03
60 91 0.17
61 140 0.26
62 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (54 bp):
GTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:1137407 original size:331 final size:328
Alignment explanation
Indices: 1136736--1137811 Score: 1200
Period size: 331 Copynumber: 3.2 Consensus size: 328
1136726 TTAAAAGGCA
* * ** *
1136736 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTAGGCTTT-----G-AAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* **
1136795 GCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT---G--AAAGGCATCCTGCTCT
66 GCTCTTTGAGGACTG-AAGGTGCCACCAGCTTATGTGGGCTTTAAAGAAAAAGGCATCCTGCTCT
*
1136855 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTCTTTGA
130 TTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGA
* * * ** *
1136920 GGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCTTGCTCTTTGAGGACTGGG
188 GGACT-GAAAGGTGCCACCAACTTGTGTGGGTTTTGAA-AAGCGTCCAGCTCTTTGAGGACTGGA
* * *
1136983 AAGTGCCACCAACTTGTGTAGGCTTT-----AAAAGGCGTCTTGCTCTTTGAGGACTAAAGGGCG
251 AAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAGGGCG
*
1137043 AAAGGAGGGAGTG
316 AAAGGAGGGAGCG
*
1137056 TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
*
1137121 GCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCATCCTGTTCT
66 GCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTT-AAAGAAAAAGGCATCCTGCTCT
* * *
1137186 TTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTG
130 TTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
*
1137251 AAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAGTGTCCAGCTCTTTGAGGACT-GAAAGGTGCC
194 AAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAGCGTCCAGCTCTTTGAGGACTGGAAA-GTGCC
*
1137315 ACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCTGCTCTTTGAGGATTAAAGGGCGAAAGGA
258 ACCAACTTGTGTGGGCTTTGAAAG-AAAAGACGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGA
1137380 GAGG-GCG
322 G-GGAGCG
1137387 TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
*
1137452 GCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGAAAAATGCATCCTGCTCT
66 GCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTT-AAAGAAAAAGGCATCCTGCTCT
*** * *
1137517 TTGAGGACTAGTGGGTGCCA-CAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG
130 TTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
* *
1137581 AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTA-CTCTTTGAGGACTGGAA
194 AAAGGTGCCACCAACTTGTGTGGG-TTT----TGAAAA-GCGTCC-AGCTCTTTGAGGACTGGAA
* * * *
1137645 AATGCCACCAACTTGTGTGGGCTTTGAAAG----G-TGTCATGCTCTTTGAGGTCTGAAAGGTGC
252 AGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGACGTCCTGCTCTTTGAGGACT-AAAGG-GC
* * *
1137705 CAACTTGTGTGGGCTTTGAAAGGCG
315 GAA--AG-G-AGG----G--A-GCG
* * * * *
1137730 TCCAGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1137794 TGCTCTTTGAGGACTGAA
65 TGCTCTTTGAGGACTGAA
1137812 AAGTGAAAGG
Statistics
Matches: 655, Mismatches: 55, Indels: 69
0.84 0.07 0.09
Matches are distributed among these distances:
320 41 0.06
324 7 0.01
325 112 0.17
326 29 0.04
329 1 0.00
330 80 0.12
331 235 0.36
332 10 0.02
334 1 0.00
335 7 0.01
336 47 0.07
337 5 0.01
339 1 0.00
342 3 0.00
343 76 0.12
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (328 bp):
TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
GCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAGAAAAAGGCATCCTGCTCTT
TGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA
AGGTGCCACCAACTTGTGTGGGTTTTGAAAAGCGTCCAGCTCTTTGAGGACTGGAAAGTGCCACC
AACTTGTGTGGGCTTTGAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGGGA
GCG
Found at i:1137455 original size:61 final size:58
Alignment explanation
Indices: 1137383--1137812 Score: 451
Period size: 61 Copynumber: 7.4 Consensus size: 58
1137373 GAAAGGAGAG
* *
1137383 GGCGTCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAA
* * * *
1137444 GGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGAAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAG-AAAA
* * *** *
1137504 TGCATCCTGCTCTTTGAGGACTAGTGGGTGCCA-CAACTCGTGTGGGCTTT----AAAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAA
*
1137558 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT--AAAGAAAA
* *
1137619 GGCGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---G-AAA
1 GGCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAA
* * *
1137674 GGTGTCATGCTCTTTGAGGTCTGAAAGGTG---CCAACTTGTGTGGGCTTT---G-AAA
1 GGCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGAAAA
*
1137726 GGCGTCCAGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAA-GAAAA
1137787 GGCGTCCTGCTCTTTGAGGACTGAAA
1 GGCGTCCTGCTCTTTGAGGACTGAAA
1137813 AGTGAAAGGA
Statistics
Matches: 317, Mismatches: 31, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
52 48 0.15
53 1 0.00
54 34 0.11
55 58 0.18
56 1 0.00
59 1 0.00
60 66 0.21
61 104 0.33
62 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (58 bp):
GGCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAA
Found at i:1137515 original size:160 final size:155
Alignment explanation
Indices: 1137228--1137523 Score: 411
Period size: 160 Copynumber: 1.9 Consensus size: 155
1137218 GGCTTTGAAA
* *
1137228 GGCGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAGTGTCCAGC
1 GGCGTCCTGCTCTTTAAGGACTGAAAGGCGCCACCAACTTGTGTGGGTTTGGAAAAGTGTCCAGC
* *
1137293 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCTGCTCTT
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGAAAAAGACATCCTGCTCTT
1137358 TGAGGATTAAAGGGCGAAAGGAGAG
131 TGAGGATTAAAGGGCGAAAGGAGAG
* *
1137383 GGCGTCCTGCTCTTTGAGGACTGGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-G
1 GGCGTCCTGCTCTTTAAGGACT-GAAAGGCGCCACCAACTTGTGTGGG-TTT----GGAAAAGTG
* *
1137446 CATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTATGTGGGCTTTGAAAGAAAAATG-CAT
60 --TCCAGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGAAAAA-GACAT
1137509 CCTGCTCTTTGAGGA
122 CCTGCTCTTTGAGGA
1137524 CTAGTGGGTG
Statistics
Matches: 124, Mismatches: 8, Indels: 13
0.86 0.06 0.09
Matches are distributed among these distances:
155 40 0.32
156 6 0.05
159 1 0.01
160 58 0.47
161 19 0.15
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (155 bp):
GGCGTCCTGCTCTTTAAGGACTGAAAGGCGCCACCAACTTGTGTGGGTTTGGAAAAGTGTCCAGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGAAAAAGACATCCTGCTCTT
TGAGGATTAAAGGGCGAAAGGAGAG
Found at i:1137604 original size:275 final size:270
Alignment explanation
Indices: 1136561--1137638 Score: 791
Period size: 270 Copynumber: 3.9 Consensus size: 270
1136551 GAAAAGAAAA
* *** * *
1136561 GGCGTCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAACGC
1 GGCGTCCTGCTCTTTGAGGACT-GAAGGCGCCACCAACTTATGTGGGCTTT-AAAAGAAAAAGGC
* * *
1136625 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCTTGCTTT
64 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTGCTCT
* * * * * *
1136690 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGCTTTTTGAGGAC
129 TTAAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GCGTCCAGCTCTTTGAGGAC
* * * * * *
1136753 TGGAAA-ATGCCACCAACTTGTGTAGGCTTTG-AAAG----G-CATCCTGCTCTTTGAGGACTGA
192 T-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGACGTCCTACTCTTTGAGGA-TTA
* * *
1136811 AAGGTGCCACCAACTCGTGTGGGCTTTGAAA
255 AAGG-GCGA--AA--------GG---AG-AG
* * * * * *
1136842 GGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 GGCGTCCTGCTCTTTGAGGACTG-AAGGCGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCA
* * * *
1136907 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCTTGCTCT
65 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAA-AGGCATCCTGCTCT
* * * * **
1136971 TTGAGGACTGGGAA-GTGCCACCAACTTGTGTAGGCTTT-AAAAGGCGTCTTGCTCTTTGAGGAC
129 TTAAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GCGTCCAGCTCTTTGAGGAC
* ** * * ** ** ** *
1137034 T-AAAGG-GCGAAAGGAGGGAGT-GTCCTGCTCTTTGAGGACTGGGAAG-CG-CC-ACCAACTTG
192 TGAAAGGTGC--CACCA---ACTCGT-GTGGGCTTTGA--AAAGAAAAGACGTCCTA-C-TCTT-
* *
1137093 CGTG-GGCTTTAAA-AG-G-AA--A-A-
246 --TGAGG-ATTAAAGGGCGAAAGGAGAG
* * *
1137113 GGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCAT
1 GGCGTCCTGCTCTTTGAGGACTGAAGGCGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCAT
* * * *
1137178 CCTGTTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
66 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTGCTCTTT
* * *
1137243 AAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAGTGTCCAGCTCTTTGAGGACTGAA
131 AAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGCGTCCAGCTCTTTGAGGACTGAA
* *
1137308 AGGTGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAAGACGTCCTGCTCTTTGAGGATTAAAGGG
196 AGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGACGTCCTACTCTTTGAGGATTAAAGGG
1137372 CGAAAGGAGAG
260 CGAAAGGAGAG
* *
1137383 GGCGTCCTGCTCTTTGAGGACTGGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GGCGTCCTGCTCTTTGAGGACT--GAAGGCGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGC
** *
1137447 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGAAAAATGCATCC
64 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAG------GCATCC
* ** *
1137511 TGCTCTTTGAGGACT-AGTGGGTGCCA-CAACTCGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTT
123 TGCTCTTTAAGGACTGA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GCGTCCAGCTCTTT
*
1137573 GAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTTGAGG
186 GAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGACGTCCTACTCTTTGAGG
1137638 A
251 A
1137639 CTGGAAAATG
Statistics
Matches: 657, Mismatches: 88, Indels: 110
0.77 0.10 0.13
Matches are distributed among these distances:
263 7 0.01
264 5 0.01
265 4 0.01
266 7 0.01
267 12 0.02
268 3 0.00
269 4 0.01
270 193 0.29
271 84 0.13
272 6 0.01
274 4 0.01
275 86 0.13
276 30 0.05
279 5 0.01
280 7 0.01
281 169 0.26
283 2 0.00
284 8 0.01
287 4 0.01
290 3 0.00
291 6 0.01
293 6 0.01
294 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (270 bp):
GGCGTCCTGCTCTTTGAGGACTGAAGGCGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCAT
CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTGCTCTTT
AAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGCGTCCAGCTCTTTGAGGACTGAA
AGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGACGTCCTACTCTTTGAGGATTAAAGGGC
GAAAGGAGAG
Found at i:1137724 original size:26 final size:27
Alignment explanation
Indices: 1137652--1137782 Score: 78
Period size: 26 Copynumber: 4.9 Consensus size: 27
1137642 GAAAATGCCA
1137652 CCAACTTGTGTGGGCTTTGAAAGGTG-
1 CCAACTTGTGTGGGCTTTGAAAGGTGC
* * *
1137678 TCATGCTCT-T-TGAGG-TCTGAAAGGTG-
1 CCA-ACT-TGTGTG-GGCTTTGAAAGGTGC
* *
1137704 CCAACTTGTGTGGGCTTTGAAAGGCGT
1 CCAACTTGTGTGGGCTTTGAAAGGTGC
* * * *
1137731 CCAGCTCTTTGAGGAC--TGAAAGGTGCC
1 CCAACT-TGTGTGGGCTTTGAAAGGTG-C
1137758 ACCAACTTGTGTGGGCTTTGAAAGG
1 -CCAACTTGTGTGGGCTTTGAAAGG
1137783 AAAAGGCGTC
Statistics
Matches: 76, Mismatches: 17, Indels: 21
0.67 0.15 0.18
Matches are distributed among these distances:
24 1 0.01
25 5 0.07
26 35 0.46
27 16 0.21
28 12 0.16
29 7 0.09
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (27 bp):
CCAACTTGTGTGGGCTTTGAAAGGTGC
Found at i:1137755 original size:168 final size:171
Alignment explanation
Indices: 1137383--1137813 Score: 579
Period size: 168 Copynumber: 2.5 Consensus size: 171
1137373 GAAAGGAGAG
* *
1137383 GGCGTCCTGCTCTTTGAGGACTGGGAA-GCGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGG
1 GGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGG
* ** * *
1137446 CATCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTGAAAGAAAAATGCATCC
64 CGTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTATGTGGGCTTTGAAAG---AATG-ATCA
**
1137511 TGCTCTTTGAGGACTAGTGGGTGCCACAACTCGTGTGGGCTTTAAAA
125 TGCTCTTTGAGGACTAGAAGGTGCCACAACTCGTGTGGGCTTTAAAA
*
1137558 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
* * *
1137623 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG-GTG-TCATGCTC
66 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTATGTGGGCTTTGAAAGAATGATCATGCTC
* * *
1137686 TTTGAGGTCT-GAAAGGTG-C-CAACTTGTGTGGGCTTTGAAA
130 TTTGAGGACTAG-AAGGTGCCACAACTCGTGTGGGCTTTAAAA
* *
1137726 GGCGTCCAGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
1137791 TCCTGCTCTTTGAGGACTGAAAA
66 TCCTGCTCTTTGAGGACTGAAAA
1137814 GTGAAAGGAG
Statistics
Matches: 232, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
167 5 0.02
168 98 0.42
169 2 0.01
170 20 0.09
172 2 0.01
174 3 0.01
175 69 0.30
176 33 0.14
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (171 bp):
GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTATGTGGGCTTTGAAAGAATGATCATGCTCT
TTGAGGACTAGAAGGTGCCACAACTCGTGTGGGCTTTAAAA
Found at i:1149118 original size:4 final size:4
Alignment explanation
Indices: 1149102--1149138 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
1149092 AAAACAAAAC
*
1149102 AAAT AAAT CAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1149139 CCTCAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1151310 original size:79 final size:78
Alignment explanation
Indices: 1151206--1151542 Score: 335
Period size: 79 Copynumber: 4.3 Consensus size: 78
1151196 TATTTTGGAG
* * * *
1151206 ATAATAACGGGGTTGGAGTACCCCCTTC-AAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAA
1 ATAA-AACGGGGTTGGAGTATCCCC-TCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAA
* * *
1151270 ATCGATGATTTGGAA
64 ATTGATGTTTTAGAA
* * * * * *
1151285 ATAAAATGGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTATAAAAAA
1 ATAAAACGGGG-TTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAA
1151350 TTGATGTTTTAGAA
65 TTGATGTTTTAGAA
* *
1151364 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCG---ATGAAAAA
1 ATAAAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAA
*
1151426 TTAATGTTTTAGAA
65 TTGATGTTTTAGAA
* * * *
1151440 ATAAAATCAGGGTTGGAGTGTCCCC-CTGGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAA
1 ATAAAA-CGGGGTTGGAGTATCCCCTC-GAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAA
* *
1151504 GTTGGTGTTTT-GAAA
64 ATTGATGTTTTAG-AA
* * *
1151519 ATAAAATCAGAGTTGGAATATCCC
1 ATAAAA-CGGGGTTGGAGTATCCC
1151543 TGATTGCGGA
Statistics
Matches: 216, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
75 1 0.00
76 66 0.31
78 9 0.04
79 136 0.63
80 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (78 bp):
ATAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAAT
TGATGTTTTAGAA
Found at i:1151490 original size:155 final size:157
Alignment explanation
Indices: 1151213--1151494 Score: 394
Period size: 155 Copynumber: 1.8 Consensus size: 157
1151203 GAGATAATAA
* *
1151213 CGGGGTTGGAGTACCCCCTTCAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA
1 CGGGGTTGGAGTACCCCCTTCAAAATAACGGGGTTGGAGTATCCCCGG-TATGAAAAATCAATGA
* *
1151278 TTTGGAAATAAAATGGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTA
65 TTTAGAAATAAAATAGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTA
1151343 TAAAAAATTGATGTTTTAGAAATAAAAC
130 TAAAAAATTGATGTTTTAGAAATAAAAC
* * * *
1151371 CGGGGTTGGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCTC-G-ATGAAAAATTAATGT
1 CGGGGTTGGAGTACCCCCTTC-AAAATAACGGGGTTGGAGTATCCCCGGTATGAAAAATCAATGA
** *
1151433 TTTAGAAATAAAATCAGGG-TTGGAGTGTCCCC-CTGGAAATAACGAGGTTGGAGTATCCCCGA
65 TTTAGAAATAAAAT-AGGGATTGGAGCATCCCCTC-GGAAATAACGAGGTTGAAGTATCCCCGA
1151495 TTGTGAAAAG
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
154 1 0.01
155 62 0.56
156 3 0.03
157 3 0.03
158 41 0.37
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (157 bp):
CGGGGTTGGAGTACCCCCTTCAAAATAACGGGGTTGGAGTATCCCCGGTATGAAAAATCAATGAT
TTAGAAATAAAATAGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTAT
AAAAAATTGATGTTTTAGAAATAAAAC
Found at i:1151513 original size:155 final size:157
Alignment explanation
Indices: 1151213--1151542 Score: 393
Period size: 155 Copynumber: 2.1 Consensus size: 157
1151203 GAGATAATAA
* * *
1151213 CGGGGTTGGAGTACCCCCTTCAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTTCAAAATAACGGGGTTGGAGTATCCCCGG-TATGAAAAATCAATGA
* *
1151278 TTTGGAAATAAAATGGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTA
65 TTTAGAAATAAAATAGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTA
1151343 TAAAAAATTGATGTTTT-AGAAATAAAAC
130 TAAAAAATTGATGTTTTGA-AAATAAAAC
* * *
1151371 CGGGGTTGGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCTC-G-ATGAAAAATTAATGT
1 CGGGGTTGGAGTATCCCCTTC-AAAATAACGGGGTTGGAGTATCCCCGGTATGAAAAATCAATGA
** * *
1151433 TTTAGAAATAAAATCAGGG-TTGGAGTGTCCCC-CTGGAAATAACGAGGTTGGAGTATCCCCGAT
65 TTTAGAAATAAAAT-AGGGATTGGAGCATCCCCTC-GGAAATAACGAGGTTGAAGTATCCCCGAC
* * * * *
1151496 TGTGAAAAGTTGGTGTTTTGAAAATAAAAT
128 TATAAAAAATTGATGTTTTGAAAATAAAAC
* * *
1151526 CAGAGTTGGAATATCCC
1 CGGGGTTGGAGTATCCC
1151543 TGATTGCGGA
Statistics
Matches: 148, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
154 1 0.01
155 99 0.67
156 4 0.03
157 3 0.02
158 41 0.28
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (157 bp):
CGGGGTTGGAGTATCCCCTTCAAAATAACGGGGTTGGAGTATCCCCGGTATGAAAAATCAATGAT
TTAGAAATAAAATAGGGATTGGAGCATCCCCTCGGAAATAACGAGGTTGAAGTATCCCCGACTAT
AAAAAATTGATGTTTTGAAAATAAAAC
Found at i:1154041 original size:13 final size:13
Alignment explanation
Indices: 1154023--1154047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1154013 ACAAAAGATG
1154023 AATGTATCGATAT
1 AATGTATCGATAT
1154036 AATGTATCGATA
1 AATGTATCGATA
1154048 CATTTCCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1154061 original size:21 final size:21
Alignment explanation
Indices: 1154035--1154077 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1154025 TGTATCGATA
1154035 TAATGTATCGATACATTTCCT
1 TAATGTATCGATACATTTCCT
1154056 TAATGTATCGATACATTTCCT
1 TAATGTATCGATACATTTCCT
1154077 T
1 T
1154078 GGCAGTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (21 bp):
TAATGTATCGATACATTTCCT
Found at i:1154126 original size:19 final size:19
Alignment explanation
Indices: 1154102--1154151 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1154092 AGCGATACAT
1154102 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1154121 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1154140 TGTATCGATACA
1 TGTATCGATACA
1154152 TTTACTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1158393 original size:34 final size:33
Alignment explanation
Indices: 1158346--1158472 Score: 98
Period size: 34 Copynumber: 3.8 Consensus size: 33
1158336 TTTAGTGGCA
*
1158346 TTTCTTTTCAAAGTCCATAACTCCGTGAGAACATT
1 TTTC-TTT-AAAGTCCACAACTCCGTGAGAACATT
** * *
1158381 TTTCTATTAAAGTCCACAACTATGTG-GCACCATCC
1 TTTCT-TTAAAGTCCACAACTCCGTGAG-AACAT-T
* *
1158416 TTT-TTT-AAGTCCACAACTCCGTGACAACCTT
1 TTTCTTTAAAGTCCACAACTCCGTGAGAACATT
* *
1158447 TTTCTGTTAAAGTCTACAACTTCGTG
1 TTTCT-TTAAAGTCCACAACTCCGTG
1158473 GTACTTTCCA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
31 3 0.04
32 19 0.26
33 5 0.07
34 36 0.50
35 9 0.12
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTCTTTAAAGTCCACAACTCCGTGAGAACATT
Found at i:1158429 original size:32 final size:32
Alignment explanation
Indices: 1158390--1158652 Score: 131
Period size: 27 Copynumber: 8.8 Consensus size: 32
1158380 TTTTCTATTA
* *
1158390 AAGTCCACAACTATGTGGCACCATCCTTTTTT
1 AAGTCCACAACTCTGTGGCACCTTCCTTTTTT
* *
1158422 AAGTCCACAACTCCGTGACAACCTT--TTTCTGTT
1 AAGTCCACAACTCTGTGGC-ACCTTCCTTT-T-TT
* * * * *
1158455 AAAGTCTACAACT-TCGTGGTACTTTCCATTTTG
1 -AAGTCCACAACTCT-GTGGCACCTTCCTTTTTT
* *
1158488 AAGTCCACAACTCTGTGGCATCTTCCCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTCCTTTTTT
* *
1158520 AAGTCCACAACTCCGTGG----TACC-TTTTT
1 AAGTCCACAACTCTGTGGCACCTTCCTTTTTT
1158547 AAGTCCACAACT-TCGTGGCA-C--CC--TTTT
1 AAGTCCACAACTCT-GTGGCACCTTCCTTTTTT
* * **
1158574 AAGTCCATAACACCATGGCA-C--CC--TTTT
1 AAGTCCACAACTCTGTGGCACCTTCCTTTTTT
* *
1158601 AAGTCCATAACTCCGTGGCA-C--CC-TTTTT
1 AAGTCCACAACTCTGTGGCACCTTCCTTTTTT
*
1158629 AAGTCCATAACTCTGTGGCACCTT
1 AAGTCCACAACTCTGTGGCACCTT
1158653 TTTAAGTTTA
Statistics
Matches: 187, Mismatches: 27, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
27 68 0.36
28 28 0.15
29 1 0.01
31 3 0.02
32 58 0.31
33 12 0.06
34 15 0.08
35 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.33
