Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 181 of 211
Found at i:53716738 original size:44 final size:44
Alignment explanation
Indices: 53716673--53716795 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
53716663 TGAAGATGGC
* * *
53716673 AGATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCAAT
1 AGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAA-ACAAT
** *
53716718 A-ATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATAAT
1 AGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACAAT
* * *
53716761 AGATCTTATCTCTCTGAATTTGCAGTGGAGTAGAT
1 AGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGAT
53716796 CGCATTAGGT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 4 0.06
44 61 0.92
45 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACAAT
Found at i:53716794 original size:218 final size:217
Alignment explanation
Indices: 53716410--53716922 Score: 774
Period size: 218 Copynumber: 2.4 Consensus size: 217
53716400 TAAAATCATA
*
53716410 AGGTCTTATCCCCCTAAAGTTACAGTGGGGCAGACTGAAGATGGCAGATCTTATATCCCTGAAGT
1 AGGTCTTATCCCCCTAAAGTTACAGTGGGGCAGACTGAAGATGGCAGATCTTATCTCCCT-AAGT
* * * *** *
53716475 TACAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTAGAGTGGTTTAAAAT
65 TGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAAT
* * *
53716540 AATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGCATTAGGTCTTATCTCATTGAGTTT
130 AATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCACTGAGGTT
**
53716605 TTAGTGGAGCAGACTGAGTAAGC
195 GCAGTGGAGCAGACTGAGTAAGC
* *
53716628 AGGTCTTATCCCCCTAAAGTTATAGTGGGGCAAACTGAAGATGGCAGATCTTATCTCCCTAAAGT
1 AGGTCTTATCCCCCTAAAGTTACAGTGGGGCAGACTGAAGATGGCAGATCTTATCTCCCT-AAGT
*
53716693 TGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAAT
65 TGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAAT
* * *
53716758 AATAGATCTTATCTCTCTGAATTTGCAGTGGAGTAGATCGCATTAGGTCTTATCTCCCTGAGGTT
130 AATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCACTGAGGTT
53716823 GCAGTGGAGCAGACTGAGTAAGC
195 GCAGTGGAGCAGACTGAGTAAGC
* * * * * **
53716846 AGGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAGGTCTTATCTCCCTGAGCG
1 AGGTCTTATCCCCCTAAAGTTACAGTGGGGCAGACTGAAGATGGCAGATCTTATCTCCCTAAGTT
53716911 GCAGTGGAGTAG
66 GCAGTGGAGTAG
53716923 GTTGAAAATA
Statistics
Matches: 266, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
217 14 0.05
218 252 0.95
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (217 bp):
AGGTCTTATCCCCCTAAAGTTACAGTGGGGCAGACTGAAGATGGCAGATCTTATCTCCCTAAGTT
GCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAATA
ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCACTGAGGTTG
CAGTGGAGCAGACTGAGTAAGC
Found at i:53716862 original size:44 final size:45
Alignment explanation
Indices: 53716802--53716908 Score: 148
Period size: 44 Copynumber: 2.4 Consensus size: 45
53716792 AGATCGCATT
53716802 AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTG-AG-TAAGC
1 AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAT-AGC
* * *
53716846 AGGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
1 AGGTCTTATCTC-CCTGAGGTTGCAGTGGAGCAGACTGAAGATAGC
53716891 AGGTCTTATCTCCCTGAG
1 AGGTCTTATCTCCCTGAG
53716909 CGGCAGTGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
43 1 0.02
44 33 0.60
45 19 0.35
46 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (45 bp):
AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGATAGC
Found at i:53717087 original size:44 final size:42
Alignment explanation
Indices: 53717033--53717494 Score: 342
Period size: 44 Copynumber: 10.7 Consensus size: 42
53717023 AGATCACATT
*
53717033 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATAGAAGAAAC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--AAGAAAC
* * ** *
53717077 CAATCCTATCTCCCTAAAGTTATAGTGGAGCAGATTAA-AACC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAGAAAC
* * * * *
53717119 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-CGCATC
1 -CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAAC
* * * * *
53717162 TAGTCTTATCTCCCGGAAGTTACAGTGGAGCAGACAGAAGAAAC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG--ATAAGAAAC
* * * * *
53717206 CAGTCCTATCTCCCTGAAGTTGCTGTGGAGTAGATTAA-AACC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAGAAAC
* * * * *
53717248 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-CGCATC
1 -CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAAC
* * *
53717291 CAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAAAC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG--ATAAGAAAC
* * *
53717335 CAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTA-AAAC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAAC
** * * * *
53717376 CATAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGAT-CGCATC
1 C--A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAAC
* * * *
53717420 CAGTCTTATCTCCCTGATGTTGCAGTGGAGCAGACAGAAGAAAT
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG--ATAAGAAAC
*
53717464 CAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGC
53717495 GGATCAAAAT
Statistics
Matches: 322, Mismatches: 75, Indels: 42
0.73 0.17 0.10
Matches are distributed among these distances:
41 84 0.26
42 13 0.04
43 18 0.06
44 206 0.64
45 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (42 bp):
CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGAAAC
Found at i:53717189 original size:85 final size:83
Alignment explanation
Indices: 53717036--53717494 Score: 319
Period size: 85 Copynumber: 5.3 Consensus size: 83
53717026 TCACATTCAA
* * * * * * **
53717036 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATAGAAGAAACCAATCCTATCTCCCTAAAGTTATA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT---AGAATCCAGTCTTATCTCCCTGAAGTTGCA
53717101 GTGGAGCAGATTAAAACCACAG
63 GTGGAGCAGATTAAAACC-CAG
* * * * * *
53717123 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCGGAAGTTACAGT
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCTCCCTGAAGTTGCAGT
** *
53717188 GGAGCAGACAGAAGAAACCAG
65 GGAGCAGA-TTAA-AACCCAG
* * * * * * *
53717209 TCCTATCTCCCTGAAGTTGCTGTGGAGTAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAGAATC-CAG-TCTTATCTCCCTGAAGTTGCA
* *** *
53717274 GTAGAGCAGA-TCGCATCCAG
63 GTGGAGCAGATTAAAACCCAG
* * * *
53717294 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGA-AGAAACCAATCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGT---AGAG-CAGATAGAATCCAGTCTTATCTCCCTGAAGTTGC
* *
53717358 AGTGGAGCGGATTAAAACCATAG
62 AGTGGAGCAGATTAAAACC-CAG
** * * *
53717381 ATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGATGTTGCAGT
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCTCCCTGAAGTTGCAGT
** ** *
53717446 GGAGCAGACAGAAGAAATCAA
65 GGAGCAGA-TTAA-AACCCAG
* *
53717467 TCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGC
53717495 GGATCAAAAT
Statistics
Matches: 285, Mismatches: 71, Indels: 33
0.73 0.18 0.08
Matches are distributed among these distances:
84 4 0.01
85 170 0.60
86 16 0.06
87 13 0.05
88 79 0.28
89 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (83 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAGAATCCAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAGATTAAAACCCAG
Found at i:53717248 original size:129 final size:129
Alignment explanation
Indices: 53717018--53717543 Score: 782
Period size: 129 Copynumber: 4.1 Consensus size: 129
53717008 CAGGTAAAAA
* * * * *
53717018 AGAGCAGATCACATTCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATAGAAGAAACCAATCC
1 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
**
53717083 TATCTCCCTAAAGTTATAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
66 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
* * * *
53717147 AGAGCAGATCGCATCTAGTCTTATCTCCCGGAAGTTACAGTGGAGCAGACAGAAGAAACCAGTCC
1 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* * *
53717212 TATCTCCCTGAAGTTGCTGTGGAGTAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
66 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
* *
53717276 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAAACCAATCT
1 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* * *
53717341 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTTTCTGAAGTTGCAGT
66 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
* *
53717405 AGAGCAGATCGCATCCAGTCTTATCTCCCTGATGTTGCAGTGGAGCAGACAGAAGAAATCAATCC
1 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* * * ** ** * *
53717470 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAATGATGGATCTCATCTCTCTAAAGTTGCAGT
66 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
53717534 AGAGCAGATC
1 AGAGCAGATC
53717544 ATATCAGACT
Statistics
Matches: 359, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 359 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
Found at i:53717519 original size:44 final size:43
Alignment explanation
Indices: 53717019--53717544 Score: 268
Period size: 44 Copynumber: 12.2 Consensus size: 43
53717009 AGGTAAAAAA
* * *
53717019 GAGCAGATCACATTCA--ATCTTATCTCCCTGAAGTTGTAGTG
1 GAGCAGATCAAAATCATGATCTTATCTCCCTGAAGTTGCAGTG
* * * * **
53717060 GAGCAGATAGAAGAAACCA--ATCCTATCTCCCTAAAGTTATAGTG
1 GAGCAGAT--CA-AAATCATGATCTTATCTCCCTGAAGTTGCAGTG
* * * * *
53717104 GAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 GAGCAGATCAAAATCA-TGATCTTATCTCCCTGAAGTTGCAGTG
** * *
53717148 GAGCAGATC-GCATC-T-AGTCTTATCTCCCGGAAGTTACAGTG
1 GAGCAGATCAAAATCATGA-TCTTATCTCCCTGAAGTTGCAGTG
* * *
53717189 GAGCAGA-CAGAAGAAACCA-G-TCCTATCTCCCTGAAGTTGCTGTG
1 GAGCAGATC---A-AAATCATGATCTTATCTCCCTGAAGTTGCAGTG
* * * * * *
53717233 GAGTAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 GAGCAGATCAAAATCA-TGATCTTATCTCCCTGAAGTTGCAGTG
**
53717277 GAGCAGATC-GCATCCA-G-TCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATCAAAAT-CATGATCTTATCTCCCTGAAGTTGCAGTG
* * *
53717318 GAACAGA-CAGAAGAAACCA--ATCTTATCTCCCTAAAGTTGCAGTG
1 GAGCAGATC---A-AAATCATGATCTTATCTCCCTGAAGTTGCAGTG
* * * ** *
53717362 GAGCGGATTAAAACCATAGATCTTATCTTTCTGAAGTTGCAGTA
