Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 17 of 170
Found at i:4707930 original size:64 final size:63
Alignment explanation
Indices: 4707827--4708136 Score: 196
Period size: 64 Copynumber: 5.0 Consensus size: 63
4707817 TTAGTTAATG
* * * *
4707827 TATATTTGAGTTTTATAAGTTAAAAT-AAA-TTACAGAAATTCTATATATATTTAGCCGAATATA
1 TATATCTGAGTTTTGTAAGTT-GAATGAAATTTA-ATAAATTCTATATATATTTAGCCGAATATA
* * *
4707890 TATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTAC-ATATAT-GTTAGCCGAATGTA
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATT-CTATATATATTTAGCCGAATATA
* * * * * * * * *
4707953 TATATAT--GTTTTG-AATTTTATTAAAATGT-ATGAATTGTATATATATATGTGTTAGTC-AAT
1 TATATCTGAGTTTTGTAAGTTGAATGAAATTTAAT-AAAT-TCTATATATA--T-TTAGCCGAAT
*
4708013 GTA
61 ATA
* ** **
4708016 TAT-T-TGAGTTTTATAAGATAAAAT-AAATTGCATAAATTCTATATATATTTAGCCGAATATA
1 TATATCTGAGTTTTGTAAG-TTGAATGAAATTTAATAAATTCTATATATATTTAGCCGAATATA
* ** *
4708077 TATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGGATATAT-GTTAGCCGAAT
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTCTATATATATTTAGCCGAAT
4708137 GTATGTATTG
Statistics
Matches: 189, Mismatches: 37, Indels: 42
0.71 0.14 0.16
Matches are distributed among these distances:
58 2 0.01
59 14 0.07
60 18 0.10
61 10 0.05
62 3 0.02
63 62 0.33
64 71 0.38
65 9 0.05
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (63 bp):
TATATCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTCTATATATATTTAGCCGAATATA
Found at i:4707956 original size:63 final size:62
Alignment explanation
Indices: 4707871--4708140 Score: 189
Period size: 63 Copynumber: 4.3 Consensus size: 62
4707861 GAAATTCTAT
* *
4707871 ATATAT-TTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
1 ATATATGTTAGCCGAATGTATATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
* * * * * **
4707933 ATATATGTTAGCCGAATGTATATATAT--GTTTTG-AATTTTATTAAAATGTATGAATTGTATAT
1 ATATATGTTAGCCGAATGTATATATCTGAGTTTTGTAAGTTGAATGAAAT-T-T-AA-TAAAT-T
*
4707995 AT
61 AC
* * * ** **
4707997 ATATGTGTTAGTC-AATGTATAT-T-TGAGTTTTATAAGATAAAAT-AAATTGCATAAATT-C
1 ATATATGTTAGCCGAATGTATATATCTGAGTTTTGTAAG-TTGAATGAAATTTAATAAATTAC
* * * **
4708055 TATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGG
1 -ATATAT-GTTAGCCGAATGTATATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
4708120 ATATATGTTAGCCGAATGTAT
1 ATATATGTTAGCCGAATGTAT
4708141 GTATTGAATT
Statistics
Matches: 156, Mismatches: 34, Indels: 35
0.69 0.15 0.16
Matches are distributed among these distances:
59 16 0.10
60 15 0.10
61 11 0.07
62 11 0.07
63 52 0.33
64 48 0.31
65 3 0.02
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (62 bp):
ATATATGTTAGCCGAATGTATATATCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTAC
Found at i:4708022 original size:187 final size:188
Alignment explanation
Indices: 4707785--4708140 Score: 624
Period size: 187 Copynumber: 1.9 Consensus size: 188
4707775 AAGTTAAAAA
* *
4707785 TAAAATGTATGAATTGTATATATATATGTGTGTTAGTTAATGTATATTTGAGTTTTATAAGTTAA
1 TAAAATGTATGAATTGTATATATATA-GTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAA
*
4707850 AATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAA
65 AATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAA
4707915 TGAAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
130 TGAAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
4707974 TAAAATGTATGAATTGTATATATATA-TGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAA
1 TAAAATGTATGAATTGTATATATATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAA
* *
4708038 ATAAATTGCATAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAAT
66 ATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAAT
* **
4708103 GAAATTTAATGAATTGGATATATGTTAGCCGAATGTAT
131 GAAATTTAATAAATTACATATATGTTAGCCGAATGTAT
4708141 GTATTGAATT
Statistics
Matches: 159, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
187 133 0.84
189 26 0.16
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (188 bp):
TAAAATGTATGAATTGTATATATATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAA
ATAAATTACAGAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAAT
GAAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTAT
Found at i:4708516 original size:41 final size:41
Alignment explanation
Indices: 4708471--4708603 Score: 205
Period size: 41 Copynumber: 3.2 Consensus size: 41
4708461 GGCTCGATGC
4708471 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
4708512 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGATTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* * * *
4708553 CTAGCAGGCTTAAGGCCGGTGAAATGA-TTCGGACTTTAAGT
1 CTAGCAGGCTTAATGCCGGTG-AATTATTTCAGACTTTATGT
4708594 CTAGCAGGCT
1 CTAGCAGGCT
4708604 AAGTGTCGGT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
41 81 0.95
42 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
Found at i:4708614 original size:41 final size:42
Alignment explanation
Indices: 4708471--4708698 Score: 163
Period size: 41 Copynumber: 5.6 Consensus size: 42
4708461 GGCTCGATGC
* * *
4708471 CTAGCAGGCTTAA-TGCCGGTG-AATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAAGTGCCGGTGAAATGA-TTCGGACTTTAAGT
* * * *
4708512 CTAGCAGGCTTAA-TGCCGGTG-AATTATTTCAGATTTTATGT
1 CTAGCAGGCTTAAGTGCCGGTGAAATGA-TTCGGACTTTAAGT
4708553 CTAGCAGGCTTAAG-GCCGGTGAAATGATTCGGACTTTAAGT
1 CTAGCAGGCTTAAGTGCCGGTGAAATGATTCGGACTTTAAGT
* ** * **
4708594 CTAGCAGGC-TAAGTGTCGGTGATCTGAATCAGG--TTATAAAC
1 CTAGCAGGCTTAAGTGCCGGTGAAATGATTC-GGACTT-TAAGT
* ** * * *
4708635 CTAGCAGGC-TAAGTGCCAGTGATCTGAATCAGG-CTATAAGC
1 CTAGCAGGCTTAAGTGCCGGTGAAATGATTC-GGACTTTAAGT
4708676 CTAGCAGGC-TAAGTGCCGGTGAA
1 CTAGCAGGCTTAAGTGCCGGTGAA
4708699 TATGTTAAAT
Statistics
Matches: 164, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
40 6 0.04
41 151 0.92
42 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAAGTGCCGGTGAAATGATTCGGACTTTAAGT
Found at i:4708639 original size:82 final size:81
Alignment explanation
Indices: 4708470--4708697 Score: 205
Period size: 82 Copynumber: 2.8 Consensus size: 81
4708460 AGGCTCGATG
* * * *
4708470 CCTAGCAGGCTTAATGCCGGTG-AATTATTTCAGACTTTATGTCTAGCAGGCTTAA-TGCCGGTG
1 CCTAGCAGGCTTAAGGCCGGTGAAATGA-TTCGGACTTTAAGTCTAGCAGGC-TAAGTGCCGGTG
* * **
4708533 AATTATTTCAGATTTTATG
64 -ATTATATCAGATTATAAA
* *
4708552 TCTAGCAGGCTTAAGGCCGGTGAAATGATTCGGACTTTAAGTCTAGCAGGCTAAGTGTCGGTGAT
1 CCTAGCAGGCTTAAGGCCGGTGAAATGATTCGGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAT
*
4708617 CTGA-ATCAGGTTATAAA
66 -T-ATATCAGATTATAAA
* ** * * *
4708634 CCTAGCAGGC-TAAGTGCCAGTGATCTGAATCAGG-CTATAAGCCTAGCAGGCTAAGTGCCGGTG
1 CCTAGCAGGCTTAAG-GCCGGTGAAATGATTC-GGACTTTAAGTCTAGCAGGCTAAGTGCCGGTG
4708697 A
64 A
4708698 ATATGTTAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
81 9 0.07
82 105 0.87
83 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (81 bp):
CCTAGCAGGCTTAAGGCCGGTGAAATGATTCGGACTTTAAGTCTAGCAGGCTAAGTGCCGGTGAT
TATATCAGATTATAAA