Consensus pattern (32 bp):
AAGTCCACAACTCTGTGGCACCTTCCTTTTTT
Found at i:1158434 original size:66 final size:66
Alignment explanation
Indices: 1158356--1158500 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 66
1158346 TTTCTTTTCA
* * *
1158356 AAGTCCATAACTCCGTGAGAACATTTTTCTATTAAAGTCCACAACTAT-GTGGCACCATCCTTTT
1 AAGTCCACAACTCCGTGACAACATTTTTCTATTAAAGTCCACAACT-TCGTGGCACCATCCATTT
*
1158420 TT
65 TG
* * * * **
1158422 AAGTCCACAACTCCGTGACAACCTTTTTCTGTTAAAGTCTACAACTTCGTGGTACTTTCCATTTT
1 AAGTCCACAACTCCGTGACAACATTTTTCTATTAAAGTCCACAACTTCGTGGCACCATCCATTTT
1158487 G
66 G
1158488 AAGTCCACAACTC
1 AAGTCCACAACTC
1158501 TGTGGCATCT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 1 0.01
66 67 0.99
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (66 bp):
AAGTCCACAACTCCGTGACAACATTTTTCTATTAAAGTCCACAACTTCGTGGCACCATCCATTTT
G
Found at i:1158551 original size:27 final size:27
Alignment explanation
Indices: 1158513--1158659 Score: 204
Period size: 27 Copynumber: 5.4 Consensus size: 27
1158503 TGGCATCTTC
* *
1158513 CCTTTTTAAGTCCACAACTCCGTGGTA
1 CCTTTTTAAGTCCATAACTCCGTGGCA
* *
1158540 CCTTTTTAAGTCCACAACTTCGTGGCA
1 CCTTTTTAAGTCCATAACTCCGTGGCA
* * *
1158567 CCCTTTTAAGTCCATAACACCATGGCA
1 CCTTTTTAAGTCCATAACTCCGTGGCA
*
1158594 CCCTTTTAAGTCCATAACTCCGTGGCA
1 CCTTTTTAAGTCCATAACTCCGTGGCA
*
1158621 CCCTTTTTAAGTCCATAACTCTGTGGCA
1 -CCTTTTTAAGTCCATAACTCCGTGGCA
1158649 CCTTTTTAAGT
1 CCTTTTTAAGT
1158660 TTACAACTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (27 bp):
CCTTTTTAAGTCCATAACTCCGTGGCA
Found at i:1158635 original size:55 final size:55
Alignment explanation
Indices: 1158512--1158682 Score: 227
Period size: 55 Copynumber: 3.1 Consensus size: 55
1158502 GTGGCATCTT
* * *
1158512 CCCTTTTTAAGTCCACAACTCCGTGGTACCTTTTTAAGTCCACAACTTCGTGGCA
1 CCCTTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCA
* * * * *
1158567 CCC-TTTTAAGTCCATAACACCATGGCACCCTTTTAAGTCCATAACTCCGTGGCA
1 CCCTTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCA
* ** *
1158621 CCCTTTTTAAGTCCATAACTCTGTGGCACCTTTTTAAGTTTACAACTACATGGCA
1 CCCTTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCA
1158676 CCCTTTT
1 CCCTTTT
1158683 GAAGCACATA
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
54 47 0.47
55 52 0.53
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (55 bp):
CCCTTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCA
Found at i:1158667 original size:27 final size:27
Alignment explanation
Indices: 1158513--1158682 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
1158503 TGGCATCTTC
*
1158513 CCTTTTTAAGTCCACAACTCCGTGGTA
1 CCTTTTTAAGTCCACAACTCCGTGGCA
*
1158540 CCTTTTTAAGTCCACAACTTCGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCA
* * * *
1158567 CCCTTTTAAGTCCATAACACCATGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCA
* *
1158594 CCCTTTTAAGTCCATAACTCCGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCA
* *
1158621 CCCTTTTTAAGTCCATAACTCTGTGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCA
** * *
1158649 CCTTTTTAAGTTTACAACTACATGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCA
*
1158676 CCCTTTT
1 CCTTTTT
1158683 GAAGCACATA
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
27 99 0.80
28 25 0.20
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.34
Consensus pattern (27 bp):
CCTTTTTAAGTCCACAACTCCGTGGCA
Found at i:1158693 original size:55 final size:54
Alignment explanation
Indices: 1158516--1158682 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 54
1158506 CATCTTCCCT
* * *
1158516 TTTTAAGTCCACAACTCCGTGGTACCTTTTTAAGTCCACAACTTCGTGGCACCC
1 TTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCACCC
* * * * *
1158570 TTTTAAGTCCATAACACCATGGCACCCTTTTAAGTCCATAACTCCGTGGCACCC
1 TTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCACCC
* ** *
1158624 TTTTTAAGTCCATAACTCTGTGGCACCTTTTTAAGTTTACAACTACATGGCACCC
1 -TTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCACCC
1158679 TTTT
1 TTTT
1158683 GAAGCACATA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 51 0.53
55 45 0.47
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (54 bp):
TTTTAAGTCCATAACTCCGTGGCACCTTTTTAAGTCCACAACTACGTGGCACCC
Found at i:1158758 original size:32 final size:33
Alignment explanation
Indices: 1158705--1158791 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 33
1158695 TTAGTGGCAT
1158705 CCTTCTCTAAAGCCCACACAAGTCAGTGACAAC
1 CCTTCTCTAAAGCCCACACAAGTCAGTGACAAC
* * * *
1158738 CCTT-TCTAAAGTCCATACAAGTCGGTGGCAA-
1 CCTTCTCTAAAGCCCACACAAGTCAGTGACAAC
* *
1158769 CCTCCT-TCAAAGCCTACACAAGT
1 CCTTCTCT-AAAGCCCACACAAGT
1158792 TGGTGGCATC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
31 4 0.09
32 36 0.82
33 4 0.09
ACGTcount: A:0.31, C:0.33, G:0.14, T:0.22
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCAGTGACAAC
Found at i:1158859 original size:28 final size:28
Alignment explanation
Indices: 1158808--1159256 Score: 281
Period size: 28 Copynumber: 15.5 Consensus size: 28
1158798 CATCTTTTTT
* * * *
1158808 TTTCAAAGCGCACGAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
1158836 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* **
1158864 TTTTGAAAGCCCACAAGTTAGTGGCTTCC
1 -TTTCAAAGCCCACAAGTTAGTGGCACCC
* *
1158893 TTCCACAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* *
1158921 TTTTAAAGCTCACAAAAGTTAGTGGCAACCC
1 TTTCAAAGC-C-CACAAGTTAGTGGC-ACCC
* *
1158952 TTTTTAAAGTCTACACAAGTCT-GTGGCAACCCC
1 -TTTCAAAG-C-CCACAAGT-TAGTGGC-A-CCC
* * * **
1158985 CTTCAAAGCCCACACAAGTTGGTAGCATCTTT
1 TTTCAAAG-CC-CACAAGTTAGTGGCA-C-CC
* * *
1159017 TTTCAAAGCCCACAAGTCAGTAGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* *
1159045 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * *
1159073 TTTCAAAGCCCTCAAGTCAGTGGAATCT
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * *
1159101 TTTCAAAACCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* *
1159129 TTTCAAAGCCCACAAGTTAGTGGAATCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * *
1159157 TTTCAAAACCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
** * * * **
1159185 TTTCAAATTCAACAAG-TCGAAGGCACAT
1 TTTCAAAGCCCACAAGTTAG-TGGCACCC
* *
1159213 TTTCAAAGCCCACAAGTTCGTGGCAACCA
1 TTTCAAAGCCCACAAGTTAGTGGC-ACCC
*
1159242 TTCTCAAGGCCCACA
1 TT-TCAAAGCCCACA
1159257 CAAGTCGATG
Statistics
Matches: 341, Mismatches: 65, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.00
28 209 0.61
29 33 0.10
30 37 0.11
31 9 0.03
32 46 0.13
33 6 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:1158987 original size:34 final size:32
Alignment explanation
Indices: 1158906--1158983 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
1158896 CACAGCCCAC
1158906 AAGTTAGTGGC-ACCC-TTTTAAAGCTCACAA
1 AAGTTAGTGGCAACCCTTTTTAAAGCTCACAA
*
1158936 AAGTTAGTGGCAACCCTTTTTAAAG-TCTACAC
1 AAGTTAGTGGCAACCCTTTTTAAAGCTC-ACAA
1158968 AAGTCT-GTGGCAACCC
1 AAGT-TAGTGGCAACCC
1158984 CCTTCAAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
30 11 0.26
31 6 0.14
32 25 0.58
33 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (32 bp):
AAGTTAGTGGCAACCCTTTTTAAAGCTCACAA
Found at i:1159089 original size:56 final size:56
Alignment explanation
Indices: 1158671--1159256 Score: 321
Period size: 56 Copynumber: 9.9 Consensus size: 56
1158661 TACAACTACA
** * * *
1158671 TGGCACCCTTTTGAAGCACATAAGTTAGTGGCATCCTTCTCTAAAGCCCACACAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TC-AAAG-CC-CACAAGTCAG
* * * * **
1158731 TGACAACCCTTTCTAAAGTCCATACAAGTCGGTGGCAACCTCCTTCAAAGCCTACACAAGTTGG
1 TGGC-ACCCTTTC-AAAG-CC-CACAAGTCAGTGGCATCCT--TTCAAAGCC--CACAAGTCAG
** * * * * *
1158795 TGGCATCTTTTTTTTTCAAAGCGCACGAGTCAATGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCA-C----CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
1158856 TGGCACCCTTTTGAAAGCCCACAAGTTAGTGGCTTCCTTCCACAGCCCACAAGTTAG
1 TGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
1158913 TGGCACCCTTTTAAAGCTCACAAAAGTTAGTGGCAACCCTTTTTAAAGTCTACACAAGTCTG
1 TGGCACCCTTTCAAAGC-C-CACAAGTCAGTGGC-ATCC-TTTCAAAG-C-CCACAAGTCAG
* ** * *
1158975 TGGCAACCCCCTTCAAAGCCCACACAAGTTGGTAGCATCTTTTTTCAAAGCCCACAAGTCAG
1 TGGC-A-CCCTTTCAAAG-CC-CACAAGTCAGTGGCATC--CTTTCAAAGCCCACAAGTCAG
* * *
1159037 TAGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCTCAAGTCAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
1159093 TGGAATCTTTTCAAAACCCACAAGTCAATGGCATCTTTTCAAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * ** *
1159149 TGGAATCCTTTCAAAACCTACAAGTCAGTGGCATCTTTTCAAATTCAACAAGTC-G
1 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* ** * *
1159204 AAGGCACATTTTCAAAGCCCACAAGTTC-GTGGCAACCATTCTCAAGGCCCACA
1 -TGGCACCCTTTCAAAGCCCACAAG-TCAGTGGCATCC-TT-TCAAAGCCCACA
1159257 CAAGTCGATG
Statistics
Matches: 410, Mismatches: 88, Indels: 58
0.74 0.16 0.10
Matches are distributed among these distances:
55 1 0.00
56 146 0.36
57 52 0.13
58 35 0.09
59 4 0.01
60 18 0.04
61 23 0.06
62 27 0.07
63 17 0.04
64 60 0.15
65 17 0.04
66 2 0.00
67 4 0.01
68 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
Found at i:1160149 original size:51 final size:51
Alignment explanation
Indices: 1160089--1160203 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
1160079 GAATAATTCT
* *
1160089 TGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCAA
1 TGTATCGATACATTCTGTTTTTTCACCCAGATGTATCGACACATTTTTCAA
*
1160140 TGTATCGATACATTCTGTTTTTTCACCCAGATGTATCGACACATTTTTTAA
1 TGTATCGATACATTCTGTTTTTTCACCCAGATGTATCGACACATTTTTCAA
*
1160191 TATATCGATACAT
1 TGTATCGATACAT
1160204 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (51 bp):
TGTATCGATACATTCTGTTTTTTCACCCAGATGTATCGACACATTTTTCAA
Found at i:1165945 original size:64 final size:64
Alignment explanation
Indices: 1165844--1165974 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 64
1165834 AAAGAAAAGA
* *
1165844 AAAATGAATCAACACAGTAATAAAAATCTTTGTTGTAGGCGAATCTTCTGAGGGACTATGAGGC
1 AAAATAAATCAACACAGTAATAAAAATCTTTGTTGTAGGCGAATCTTCTAAGGGACTATGAGGC
1165908 AAAATAAATCAACACAGTAATAAAAATCTTTGTTGTAGGCGAATCTTCTAAGGGACTATGAGGC
1 AAAATAAATCAACACAGTAATAAAAATCTTTGTTGTAGGCGAATCTTCTAAGGGACTATGAGGC