1 GAGCAGATCAAAATCAT-GATCTTATCTCCCTGAAGTTGCAGTG
** *
53717406 GAGCAGATC-GCATCCA-G-TCTTATCTCCCTGATGTTGCAGTG
1 GAGCAGATCAAAAT-CATGATCTTATCTCCCTGAAGTTGCAGTG
*
53717447 GAGCAGA-CAGAAGAAATCA--ATCCTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATC---A-AAATCATGATCTTATCTCCCTGAAGTTGCAGTG
* * * * * *
53717491 GAGCGGATCAAAATGATGGATCTCATCTCTCTAAAGTTGCAGTA
1 GAGCAGATCAAAATCAT-GATCTTATCTCCCTGAAGTTGCAGTG
53717535 GAGCAGATCA
1 GAGCAGATCA
53717545 TATCAGACTT
Statistics
Matches: 369, Mismatches: 76, Indels: 77
0.71 0.15 0.15
Matches are distributed among these distances:
40 4 0.01
41 113 0.31
42 6 0.02
43 6 0.02
44 234 0.63
45 6 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
GAGCAGATCAAAATCATGATCTTATCTCCCTGAAGTTGCAGTG
Found at i:53718004 original size:18 final size:18
Alignment explanation
Indices: 53717981--53718032 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
53717971 GCTTAAATTA
53717981 AATACCCAAACCCAATAC
1 AATACCCAAACCCAATAC
* * *
53717999 AATACCTAAACCCGATTC
1 AATACCCAAACCCAATAC
*
53718017 AATGCCCAAAACCCAA
1 AATACCC-AAACCCAA
53718033 CTCAGCCCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.46, C:0.37, G:0.04, T:0.13
Consensus pattern (18 bp):
AATACCCAAACCCAATAC
Found at i:53722880 original size:10 final size:10
Alignment explanation
Indices: 53722838--53722880 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
53722828 GAAAATAGTC
*
53722838 AAAATTAATC
1 AAAATTAATT
53722848 AAAATTAACTAT
1 AAAATTAA-T-T
53722860 AAAATTAATT
1 AAAATTAATT
*
53722870 AAAATTTATT
1 AAAATTAATT
53722880 A
1 A
53722881 TGTTCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:53728253 original size:62 final size:62
Alignment explanation
Indices: 53728156--53728277 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 62
53728146 TAGAATTATA
* *
53728156 AAGTCAGCAAGAAAGATAAACTTATCTAAATGTACCAATACGTCCTCGATTTTTCCTTCTAG
1 AAGTCAGCAAGAAAGATAAACTTACCTAAATGTACCAATACGTCCTCAATTTTTCCTTCTAG
* *
53728218 AAGTCAGCAGGAAAGATAAACTTACCTACATGTACCAATACGTCCTCAATTTTTCCTTCT
1 AAGTCAGCAAGAAAGATAAACTTACCTAAATGTACCAATACGTCCTCAATTTTTCCTTCT
53728278 GGATGTGCTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (62 bp):
AAGTCAGCAAGAAAGATAAACTTACCTAAATGTACCAATACGTCCTCAATTTTTCCTTCTAG
Found at i:53741464 original size:4 final size:4
Alignment explanation
Indices: 53741455--53741518 Score: 55
Period size: 4 Copynumber: 16.8 Consensus size: 4
53741445 ATTTGTTTTA
* *
53741455 AAAT AAAT AAAT AAAT AAAT AAA- AACA- AAAT ATAT ATAT AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
* *
53741501 AACT AATT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
53741519 AGAAATAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
3 8 0.16
4 43 0.84
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:53741495 original size:23 final size:23
Alignment explanation
Indices: 53741459--53741518 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
53741449 GTTTTAAAAT
53741459 AAATAAATAAATAAATAAAAACA
1 AAATAAATAAATAAATAAAAACA
* * *
53741482 AAATATATATATAAATAAAAACT
1 AAATAAATAAATAAATAAAAACA
*
53741505 AATTAAA-AAATAAA
1 AAATAAATAAATAAA
53741519 AGAAATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATAAATAAATAAATAAAAACA
Found at i:53741953 original size:19 final size:21
Alignment explanation
Indices: 53741915--53741953 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
53741905 CCTTTTTTAA
*
53741915 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
53741936 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
53741954 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:53742166 original size:23 final size:22
Alignment explanation
Indices: 53742123--53742180 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
53742113 AAAGGGTATC
* *
53742123 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
53742144 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
53742167 TACATATCATATCT
1 TACAAATCATATCT
53742181 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:53742183 original size:19 final size:19
Alignment explanation
Indices: 53742136--53742233 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
53742126 AAATTAAATC
*
53742136 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
53742156 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
53742178 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
53742199 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
53742218 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
53742234 CTCAAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:53742196 original size:21 final size:21
Alignment explanation
Indices: 53742170--53742232 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
53742160 CTAAGATTAC
53742170 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
53742191 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
53742210 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
53742231 AT
1 AT
53742233 CCTCAAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:53742581 original size:17 final size:17
Alignment explanation
Indices: 53742559--53742592 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53742549 TCTAGGAATA
*
53742559 TTTTTATCTCAAAAGTG
1 TTTTTATCCCAAAAGTG
53742576 TTTTTATCCCAAAAGTG
1 TTTTTATCCCAAAAGTG
53742593 CTTCTTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTTTATCCCAAAAGTG
Found at i:53744341 original size:14 final size:15
Alignment explanation
Indices: 53744308--53744382 Score: 64
Period size: 14 Copynumber: 5.0 Consensus size: 15
53744298 TCTTTTTTTG
53744308 AATAATATTAATAAAT
1 AATAATA-TAATAAAT
*
53744324 AATAATATAAT-TAT
1 AATAATATAATAAAT
53744338 AATAATATAA-AAAT
1 AATAATATAATAAAT
* * *
53744352 GATAATAACAAAAAAT
1 AATAAT-ATAATAAAT
* *
53744368 TATAAAATAATAAAT
1 AATAATATAATAAAT
53744383 TTAAACTCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 19 0.40
15 14 0.29
16 15 0.31
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:53745469 original size:19 final size:18
Alignment explanation
Indices: 53745434--53745470 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
53745424 TTTTTTAAAA
53745434 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATTTT
*
53745452 TATAAATATTTTAAATTTT
1 TATAAAT-TTTGAAATTTT
53745471 AACAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATAAATTTTGAAATTTT
Found at i:53745470 original size:18 final size:17
Alignment explanation
Indices: 53745407--53745471 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
53745397 TTATATAATT
*
53745407 TTTTTAAATTATTATAAT
1 TTTTTAAATT-TTATAAA
*
53745425 TTTTTAAA--ATATAAA
1 TTTTTAAATTTTATAAA
*
53745440 TTTTGAAATTTTTATAAA
1 TTTTTAAA-TTTTATAAA
53745458 TATTTTAAATTTTA
1 T-TTTTAAATTTTA
53745472 ACAATTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 12 0.32
18 20 0.53
19 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTTTAAATTTTATAAA
Found at i:53745480 original size:19 final size:20
Alignment explanation
Indices: 53745439--53745484 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
53745429 TAAAATATAA
* *
53745439 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTAACAAAT
*
53745459 ATTTT-AAATTTTAACAATT
1 ATTTTGAAATTTTAACAAAT
53745478 ATTTTGA
1 ATTTTGA
53745485 TTTTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTTTGAAATTTTAACAAAT
Found at i:53746045 original size:19 final size:19
Alignment explanation
Indices: 53746021--53746148 Score: 159
Period size: 19 Copynumber: 6.5 Consensus size: 19
53746011 AATTTTTTAG
53746021 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
53746040 GATATGCAAT-TCAAGATAT
1 GATATGCAATCT-TAGATAT
53746059 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
53746080 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
53746099 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
53746118 GATATGCAATCTTAGAATATAT
1 GATATGCAATCTTAG---ATAT
53746140 GATATGCAA
1 GATATGCAA
53746149 GATAAGACTA
Statistics
Matches: 94, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.01
19 63 0.67
21 16 0.17
22 14 0.15
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:53746066 original size:40 final size:40
Alignment explanation
Indices: 53746022--53746127 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
53746012 ATTTTTTAGG
53746022 ATATGCAATCTTAGATATGATATGCAAT-TCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATAT-AAGATATGAT
*
53746062 ATATGCAATCTTAGATATGATATGCAATATTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATATAAGATATGAT
53746102 ATAT--AATCTTAGATATGATATGCAAT
1 ATATGCAATCTTAGATATGATATGCAAT
53746128 CTTAGAATAT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
38 22 0.34
40 41 0.64
41 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATATAAGATATGAT
Found at i:53746229 original size:44 final size:42
Alignment explanation
Indices: 53746165--53746670 Score: 342
Period size: 44 Copynumber: 11.7 Consensus size: 42
53746155 ACTAGATGCG
* * *
53746165 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGGTTTTA
* * * *
53746208 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTA--GGTTTTA
* * *
53746252 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--GT-TTTA
* * * *
53746297 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGACTAGGTT--TTA
* * ***
53746341 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGTTTTA
* * *
53746382 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGGTTTTA
* ** * * *
53746425 ATCCGCTCCAAAGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTA--GGTTTTA
* * *
53746469 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--GT-TTTA
* * * *
53746514 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGACTAGGTT--TTA
* * * ***
53746558 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTA-GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGTTTTA
** * *
53746599 ATCTGCT-TTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGGTTTTA
* *
53746642 ATCCGCTCCATTGCAACTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