Found at i:4713272 original size:170 final size:177
Alignment explanation
Indices: 4713064--4713399 Score: 494
Period size: 176 Copynumber: 1.9 Consensus size: 177
4713054 AATGATTTTG
*
4713064 TGAAGCTTAATAGTCGATTTTCTGTTCATCGGGTAGCAC-AAAATGTATTA-AT-TGAAAAAGCA
1 TGAAGCTTAATAGTCGATTTTCTGTTCATCGGGTAGCACAAAAATGTATAACATCTGAAAAAGCA
**
4713126 CATTGGTGGCAT-TATGAAATGTTACATTTCTGACTTTGTTTC-A-GTTT-ATATGTCAGCAAGT
66 CATTGGTGGCATGTATGAAATGAGACATTTCTGACTTTGTTTCAATGTTTAATATGTCAGCAAGT
4713187 AAAAGCT-G-ATTAGGTACCTTCTGGGTTGCAAATGATTTTGTTCAA
131 AAAAGCTAGCATTAGGTACCTTCTGGGTTGCAAATGATTTTGTTCAA
*
4713232 TGAAGCTCATAATAGTCG-TTTTCTGTTCATCCGGGTAGCACAAAAATGTATAACGATCTGAAAC
1 TGAAGCT--TAATAGTCGATTTTCTGTTCAT-CGGGTAGCACAAAAATGTATAAC-ATCTGAAAA
4713296 AGCACATTGGTGGCATGGTATGAAATGAGACATTTCTGACTTTGTTTCAAAATGTTTAATATGTC
62 AGCACATTGGTGGCAT-GTATGAAATGAGACATTTCTGACTTTGTTTC--AATGTTTAATATGTC
4713361 AGCAAGTAAAAGCTGAGCATTAGGTACCTTCTGGGTTGC
124 AGCAAGTAAAAGCT-AGCATTAGGTACCTTCTGGGTTGC
4713400 TTCAATGGAA
Statistics
Matches: 147, Mismatches: 4, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
168 7 0.05
169 12 0.08
170 19 0.13
171 10 0.07
173 2 0.01
174 21 0.14
176 28 0.19
179 1 0.01
180 4 0.03
181 21 0.14
183 1 0.01
184 21 0.14
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (177 bp):
TGAAGCTTAATAGTCGATTTTCTGTTCATCGGGTAGCACAAAAATGTATAACATCTGAAAAAGCA
CATTGGTGGCATGTATGAAATGAGACATTTCTGACTTTGTTTCAATGTTTAATATGTCAGCAAGT
AAAAGCTAGCATTAGGTACCTTCTGGGTTGCAAATGATTTTGTTCAA
Found at i:4714587 original size:13 final size:13
Alignment explanation
Indices: 4714571--4714598 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4714561 TTATGTGTGA
4714571 TTGTGTGAAAATT
1 TTGTGTGAAAATT
4714584 TTGTGTGAAAATT
1 TTGTGTGAAAATT
4714597 TT
1 TT
4714599 ATCGTTTGTT
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:4715808 original size:19 final size:19
Alignment explanation
Indices: 4715757--4715808 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
4715747 GTTAGCCGAA
*
4715757 TGTATATATATGTTTTGAAT
1 TGTATATATATG-TATGAAT
* *
4715777 TTTAT-TAAAATGTATGAAT
1 TGTATAT-ATATGTATGAAT
4715796 TGTATATATATGT
1 TGTATATATATGT
4715809 GTTAGTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (19 bp):
TGTATATATATGTATGAAT
Found at i:4715868 original size:184 final size:193
Alignment explanation
Indices: 4715548--4715945 Score: 625
Period size: 184 Copynumber: 2.1 Consensus size: 193
4715538 ATTTATAAAA
4715548 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAAAATAAATGTATGAATTGTATA
1 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTT--AATAAATGTATGAATTG-ATA
*
4715613 TATATATGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAATAAATTACAGAAATTCTA
63 TATATA-GTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAAATAAATTACAGAAATTCTA
*
4715678 TATATATCTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTACAT
127 TATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTACAT
4715743 AT
192 AT
4715745 ATGTTAGCCGAATGTATATATATGTTTTGAA-TTT-T-A-TT-A-AAATGTATGAATTG-TATAT
1 ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAATAAATGTATGAATTGATATAT
* *
4715803 ATA-TGTGTTAGTCAATGTATATTTGAG-TTTATAAGATAAAATAAATTGCATAAATTCTATATA
66 ATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAAATAAATTACAGAAATTCTATATA
* * **
4715866 TATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGGATAT
131 TATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTACATAT
4715929 ATGTTAGCCGAATGTAT
1 ATGTTAGCCGAATGTAT