1165972 AAA
1 AAA
1165975 TAGAATAGCT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (64 bp):
AAAATAAATCAACACAGTAATAAAAATCTTTGTTGTAGGCGAATCTTCTAAGGGACTATGAGGC
Found at i:1168327 original size:154 final size:154
Alignment explanation
Indices: 1168095--1169122 Score: 1073
Period size: 154 Copynumber: 6.7 Consensus size: 154
1168085 CTGGTTCCTC
* * *
1168095 TAAAGGACTTAAAAAGGATATGGATGGGGTGAAGCTATCCTAAATACCCACCTTTAGCAAAAAAG
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
* *
1168160 CAGACCCAATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATG-CTCATAAGGGATACCT
66 CAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATGACTC-TAGGGGATACCT
* *
1168224 TTAACGTAATAGTGCCTGATACCCT
130 TTGACGTAACAGTGCCTGATACCCT
* * *
1168249 TAAAGGACTTAAAAAGGATATGGATGAGGTGAACCTATCCTAAATACCCACCTTTGGCACAAAAT
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
* ** * * * * * * *** *
1168314 CAGACCCGGTGACAACCTAAGACTTAGTTTTGGATAATGATGAAAATGCCCCTAAAAGATGCCTT
66 CAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATGACTCTAGGGGATACCTT
*
1168379 TGACGTAATAGTGCCTGATACCCT
131 TGACGTAACAGTGCCTGATACCCT
* * *
1168403 TAAAAGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCAACCTTTAGCATAAAAG
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
* * * *
1168468 CGGACTCGATGACAACCTAAGACTCGGTTTTAAAAAATTACAAAAATGAC-CTTAGGGGATACCT
66 CAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATGACTC-TAGGGGATACCT
* * * *
1168532 TCGACGTAAGAGTGCCCGATACCCC
130 TTGACGTAACAGTGCCTGATACCCT
* * ** * *
1168557 TAAAAGACTTAAAAAGGAT-TGAAATGGAATGAACCTATCCTAAATGCCTACCTTTGGCATAAAA
1 TAAAGGACTTAAAAAGGATATG-GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAA
*** * * * *
1168621 ATGGACTCAATGACAACCTAGGACTCAGTTTTGAAAAATTACGAAAATGTA-TCTAGGGGATA-C
65 GCAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATG-ACTCTAGGGGATACC
* *
1168684 TTTCGACATAACAGTGCCTAATA-CCT
129 TTT-GACGTAACAGTGCCTGATACCCT
*** *
1168710 CTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACTTTCTTTTGGCATAAAA
1 -TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAA
* * * **
1168775 GCAGACCC-AGCGACAACCTAGGACTCGATTTTGAAAAATTACG-AAA-CCCT-TAGGGGATA-C
65 GCAGACCCGA-TGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATGACTCTAGGGGATACC
* * **
1168835 TTTCATGTAACAGTGCCCAATACCCT
129 TTTGACGTAACAGTGCCTGATACCCT
** ***
1168861 TAAAAAACTTAAAAAGGATATGGAT-GGGTGAACCTATCCTAAAT---GGGCTTTGGCATAAAAG
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
* * * * * *
1168922 CGGACCTGATGACAACCTAAGACTCGATTTTGAAAAATTATGCAAATGCCTCTAGGGGATACCTT
66 CAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATGACTCTAGGGGATACCTT
* * *
1168987 TGATGTAACAGTG-TTCGATACCCC
131 TGACGTAACAGTGCCT-GATACCCT
* * * * *
1169011 TAAAGGACTTAAAAAGGATA-GAAATAGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
1 TAAAGGACTTAAAAAGGATATG-GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAA
* * * * *
1169075 GCAGACCCGGTGATAACCTAAGACTCGATTTTAAAAAATTACAAAAAT
65 GCAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAAT
1169123 ACACTTATGG
Statistics
Matches: 735, Mismatches: 117, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
146 48 0.07
147 4 0.01
148 3 0.00
149 29 0.04
150 79 0.11
151 34 0.05
152 1 0.00
153 12 0.02
154 519 0.71
155 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (154 bp):
TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAG
CAGACCCGATGACAACCTAAGACTCGGTTTTGAAAAATTACGAAAATGACTCTAGGGGATACCTT
TGACGTAACAGTGCCTGATACCCT
Found at i:1171083 original size:43 final size:43
Alignment explanation
Indices: 1171029--1171110 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
1171019 GTGCTGCTGT
* *
1171029 TTCCCCTATCAACTGTTGTTGGTTGCTGTTTGC-TGTTGCCTTC
1 TTCCACTATCAACTATTGTTGGTTGCT-TTTGCTTGTTGCCTTC
1171072 TTCCACTATCAACTATTGTTGGTTGCTTTTGCTTGTTGC
1 TTCCACTATCAACTATTGTTGGTTGCTTTTGCTTGTTGC
1171111 TGGTGTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 5 0.14
43 31 0.86
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.48
Consensus pattern (43 bp):
TTCCACTATCAACTATTGTTGGTTGCTTTTGCTTGTTGCCTTC
Found at i:1171189 original size:129 final size:129
Alignment explanation
Indices: 1171010--1171310 Score: 343
Period size: 129 Copynumber: 2.3 Consensus size: 129
1171000 GCTTTGATGC
* * * * * *
1171010 TGTTGTGTCGTGCTGCTGTTTCC-CCTATCAACTGTTGTTGGTTGCTGTTTGCTGTTGCCTTCTT
1 TGTTGTGTCGTGCTACTGTCTCCAAC-ATCAACTATTGTTGGTTACTGTTTGCTGTTACCTTCTT
* * * * * * *
1171074 CCACTATCAACTATTGTTGGTTGCTTTTGCTTGTTGCTGGTGTTGTTTCTGCCATTATTGGTATT
65 CCACCATCAACTACTGTTGGTTGCGTTTGCTTGTTACTGGTGTTGTTTCTACCACTACTGGTATT
* *
1171139 TGTTGTGTCGTGCTACTGTCTCCAACATCAACTATTGTTGGTTACTGTTTGCTGTTATCTTTTTC
1 TGTTGTGTCGTGCTACTGTCTCCAACATCAACTATTGTTGGTTACTGTTTGCTGTTACCTTCTTC
** * * *** *
1171204 CACCATCAGTTGCTGTTGGTTGCGTTTGTTTGTTACTGGTGTTGTTTCTATTGCTACTGGTGTT
66 CACCATCAACTACTGTTGGTTGCGTTTGCTTGTTACTGGTGTTGTTTCTACCACTACTGGTATT
* * * *
1171268 TGTTGTGTCATGCTATTGTCTCCAACATCAACTACTATTGGTT
1 TGTTGTGTCGTGCTACTGTCTCCAACATCAACTATTGTTGGTT
1171311 GCTATTTCCT
Statistics
Matches: 144, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
129 143 0.99
130 1 0.01
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.48
Consensus pattern (129 bp):
TGTTGTGTCGTGCTACTGTCTCCAACATCAACTATTGTTGGTTACTGTTTGCTGTTACCTTCTTC
CACCATCAACTACTGTTGGTTGCGTTTGCTTGTTACTGGTGTTGTTTCTACCACTACTGGTATT
Found at i:1171327 original size:129 final size:129
Alignment explanation
Indices: 1171088--1171366 Score: 378
Period size: 129 Copynumber: 2.2 Consensus size: 129
1171078 TATCAACTAT
* * * * * *
1171088 TGTTGGTTGCTTTTGCTTGTTGCTGGTGTTGTTTCTGCCATTATTGGTATTTGTTGTGTCGTGCT
1 TGTTGGTTGCTTTTGTTTGTTACTGGTGTTGTTTCTACCACTACTGGTATTTGTTGTGTCATGCT
* * * * *
1171153 ACTGTCTCCAACATCAACTATTGTTGGTTACTGTTTGCTGTTATCTTTTTCCACCATCAGTTGC
66 ACTGTCTCCAACATCAACTACTATTGGTTACTATTTCCTGCTATCTTTTTCCACCATCAGTTGC
* *** *
1171217 TGTTGGTTGCGTTTGTTTGTTACTGGTGTTGTTTCTATTGCTACTGGTGTTTGTTGTGTCATGCT
1 TGTTGGTTGCTTTTGTTTGTTACTGGTGTTGTTTCTACCACTACTGGTATTTGTTGTGTCATGCT
* * *
1171282 ATTGTCTCCAACATCAACTACTATTGGTTGCTATTTCCTGCTATCTTTTTGCACCATCAGTTGC
66 ACTGTCTCCAACATCAACTACTATTGGTTACTATTTCCTGCTATCTTTTTCCACCATCAGTTGC
*
1171346 TATTGGTTGCTTTTGTTTGTT
1 TGTTGGTTGCTTTTGTTTGTT
1171367 GCTTGCTTTG
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.49
Consensus pattern (129 bp):
TGTTGGTTGCTTTTGTTTGTTACTGGTGTTGTTTCTACCACTACTGGTATTTGTTGTGTCATGCT
ACTGTCTCCAACATCAACTACTATTGGTTACTATTTCCTGCTATCTTTTTCCACCATCAGTTGC
Found at i:1177143 original size:13 final size:13
Alignment explanation
Indices: 1177125--1177149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1177115 ACAAATAGTA
1177125 AATGTATCGATAC
1 AATGTATCGATAC
1177138 AATGTATCGATA
1 AATGTATCGATA
1177150 GATGCTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1177312 original size:15 final size:16
Alignment explanation
Indices: 1177292--1177323 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1177282 TTTAACCCAG
1177292 ATGTATC-ATACATTT
1 ATGTATCGATACATTT
1177307 ATGTATCGATACATTT
1 ATGTATCGATACATTT
1177323 A
1 A
1177324 GGCATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (16 bp):
ATGTATCGATACATTT
Found at i:1179147 original size:35 final size:35
Alignment explanation
Indices: 1179101--1179170 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
1179091 TAAAACTAGC
*** * *
1179101 GAGCAGTTTAATGTTTGGGCTGTTTCGACCTAACA
1 GAGCAGTTTAATACATGGGCTATTTCAACCTAACA
1179136 GAGCAGTTTAATACATGGGCTATTTCAACCTAACA
1 GAGCAGTTTAATACATGGGCTATTTCAACCTAACA
1179171 AACATCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (35 bp):
GAGCAGTTTAATACATGGGCTATTTCAACCTAACA
Found at i:1179814 original size:78 final size:76
Alignment explanation
Indices: 1179680--1180118 Score: 490
Period size: 78 Copynumber: 5.6 Consensus size: 76
1179670 TTTTATCTCG
* * **
1179680 GGGATACTCTAACCTCATTTTTTATTTCTAAAATATTAAA-TTTTCATCTCGGGGATACTCCGGC
1 GGGATACTCCAACC-C-TTTTTTATTT-TCAAATATTAAATTTTTCATCTCGGGGATACTCCAAC
*
1179744 CCCATTATTTCTGA
63 CCCATTATTTTTGA
* * *
1179758 GGAGATACTCCGACCCTTTTTTATTTTCAAATTATTAAATTTTTCATCTTGGGGATACTCTAACC
1 GG-GATACTCCAACCCTTTTTTATTTTCAAA-TATTAAATTTTTCATCTCGGGGATACTCCAACC
**
1179823 CTGTTATTTTTGA
64 CCATTATTTTTGA
* * *
1179836 GGGGATACTCCAATCCTGTTTTTATCTTTGAAATATTAAA-TTTTCATCTCGGGGATACTCTAAC
1 -GGGATACTCCAACCCT-TTTTTAT-TTTCAAATATTAAATTTTTCATCTCGGGGATACTCCAAC
1179900 CCCATTATTTTTGAA
63 CCCATTATTTTTG-A
* * *
1179915 GGGATACTCCAACCCTTTTTGATCTTTGAAATAGTAAATTTTTCATCTCGGGGATACTCCAACCC
1 GGGATACTCCAACCCTTTTTTAT-TTTCAAATATTAAATTTTTCATCTCGGGGATACTCCAACCC
*
1179980 TATTATTTTTGAA
65 CATTATTTTTG-A
* * *
1179993 GGGATATTCCAACCCTGTTTTTATTTTCTAAATATTAAATTTTTTCATCTCGGAGATGCTCCAAC
1 GGGATACTCCAACCCT-TTTTTATTTTC-AAATATTAAA-TTTTTCATCTCGGGGATACTCCAAC
*
1180058 CCCATTATTTTCGA
63 CCCATTATTTTTGA
* *
1180072 GGGATACT-CAAACCTTGCTTTTA-TTTCAAAATATTAAAATTTTCATC
1 GGGATACTCCAACCCTT--TTTTATTTTC-AAATATTAAATTTTTCATC
1180119 ATTAGGTGTA
Statistics
Matches: 315, Mismatches: 33, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
76 4 0.01
77 46 0.15
78 170 0.54
79 55 0.17
80 40 0.13
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (76 bp):
GGGATACTCCAACCCTTTTTTATTTTCAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCC
ATTATTTTTGA
Found at i:1181231 original size:14 final size:15
Alignment explanation
Indices: 1181208--1181237 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1181198 CTGGACACTG
1181208 TTTTCTTTCTTTTTT
1 TTTTCTTTCTTTTTT
1181223 TTTTC-TTCTTTTTT
1 TTTTCTTTCTTTTTT
1181237 T
1 T
1181238 GATTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTCTTTTTT
Found at i:1187639 original size:13 final size:13
Alignment explanation
Indices: 1187617--1187647 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1187607 TCAATACAAT
1187617 GATA-AATGTATC
1 GATACAATGTATC
1187629 GATACAATGTATC
1 GATACAATGTATC
1187642 GATACA
1 GATACA
1187648 TTTATTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:1187639 original size:33 final size:33
Alignment explanation