53746671 GGATTTACAA
Statistics
Matches: 357, Mismatches: 79, Indels: 53
0.73 0.16 0.11
Matches are distributed among these distances:
40 41 0.11
41 15 0.04
42 8 0.02
43 28 0.08
44 193 0.54
45 72 0.20
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (42 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGTTTTA
Found at i:53746346 original size:89 final size:88
Alignment explanation
Indices: 53746215--53746591 Score: 289
Period size: 89 Copynumber: 4.3 Consensus size: 88
53746205 TTAATCCGCT
* * *
53746215 CCACTGCAACTTCAGGGAGATAGGATTATCGGC-T--TTAATCTGCTCCACTGCAACTTCAGGGA
1 CCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAGTCTGCTCCACTGCAACTTCAGGGA
53746277 GATAAGACTTGCCATCTTCAGTCTGCC
63 GATAAGACTTG-CATCTTCAGTCTGCC
53746304 CCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
* *
53746368 TAAGACTAG-A--TGC-GATCTG-C
65 TAAGACTTGCATCTTCAG-TCTGCC
* * * * * * * * **
53746388 TCTCTGTAACTTCAGAGAGATAAGATCTGAGGTT--TTAATCCGCTCCAAAGCAACTTCAGGGAG
1 CCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAG
* * ** * * *
53746451 ATAGGA-TTATCGGCTTTAATCTGCT
64 ATAAGACTT-GCATCTTCAGTCTGCC
* *
53746476 CCACTGCAACTTCAGGGAGATAAGACTTGC-CATCTTCAGTCTGCCCCACTGCAACTTCA-GGAG
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AGTCTGCTCCACTGCAACTTCAGGGA-
* * *
53746539 GATAAGACTTGCTTACTT-AGTCTACT
63 GATAAGACTTGCAT-CTTCAGTCTGCC
53746565 CCACTGCAACTTCAGGGAGATAAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
53746592 AGATGCGATC
Statistics
Matches: 226, Mismatches: 41, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
83 1 0.00
84 50 0.22
85 10 0.04
86 6 0.03
87 9 0.04
88 30 0.13
89 115 0.51
90 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (88 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTTGCATCTTCAGTCTGCC
Found at i:53746712 original size:217 final size:217
Alignment explanation
Indices: 53746148--53746675 Score: 993
Period size: 217 Copynumber: 2.4 Consensus size: 217
53746138 ATGATATGCA
53746148 AGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
1 AGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
*
53746213 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
66 CTCCAATGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
53746278 ATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
131 ATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
*
53746343 CTGCTCCACTGCAACTTCAGGG
196 CTACTCCACTGCAACTTCAGGG
53746365 AGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
1 AGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
*
53746430 CTCCAAAGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
66 CTCCAATGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
53746495 ATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
131 ATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
53746560 CTACTCCACTGCAACTTCAGGG
196 CTACTCCACTGCAACTTCAGGG
* * *
53746582 AGATAAGACTAGATGCGATCTGCTTTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCG
1 AGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
*
53746647 CTCCATTGCAACTTCAGGGAGATAGGATT
66 CTCCAATGCAACTTCAGGGAGATAGGATT
53746676 TACAATCTTC
Statistics
Matches: 303, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
217 303 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (217 bp):
AGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
CTCCAATGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
CTACTCCACTGCAACTTCAGGG
Found at i:53746842 original size:132 final size:132
Alignment explanation
Indices: 53746662--53747446 Score: 1363
Period size: 132 Copynumber: 5.9 Consensus size: 132
53746652 TTGCAACTTC
* * *
53746662 AGGGAGATAGGATTTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
*
53746727 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
53746792 TT
131 TT
* * *
53746794 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACTGTTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
*
53746859 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
53746924 TT
131 TT
* * *
53746926 AGGGAGATAAGATCTACAATCTTCAACATTCTCCGCTGCTACTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
53746991 TTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTCGCCGTCTTCTATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
53747056 TT
131 TT
*
53747058 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGTCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
*
53747123 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
53747188 TT
131 TT
* * * *
53747190 AGGGAGATAAGATCTACAATCTTCTACTTTATCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* *
53747255 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTATTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
53747320 TT
131 TT
* *
53747322 AGAGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGTCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
53747387 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
53747447 GTCAACGCAG
Statistics
Matches: 616, Mismatches: 37, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 616 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:53747213 original size:44 final size:43
Alignment explanation
Indices: 53746754--53747213 Score: 176
Period size: 44 Copynumber: 10.4 Consensus size: 43
53746744 TATCTTGGAA
* * * *
53746754 AGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGCTTAGGG
1 AGATAAGA-TCTCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
53746798 AGATAAGATCTACAATCTTCAACCTTCTCCGCTACTG-TTGAGGG
1 AGATAAGATCT-CAGTCTTCAATCTGCTCCACTACTGCTT-AGGG
* * ** * *
53746842 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATCTCAGT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
53746886 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCT-CAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
53746930 AGATAAGATCTACAATCTTCAA-CATTCTCCGCTGCTACTGAGGG
1 AGATAAGATCT-CAGTCTTCAATC-TGCTCCACTACTGCTTAGGG
* * ** * *
53746974 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCTCACTA-T-CTT-GGAA
1 AGATAAGATCTCAGT--CTTCAATCTGC-TC-CACTACTGCTTAGG-G
* * *
53747018 AGATAAGATTCGCCGTCTTCTATCTGCTCCACTACTGCTTAGGG
1 AGATAAGA-TCTCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
53747062 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATCT-CAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * *
53747106 AGACAAG-TCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATCTCAGT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
53747150 AGATAAGATTCGTC-GTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGA-TC-TCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
*
53747194 AGATAAGATCTACAATCTTC
1 AGATAAGATCT-CAGTCTTC
53747214 TACTTTATCC
Statistics
Matches: 296, Mismatches: 81, Indels: 78
0.65 0.18 0.17
Matches are distributed among these distances:
42 21 0.07
43 30 0.10
44 206 0.70
45 17 0.06
46 21 0.07
47 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
AGATAAGATCTCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:53752270 original size:13 final size:13
Alignment explanation
Indices: 53752252--53752276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53752242 GAATTTACTT
53752252 GTGTGAAAATTTC
1 GTGTGAAAATTTC
53752265 GTGTGAAAATTT
1 GTGTGAAAATTT
53752277 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:53753939 original size:41 final size:41
Alignment explanation
Indices: 53753894--53754055 Score: 227
Period size: 41 Copynumber: 4.0 Consensus size: 41
53753884 AAATTATTCA
* *
53753894 GACTATACGTCTAGCAGGCTAAATGCTGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATCG
*
53753935 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATCG
* *
53753976 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATC-G
* * * *
53754018 G-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAAT
53754056 TAAACTATAA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 110 0.98
42 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATCG
Found at i:53754082 original size:41 final size:41
Alignment explanation
Indices: 53753945--53754090 Score: 114
Period size: 41 Copynumber: 3.6 Consensus size: 41
53753935 GACTATACGT
* * * * ** * * *
53753945 CTAGCAGGCTAAATGCCGGTGAATTGAATCGGACTATACGT
1 CTAGCAAGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
* **
53753986 CTAGCAGGCTAAGTGCCGGTGAACTAAATCAGGCTACAAGC
1 CTAGCAAGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
* * * *
53754027 CTAGCAGGCTAAGTGCCGGTGAACTGAATTAAACTATAAGC
1 CTAGCAAGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
* *
53754068 CTATCAAG-TGAAGTGCCAGTGAA
1 CTAGCAAGCT-AAGTGCCGGTGAA
53754091 TCTGTTTAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 87 0.99
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (41 bp):
CTAGCAAGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
Found at i:53755336 original size:15 final size:15
Alignment explanation
Indices: 53755316--53755356 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
53755306 CACAACAACC
53755316 TCCACCCTCGACTAA
1 TCCACCCTCGACTAA
*
53755331 TCCACCCCCGACTAA
1 TCCACCCTCGACTAA
*
53755346 TCCACCTTCGA
1 TCCACCCTCGA
53755357 TTCCTGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.24, C:0.49, G:0.07, T:0.20
Consensus pattern (15 bp):
TCCACCCTCGACTAA
Found at i:53759937 original size:13 final size:13
Alignment explanation
Indices: 53759919--53759946 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53759909 GTGAATTTAC
53759919 TTGTGTGAAAATT
1 TTGTGTGAAAATT
53759932 TTGTGTGAAAATT
1 TTGTGTGAAAATT
53759945 TT
1 TT
53759947 ATCGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGTGTGAAAATT
Found at i:53761609 original size:41 final size:41
Alignment explanation
Indices: 53761564--53761725 Score: 220
Period size: 41 Copynumber: 4.0 Consensus size: 41
53761554 AAATTATTCA
*
53761564 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATCG
* *
53761605 GACTATACGTCTAGCAGGCTAAATGCCGATGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATCG
* *
53761646 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTAAATCAG
1 GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATC-G
* * *
53761688 G-CTACAAG-CTTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTC-TAGCAGGCTAAATGCCGGTGAACTGAAT
53761726 TAAACTATAA
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 108 0.97
42 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAATGCCGGTGAACTGAATCG
Found at i:53761733 original size:82 final size:82
Alignment explanation
Indices: 53761565--53761760 Score: 209
Period size: 82 Copynumber: 2.4 Consensus size: 82
53761555 AATTATTCAG
* * * * *
53761565 ACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCGGACTATACGTCTAGCAGGCTAAATG
1 ACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTAAATCGGACTACAAGTCTAGCAGGCTAAATG
* **
53761630 CCGATGAATTGAATCGG
66 CCGATGAACTGAATCAA
*
53761647 ACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTAAATCAGG-CTACAAG-CTTAGCAGGCTAAG
1 ACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTAAATC-GGACTACAAGTC-TAGCAGGCTAAA
* *
53761710 TGCCGGTGAACTGAATTAA
64 TGCCGATGAACTGAATCAA
* * * *
53761729 ACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 ACTATACGTCTAGCAGGCT-AAGTGCCGGTGAA
53761761 TCTGTTTAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
81 2 0.02
82 92 0.96
83 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (82 bp):
ACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTAAATCGGACTACAAGTCTAGCAGGCTAAATG
CCGATGAACTGAATCAA
Found at i:53761752 original size:41 final size:41
Alignment explanation
Indices: 53761574--53761760 Score: 133
Period size: 41 Copynumber: 4.6 Consensus size: 41
53761564 GACTATACGT
* * * ** * * *
53761574 CTAGCAGGCTAAATGCCGGTGAATTGAATCGGACTATACGT
1 CTAGCAGGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
* * * * ** * * *
53761615 CTAGCAGGCTAAATGCCGATGAATTGAATCGGACTATACGT
1 CTAGCAGGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
**
53761656 CTAGCAGGCTAAGTGCCGGTGAACTAAATCAGGCTACAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
* * * *
53761697 TTAGCAGGCTAAGTGCCGGTGAACTGAATTAAACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
* *
53761738 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
53761761 TCTGTTTAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 1 0.01
41 125 0.99
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTAAATCAAACTACAAGC
Found at i:53763312 original size:76 final size:76
Alignment explanation
Indices: 53763186--53763340 Score: 292
Period size: 76 Copynumber: 2.0 Consensus size: 76
53763176 CGACACTTTA
*
53763186 TCCACCTTCCAAAAGTGACTGTGAATCCACGTGAGTAGAAGCTATGCACATCCAATAAATCTACC
1 TCCACCTTCCAAAAGTGACTGTGAAACCACGTGAGTAGAAGCTATGCACATCCAATAAATCTACC
53763251 TTCACCTGTCC
66 TTCACCTGTCC
*
53763262 TCCACCTTCCAAAAGTGACTGTGAAACCACGTGAGTAGAAGCTGTGCACATCCAATAAATCTACC
1 TCCACCTTCCAAAAGTGACTGTGAAACCACGTGAGTAGAAGCTATGCACATCCAATAAATCTACC
53763327 TTCACCTGTCC
66 TTCACCTGTCC
53763338 TCC
1 TCC
53763341 GGCATGCACT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.25
Consensus pattern (76 bp):
TCCACCTTCCAAAAGTGACTGTGAAACCACGTGAGTAGAAGCTATGCACATCCAATAAATCTACC
TTCACCTGTCC
Found at i:53765242 original size:98 final size:98
Alignment explanation
Indices: 53765068--53765264 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
53765058 GTACAATAAA
*
53765068 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
53765133 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
53765166 ACTTTAAAAGAACATCCCCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
53765231 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
53765264 A
1 A
53765265 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:53765992 original size:16 final size:16
Alignment explanation
Indices: 53765960--53765994 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
53765950 AAAATATAGG
* *
53765960 AAAATATTAGTTTAAA
1 AAAATATTAGCTGAAA
53765976 AAAATATTAGCTGAAA
1 AAAATATTAGCTGAAA
53765992 AAA
1 AAA
53765995 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAATATTAGCTGAAA
Found at i:53766641 original size:19 final size:19
Alignment explanation
Indices: 53766617--53766729 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
53766607 AATCATATAT
53766617 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
53766636 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
53766655 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53766674 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
53766695 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53766714 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
53766730 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 67 0.80
21 17 0.20
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:53766704 original size:40 final size:40
Alignment explanation
Indices: 53766617--53766728 Score: 192
Period size: 40 Copynumber: 2.9 Consensus size: 40
53766607 AATCATATAT
53766617 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
53766655 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
53766695 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
53766729 CCTCAAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 28 0.40
40 42 0.60
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:53766710 original size:59 final size:56
Alignment explanation
Indices: 53766610--53766729 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
53766600 ATTACAAAAT
*
53766610 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
** *
53766665 CATATCATATCTAAGATTGCATATATCATATCTTGGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
53766724 CATATC
1 CATATC
53766730 CTCAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.04
57 11 0.19
59 39 0.68
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:53778126 original size:12 final size:12
Alignment explanation
Indices: 53778109--53778136 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
53778099 ACACAAAGTG
53778109 TACCTTTACATA
1 TACCTTTACATA
53778121 TACCTTTACATA
1 TACCTTTACATA
53778133 TACC
1 TACC
53778137 CGTAACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (12 bp):
TACCTTTACATA
Found at i:53778450 original size:24 final size:27
Alignment explanation
Indices: 53778408--53778456 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
53778398 ACATCGATCT
53778408 ATTCACATTATAAATAACA-TAATAAC
1 ATTCACATTATAAATAACATTAATAAC
53778434 ATTCA-ATT-TAAATAACATTAATA
1 ATTCACATTATAAATAACATTAATA
53778457 CGATAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTCACATTATAAATAACATTAATAAC
Found at i:53784277 original size:98 final size:98
Alignment explanation
Indices: 53784108--53784302 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
53784098 ATACAATAAA
* * *
53784108 ACTTTAAAAGAACATTCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAAAAATCACACCCAATACGTTAGGGCACAATC
53784173 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
53784206 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAAAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAAAAATCACACCCAATACGTTAGGGCACAATC
*
53784271 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
53784303 CATGATTTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAAAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:53785009 original size:25 final size:25
Alignment explanation
Indices: 53784979--53785027 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
53784969 ATATAAATAT
53784979 GAAAATATTCATTAAAAAAATATAG
1 GAAAATATTCATTAAAAAAATATAG
* **
53785004 GAAAATATTCGTTTTAAAAATATA
1 GAAAATATTCATTAAAAAAATATA
53785028 TATATACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
GAAAATATTCATTAAAAAAATATAG
Found at i:53785794 original size:19 final size:19
Alignment explanation
Indices: 53785770--53785920 Score: 230
Period size: 19 Copynumber: 7.8 Consensus size: 19
53785760 AATCATATAT
53785770 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
53785789 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
**
53785808 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
53785827 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53785846 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
53785867 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
53785886 TCTAGGATTGTATATCATA
1 TCTAAGATTGCATATCATA
53785905 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
53785921 CTCAAAAATT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
19 103 0.84
21 19 0.16
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:53785886 original size:59 final size:59
Alignment explanation
Indices: 53785747--53785919 Score: 251
Period size: 59 Copynumber: 2.9 Consensus size: 59
53785737 AAATTAAATC
*
53785747 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
53785808 TCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
* * *
53785867 TCTAAGATTGCATATCATATCTAGGATTGTATATCATATCTAAGATTGCATAT
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCATAT
53785920 CCTCAAAAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
57 28 0.27
58 3 0.03
59 59 0.57
60 4 0.04
61 10 0.10
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (59 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:53791332 original size:12 final size:12
Alignment explanation
Indices: 53791315--53791365 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
53791305 AATTATAAAA
53791315 TTATATTAATAT
1 TTATATTAATAT
53791327 TTATATTAA-AT
1 TTATATTAATAT
* *
53791338 ATTAAATATAATAA
1 -TTATAT-TAATAT
*
53791352 TTATATTAAAAT
1 TTATATTAATAT
53791364 TT
1 TT
53791366 TAAATATCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 2 0.06
12 20 0.65
13 8 0.26
14 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:53791349 original size:25 final size:26
Alignment explanation
Indices: 53791321--53791406 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
53791311 AAAATTATAT
*
53791321 TAATATTTATATT-AAATATTAAATA