4715946 GTATTGAATT
Statistics
Matches: 193, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
184 108 0.56
185 24 0.12
187 8 0.04
189 14 0.07
190 1 0.01
193 2 0.01
194 1 0.01
195 1 0.01
196 3 0.02
197 31 0.16
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (193 bp):
ATGTTAGCCGAATGTATATATATGTTTTGAATTTTATAAGTTAATAAATGTATGAATTGATATAT
ATAGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGATAAAATAAATTACAGAAATTCTATATA
TATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTACATAT
Found at i:4715886 original size:62 final size:62
Alignment explanation
Indices: 4715635--4715895 Score: 164
Period size: 63 Copynumber: 4.2 Consensus size: 62
4715625 TTAGTCAATG
* * * *
4715635 TATATTTGAGTTTTATAAGTTAAAATAAATTACAGAAATTCTATATATATCTAGCCGAATATA
1 TATATCTGAG-TTTATAAGTTAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
* * * ** * *
4715698 TATATGCTGGGTTTTGTAAGTT-GAATGAAATTTAATAAATTAC-ATATAT-GTTAGCCGAATGT
1 TATAT-CTGAG-TTTATAAGTTAAAAT-AAATTGCATAAATT-CTATATATATTTAGCCGAATAT
4715760 A
62 A
* ** * * * * * * *
4715761 TATATAT--GTTT-TGAA-TTTTATTAAAATGTATGAATTGTATATATATGTGTTAGTC-AATGT
1 TATATCTGAGTTTAT-AAGTTAAAATAAATTGCATAAATTCTATATATA--T-TTAGCCGAATAT
4715821 A
62 A
*
4715822 TAT-T-TGAGTTTATAAGATAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
1 TATATCTGAGTTTATAAGTTAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
4715882 TATATGCTGAGTTT
1 TATAT-CTGAGTTT
4715896 TGTAAGTTGA
Statistics
Matches: 150, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
58 19 0.13
59 13 0.09
60 11 0.07
61 16 0.11
62 29 0.19
63 31 0.21
64 30 0.20
65 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.43
Consensus pattern (62 bp):
TATATCTGAGTTTATAAGTTAAAATAAATTGCATAAATTCTATATATATTTAGCCGAATATA
Found at i:4715929 original size:62 final size:62
Alignment explanation
Indices: 4715635--4715941 Score: 188
Period size: 64 Copynumber: 5.0 Consensus size: 62
4715625 TTAGTCAATG
* * * * * *
4715635 TATATTTGAGTTTTATAAGTTAAAAT-AAA-TTACAGAAATTCTATATATATCTAGCCGAATATA
1 TATATCTGAGTTTTGTAAGTT-GAATGAAATTTA-ATAAATTATATATATGT-TAGCCGAATATA
* * *
4715698 TATATGCTGGGTTTTGTAAGTTGAATGAAATTTAATAAATTACATATATGTTAGCCGAATGTA
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTATATATATGTTAGCCGAATATA
* * * * * * * * *
4715761 TATATAT--GTTTTG-AATTTTATTAAAATGT-ATGAATTGTATATATATGTGTTAGTC-AATGT
1 TATATCTGAGTTTTGTAAGTTGAATGAAATTTAAT-AAAT-TATATATA--TGTTAGCCGAATAT
4715821 A
62 A
* ** **
4715822 TAT-T-TGAG-TTTATAAGATAAAAT-AAATTGCATAAATTCTATATATAT-TTAGCCGAATATA
1 TATATCTGAGTTTTGTAAG-TTGAATGAAATTTAATAAA-T-TATATATATGTTAGCCGAATATA
* **
4715882 TATATGCTGAGTTTTGTAAGTTGAATGAAATTTAATGAATTGGATATATGTTAGCCGAAT
1 TATAT-CTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTATATATATGTTAGCCGAAT
4715942 GTATGTATTG
Statistics
Matches: 187, Mismatches: 37, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
58 2 0.01
59 20 0.11
60 26 0.14
61 19 0.10
62 29 0.16
63 43 0.23
64 45 0.24
65 3 0.02
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (62 bp):
TATATCTGAGTTTTGTAAGTTGAATGAAATTTAATAAATTATATATATGTTAGCCGAATATA
Found at i:4716013 original size:184 final size:185
Alignment explanation
Indices: 4715595--4716015 Score: 550
Period size: 184 Copynumber: 2.3 Consensus size: 185
4715585 AAGTTAAAAT
* *
4715595 AAATGTATGAATTGTATATATATATGTGTGTTAGTCAATGTATATTTGAGTTTTATAAGTTAAAA
1 AAATGTATCAATTG-A-ATATATATGT-TGTTAGTCAATGTATATTTGAG-TTTATAAGATAAAA
*