Indices: 1187602--1187667 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1187592 AATTGCCTGC
1187602 ATGTATCAATACAATGATAAATGTATCGATACA
1 ATGTATCAATACAATGATAAATGTATCGATACA
* * * *
1187635 ATGTATCGATACATTTATTAATGTATCGATACA
1 ATGTATCAATACAATGATAAATGTATCGATACA
1187668 TTTATTGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (33 bp):
ATGTATCAATACAATGATAAATGTATCGATACA
Found at i:1187659 original size:20 final size:20
Alignment explanation
Indices: 1187634--1187690 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
1187624 GTATCGATAC
1187634 AATGTATCGATACATTTATT
1 AATGTATCGATACATTTATT
1187654 AATGTATCGATACATTTATT
1 AATGTATCGATACATTTATT
*
1187674 GATGTATCGATACATTT
1 AATGTATCGATACATTT
1187691 CCTTGGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTTATT
Found at i:1189911 original size:301 final size:301
Alignment explanation
Indices: 1189363--1189966 Score: 1019
Period size: 301 Copynumber: 2.0 Consensus size: 301
1189353 CTAACGCTAC
* *
1189363 GGGTTAGGTGACTAACCCTTGATAGTTCCGTCACAGTAGTTGAGGGAGTTTGTTCTCTGATCATC
1 GGGTTAGGTGACTAACCCTTGATAGTTCCATCACAGTAGTTGAGGGAGTTTGTTCTCCGATCATC
* * *
1189428 ATCACTTGATTCTTGTACCATGGCCCTCAACTCGCATGTTTGTAGGGTATAGCCTTCAACAATCT
66 ACCACCTGATTCTTGTACCATGGCCCTAAACTCGCATGTTTGTAGGGTATAGCCTTCAACAATCT
* * * * *
1189493 AAAAGCCACAGATTTTGTCGGGCTTGTCTTCTAATTTTCTAGCTATGTTGAGCAATCCTACCTGA
131 AAAAGCCACAGATATTGTCGGGCTTGTCTTCCAATTTCCTAGCTATGTTGAGCAATCCGACCTAA
* * *
1189558 ATTAATGCCTGCTAGATCGAAGACATTTGCATTCTTAGTTTTTCTATGCTCGTCTTAACTTCTTA
196 ATTAATGCCTGCTAGATCGAAGACATTGGCATTCTTACTTTTTCTATGCTCGTCTTAACTTCATA
*
1189623 TTTATCCTCGATGGCAATCATGTTTATAGTTGGCTCAGTGT
261 TTTATCCTCGATGGCAATCATGTTTACAGTTGGCTCAGTGT
1189664 GGGTTAGGTGACTAACCCTTGATAGTTCCATCACAGTAGTTGAGGGAGTTTGTTCTCCGATCATC
1 GGGTTAGGTGACTAACCCTTGATAGTTCCATCACAGTAGTTGAGGGAGTTTGTTCTCCGATCATC
* *
1189729 ACCACCTGATTCTTGTACCATGGCCCTAAACTCGCATGTTTGTGGGGTATAGCCTTCAATAATCT
66 ACCACCTGATTCTTGTACCATGGCCCTAAACTCGCATGTTTGTAGGGTATAGCCTTCAACAATCT
* * * *
1189794 AAAAGTCATAGATATTGTTGGGCTTGTCTTCCAATTTCCTAGCTGTGTTGAGCAATCCGACCTAA
131 AAAAGCCACAGATATTGTCGGGCTTGTCTTCCAATTTCCTAGCTATGTTGAGCAATCCGACCTAA
*
1189859 ATTAATGCCTGCTAGATCGAAGACATTGGCATTCTTACTTTTTCTGTGCTCGTCTTAACTTCATA
196 ATTAATGCCTGCTAGATCGAAGACATTGGCATTCTTACTTTTTCTATGCTCGTCTTAACTTCATA
1189924 TTTATCCTCGATGGCAATCATGTTTACAGTTGGCTCAGTGT
261 TTTATCCTCGATGGCAATCATGTTTACAGTTGGCTCAGTGT
1189965 GG
1 GG
1189967 TTTGGTTAAA
Statistics
Matches: 282, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
301 282 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (301 bp):
GGGTTAGGTGACTAACCCTTGATAGTTCCATCACAGTAGTTGAGGGAGTTTGTTCTCCGATCATC
ACCACCTGATTCTTGTACCATGGCCCTAAACTCGCATGTTTGTAGGGTATAGCCTTCAACAATCT
AAAAGCCACAGATATTGTCGGGCTTGTCTTCCAATTTCCTAGCTATGTTGAGCAATCCGACCTAA
ATTAATGCCTGCTAGATCGAAGACATTGGCATTCTTACTTTTTCTATGCTCGTCTTAACTTCATA
TTTATCCTCGATGGCAATCATGTTTACAGTTGGCTCAGTGT
Found at i:1192573 original size:39 final size:40
Alignment explanation
Indices: 1192501--1192579 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
1192491 CGGAAGCCCT
1192501 TGTTAATTCATCTTGACAAAGCCTGAAGGGATTGCCCTAA
1 TGTTAATTCATCTTGACAAAGCCTGAAGGGATTGCCCTAA
*
1192541 TGTTAATTCATCTTGAC-AAGCCTGAAGGGATTGCTCTAA
1 TGTTAATTCATCTTGACAAAGCCTGAAGGGATTGCCCTAA
1192580 CTCTTGGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 21 0.55
40 17 0.45
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (40 bp):
TGTTAATTCATCTTGACAAAGCCTGAAGGGATTGCCCTAA
Found at i:1196569 original size:99 final size:99
Alignment explanation
Indices: 1196501--1196714 Score: 225
Period size: 99 Copynumber: 2.1 Consensus size: 99
1196491 CTTTAAAATC
1196501 AAGGTTGGAGTATCCCCGATGAATGATAAAGTGGGC-AAAGAAGATTTAAATATTGA-CAATTTT
1 AAGGTTGGAGTATCCCCGATGAATGATAAAGTGGGCAAAAGAAGATTTAAATATTGATC-ATTTT
* * **
1196564 TAAAAAAGTAAGGTTGGAGTATCCCCTCGGAAGAAT
65 T-AAAAAGTAAGGTTGAAATATCAACTCGGAAGAAT
* * * * *
1196600 AGGGTTGGAGTATCCCCGATGAATGATAAATTTGGCAAAATAAGATTTAAATATTGATCATTTTA
1 AAGGTTGGAGTATCCCCGATGAATGATAAAGTGGGCAAAAGAAGATTTAAATATTGATCATTTTT
** * * ** *
1196665 AAAAAAAATAGGATTGGAGTATCTCCACGGAAGAAT
66 AAAAAGTA-AGG-TTGAAATATCAACTCGGAAGAAT
*
1196701 AGGGTTGGAGTATC
1 AAGGTTGGAGTATC
1196715 TCTGATGATA
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
99 39 0.38
100 27 0.26
101 36 0.35
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (99 bp):
AAGGTTGGAGTATCCCCGATGAATGATAAAGTGGGCAAAAGAAGATTTAAATATTGATCATTTTT
AAAAAGTAAGGTTGAAATATCAACTCGGAAGAAT
Found at i:1196722 original size:101 final size:99
Alignment explanation
Indices: 1196503--1196714 Score: 311
Period size: 101 Copynumber: 2.1 Consensus size: 99
1196493 TTAAAATCAA
*
1196503 GGTTGGAGTATCCCCGATGAATGATAAAGTGGGCAAAGAAGATTTAAATATTGACAATTTTTAAA
1 GGTTGGAGTATCCCCGATGAATGATAAAGTGGGCAAAGAAGATTTAAATATTGACAATTTTAAAA
* *
1196568 AAAGTAAGGTTGGAGTATCCCCTCGGAAGAATAG
66 AAAATAAGGTTGGAGTATCCCCACGGAAGAATAG
* * *
1196602 GGTTGGAGTATCCCCGATGAATGATAAATTTGGCAAAATAAGATTTAAATATTGATC-ATTTTAA
1 GGTTGGAGTATCCCCGATGAATGATAAAGTGGGC-AAAGAAGATTTAAATATTGA-CAATTTTAA
*
1196666 AAAAAA-ATAGGATTGGAGTATCTCCACGGAAGAATAG
64 AAAAAATA-AGG-TTGGAGTATCCCCACGGAAGAATAG
1196703 GGTTGGAGTATC
1 GGTTGGAGTATC
1196715 TCTGATGATA
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
99 33 0.32
100 33 0.32
101 36 0.35
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (99 bp):
GGTTGGAGTATCCCCGATGAATGATAAAGTGGGCAAAGAAGATTTAAATATTGACAATTTTAAAA
AAAATAAGGTTGGAGTATCCCCACGGAAGAATAG
Found at i:1196741 original size:101 final size:100
Alignment explanation
Indices: 1196503--1196741 Score: 263
Period size: 101 Copynumber: 2.4 Consensus size: 100
1196493 TTAAAATCAA
* * * ** * *
1196503 GGTTGGAGTATCCCCGATGAATGATAAA-GTGGGCAAAGAAGATTTAAATATTGACAATTTTTAA
1 GGTTGGAGTATCCCCGATGAATAATAAATTTAGAAAAATAAGATTTAAATATTGACAATTTTAAA
* *
1196567 AAAAGTAAGGTTGGAGTATCCCCTCGGAAGAATAG
66 AAAAATAAGGTTGGAGTATCCCCACGGAAGAATAG
* * *
1196602 GGTTGGAGTATCCCCGATGAATGATAAATTTGGCAAAATAAGATTTAAATATTGATC-ATTTTAA
1 GGTTGGAGTATCCCCGATGAATAATAAATTTAGAAAAATAAGATTTAAATATTGA-CAATTTTAA
*
1196666 AAAAAA-ATAGGATTGGAGTATCTCCACGGAAGAATAG
65 AAAAAATA-AGG-TTGGAGTATCCCCACGGAAGAATAG
* *
1196703 GGTTGGAGTATCTCTGATG-ATAAT-AATTTAAAGAAAAAT
1 GGTTGGAGTATCCCCGATGAATAATAAATTT--AGAAAAAT
1196742 TGAAATTCAA
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
99 34 0.28
100 40 0.33
101 47 0.39
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (100 bp):
GGTTGGAGTATCCCCGATGAATAATAAATTTAGAAAAATAAGATTTAAATATTGACAATTTTAAA
AAAAATAAGGTTGGAGTATCCCCACGGAAGAATAG
Found at i:1196767 original size:101 final size:101
Alignment explanation
Indices: 1196503--1196770 Score: 228
Period size: 101 Copynumber: 2.7 Consensus size: 101
1196493 TTAAAATCAA
* * * ** * * * **
1196503 GGTTGGAGTATCCCCGATGAATGATAAA-GTGGGCAAAGAAGATTTAAATATTGA-CA-ATTTTT
1 GGTTGGAGTATCCCCGATGAATAATAAATTTAGAAAAATAAGATTCAAATATGGATCATA-TTAA
* *
1196565 AAAAAAGTAAGG-TTGGAGTATCCCCTCGGAAGAATAG
65 AAAAAAAT-AGGATTGGAGTATCCCCACGGAAGAATAG
* * * * * *
1196602 GGTTGGAGTATCCCCGATGAATGATAAATTTGGCAAAATAAGATTTAAATATTGATCATTTTAAA
1 GGTTGGAGTATCCCCGATGAATAATAAATTTAGAAAAATAAGATTCAAATATGGATCATATTAAA
*
1196667 AAAAAATAGGATTGGAGTATCTCCACGGAAGAATAG
66 AAAAAATAGGATTGGAGTATCCCCACGGAAGAATAG
* * *
1196703 GGTTGGAGTATCTCTGATG-ATAAT-AATTTAAAGAAAAATTGAA-ATTCAAATATGGATGA-AT
1 GGTTGGAGTATCCCCGATGAATAATAAATTT--AGAAAAA-T-AAGATTCAAATATGGATCATAT
1196764 TAAAAAA
62 TAAAAAA
1196771 CGTTGGAGTA
Statistics
Matches: 142, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
99 33 0.23
100 29 0.20
101 64 0.45
102 14 0.10
103 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (101 bp):
GGTTGGAGTATCCCCGATGAATAATAAATTTAGAAAAATAAGATTCAAATATGGATCATATTAAA
AAAAAATAGGATTGGAGTATCCCCACGGAAGAATAG
Found at i:1199239 original size:20 final size:20
Alignment explanation
Indices: 1199206--1199283 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
1199196 GTCAAAACCT
* *
1199206 AAAATTTATTGATACAATGA
1 AAAATGTATCGATACAATGA
* *
1199226 GAAATGTATCGATACAACT-T
1 AAAATGTATCGATACAA-TGA
*** *
1199246 CTTATGTATCGATACATTGA
1 AAAATGTATCGATACAATGA
1199266 AAAATGTATCGATACAAT
1 AAAATGTATCGATACAAT
1199284 TTCCTTCCAA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (20 bp):
AAAATGTATCGATACAATGA
Found at i:1216018 original size:33 final size:32
Alignment explanation
Indices: 1215916--1216122 Score: 100
Period size: 31 Copynumber: 6.4 Consensus size: 32
1215906 CATAACTCTA
* *
1215916 TGGCAT-TTTTTTCAAAAGCCCACACAAATC-G
1 TGGCATCTTTTCTC-AAAGCCCACACAAGTCAG
* ** * **
1215947 ATGGCAATACTTTTGTCAAAGCCCATGCACGTTGG
1 -TGGC-AT-CTTTTCTCAAAGCCCACACAAGTCAG
1215982 TGGCATCTTTTCTCAAAAGCCCACACAAGTCAG
1 TGGCATCTTTTCTC-AAAGCCCACACAAGTCAG
* * ** *
1216015 TGGCAACCCTTT-TCAAAGCCTGCATAAGTCAG
1 TGGC-ATCTTTTCTCAAAGCCCACACAAGTCAG
* * * * **
1216047 TAGTAACCTTT-TCAAAGCCCACACAAGTTTG
1 TGGCATCTTTTCTCAAAGCCCACACAAGTCAG
* * * * *
1216078 TGGTAAC-CTTCTTAAAGCCCACACAAGTCGG
1 TGGCATCTTTTCTCAAAGCCCACACAAGTCAG
1216109 TGGCATCTCTTTCT
1 TGGCATCT-TTTCT
1216123 AAGCCTACTA
Statistics
Matches: 133, Mismatches: 33, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
30 2 0.02
31 49 0.37
32 28 0.21
33 27 0.20
34 20 0.15
35 7 0.05
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (32 bp):
TGGCATCTTTTCTCAAAGCCCACACAAGTCAG
Found at i:1216084 original size:31 final size:31
Alignment explanation
Indices: 1215997--1216111 Score: 133
Period size: 31 Copynumber: 3.7 Consensus size: 31
1215987 TCTTTTCTCA
*
1215997 AAAGCCCACACAAGTCAGTGGCAACCCTTTTC
1 AAAGCCCACACAAGTCAGTGGTAA-CCTTTTC
** * *
1216029 AAAGCCTGCATAAGTCAGTAGTAACCTTTTC
1 AAAGCCCACACAAGTCAGTGGTAACCTTTTC
**
1216060 AAAGCCCACACAAGTTTGTGGTAACCTTCTT-
1 AAAGCCCACACAAGTCAGTGGTAACCTT-TTC
*
1216091 AAAGCCCACACAAGTCGGTGG
1 AAAGCCCACACAAGTCAGTGG
1216112 CATCTCTTTC
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 48 0.70
32 21 0.30
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (31 bp):
AAAGCCCACACAAGTCAGTGGTAACCTTTTC
Found at i:1216474 original size:51 final size:52
Alignment explanation
Indices: 1216416--1216557 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 52