1 TAATAATTATATTAAAATATTAAATA
*
53791346 TAATAATTATATTAAAATTTTAAATA
1 TAATAATTATATTAAAATATTAAATA
*
53791372 TCACTAATAATATATTAAAATA-T-AATA
1 T-AATAAT--TATATTAAAATATTAAATA
*
53791399 TAGTAATT
1 TAATAATT
53791407 TATACCTCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
24 1 0.02
25 12 0.23
26 17 0.33
27 10 0.19
28 1 0.02
29 11 0.21
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (26 bp):
TAATAATTATATTAAAATATTAAATA
Found at i:53791890 original size:57 final size:56
Alignment explanation
Indices: 53791821--53791933 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 56
53791811 ACGACTGTTT
53791821 AACAAGTTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCTAATC
1 AACAAGTTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCTAATC
*
53791877 AACAAGTTTTTCTTTAATCCTATTGAGTATTGCTTTCAATGTTTGGAATTTCTAATC
1 AACAAG-TTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCTAATC
53791934 TGCATTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (56 bp):
AACAAGTTTTCTTTAATCCTATTGAGTATTGCTTCCAATGTTTGGAATTTCTAATC
Found at i:53795471 original size:20 final size:20
Alignment explanation
Indices: 53795446--53795483 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
53795436 TTAACTTAAT
*
53795446 AAACCTTATTTTGATTAAAC
1 AAACCTTATTTTAATTAAAC
53795466 AAACCTTATTTTAATTAA
1 AAACCTTATTTTAATTAA
53795484 TCTAATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (20 bp):
AAACCTTATTTTAATTAAAC
Found at i:53796579 original size:27 final size:27
Alignment explanation
Indices: 53796549--53796602 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
53796539 GTAAAAATGT
53796549 AAAAATGACTCAATTGCATGAAATGAA
1 AAAAATGACTCAATTGCATGAAATGAA
53796576 AAAAATGACTCAATTGCATGAAATGAA
1 AAAAATGACTCAATTGCATGAAATGAA
53796603 TTTTTTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAAATGACTCAATTGCATGAAATGAA
Found at i:53797068 original size:63 final size:61
Alignment explanation
Indices: 53796994--53797126 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 61
53796984 TTTTACTTTA
* * * *
53796994 TGTTTAGCTCTTATGAGCTTCTATTTAACTCATACGAGTTTTTGTTCAGCTCTTACGAGCTTC
1 TGTTTAACTCTTATGAGCTTCTATTCAACTCATACGAGCTTCTGTTCAGCT-TT-CGAGCTTC
* * * *
53797057 TGTTTAACTCTTATGAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTCAGCTTTCGAGCTTC
1 TGTTTAACTCTTATGAGCTTCTATTCAACTCATACGAGCTTCTGTTCAGCTTTCGAGCTTC
*
53797118 TGTTCAACT
1 TGTTTAACT
53797127 TTCGAGCTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 16 0.26
62 2 0.03
63 43 0.70
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (61 bp):
TGTTTAACTCTTATGAGCTTCTATTCAACTCATACGAGCTTCTGTTCAGCTTTCGAGCTTC
Found at i:53797100 original size:42 final size:42
Alignment explanation
Indices: 53796994--53797140 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 42
53796984 TTTTACTTTA
* * * * *
53796994 TGTTTAGCTCTTATGAGCTTCTATTTAACTCATACGAGTTTT
1 TGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTACGAGTTTC
*
53797036 TGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTACGAGTTTC
* * *
53797078 TGTTCAGCTCTTACGAGCTTCTGTTCAGCT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTACGAGTTTC
*
53797118 TGTTCAACT-TT-CGAGCTTCTGTT
1 TGTTCAGCTCTTACGAGCTTCTGTT
53797141 AACGATGTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 12 0.13
39 2 0.02
40 14 0.15
41 2 0.02
42 64 0.68
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
TGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTACGAGTTTC
Found at i:53797115 original size:19 final size:21
Alignment explanation
Indices: 53796994--53797140 Score: 149
Period size: 21 Copynumber: 7.2 Consensus size: 21
53796984 TTTTACTTTA
* *
53796994 TGTTTAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* * * * * *
53797015 TATTTAACTCATACGAGTTTT
1 TGTTCAGCTCTTACGAGCTTC
53797036 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* * * *
53797057 TGTTTAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTC
53797078 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
53797099 TGTTCAGCT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
*
53797118 TGTTCAACT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
53797137 TGTT
1 TGTT
53797141 AACGATGTAC
Statistics
Matches: 105, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
19 30 0.29
20 2 0.02
21 73 0.70
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:53802689 original size:16 final size:16
Alignment explanation
Indices: 53802668--53802755 Score: 113
Period size: 16 Copynumber: 5.5 Consensus size: 16
53802658 TGAATTACTG
*
53802668 ATTACAACTCTATTTC
1 ATTACAACTCTATTCC
* *
53802684 ATTACAGCTTTATTCC
1 ATTACAACTCTATTCC
*
53802700 ATTACAACTCTATTTC
1 ATTACAACTCTATTCC
* *
53802716 ATTACAGCTTTATTCC
1 ATTACAACTCTATTCC
*
53802732 ATTACAATTCTATTCC
1 ATTACAACTCTATTCC
53802748 ATTACAAC
1 ATTACAAC
53802756 ATTATTTCAT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.42
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:53802746 original size:48 final size:48
Alignment explanation
Indices: 53802668--53802766 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
53802658 TGAATTACTG
* *
53802668 ATTACAACTCTATTTCATTACAGCTTTATTCCATTACAAC-TCTATTTC
1 ATTACAACTCTATTCCATTACAGATTTATTCCATTACAACAT-TATTTC
* *
53802716 ATTACAGCTTTATTCCATTACA-ATTCTATTCCATTACAACATTATTTC
1 ATTACAACTCTATTCCATTACAGATT-TATTCCATTACAACATTATTTC
53802764 ATT
1 ATT
53802767 CCAATGAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 2 0.04
48 42 0.93
49 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.44
Consensus pattern (48 bp):
ATTACAACTCTATTCCATTACAGATTTATTCCATTACAACATTATTTC
Found at i:53802761 original size:32 final size:32
Alignment explanation
Indices: 53802668--53802753 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
53802658 TGAATTACTG
53802668 ATTACAACTCTATTTCATTACAGCTTTATTCC
1 ATTACAACTCTATTTCATTACAGCTTTATTCC
53802700 ATTACAACTCTATTTCATTACAGCTTTATTCC
1 ATTACAACTCTATTTCATTACAGCTTTATTCC
* *
53802732 ATTACAATTCTATTCCATTACA
1 ATTACAACTCTATTTCATTACA
53802754 ACATTATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.43
Consensus pattern (32 bp):
ATTACAACTCTATTTCATTACAGCTTTATTCC
Found at i:53811416 original size:13 final size:13
Alignment explanation
Indices: 53811398--53811429 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
53811388 GGCTTAACAT
53811398 TCTGCATATTGAA
1 TCTGCATATTGAA
53811411 TCTGCATATTGAA
1 TCTGCATATTGAA
53811424 TCTGCA
1 TCTGCA
53811430 AAGAACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (13 bp):
TCTGCATATTGAA
Found at i:53815148 original size:69 final size:69
Alignment explanation
Indices: 53815035--53815163 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
53815025 AATTCTAACA
* * * *
53815035 GTTGTTATATCAAAATATTACAAAATCAAAGTTAATGATTTGGAATCGAACATAAAAGAATTCTT
1 GTTGTTAAATCAAAATATTACAAAATCAAAGTTAACGATGTGGAATCGAAAATAAAAGAATTCTT
53815100 AAAT
66 AAAT
* *
53815104 GTTGTTAAATCAAAATGTTACAAAATCAAAGTTAACGATGTGGAATTGAAAATAAAAGAA
1 GTTGTTAAATCAAAATATTACAAAATCAAAGTTAACGATGTGGAATCGAAAATAAAAGAA
53815164 AGAAAAAGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (69 bp):
GTTGTTAAATCAAAATATTACAAAATCAAAGTTAACGATGTGGAATCGAAAATAAAAGAATTCTT
AAAT
Found at i:53815577 original size:16 final size:17
Alignment explanation
Indices: 53815556--53815601 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
53815546 AATCATTAAG
53815556 AAAATT-TTAAAGAGAT
1 AAAATTATTAAAGAGAT
*
53815572 AAAATTAGTTTAAGAGAT
1 AAAATTA-TTAAAGAGAT
*
53815590 AAAAGTATTAAA
1 AAAATTATTAAA
53815602 TTGAGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (17 bp):
AAAATTATTAAAGAGAT
Found at i:53825488 original size:30 final size:31
Alignment explanation
Indices: 53825452--53825515 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
53825442 ATTAGTCATC
*
53825452 ATTGGAAA-ATTAAATAA-AGAAA-ATGACTAA
1 ATTGGAAAGATGAAATAATA-AAAGATGA-TAA
53825482 ATTGGAAAGATGAAATAATAAAAGATGATAA
1 ATTGGAAAGATGAAATAATAAAAGATGATAA
53825513 ATT
1 ATT
53825516 AATTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 17 0.57
32 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.25
Consensus pattern (31 bp):
ATTGGAAAGATGAAATAATAAAAGATGATAA
Found at i:53826476 original size:25 final size:26
Alignment explanation
Indices: 53826412--53826575 Score: 89
Period size: 24 Copynumber: 6.7 Consensus size: 26
53826402 CTGATATCTA
* *
53826412 GCTCTC-ACGAGCTTCCC-ATTTATG
1 GCTCTCTATGAGCTTCCCGATTAATG
* * *
53826436 GTTCT-TGTGACCTTCCCGATTAATG
1 GCTCTCTATGAGCTTCCCGATTAATG
* **
53826461 ACTCTCT-TGAGCTTCCCG-TTTGTG
1 GCTCTCTATGAGCTTCCCGATTAATG
*
53826485 GCTCT-TATGAGCTTCCTGATTAATG
1 GCTCTCTATGAGCTTCCCGATTAATG
** ** *
53826510 GCTCTC-CGGAGCTTTTCGA-TATTG
1 GCTCTCTATGAGCTTCCCGATTAATG
* * *
53826534 GCTCGCT-TGAACTTCCTGATT-ATG
1 GCTCTCTATGAGCTTCCCGATTAATG
*
53826558 GCTCT-TATGAGTTTCCCG
1 GCTCTCTATGAGCTTCCCG
53826576 CTATACAGCT
Statistics
Matches: 100, Mismatches: 31, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
23 2 0.02
24 60 0.60
25 37 0.37
26 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (26 bp):
GCTCTCTATGAGCTTCCCGATTAATG
Found at i:53826500 original size:49 final size:49
Alignment explanation
Indices: 53826420--53826515 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
53826410 TAGCTCTCAC
* *
53826420 GAGCTTCCCATTTATGGTTCTTGTGACCTTCCCGATTAATGACTCTCTT
1 GAGCTTCCCATTTATGGCTCTTATGACCTTCCCGATTAATGACTCTCTT
* * * * *
53826469 GAGCTTCCCGTTTGTGGCTCTTATGAGCTTCCTGATTAATGGCTCTC
1 GAGCTTCCCATTTATGGCTCTTATGACCTTCCCGATTAATGACTCTC
53826516 CGGAGCTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.40
Consensus pattern (49 bp):
GAGCTTCCCATTTATGGCTCTTATGACCTTCCCGATTAATGACTCTCTT
Found at i:53826522 original size:49 final size:48
Alignment explanation
Indices: 53826412--53826523 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 48
53826402 CTGATATCTA
* *
53826412 GCTCTCACGAGCTTCCCATTTATGGTTCTTGTGACCTTCCCGATTAATG
1 GCTCTC-CGAGCTTCCCATTTATGGCTCTTATGACCTTCCCGATTAATG
* * * * * *
53826461 ACTCTCTTGAGCTTCCCGTTTGTGGCTCTTATGAGCTTCCTGATTAATG
1 GCTCTC-CGAGCTTCCCATTTATGGCTCTTATGACCTTCCCGATTAATG
53826510 GCTCTCCGGAGCTT
1 GCTCTCC-GAGCTT
53826524 TTCGATATTG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.38
Consensus pattern (48 bp):
GCTCTCCGAGCTTCCCATTTATGGCTCTTATGACCTTCCCGATTAATG
Found at i:53826669 original size:25 final size:25
Alignment explanation
Indices: 53826605--53826669 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
53826595 TTCTCATTAC
*
53826605 ATGGCTCACATGAGCTTCCCGTTAT
1 ATGGCTCACATGAGCTACCCGTTAT
* * *
53826630 ATGGCTCAAAAGAGCTACCCATTTAT
1 ATGGCTCACATGAGCTACCC-GTTAT
53826656 AT-GCTCACATGAGC
1 ATGGCTCACATGAGC
53826670 ATTCCTGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 27 0.82
26 6 0.18
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (25 bp):
ATGGCTCACATGAGCTACCCGTTAT
Found at i:53835064 original size:49 final size:49
Alignment explanation
Indices: 53835011--53835105 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
53835001 CCCGTTTGTG
* * * *
53835011 GCTCTTATGAGCTT-TTTATTAATTGGCTCTCCGAAGCTTTTCGATAACT
1 GCTCTTATGAACTTCCTAATTAA-TGGCTCTCCGAAGCTTTCCGATAACT
*
53835060 GCTCTTATGAACTTCCTAATTAATGGCTCTCCGGAGCTTTCCGATA
1 GCTCTTATGAACTTCCTAATTAATGGCTCTCCGAAGCTTTCCGATA
53835106 TTGGCTCGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 34 0.85
50 6 0.15
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (49 bp):
GCTCTTATGAACTTCCTAATTAATGGCTCTCCGAAGCTTTCCGATAACT
Found at i:53835120 original size:49 final size:49
Alignment explanation
Indices: 53835028--53835137 Score: 127
Period size: 49 Copynumber: 2.2 Consensus size: 49
53835018 TGAGCTTTTT
* *
53835028 ATTAATTGGCTCTCCGAAGCTTTTCGATAACTGCTCTTATGAACTTCCTA
1 ATTAA-TGGCTCTCCGAAGCTTTCCGATAACTGCTCCTATGAACTTCCTA
* * *
53835078 ATTAATGGCTCTCCGGAGCTTTCCGAT-ATTGGCTCGCT-TGAACTTCCTG
1 ATTAATGGCTCTCCGAAGCTTTCCGATAACT-GCTC-CTATGAACTTCCTA
53835127 ATT-ATGGCTCT
1 ATTAATGGCTCT
53835138 AATGAGCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
48 10 0.19
49 37 0.70
50 6 0.11
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (49 bp):
ATTAATGGCTCTCCGAAGCTTTCCGATAACTGCTCCTATGAACTTCCTA
Found at i:53841791 original size:6 final size:7
Alignment explanation
Indices: 53841771--53841795 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53841761 AAAAATTTTG
53841771 AATAAAA
1 AATAAAA
53841778 AATAAAA
1 AATAAAA
53841785 AATAAAA
1 AATAAAA
53841792 AATA
1 AATA
53841796 CATAGACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:53847240 original size:131 final size:132
Alignment explanation
Indices: 53846950--53847534 Score: 627
Period size: 132 Copynumber: 4.4 Consensus size: 132
53846940 TTTTATGAAT
* * * * ** * *
53846950 AATTTTATTTGAGTTAGCTGATCTTAGATCGTAACTCTGAACAGCTTGTTGATTTAATATCGCAG
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
*
53847015 CTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCAATTT-AGAATCATGA
66 TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCAATTTAAG-ATCATGA
53847079 ACA
130 ACA
* * * * *
53847082 AATTTTATTTAAGTTAGCTGATCTCATATTGCAACTCTGAACAACTCGTTGATTTAAGATCACAG
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
* * * * ** **
53847147 TTGATATTGTTAAAGTTCACTGATTTAA-ATCGTAACCTAAGTTCATTTGATTTAAGATTGTGAA
66 TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAA
53847211 CA
131 CA
* * * ** ** * *
53847213 AATTTTATTTGAGTTAGTTGATTTCATATCACAACTCCAAACAGTTCACTAATTTAAGATCGCAA
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
* * * * * * * *
53847278 ATGATATTGTTAATGTTTGCTGATTTAATATAGCAACCTAAGTTCATTCAATTTAAAATCGTGAA
66 TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAA
53847343 CA
131 CA
* * * * *
53847345 AATTTTAGTTAAGTTAGCTGATCTCGA-ATAGCAACTTTGAACAACTCATTGATTTAATATCGCA
1 AATTTTATTTGAGTTAGCTGATCTC-ATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCA
* * * * * * *
53847409 ATTGATATTATTAAGGCTCGTTGATTTAAGATCACAAAACTAATTTCATTCGATTTAAGATTATG
65 ATTGATATTGTTAAGGCTCGCTGATTTAAGATCGC-AACCTAAGTTCATTCAATTTAAGATCATG
53847474 AACA
129 AACA
* * * *
53847478 AATTTTATTTGAGTTAGTTGATCTCATATCGCAACTATGAACAACTCTTTGGTTTAA
1 AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAA
53847535 AATTGCAGCT
Statistics
Matches: 370, Mismatches: 78, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
131 105 0.28
132 189 0.51
133 76 0.21
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (132 bp):
AATTTTATTTGAGTTAGCTGATCTCATATCGCAACTCTGAACAACTCATTGATTTAAGATCGCAA
TTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCAATTTAAGATCATGAA
CA
Found at i:53847417 original size:263 final size:265
Alignment explanation
Indices: 53847001--53847513 Score: 726
Period size: 263 Copynumber: 1.9 Consensus size: 265
53846991 CAGCTTGTTG
* ** *
53847001 ATTTAATATCGCAGCTGATATTGTTAAGGCTCGCTGATTTAAGATCGCAACCTAAGTTCATTCAA
1 ATTTAAGATCGCAAATGATATTGTTAAGGCTCGCTGATTTAAGATAGCAACCTAAGTTCATTCAA
* * * *
53847066 TTTAGAATCATGAACAAATTTTATTTAAGTTAGCTGATCTCATATTGCAACTCTGAACAACTCGT
66 TTTAAAATCATGAACAAATTTTAGTTAAGTTAGCTGATCTCATATAGCAACTCTGAACAACTCAT
* * * ** *
53847131 TGATTTAAGATCACAGTTGATATTGTTAAAGTTCACTGATTTAA-ATC-GTAACCTAAGTTCATT
131 TGATTTAAGATCACAATTGATATTATTAAAGCTCACTGATTTAAGATCACAAAACTAAGTTCATT
* * *
53847194 TGATTTAAGATTGTGAACAAATTTTATTTGAGTTAGTTGATTTCATATCACAACTCCAAACAGTT
196 CGATTTAAGATTATGAACAAATTTTATTTGAGTTAGTTGATCTCATATCACAACTCCAAACAGTT
53847259 CACTA
261 CACTA
* * * *
53847264 ATTTAAGATCGCAAATGATATTGTTAATGTTTGCTGATTTAATATAGCAACCTAAGTTCATTCAA
1 ATTTAAGATCGCAAATGATATTGTTAAGGCTCGCTGATTTAAGATAGCAACCTAAGTTCATTCAA
* *
53847329 TTTAAAATCGTGAACAAATTTTAGTTAAGTTAGCTGATCTCGA-ATAGCAACTTTGAACAACTCA
66 TTTAAAATCATGAACAAATTTTAGTTAAGTTAGCTGATCTC-ATATAGCAACTCTGAACAACTCA
* * * ** *
53847393 TTGATTTAATATCGCAATTGATATTATTAAGGCTCGTTGATTTAAGATCACAAAACTAATTTCAT
130 TTGATTTAAGATCACAATTGATATTATTAAAGCTCACTGATTTAAGATCACAAAACTAAGTTCAT
*
53847458 TCGATTTAAGATTATGAACAAATTTTATTTGAGTTAGTTGATCTCATATCGCAACT
195 TCGATTTAAGATTATGAACAAATTTTATTTGAGTTAGTTGATCTCATATCACAACT
53847514 ATGAACAACT
Statistics
Matches: 217, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
263 150 0.69
264 4 0.02
265 63 0.29
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (265 bp):
ATTTAAGATCGCAAATGATATTGTTAAGGCTCGCTGATTTAAGATAGCAACCTAAGTTCATTCAA
TTTAAAATCATGAACAAATTTTAGTTAAGTTAGCTGATCTCATATAGCAACTCTGAACAACTCAT
TGATTTAAGATCACAATTGATATTATTAAAGCTCACTGATTTAAGATCACAAAACTAAGTTCATT
CGATTTAAGATTATGAACAAATTTTATTTGAGTTAGTTGATCTCATATCACAACTCCAAACAGTT
CACTA
Found at i:53850848 original size:14 final size:14
Alignment explanation
Indices: 53850829--53850868 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
53850819 TTGATTGCCA
53850829 GTAAAATATTTTCC
1 GTAAAATATTTTCC
* *
53850843 GTAAAATAATTTCT
1 GTAAAATATTTTCC
*
53850857 GAAAAATATTTT
1 GTAAAATATTTT
53850869 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (14 bp):
GTAAAATATTTTCC
Found at i:53850881 original size:34 final size:35
Alignment explanation
Indices: 53850837--53850903 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
53850827 CAGTAAAATA
53850837 TTTTCCGTAAAATAATTT-CT-GAAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACTAG-AAAATATTTTAC
* *
53850871 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
53850904 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.55
35 12 0.41
36 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:53851086 original size:22 final size:24
Alignment explanation
Indices: 53851061--53851111 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
53851051 TTATTTATAA
53851061 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
53851081 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
53851107 ATAAA
1 ATAAA
53851112 AGCATTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:53856550 original size:21 final size:23
Alignment explanation
Indices: 53856507--53856551 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
53856497 AACTGACATG
53856507 TAAATAATACATGTTAGAAATCA
1 TAAATAATACATGTTAGAAATCA
53856530 TAAA-AATACATGTTA-AAATCA
1 TAAATAATACATGTTAGAAATCA
53856551 T
1 T
53856552 GTTTTTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (23 bp):
TAAATAATACATGTTAGAAATCA
Found at i:53859265 original size:16 final size:17
Alignment explanation
Indices: 53859240--53859276 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
53859230 CCAAATATAA
53859240 TAAATATTTTT-ATTTT
1 TAAATATTTTTAATTTT
*
53859256 TAAATTTTTTTAATTTT
1 TAAATATTTTTAATTTT
53859273 TAAA
1 TAAA
53859277 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TAAATATTTTTAATTTT
Found at i:53868254 original size:13 final size:13
Alignment explanation
Indices: 53868236--53868262 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53868226 TGACAGTTGG
53868236 ATCTAAATTTTAA
1 ATCTAAATTTTAA
53868249 ATCTAAATTTTAA
1 ATCTAAATTTTAA
53868262 A
1 A
53868263 ATTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATCTAAATTTTAA
Found at i:53875631 original size:24 final size:24
Alignment explanation
Indices: 53875599--53875657 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
53875589 TATAATATAA
53875599 TTTTTATAAATTCTATAAAAATAT
1 TTTTTATAAATTCTATAAAAATAT
* *
53875623 TTTTTATAATTTGTATAAAAATAT
1 TTTTTATAAATTCTATAAAAATAT
53875647 TTTTTA-AAATT
1 TTTTTATAAATT
53875658 TAATTTGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTTATAAATTCTATAAAAATAT
Found at i:53877486 original size:26 final size:28
Alignment explanation
Indices: 53877428--53877489 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 28
53877418 AATTGAACCA
*
53877428 TCCATCAAAATACAAACATCAATAAAGTG
1 TCCATCAAAATACAAACA-CAATAAACTG
*
53877457 TCCATCAAAATAC-AACA-ATTAAACTG
1 TCCATCAAAATACAAACACAATAAACTG
53877483 TCCATCA
1 TCCATCA
53877490 TCAAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.45
28 4 0.13
29 13 0.42
ACGTcount: A:0.48, C:0.24, G:0.05, T:0.23
Consensus pattern (28 bp):
TCCATCAAAATACAAACACAATAAACTG
Found at i:53878041 original size:24 final size:24
Alignment explanation
Indices: 53877996--53878041 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