1216406 AATCTCCTTC
1216416 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATTCCTTTCAT-TT
1 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATTCCTTTCATCTT
*
1216467 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATTCTTTTCATCTT
1 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATTCCTTTCATCTT
* * * * * **
1216519 CAAGCCCAATGTCGCTGGCCGTGAATCATTACATTGGCA
1 TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCA
1216558 CTCTTGTCAC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 48 0.59
52 34 0.41
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (52 bp):
TAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATTCCTTTCATCTT
Found at i:1217451 original size:51 final size:52
Alignment explanation
Indices: 1217359--1217479 Score: 174
Period size: 52 Copynumber: 2.4 Consensus size: 52
1217349 TTTAGAATGA
** * *
1217359 AAATGTATCGATACATT-TTTATTATTTTGATACATTGTAGG-TTTTAACGC
1 AAATGTATCGATACATTCTGCATTATATTGATACATTGTAGGTTTTTAACCC
* *
1217409 AAATGTATCGATACATTCTGCATTATATTGATACATTTTAGGTTTTTGACCC
1 AAATGTATCGATACATTCTGCATTATATTGATACATTGTAGGTTTTTAACCC
1217461 AAATGTATCGATACATTCT
1 AAATGTATCGATACATTCT
1217480 TCAATGTATC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 17 0.27
51 20 0.32
52 26 0.41
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTCTGCATTATATTGATACATTGTAGGTTTTTAACCC
Found at i:1221997 original size:61 final size:62
Alignment explanation
Indices: 1221918--1222064 Score: 206
Period size: 62 Copynumber: 2.4 Consensus size: 62
1221908 TATGGGAATG
* * * *
1221918 TATCTATACATTTACTTATGTATCGATATAA-TTTTTTTGATCACAATACGACATGGTCCTG
1 TATCGATACATTCACTTATGTATCGATATAATTTTTTTTGACCACAATACGACATGGTCCTA
* * * *
1221979 TATTGTTACATTCACTTATGTATCGATATAATTTTTTTTGACCAGAATGCGACATGGTCCTA
1 TATCGATACATTCACTTATGTATCGATATAATTTTTTTTGACCACAATACGACATGGTCCTA
*
1222041 TATCGATACATTCATTTATGTATC
1 TATCGATACATTCACTTATGTATC
1222065 ACTACATTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 27 0.36
62 47 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (62 bp):
TATCGATACATTCACTTATGTATCGATATAATTTTTTTTGACCACAATACGACATGGTCCTA
Found at i:1235938 original size:12 final size:12
Alignment explanation
Indices: 1235923--1235947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1235913 GATGAAGTTG
1235923 ATTTTGAAGAAA
1 ATTTTGAAGAAA
1235935 ATTTTGAAGAAA
1 ATTTTGAAGAAA
1235947 A
1 A
1235948 CTCTATGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTTTGAAGAAA
Found at i:1239345 original size:9 final size:9
Alignment explanation
Indices: 1239331--1239376 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
1239321 CCTTTATACC
1239331 CAAAAAAAA
1 CAAAAAAAA
*
1239340 CAAAAAAAC
1 CAAAAAAAA
1239349 CAAAAAAAA
1 CAAAAAAAA
1239358 CAACAAAAAA
1 CAA-AAAAAA
1239368 CAAAAAAAA
1 CAAAAAAAA
1239377 AACCAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:1239347 original size:10 final size:10
Alignment explanation
Indices: 1239332--1239407 Score: 66
Period size: 11 Copynumber: 7.4 Consensus size: 10
1239322 CTTTATACCC
1239332 AAAAAAAAC-
1 AAAAAAAACA
*
1239341 -AAAAAAACC
1 AAAAAAAACA
1239350 AAAAAAAACA
1 AAAAAAAACA
*
1239360 ACAAAAAACAA
1 AAAAAAAAC-A
1239371 AAAAAAAACCA
1 AAAAAAAA-CA
* *
1239382 AGAAAAAATA
1 AAAAAAAACA
1239392 ACAAAAAAACA
1 A-AAAAAAACA
1239403 GAAAA
1 -AAAA
1239408 GGGGTCTAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
8 8 0.15
10 18 0.33
11 26 0.48
12 2 0.04
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:1239353 original size:18 final size:19
Alignment explanation
Indices: 1239330--1239376 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1239320 TCCTTTATAC
1239330 CCAAAAAAAACAA-AAAAA
1 CCAAAAAAAACAACAAAAA
1239348 CCAAAAAAAACAACAAAAA
1 CCAAAAAAAACAACAAAAA
*
1239367 ACAAAAAAAA
1 CCAAAAAAAA
1239377 AACCAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (19 bp):
CCAAAAAAAACAACAAAAA
Found at i:1239355 original size:11 final size:11
Alignment explanation
Indices: 1239341--1239400 Score: 61
Period size: 10 Copynumber: 5.5 Consensus size: 11
1239331 CAAAAAAAAC
1239341 AAAAAAACC-A
1 AAAAAAACCAA
1239351 AAAAAAA-CAA
1 AAAAAAACCAA
* *
1239361 CAAAAAACAAA
1 AAAAAAACCAA
1239372 AAAAAAACCAA
1 AAAAAAACCAA
*
1239383 GAAAAAATAACAA
1 -AAAAAA-ACCAA
1239396 AAAAA
1 AAAAA
1239401 CAGAAAAGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 1 0.02
10 14 0.34
11 11 0.27
12 11 0.27
13 4 0.10
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (11 bp):
AAAAAAACCAA
Found at i:1239362 original size:21 final size:21
Alignment explanation
Indices: 1239332--1239400 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 21
1239322 CTTTATACCC
1239332 AAAAAA-AACAAAAAAACCAA
1 AAAAAACAACAAAAAAACCAA
*
1239352 AAAAAACAAC-AAAAAACAAAA
1 AAAAAACAACAAAAAAAC-CAA
* *
1239373 AAAAAACCAAGAAAAAATAACAA
1 AAAAAA-CAACAAAAAA-ACCAA
1239396 AAAAA
1 AAAAA
1239401 CAGAAAAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 13 0.32
21 11 0.28
22 3 0.08
23 12 0.30
24 1 0.03
ACGTcount: A:0.84, C:0.13, G:0.01, T:0.01
Consensus pattern (21 bp):
AAAAAACAACAAAAAAACCAA
Found at i:1239388 original size:32 final size:30
Alignment explanation
Indices: 1239331--1239400 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 30
1239321 CCTTTATACC
*
1239331 CAAAAAAAACAAAAAAACCAAAAAAAACAA
1 CAAAAAAAAAAAAAAAACCAAAAAAAACAA
*
1239361 CAAAAAACAAAAAAAAAACCAAGAAAAAATAA
1 CAAAAAA-AAAAAAAAAACCAA-AAAAAACAA
1239393 CAAAAAAA
1 CAAAAAAA
1239401 CAGAAAAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 7 0.19
31 14 0.39
32 15 0.42
ACGTcount: A:0.83, C:0.14, G:0.01, T:0.01
Consensus pattern (30 bp):
CAAAAAAAAAAAAAAAACCAAAAAAAACAA
Found at i:1239401 original size:22 final size:21
Alignment explanation
Indices: 1239338--1239401 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
1239328 ACCCAAAAAA
* *
1239338 AACAAAAAAACCAAAAAAAAC
1 AACAAAAAAAACAAAAAAACC
*
1239359 AACAAAAAACAAAAAAAAAACC
1 AACAAAAAA-AACAAAAAAACC
*
1239381 AAGAAAAAATAACAAAAAAAC
1 AACAAAAAA-AACAAAAAAAC
1239402 AGAAAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 9 0.25
22 27 0.75
ACGTcount: A:0.81, C:0.16, G:0.02, T:0.02
Consensus pattern (21 bp):
AACAAAAAAAACAAAAAAACC
Found at i:1240654 original size:28 final size:28
Alignment explanation
Indices: 1240619--1241454 Score: 1024
Period size: 28 Copynumber: 29.5 Consensus size: 28
1240609 CGTTCATCTC
* * * *
1240619 TTCAAAGCCCATAAGTTAATAGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1240647 TTAAAAGCTCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
1240675 TTCAAAGCCTACAAGTTAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1240703 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1240731 ATCAAAGCACACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240759 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240787 TTCAAAGCCCACAAGTGAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240815 TTCAAAGCCCACAAGTTAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240843 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1240871 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240899 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240927 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1240955 TTCAAAACCCACAAGTGAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1240983 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1241011 TTCAAAGCCAAAAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1241039 TTTAAAGCGCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1241067 TTTAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1241095 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1241124 TTCAAAGCCCATGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
1241154 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1241183 TTCGAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
1241212 TTCAAAGCACACAAGTCATTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1241240 TTTAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
1241269 TTCAAAGCCCCACAAGTTAGTAGCATCCT
1 TTCAAAG-CCCACAAGTCAGTGGCACCCT
* * *
1241298 ATCAAAGCCCACAAGTCATTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1241326 TTCATAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
1241355 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1241383 ATCAAAGCCCACAAGTTAGTGGCACTCG
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1241411 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1241440 TTCAAAGCCCACAAG
1 TTCAAAGCCCACAAG
1241455 CTAGTGGTAA
Statistics
Matches: 701, Mismatches: 99, Indels: 15
0.86 0.12 0.02
Matches are distributed among these distances:
28 540 0.77
29 120 0.17
30 27 0.04
31 14 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1242359 original size:253 final size:253
Alignment explanation
Indices: 1241911--1242424 Score: 974
Period size: 253 Copynumber: 2.0 Consensus size: 253
1241901 ACCATCTTTG
*
1241911 ATTTGTAAGATCTGAATTAATTGAACTTATTTCTTTTAATTTGGATTTAAAAAAAAAAGGGGTGC
1 ATTTGTAGGATCTGAATTAATTGAACTTATTTCTTTTAATTTGGATTTAAAAAAAAAAGGGGTGC
*
1241976 AATACGAGGACTTCCCAGGAGGTTACCCATCTTAGTACAATTCTCGCCCAAGCACGCTTAACTGC
66 AATACGAGGACTTCCCAAGAGGTTACCCATCTTAGTACAATTCTCGCCCAAGCACGCTTAACTGC
*
1242041 GAAGTTCTGATGGGATCTGGTGCATTAGTGTTGGTATGGTCGCACCCATCCCTTGTTGCAACAAC
131 GAAGTTCTGATGGGATCTGGTGCATTAGTGCTGGTATGGTCGCACCCATCCCTTGTTGCAACAAC
1242106 AAACTACAAATGCCATTCTTCCTCATTTTGCTCGGATCAATCTTTAACACCCCGAGGC
196 AAACTACAAATGCCATTCTTCCTCATTTTGCTCGGATCAATCTTTAACACCCCGAGGC
*
1242164 ATTTGTAGGATCTGAATTAATTGAACTTATTTCTTTTAATTTGGATTTAAAAAAAAGAGGGGTGC
1 ATTTGTAGGATCTGAATTAATTGAACTTATTTCTTTTAATTTGGATTTAAAAAAAAAAGGGGTGC
**
1242229 AATACGAGGACTTCTGAAGAGGTTACCCATCTTAGTACAATTCTCGCCCAAGCACGCTTAACTGC
66 AATACGAGGACTTCCCAAGAGGTTACCCATCTTAGTACAATTCTCGCCCAAGCACGCTTAACTGC
1242294 GAAGTTCTGATGGGATCTGGTGCATTAGTGCTGGTATGGTCGCACCCATCCCTTGTTGCAACAAC
131 GAAGTTCTGATGGGATCTGGTGCATTAGTGCTGGTATGGTCGCACCCATCCCTTGTTGCAACAAC
1242359 AAACTACAAATGCCATTCTTCCTCATTTTGCTCGGATCAATCTTTAACACCCCGAGGC
196 AAACTACAAATGCCATTCTTCCTCATTTTGCTCGGATCAATCTTTAACACCCCGAGGC