53877986 CAACAATTTG
* *
53877996 AGAATGAGCTGGTGGAGCATGATC
1 AGAAGGAGCTGGTGGAACATGATC
*
53878020 AGAAGGAGCTGGTGGAATATGA
1 AGAAGGAGCTGGTGGAACATGA
53878042 GTTGTTGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.39, T:0.20
Consensus pattern (24 bp):
AGAAGGAGCTGGTGGAACATGATC
Found at i:53880288 original size:37 final size:37
Alignment explanation
Indices: 53880244--53880316 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
53880234 CATCAACAAC
*
53880244 AAAAAAAACCTAATAGTTTTCTTTTAGATGAAGAATA
1 AAAAAAAACCTAATAGTTTTCTTTTAAATGAAGAATA
*
53880281 AAAAAAAACTTAATAGTTTTCTTTTAAATGAAGAAT
1 AAAAAAAACCTAATAGTTTTCTTTTAAATGAAGAAT
53880317 TGTTCAGACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (37 bp):
AAAAAAAACCTAATAGTTTTCTTTTAAATGAAGAATA
Found at i:53884831 original size:19 final size:20
Alignment explanation
Indices: 53884793--53884833 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
53884783 ACATTTAGTT
*
53884793 GTATTTTATGACATTTCATTA
1 GTATTTTAT-ACATTGCATTA
53884814 GTATTTTAT-CATTGCATTA
1 GTATTTTATACATTGCATTA
53884833 G
1 G
53884834 GAGCTTGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (20 bp):
GTATTTTATACATTGCATTA
Found at i:53887862 original size:26 final size:26
Alignment explanation
Indices: 53887803--53887885 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
53887793 TAGTTCAAGC
*
53887803 GAGCCAAT-ATCAGGAAGCTC-CGAA
1 GAGCCATTAATCAGGAAGCTCACGAA
* *
53887827 GAGGCATTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACGAA
* *
53887853 GAGCCTTTAATCGGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACGAA
53887879 GAGCCAT
1 GAGCCAT
53887886 ATAACGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 6 0.12
25 12 0.24
26 31 0.63
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACGAA
Found at i:53887893 original size:26 final size:26
Alignment explanation
Indices: 53887815--53887900 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
53887805 GCCAATATCA
* *
53887815 GGAAGCTC-CGAAGAGGCATTAATCA
1 GGAAGCTCACGAAGAGCCATTAATCG
* *
53887840 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACGAAGAGCCATTAATCG
53887866 GGAAGCTCACGAAGAGCCATATAA-CG
1 GGAAGCTCACGAAGAGCCAT-TAATCG
*
53887892 GGATGCTCA
1 GGAAGCTCA
53887901 TAAGAGCTGC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 8 0.15
26 41 0.79
27 3 0.06
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACGAAGAGCCATTAATCG
Found at i:53889006 original size:26 final size:26
Alignment explanation
Indices: 53888972--53889025 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
53888962 CATTATAATT
53888972 ATCTACTAACTCCATTAAATGGTCTA
1 ATCTACTAACTCCATTAAATGGTCTA
53888998 ATCTACTAACTCCATTAAATGGTCTA
1 ATCTACTAACTCCATTAAATGGTCTA
53889024 AT
1 AT
53889026 TGCCATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.35
Consensus pattern (26 bp):
ATCTACTAACTCCATTAAATGGTCTA
Found at i:53890846 original size:24 final size:24
Alignment explanation
Indices: 53890819--53890867 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53890809 CTTTTGGAGA
53890819 GTTGAAAAGGTTTAGAGAATTTTG
1 GTTGAAAAGGTTTAGAGAATTTTG
53890843 GTTGAAAAGGTTTAGAGAATTTTG
1 GTTGAAAAGGTTTAGAGAATTTTG
53890867 G
1 G
53890868 GTGGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.37
Consensus pattern (24 bp):
GTTGAAAAGGTTTAGAGAATTTTG
Found at i:53892711 original size:15 final size:15
Alignment explanation
Indices: 53892678--53892712 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
53892668 TAAAGGTTAT
* *
53892678 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
53892693 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
53892708 AATAA
1 AATAA
53892713 AGAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:53903266 original size:12 final size:12
Alignment explanation
Indices: 53903229--53903267 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
53903219 TGAGGAGGTG
*
53903229 GGGGTACCATAA
1 GGGGTACAATAA
*
53903241 GAGGTACAATAA
1 GGGGTACAATAA
*
53903253 GGGGTACTATAA
1 GGGGTACAATAA
53903265 GGG
1 GGG
53903268 ATGGAGGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.18
Consensus pattern (12 bp):
GGGGTACAATAA
Found at i:53909162 original size:18 final size:18
Alignment explanation
Indices: 53909129--53909163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53909119 AAGATTAAGA
* *
53909129 TGGAGGTGGAGGTGGAGG
1 TGGAGGTGAAGATGGAGG
53909147 TGGAGGTGAAGATGGAG
1 TGGAGGTGAAGATGGAG
53909164 ATGAAGAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.60, T:0.17
Consensus pattern (18 bp):
TGGAGGTGAAGATGGAGG
Found at i:53909166 original size:6 final size:6
Alignment explanation
Indices: 53909129--53909154 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
53909119 AAGATTAAGA
53909129 TGGAGG TGGAGG TGGAGG TGGAGG TG
1 TGGAGG TGGAGG TGGAGG TGGAGG TG
53909155 AAGATGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.65, T:0.19
Consensus pattern (6 bp):
TGGAGG
Found at i:53909507 original size:73 final size:71
Alignment explanation
Indices: 53909383--53909655 Score: 255
Period size: 75 Copynumber: 3.7 Consensus size: 71
53909373 AAAAAAGTTT
* *
53909383 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACAAAAAAAATTAAAAATT-ATT
1 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTAC--GAAAAATTAAAAATTGTTT
53909447 ATTATTATA
64 A-TATTATA
* *
53909456 TTCTATTGTTTTTTATATCAATAATATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACG-AAAAATT-AAAAATTGT
*
53909521 TTGTATTATA
62 TTATATTATA
* *** * **
53909531 TTGTATCACATGTCTT-C-TCAATAATATGCTTATTTACAATCTACGAAAAACGAAAAAAATTGT
1 TTCTATTGTAT-T-TTACATCAATAATATACTTATTTACAATCTACGAAAAA--TTAAAAATTGT
* * *
53909594 TTACATTGTT
62 TTATATTATA
* *
53909604 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATTTACCAAAAA
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAA
53909656 ATGAGAAGCA
Statistics
Matches: 162, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
71 2 0.01
72 7 0.04
73 68 0.42
74 10 0.06
75 70 0.43
76 3 0.02
77 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (71 bp):
TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAATTAAAAATTGTTTAT
ATTATA
Found at i:53909516 original size:75 final size:73
Alignment explanation
Indices: 53909383--53909657 Score: 288
Period size: 73 Copynumber: 3.7 Consensus size: 73
53909373 AAAAAAGTTT
* *
53909383 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACAAAAAAAATT-AAAAATT-AT
1 TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTAC-GAAAAAATTAAAAAATTGTT
53909446 TATTATTATA
65 TA-TATTATA
* *
53909456 TTCTATTGTTTTTTATATCAATAATATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
*
53909521 TTGTATTATA
64 TTATATTATA
* *** * ***
53909531 TTGTATCACATGTCTT-C-TCAATAATATGCTTATTTACAATCTACGAAAAACGAAAAAAATTGT
1 TTCTATTGTAT-T-TTACATCAATAATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGT
* * *
53909594 TTACATTGTT
64 TTATATTATA
* *
53909604 TTCTATTGTATTTTACATCAATAATATATACTTATTTACAATTTACCAAAAAAT
1 TTCTATTGTATTTTACATCAAT-A-ATATACTTATTTACAATCTACGAAAAAAT
53909658 GAGAAGCAAT
Statistics
Matches: 164, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
71 2 0.01
72 2 0.01
73 74 0.45
74 11 0.07
75 70 0.43
76 3 0.02
77 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (73 bp):
TTCTATTGTATTTTACATCAATAATATACTTATTTACAATCTACGAAAAAATTAAAAAATTGTTT
ATATTATA
Found at i:53921138 original size:49 final size:49
Alignment explanation
Indices: 53921051--53921150 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
53921041 AGGGGCTTGA
*
53921051 TTATACTTGAACTCGTGATCGCATAACCACCATCAACTGGGAGCCCTAG
1 TTATACTTGAACTCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
* *** *
53921100 TTATACTTGAA-TCCGTGATCGTATAACCATTTTGAACTGGGAGCCCAAG
1 TTATACTTGAACT-CGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
53921149 TT
1 TT
53921151 GCAATGCGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
TTATACTTGAACTCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
Found at i:53927477 original size:18 final size:18
Alignment explanation
Indices: 53927454--53927498 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
53927444 GCCAATATGT
* * *
53927454 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
53927472 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
53927490 GGCCCAATA
1 GGCCCAATA
53927499 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:53927684 original size:18 final size:17
Alignment explanation
Indices: 53927661--53927706 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
53927651 AGCATACCAC
*
53927661 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
53927679 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
53927697 TTCTGACCAC
1 TTTTGACCAC
53927707 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:53927738 original size:21 final size:21
Alignment explanation
Indices: 53927689--53927748 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
53927679 TTTTGACCAG
* *
53927689 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
53927710 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
53927731 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
53927749 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:53929663 original size:13 final size:13
Alignment explanation
Indices: 53929645--53929671 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53929635 TGTCATATAT
53929645 TTAATTTTTTAAA
1 TTAATTTTTTAAA
53929658 TTAATTTTTTAAA
1 TTAATTTTTTAAA
53929671 T
1 T
53929672 ATTTTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTAATTTTTTAAA
Found at i:53936048 original size:106 final size:106
Alignment explanation
Indices: 53935863--53936063 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
53935853 AAGCTTTAAG
*
53935863 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAATCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
53935928 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
53935969 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