1242417 ATTTGTAG
1 ATTTGTAG
1242425 CAGGTAGAGG
Statistics
Matches: 255, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
253 255 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (253 bp):
ATTTGTAGGATCTGAATTAATTGAACTTATTTCTTTTAATTTGGATTTAAAAAAAAAAGGGGTGC
AATACGAGGACTTCCCAAGAGGTTACCCATCTTAGTACAATTCTCGCCCAAGCACGCTTAACTGC
GAAGTTCTGATGGGATCTGGTGCATTAGTGCTGGTATGGTCGCACCCATCCCTTGTTGCAACAAC
AAACTACAAATGCCATTCTTCCTCATTTTGCTCGGATCAATCTTTAACACCCCGAGGC
Found at i:1242612 original size:20 final size:20
Alignment explanation
Indices: 1242570--1242616 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1242560 AAGTATCCAG
* *
1242570 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
* *
1242590 ATGTTTCGATACATGTATGA
1 ATGTATCGATACATGTATCA
1242610 ATGTATC
1 ATGTATC
1242617 AACACATTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:1247638 original size:56 final size:56
Alignment explanation
Indices: 1247571--1247678 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 56
1247561 GTACCTTCCA
*
1247571 AAAACAAGCGAAGAACCTAGAGC-TAGAAAAAATCAAAAAAACGGTGAATGAACATG
1 AAAACAAGCGAAGAACCTAGAACAT-GAAAAAATCAAAAAAACGGTGAATGAACATG
1247627 AAAACAAGCGAAGAACCTAGAACATGAAAAAATCAAAAAAACGGTGAATGAA
1 AAAACAAGCGAAGAACCTAGAACATGAAAAAATCAAAAAAACGGTGAATGAA
1247679 GCCATAGAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
56 49 0.98
57 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (56 bp):
AAAACAAGCGAAGAACCTAGAACATGAAAAAATCAAAAAAACGGTGAATGAACATG
Found at i:1251812 original size:20 final size:21
Alignment explanation
Indices: 1251787--1251834 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1251777 GTGTGTCTTA
1251787 TTTTTC-ACCCATATTCAAAC
1 TTTTTCTACCCATATTCAAAC
1251807 TTTTTCTACCCATATTCAAAC
1 TTTTTCTACCCATATTCAAAC
1251828 TTTTTCT
1 TTTTTCT
1251835 GTCTATACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTCTACCCATATTCAAAC
Found at i:1253642 original size:32 final size:32
Alignment explanation
Indices: 1253606--1253852 Score: 260
Period size: 32 Copynumber: 7.9 Consensus size: 32
1253596 TCTTTTTCTA
* *
1253606 AAAGTCCACAACTTAGTGGCATCTCTTTTCCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
* *
1253638 AAAGTCCAC-ACTCAGTGGCATATCTTTTCCA
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
** *
1253669 AAAGTCCACGACTTTGTGGCA--TCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC-CC
*
1253700 AAAGTCCACGACTCAATGGCATCTCTTTTCCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
* *
1253732 AAAGTCCATGACTCAGTGGCATCTCTTTTCCT
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
* * * *
1253764 GAAGTCCACAACTTAGTGGCA--TCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC-CC
*
1253795 AAAGTCCA-GCACTCAGTGACATCTCTTTT-CC
1 AAAGTCCACG-ACTCAGTGGCATCTCTTTTCCC
*
1253826 -AAGTCCACGACTAAGTGGCATC-CTTTT
1 AAAGTCCACGACTCAGTGGCATCTCTTTT
1253853 TCTTTTTTAA
Statistics
Matches: 179, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
29 5 0.03
30 32 0.18
31 64 0.36
32 65 0.36
33 13 0.07
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTCTTTTCCC
Found at i:1253714 original size:63 final size:63
Alignment explanation
Indices: 1253599--1253846 Score: 258
Period size: 63 Copynumber: 4.0 Consensus size: 63
1253589 CTTCAAATCT
* * *
1253599 TTTTCTAAAAGTCCACAACTTAGTGGCATCTCTTTTCCCAAAGTCCAC-ACTCAGTGGCATATC
1 TTTTCCAAAAGTCCACGACTCAGTGGCATCTCTTTT-CCAAAGTCCACGACTCAGTGGCATATC
** * * *
1253662 TTTTCCAAAAGTCCACGACTTTGTGGCATCT-TTTCTTCAAAGTCCACGACTCAATGGCATCTC
1 TTTTCCAAAAGTCCACGACTCAGTGGCATCTCTTT-TCCAAAGTCCACGACTCAGTGGCATATC
* * * * *
1253725 TTTTCCCAAAGTCCATGACTCAGTGGCATCTCTTTTCCTGAAGTCCACAACTTAGTGGC--ATC
1 TTTTCCAAAAGTCCACGACTCAGTGGCATCTCTTTTCC-AAAGTCCACGACTCAGTGGCATATC
* *
1253787 TTTTCTTC-AAAGTCCA-GCACTCAGTGACATCTCTTTTCC-AAGTCCACGACTAAGTGGCAT
1 TTTTC--CAAAAGTCCACG-ACTCAGTGGCATCTCTTTTCCAAAGTCCACGACTCAGTGGCAT
1253847 CCTTTTTCTT
Statistics
Matches: 157, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
61 17 0.11
62 21 0.13
63 99 0.63
64 20 0.13
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (63 bp):
TTTTCCAAAAGTCCACGACTCAGTGGCATCTCTTTTCCAAAGTCCACGACTCAGTGGCATATC
Found at i:1253789 original size:95 final size:94
Alignment explanation
Indices: 1253606--1253852 Score: 340
Period size: 95 Copynumber: 2.6 Consensus size: 94
1253596 TCTTTTTCTA
* * * *
1253606 AAAGTCCACAACTTAGTGGCATCTCTTTTCCCAAAGTCCACACTCAGTGGCATATCTTTTCCAAA
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCAGACTCAGTGGCATCTCTTTTCCAAA
* *
1253671 AGTCCACGACTTTGTGGCATCTTTTCTTC
66 AGTCCACAACTTAGTGGCATCTTTTCTTC
* **
1253700 AAAGTCCACGACTCAATGGCATCTCTTTTCCCAAAGTCCATGACTCAGTGGCATCTCTTTTCCTG
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCA-GACTCAGTGGCATCTCTTTTCCAA
1253765 AAGTCCACAACTTAGTGGCATCTTTTCTTC
65 AAGTCCACAACTTAGTGGCATCTTTTCTTC
* *
1253795 AAAGTCCA-GCACTCAGTGACATCTCTTTT-CC-AAGTCCACGACTAAGTGGCATC-CTTTT
1 AAAGTCCACG-ACTCAGTGGCATCTCTTTTCCCAAAGTCCA-GACTCAGTGGCATCTCTTTT
1253853 TCTTTTTTAA
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
92 5 0.04
93 20 0.14
94 40 0.29
95 73 0.53
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (94 bp):
AAAGTCCACGACTCAGTGGCATCTCTTTTCCCAAAGTCCAGACTCAGTGGCATCTCTTTTCCAAA
AGTCCACAACTTAGTGGCATCTTTTCTTC
Found at i:1253865 original size:35 final size:34
Alignment explanation
Indices: 1253826--1253905 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
1253816 TCTCTTTTCC
* *
1253826 AAGTCCACGAC-TAAGTGGCATCCTTTTTCTTTTTT
1 AAGTCCACAACAT-AGTGGCATCCTTTTTC-GTTTT
* * *
1253861 AAGTCCCCAACATCGTGGCATTCTTTTTCGTTTT
1 AAGTCCACAACATAGTGGCATCCTTTTTCGTTTT
1253895 AAGTCCACAAC
1 AAGTCCACAAC
1253906 TCTGTGGAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 14 0.37
35 23 0.61
36 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.38
Consensus pattern (34 bp):
AAGTCCACAACATAGTGGCATCCTTTTTCGTTTT
Found at i:1253933 original size:32 final size:30
Alignment explanation
Indices: 1253855--1254191 Score: 260
Period size: 32 Copynumber: 10.9 Consensus size: 30
1253845 ATCCTTTTTC
*
1253855 TTTTTTAAGTCCCCAACATC-GTGGCATTCTTT
1 TTTTTTAAGTCCACAAC-TCTGTGGCA--CTTT
*
1253887 TTCGTTTTAAGTCCACAACTCTGTGGAACTTT
1 TT--TTTTAAGTCCACAACTCTGTGGCACTTT
* * *
1253919 TTCTATTTAGGTCCATAACTCTGTGGCAC-CT
1 TT-T-TTTAAGTCCACAACTCTGTGGCACTTT
1253950 TTTTTTAAGTCCACAACT-TCGTGGCACTTT
1 TTTTTTAAGTCCACAACTCT-GTGGCACTTT
* * *
1253980 TTTTTTAAGTCCACAACACCGTGG---TAT
1 TTTTTTAAGTCCACAACTCTGTGGCACTTT
** * **
1254007 CCTTTTAAGTCCACAATTCCATGGCACCTTT
1 TTTTTTAAGTCCACAACTCTGTGGCA-CTTT
*
1254038 TCTTTTTAAGTCCACAATTCT-TGGCACCTTT
1 T-TTTTTAAGTCCACAACTCTGTGGCA-CTTT
* * *
1254069 TCCTTTTAAGCCCACAACTCCGTGGCACCTTT
1 T-TTTTTAAGTCCACAACTCTGTGGCA-CTTT
* **
1254101 TCTTTTTAAGTCCACAACTCCGTGGCAC-CC
1 T-TTTTTAAGTCCACAACTCTGTGGCACTTT
1254131 TTTTTTAAGTCCACAACT-TCGTGGCACTCTTT
1 TTTTTTAAGTCCACAACTCT-GTGGCA--CTTT
1254163 TTCCTTTTAAGTCCACAACTCTGTGGCAC
1 TT--TTTTAAGTCCACAACTCTGTGGCAC
1254192 CCTTTTAAGC
Statistics
Matches: 252, Mismatches: 33, Indels: 40
0.78 0.10 0.12
Matches are distributed among these distances:
27 21 0.08
28 1 0.00
29 43 0.17
30 24 0.10
31 35 0.14
32 84 0.33
33 2 0.01
34 41 0.16
35 1 0.00
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (30 bp):
TTTTTTAAGTCCACAACTCTGTGGCACTTT
Found at i:1254189 original size:95 final size:95
Alignment explanation
Indices: 1253856--1254197 Score: 298
Period size: 95 Copynumber: 3.7 Consensus size: 95
1253846 TCCTTTTTCT
* * * * * * * *
1253856 TTTTTAAGTCCCCAACATCGTGGCATTCTTTTTCGTTTTAAGTCCACAACTCTGTGG-AACTTTT
1 TTTTTAAGTCCACAA-TTCGTGGCA--CCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTT
* * * **
1253920 TCTATTTAGGTCCATAACTCTGTGGCACCT-T-
63 TCTTTTTAAGTCCACAACTCCATGGCACCTCTC
* * * *
1253951 TTTTTAAGTCCACAACTTCGTGGCA-CTTTT-TTTTTAAGTCCACAACACCGTGG------TATC
1 TTTTTAAGTCCACAA-TTCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTC
* * *
1254008 CTTTTAAGTCCACAATTCCATGGCACCTTTTC
65 TTTTTAAGTCCACAACTCCATGGCACC-TCTC
*
1254040 TTTTTAAGTCCACAATTCTTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCA-CCTTTTCT
1 TTTTTAAGTCCACAATTCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTCT
*
1254104 TTTTAAGTCCACAACTCCGTGGCACC-CT-
66 TTTTAAGTCCACAACTCCATGGCACCTCTC
* *
1254132 TTTTTAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
1 TTTTTAAGTCCACAA-TTCGTGGCAC-C-TTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTT
1254197 T
63 T
1254198 AAGCCCACAA
Statistics
Matches: 207, Mismatches: 26, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
86 23 0.11
87 1 0.00
88 9 0.04
89 20 0.10
90 20 0.10
91 20 0.10
92 19 0.09
93 10 0.05
94 1 0.00
95 78 0.38
96 6 0.03
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (95 bp):
TTTTTAAGTCCACAATTCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTCT
TTTTAAGTCCACAACTCCATGGCACCTCTC
Found at i:1254196 original size:27 final size:27
Alignment explanation
Indices: 1254165--1254224 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
1254155 CACTCTTTTT
* *
1254165 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCTATGGCAC
*
1254192 CCTTTTAAGCCCACAACTTTATGGCAC
1 CCTTTTAAGCCCACAACTCTATGGCAC
*
1254219 CTTTTT
1 CCTTTT
1254225 TTTCTCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCTATGGCAC
Found at i:1254228 original size:63 final size:60
Alignment explanation
Indices: 1253891--1254224 Score: 319
Period size: 63 Copynumber: 5.5 Consensus size: 60
1253881 TTCTTTTTCG
* * * *
1253891 TTTTAAGTCCACAAC-TCTGTGG-AACTTTTT-CTATTTAGGTCCATAACTCTGTGGCACCTTT
1 TTTTAAGTCCACAACTTC-GTGGCACCTTTTTCCT-TTTAAGTCCACAACTCTGTGGCACC--C
* * * *
1253952 TTTTAAGTCCACAACTTCGTGGCA-CTTTTT--TTTTAAGTCCACAACACCGTGGTATCC
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* * *
1254009 TTTTAAGTCCACAA-TTCCATGGCACC-TTTTCTTTTTAAGTCCACAATTCT-TGGCACCTTTTC
1 TTTTAAGTCCACAACTT-CGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-C----C
1254071 C
60 C
* * * *
1254072 TTTTAAGCCCACAACTCCGTGGCACC-TTTTCTTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
1254131 TTTTTTAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
1 --TTTTAAGTCCACAACTTCGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* **
1254194 TTTTAAGCCCACAACTTTATGGCACCTTTTT
1 TTTTAAGTCCACAACTTCGTGGCACCTTTTT
1254225 TTTCTCAAAG
Statistics
Matches: 231, Mismatches: 25, Indels: 35
0.79 0.09 0.12
Matches are distributed among these distances:
56 2 0.01
57 24 0.10
58 5 0.02
59 36 0.16
60 7 0.03
61 70 0.30
62 4 0.02
63 77 0.33
64 6 0.03
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (60 bp):
TTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
Found at i:1254500 original size:32 final size:32
Alignment explanation
Indices: 1254451--1254707 Score: 306
Period size: 32 Copynumber: 8.0 Consensus size: 32
1254441 CCAATGGAGA
*
1254451 AACCTTCTTC-AAAGCCCACACAAGTTGGTGGT
1 AACC-TCTTCAAAAGCCCACACAAGTTGGTGGC
* *
1254483 AGCCTCTTCAAAAGCCCACACAAGTTGGTGGT
1 AACCTCTTCAAAAGCCCACACAAGTTGGTGGC
* *
1254515 AGCCTCTTCAAAAGCCCACACAAGTTGGTGGT
1 AACCTCTTCAAAAGCCCACACAAGTTGGTGGC
* * *
1254547 AACCTTTTCTAAAGCACACACAAGTTGGTGGC
1 AACCTCTTCAAAAGCCCACACAAGTTGGTGGC
* *
1254579 AACCTCTTCAAAAGCCCACATAAGTTGGAGGC
1 AACCTCTTCAAAAGCCCACACAAGTTGGTGGC
** *
1254611 AACC-CTTTTTAGAGCCCACACAAGTTGGTGGC
1 AACCTC-TTCAAAAGCCCACACAAGTTGGTGGC
* *
1254643 AACCTTCTT-TAAAGCCCACACAAGTCGGTGGC
1 AACC-TCTTCAAAAGCCCACACAAGTTGGTGGC
*
1254675 AACC-CTTTCAAAAGCTCACACAAGTTGGTGGC
1 AACCTC-TTCAAAAGCCCACACAAGTTGGTGGC
1254707 A
1 A
1254708 TTTCCTTCTA
Statistics
Matches: 198, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.01
31 8 0.04
32 186 0.94
33 2 0.01
34 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (32 bp):
AACCTCTTCAAAAGCCCACACAAGTTGGTGGC
Found at i:1254567 original size:96 final size:97
Alignment explanation
Indices: 1254451--1254707 Score: 344
Period size: 96 Copynumber: 2.7 Consensus size: 97
1254441 CCAATGGAGA
* *
1254451 AACCTTCTTC-AAAGCCCACACAAGTTGGTGGTAGCCTCTTCAAAAGCCCACACAAGTTGGTGG-
1 AACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTTCAAAAGCCCACACAAGTTGGTGGC
* * *
1254514 TAGCCTCTTCAAAAGCCCACACAAGTTGGTGGT
66 AACCCT-TTCAAAAGCCCACACAAGTTGGTGGC
* * *
1254547 AACCTT-TTCTAAAGCACACACAAGTTGGTGGCAACCTCTTCAAAAGCCCACATAAGTTGGAGGC
1 AACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTTCAAAAGCCCACACAAGTTGGTGGC
** *
1254611 AACCCTTTTTAGAGCCCACACAAGTTGGTGGC
66 AACCCTTTCAAAAGCCCACACAAGTTGGTGGC
* *
1254643 AACCTTCTT-TAAAGCCCACACAAGTCGGTGGCAACC-CTTTCAAAAGCTCACACAAGTTGGTGG
1 AACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCTC-TTCAAAAGCCCACACAAGTTGGTGG
1254706 CA
65 CA
1254708 TTTCCTTCTA
Statistics
Matches: 141, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
95 4 0.03
96 131 0.93
97 6 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (97 bp):
AACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTTCAAAAGCCCACACAAGTTGGTGGC
AACCCTTTCAAAAGCCCACACAAGTTGGTGGC
Found at i:1254779 original size:43 final size:43
Alignment explanation
Indices: 1254732--1254879 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 43
1254722 CAATGTCACC
* *
1254732 GGCCTTGAATCAGCACTTTGGCACCATTAAGTCCAATATCGTT
1 GGCCTTGAATCAGCACTTTGGCACCTTTAAGTCCAATATCGCT
*
1254775 GGCCTTAAATTAGCATATTGGCACCTTTGGCACCTTTAAGTCCAATATCGCT
1 GGCCTTGAA-T--C--A---GCA-CTTTGGCACCTTTAAGTCCAATATCGCT
* *
1254827 GGCCTAGAATCAGCA-TATTGGCACCTTTAAGTCTAATATCGCT
1 GGCCTTGAATCAGCACT-TTGGCACCTTTAAGTCCAATATCGCT
*
1254870 AGCCTTGAAT
1 GGCCTTGAAT
1254880 GAACATATTG
Statistics
Matches: 87, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
42 1 0.01
43 41 0.47
44 4 0.05
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
51 4 0.05
52 33 0.38
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
GGCCTTGAATCAGCACTTTGGCACCTTTAAGTCCAATATCGCT
Found at i:1254830 original size:52 final size:52
Alignment explanation
Indices: 1254747--1254854 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
1254737 TGAATCAGCA
* *
1254747 CTTTGGCACCATTAAGTCCAATATCGTTGGCCTTA-AATTAGCATATTGGCAC
1 CTTTGGCACCATTAAGTCCAATATCGCTGGCC-TAGAATCAGCATATTGGCAC
*
1254799 CTTTGGCACCTTTAAGTCCAATATCGCTGGCCTAGAATCAGCATATTGGCAC
1 CTTTGGCACCATTAAGTCCAATATCGCTGGCCTAGAATCAGCATATTGGCAC
1254851 CTTT
1 CTTT
1254855 AAGTCTAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.04
52 50 0.96
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (52 bp):
CTTTGGCACCATTAAGTCCAATATCGCTGGCCTAGAATCAGCATATTGGCAC
Found at i:1254887 original size:43 final size:43
Alignment explanation
Indices: 1254801--1254893 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
1254791 ATTGGCACCT
* *
1254801 TTGGCACCTTTAAGTCCAATATCGCTGGCCTAGAATCAGCATA
1 TTGGCACCTTTAAGTCCAATATCGCTAGCCTAGAATCAACATA
* * *
1254844 TTGGCACCTTTAAGTCTAATATCGCTAGCCTTGAATGAACATA
1 TTGGCACCTTTAAGTCCAATATCGCTAGCCTAGAATCAACATA
1254887 TTGGCAC
1 TTGGCAC
1254894 TTTTTCCATC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TTGGCACCTTTAAGTCCAATATCGCTAGCCTAGAATCAACATA
Found at i:1254887 original size:95 final size:95
Alignment explanation
Indices: 1254732--1254945 Score: 259
Period size: 95 Copynumber: 2.3 Consensus size: 95
1254722 CAATGTCACC
* * * *
1254732 GGCCTTGAATCAGCACT-TTGGCACCATTAAGTCCAATATCGTTGGCCTTAAATTAGCATATTGG
1 GGCCTTGAATCAGCA-TATTGGCACCATTAAGTCCAATATCGCTAGCCTTAAATGAACATATTGG
*
1254796 CACCTTTGGCACCTTTAAGTCCAATATCGCT
65 CACCTTTGCCACCTTTAAGTCCAATATCGCT
* * * *
1254827 GGCCTAGAATCAGCATATTGGCACCTTTAAGTCTAATATCGCTAGCCTTGAATGAACATATTGGC
1 GGCCTTGAATCAGCATATTGGCACCATTAAGTCCAATATCGCTAGCCTTAAATGAACATATTGGC
* * * * * *
1254892 ACTTTTTCCATCTTTAAGTCTAGTGTCGCT
66 ACCTTTGCCACCTTTAAGTCCAATATCGCT
* *
1254922 GGCCTTGAATCAGCACATTAGCAC
1 GGCCTTGAATCAGCATATTGGCAC
1254946 TATCATCTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 1 0.01
95 99 0.99
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (95 bp):
GGCCTTGAATCAGCATATTGGCACCATTAAGTCCAATATCGCTAGCCTTAAATGAACATATTGGC
ACCTTTGCCACCTTTAAGTCCAATATCGCT
Found at i:1254946 original size:52 final size:49
Alignment explanation
Indices: 1254851--1254983 Score: 142
Period size: 52 Copynumber: 2.7 Consensus size: 49
1254841 ATATTGGCAC
* * * * * *
1254851 CTTTAAGTCTAATATCGCTAGCCTTGAATGAACATATTGGCACTTTTTCCAT
1 CTTTAAGTCTAGTATCGCTGGCCTTGAATCAACACATTAGCAC--TAT-CAT
* *
1254903 CTTTAAGTCTAGTGTCGCTGGCCTTGAATCAGCACATTAGCACTATCAT
1 CTTTAAGTCTAGTATCGCTGGCCTTGAATCAACACATTAGCACTATCAT
*
1254952 CTTTAAGTC-CGATATCGCTGGCCTTGAATCAA
1 CTTTAAGTCTAG-TATCGCTGGCCTTGAATCAA
1254984 TATTTGACAT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 30 0.43
50 2 0.03
52 36 0.52
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (49 bp):
CTTTAAGTCTAGTATCGCTGGCCTTGAATCAACACATTAGCACTATCAT
Found at i:1255310 original size:61 final size:61
Alignment explanation
Indices: 1255182--1255315 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
1255172 TATCATTAGC
* * *** * * *
1255182 CTTGAATTAGCATATTGGCACCTTTATCATTCTTCTCATCTTCAAGCTTGATATTGCTGGT
1 CTTGAATTAGCATATTAGCACCTTTATCATTCTTCGCATCTTCAAGCCCAACATCGCTGCT
*
1255243 CGTGAATTAGCATATTAGCACCTTTATCATTCTTCGCATCCTT-AAGCCCAACATCGCTGACT
1 CTTGAATTAGCATATTAGCACCTTTATCATTCTTCGCAT-CTTCAAGCCCAACATCGCTG-CT
*
1255305 -TTGAATCAGCA
1 CTTGAATTAGCA
1255316 CATTGGTACT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
61 56 0.93
62 4 0.07
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (61 bp):
CTTGAATTAGCATATTAGCACCTTTATCATTCTTCGCATCTTCAAGCCCAACATCGCTGCT
Found at i:1255574 original size:153 final size:152
Alignment explanation
Indices: 1255294--1255644 Score: 385
Period size: 153 Copynumber: 2.3 Consensus size: 152
1255284 TTAAGCCCAA
* * * * * * *
1255294 CATCGCTGACTTTGAATCAGCACATTGGTACTCTTCTCAATTTTATGCCCAAATGTTGCTGGCCT
1 CATCGCTGGCCTTGAATCAGCACATTGGCACT-TTTTCATTTTTAAG-CCAAATGTCGCTGGCCT
* * * *
1255359 TGAATCAGCACATTGGCATCCTTATCATGTTAAAGTCCAACGTTGCTGGCCTTGAATTAGCACAT
64 TGAATCAGCACATTGGCATCCTTATCATGTTAAAGTCCAACATAGCTAGCCTTGAATCAGCACAT
*
1255424 TGGCATTTTTCTTAT-TTAAAGTCC
129 TGGCACTTTTCTTATCTTAAAG-CC
*
1255448 GCATCGCTGGCCTTGAATCAGCACATTGGCACTTTTTCATTTTTAAGCCTAATGTCGCTGGCCTT
1 -CATCGCTGGCCTTGAATCAGCACATTGGCACTTTTTCATTTTTAAGCCAAATGTCGCTGGCCTT
* ** * *
1255513 GAATCAGTATGTTGGCA-CTCTTCTCAT-TTATAAGTCCAATATAGCTAGCCTTGAATCAGCACA
65 GAATCAGCACATTGGCATC-CTTATCATGTTA-AAGTCCAACATAGCTAGCCTTGAATCAGCACA
*
1255576 TTGGCACTTTTCTTATCTTTAAGCC
128 TTGGCACTTTTCTTATCTTAAAGCC
* * *
1255601 CA-----GGCCTTGAATCAACACATTGGCACTTTTCTTATCTTTAAGCC
1 CATCGCTGGCCTTGAATCAGCACATTGGCACTTTT-TCATTTTTAAGCC
1255645 CAGGCCTTGA
Statistics
Matches: 170, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
147 27 0.16
148 11 0.06
152 6 0.04
153 81 0.48
154 16 0.09
155 29 0.17
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (152 bp):
CATCGCTGGCCTTGAATCAGCACATTGGCACTTTTTCATTTTTAAGCCAAATGTCGCTGGCCTTG
AATCAGCACATTGGCATCCTTATCATGTTAAAGTCCAACATAGCTAGCCTTGAATCAGCACATTG
GCACTTTTCTTATCTTAAAGCC
Found at i:1255583 original size:52 final size:52
Alignment explanation
Indices: 1255296--1255588 Score: 269
Period size: 52 Copynumber: 5.7 Consensus size: 52
1255286 AAGCCCAACA
* * * * *
1255296 TCGCTGACTTTGAATCAGCACATTGGTACTCTTCTCAATTT-TATGCCCAAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACTCTTCTC-ATTTATAAGTCC-AATG
* * *
1255349 TTGCTGGCCTTGAATCAGCACATTGGCA-TCCTTATCATGTTA-AAGTCCAACG
1 TCGCTGGCCTTGAATCAGCACATTGGCACT-CTTCTCAT-TTATAAGTCCAATG
* * * * * *
1255401 TTGCTGGCCTTGAATTAGCACATTGGCATTTTTCTTATTTA-AAGTCCGCA--
1 TCGCTGGCCTTGAATCAGCACATTGGCACTCTTCTCATTTATAAGTCC-AATG
* *
1255451 TCGCTGGCCTTGAATCAGCACATTGGCACT-TTTTCATTTTTAAG-CCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACTCTTCTCATTTATAAGTCC-AATG
* ** *
1255502 TCGCTGGCCTTGAATCAGTATGTTGGCACTCTTCTCATTTATAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACTCTTCTCATTTATAAGTCCAATG
* * *
1255554 TAGCTAGCCTTGAATCAGCACATTGGCACTTTTCT
1 TCGCTGGCCTTGAATCAGCACATTGGCACTCTTCT
1255589 TATCTTTAAG
Statistics
Matches: 197, Mismatches: 33, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
49 10 0.05
50 30 0.15
51 36 0.18
52 83 0.42
53 38 0.19
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (52 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACTCTTCTCATTTATAAGTCCAATG
Done.