53936034 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
53936064 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:53936584 original size:38 final size:38
Alignment explanation
Indices: 53936525--53936630 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
53936515 TATTTTTAAG
*
53936525 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
53936562 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
53936600 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
53936631 TACATATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:53936965 original size:22 final size:23
Alignment explanation
Indices: 53936909--53936965 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
53936899 AGTTTAAAAT
53936909 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
53936932 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
53936953 AAAATATATAAAA
1 AAAATATATAAAA
53936966 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:53937694 original size:13 final size:13
Alignment explanation
Indices: 53937678--53937702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53937668 AAATGCGTAG
53937678 ATAAATAAATGAA
1 ATAAATAAATGAA
53937691 ATAAATAAATGA
1 ATAAATAAATGA
53937703 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:53939545 original size:21 final size:21
Alignment explanation
Indices: 53939507--53939546 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53939497 TTAAACTGGA
* * *
53939507 AAATAACAACATTTAATTTTT
1 AAATAAAAAAATTAAATTTTT
53939528 AAATAAAAAAATTAAATTT
1 AAATAAAAAAATTAAATTT
53939547 CAAACTTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAAAAAAATTAAATTTTT
Found at i:53943528 original size:22 final size:22
Alignment explanation
Indices: 53943503--53943555 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
53943493 CAATCCTCTT
* * * *
53943503 TCAATTTTCTCCTATTTTTCTC
1 TCAATTTTCTCATAATTCTCGC
*
53943525 TCAATTCTCTCATAATTCTCGC
1 TCAATTTTCTCATAATTCTCGC
53943547 TCAATTTTC
1 TCAATTTTC
53943556 AATCCTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (22 bp):
TCAATTTTCTCATAATTCTCGC
Found at i:53943535 original size:11 final size:11
Alignment explanation
Indices: 53943460--53943552 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
53943450 CATTTCCTTT
*
53943460 TCAATTCACTC
1 TCAATTCTCTC
* *
53943471 TTACTTCTCTC
1 TCAATTCTCTC
53943482 T-AATTCAT-TC
1 TCAATTC-TCTC
* *
53943492 TCAATCCTCTT
1 TCAATTCTCTC
*
53943503 TCAATTTTCTC
1 TCAATTCTCTC
* *
53943514 -CTATTTTTCTC
1 TC-AATTCTCTC
53943525 TCAATTCTCTC
1 TCAATTCTCTC
*
53943536 AT-AATTCTCGC
1 -TCAATTCTCTC
53943547 TCAATT
1 TCAATT
53943553 TTCAATCCTC
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
10 10 0.16
11 50 0.81
12 2 0.03
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:53943618 original size:26 final size:24
Alignment explanation
Indices: 53943573--53943632 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
53943563 TTTCAACTCT
53943573 CATTTTTTTATTAAAATTGTATTAA
1 CATTTTTTTATTAAAATTGT-TTAA
** *
53943598 CATTTTTTTAATTAATTTTGTTTTA
1 CATTTTTTT-ATTAAAATTGTTTAA
53943623 CGATTTTTTT
1 C-ATTTTTTT
53943633 CGTATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (24 bp):
CATTTTTTTATTAAAATTGTTTAA
Found at i:53944229 original size:15 final size:16
Alignment explanation
Indices: 53944203--53944238 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
53944193 TGGAGTGGGG
*
53944203 ATTTAGTTTATTTTTT
1 ATTTAGTTTATTTTTA
53944219 ATTTA-TTTATTTTTA
1 ATTTAGTTTATTTTTA
53944234 ATTTA
1 ATTTA
53944239 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTTAGTTTATTTTTA
Found at i:53949791 original size:3 final size:3
Alignment explanation
Indices: 53949785--53949817 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
53949775 GTTGTTGTTT
53949785 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
53949818 GGATTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:53953835 original size:20 final size:20
Alignment explanation
Indices: 53953770--53953835 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
53953760 CTTATCTTGT
53953770 TAGCACTACGGTGCTCCTGA
1 TAGCACTACGGTGCTCCTGA
* * * * *
53953790 TAGTACTTTC-GTACTCTTGT
1 TAGCAC-TACGGTGCTCCTGA
53953810 TAGCACTACGGTGCTCCTGA
1 TAGCACTACGGTGCTCCTGA
53953830 TAGCAC
1 TAGCAC
53953836 ATTTCTCCTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (20 bp):
TAGCACTACGGTGCTCCTGA
Found at i:53953862 original size:37 final size:41
Alignment explanation
Indices: 53953764--53953876 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 41
53953754 TGTGCACTTA
*
53953764 TCTTGTTAGCACTACGGTGCTCCTGATAGTAC-TTTCGTAC
1 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTCGTAC
53953804 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTC-T-C
1 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTCGTAC
* * *
53953843 -CTT-TTTGCACTACGGTGCTCCTAATTGCACATTT
1 TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTT
53953877 GTGCCCTATT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
37 28 0.41
38 3 0.04
39 1 0.01
40 32 0.47
41 4 0.06
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (41 bp):
TCTTGTTAGCACTACGGTGCTCCTGATAGCACATTTCGTAC
Found at i:53953922 original size:19 final size:18
Alignment explanation
Indices: 53953898--53953978 Score: 81
Period size: 20 Copynumber: 4.2 Consensus size: 18
53953888 TATAATTCAC
53953898 TGCCCTGTTTGCACTTCGG
1 TGCCCTGTTTGCACTT-GG
53953917 TGCCCTGTTTGCACTTTGG
1 TGCCCTGTTTGCAC-TTGG
* * *
53953936 TGCTTCTGTATGCACATTTG
1 TGC-CCTGTTTGCAC-TTGG
53953956 TGCCCTGTTTAGCACCTTGG
1 TGCCCTGTTT-GCA-CTTGG
53953976 TGC
1 TGC
53953979 TCCTTGATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 24 0.47
20 26 0.51
21 1 0.02
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.40
Consensus pattern (18 bp):
TGCCCTGTTTGCACTTGG
Found at i:53953949 original size:20 final size:19
Alignment explanation
Indices: 53953898--53953978 Score: 92
Period size: 19 Copynumber: 4.2 Consensus size: 19
53953888 TATAATTCAC
*
53953898 TGCCCTGTTTGCACTTCGG
1 TGCCCTGTTTGCACTTTGG
53953917 TGCCCTGTTTGCACTTTGG
1 TGCCCTGTTTGCACTTTGG
* *
53953936 TGCTTCTGTATGCACATTT-G
1 TGC-CCTGTTTGCAC-TTTGG
*
53953956 TGCCCTGTTTAGCACCTTGG
1 TGCCCTGTTT-GCACTTTGG
53953976 TGC
1 TGC
53953979 TCCTTGATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
19 28 0.54
20 21 0.40
21 3 0.06
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.40
Consensus pattern (19 bp):
TGCCCTGTTTGCACTTTGG
Found at i:53953950 original size:39 final size:40
Alignment explanation
Indices: 53953902--53953979 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
53953892 ATTCACTGCC
* *
53953902 CTGTTTGCAC-TTCGGTGCCCTGTTT-GCACTTTGGTGCTT
1 CTGTATGCACATT-GGTGCCCTGTTTAGCACCTTGGTGCTT
*
53953941 CTGTATGCACATTTGTGCCCTGTTTAGCACCTTGGTGCT
1 CTGTATGCACATTGGTGCCCTGTTTAGCACCTTGGTGCT
53953980 CCTTGATACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (40 bp):
CTGTATGCACATTGGTGCCCTGTTTAGCACCTTGGTGCTT
Found at i:53959209 original size:49 final size:49
Alignment explanation
Indices: 53959122--53959221 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
53959112 AGGGGCTTGA
*
53959122 TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCTAG
1 TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
* * *** *
53959171 TTATACTTGAATCCGTGATCGTATAACCATTTTGAACTGGGAGCCCAAG
1 TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
53959220 TT
1 TT
53959222 GCAATGCGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
TTATACTTGAACCCGTGATCGCATAACCACCATCAACTGGGAGCCCAAG
Found at i:53962728 original size:13 final size:13
Alignment explanation
Indices: 53962710--53962736 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53962700 TGTCATATAT
53962710 TTAATTTTTTAAA
1 TTAATTTTTTAAA
53962723 TTAATTTTTTAAA
1 TTAATTTTTTAAA
53962736 T
1 T
53962737 ATTTTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTAATTTTTTAAA
Found at i:53969114 original size:106 final size:106
Alignment explanation
Indices: 53968929--53969129 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
53968919 AAGCTTTAAG
*
53968929 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAATCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
53968994 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
53969035 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
53969100 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
53969130 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:53969650 original size:38 final size:38
Alignment explanation
Indices: 53969591--53969696 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
53969581 TATTTTTAAG
*
53969591 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
53969628 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
53969666 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
53969697 TACATATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:53970031 original size:22 final size:23
Alignment explanation
Indices: 53969975--53970031 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
53969965 AGTTTAAAAT
53969975 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
53969998 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
53970019 AAAATATATAAAA
1 AAAATATATAAAA
53970032 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:53970760 original size:13 final size:13
Alignment explanation
Indices: 53970744--53970768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53970734 AAATGCGTAG
53970744 ATAAATAAATGAA
1 ATAAATAAATGAA
53970757 ATAAATAAATGA
1 ATAAATAAATGA
53970769 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:53972611 original size:21 final size:21
Alignment explanation
Indices: 53972573--53972612 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53972563 TTAAACTGGA
* * *
53972573 AAATAACAACATTTAATTTTT
1 AAATAAAAAAATTAAATTTTT
53972594 AAATAAAAAAATTAAATTT
1 AAATAAAAAAATTAAATTT
53972613 CAAACTTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAAAAAAATTAAATTTTT
Done.