4715660 TAAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGGGTTTTGTAAGTTGAATG
62 TAAATTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATG
* * *
4715725 AAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGTTTTGAATTTTATTA
127 AAATTTAATAAATTACATATATGTTAGCCGAATGTATATATATGATTCGAATTTGATTA
* *
4715784 AAATGTATGAATTGTATATATATG-TGTTAGTCAATGTATATTTGAGTTTATAAGATAAAATAAA
1 AAATGTATCAATTGAATATATATGTTGTTAGTCAATGTATATTTGAGTTTATAAGATAAAATAAA
* * *
4715848 TTGCATAAATTCTATATATATTTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAAT
66 TTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAAT
* ** * * *
4715913 TTAATGAATTGGATATATGTTAGCCGAATGTATGTAT-TGAATTCG-A-TTGGTTG
131 TTAATAAATTACATATATGTTAGCCGAATGTATATATATG-ATTCGAATTTGATTA
*
4715966 AAAT-TAATC-ATATGAAT-TATATGTATGTTAGCCAATGTATGATTTGAGTT
1 AAATGT-ATCAAT-TGAATATATATGT-TGTTAGTCAATGTAT-ATTTGAGTT
4716016 CGATAATTTG
Statistics
Matches: 208, Mismatches: 18, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
181 9 0.04
182 14 0.07
183 17 0.08
184 123 0.59
185 22 0.11
187 9 0.04
189 14 0.07
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (185 bp):
AAATGTATCAATTGAATATATATGTTGTTAGTCAATGTATATTTGAGTTTATAAGATAAAATAAA
TTACAGAAATTCTATATATATCTAGCCGAATATATATATGCTGAGTTTTGTAAGTTGAATGAAAT
TTAATAAATTACATATATGTTAGCCGAATGTATATATATGATTCGAATTTGATTA
Found at i:4716322 original size:41 final size:40
Alignment explanation
Indices: 4716277--4716380 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 40
4716267 GGCTCGATGC
*
4716277 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTT-ATGT
1 CTAGCAGGCTTAATGCCGGTGAATGA-TTCAGACTTTCA-GT
* * *
4716318 CTAGCAGGCTTAAGGCCGGTGAAATGATTCGGTCTTTCAGT
1 CTAGCAGGCTTAATGCCGGTG-AATGATTCAGACTTTCAGT
4716359 CTAGCAGGC-TAAGTGCCGGTGA
1 CTAGCAGGCTTAA-TGCCGGTGA
4716381 TCTGAATCAG
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
40 4 0.07
41 46 0.84
42 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAATGATTCAGACTTTCAGT
Found at i:4716404 original size:41 final size:41
Alignment explanation
Indices: 4716359--4716462 Score: 181
Period size: 41 Copynumber: 2.5 Consensus size: 41
4716349 GTCTTTCAGT
*
4716359 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
4716400 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
4716441 CTAGCAGGCTAAGTGCTGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
4716463 ATATGTTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:4718688 original size:12 final size:12
Alignment explanation
Indices: 4718671--4718699 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4718661 TTTAATTTAT
4718671 TAATAATAATAG
1 TAATAATAATAG
4718683 TAATAATAATAG
1 TAATAATAATAG
4718695 TAATA
1 TAATA
4718700 CATATACTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:4728589 original size:20 final size:18
Alignment explanation
Indices: 4728552--4728604 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
4728542 CAAAAGTTAT
*
4728552 AAAAATTATTAAATTTTA
1 AAAAATTATTAAAATTTA
4728570 AAAAATATATTTAAAATTTA
1 AAAAAT-TA-TTAAAATTTA
4728590 TTAAAAATT-TTAAAA
1 --AAAAATTATTAAAA
4728605 AATATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 9 0.30
21 1 0.03
22 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATTAAAATTTA
Found at i:4728591 original size:30 final size:31
Alignment explanation
Indices: 4728551--4728610 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
4728541 ACAAAAGTTA
4728551 TAAAAATTATT-AAATTTTAAAAAATATATT
1 TAAAAATTATTAAAATTTTAAAAAATATATT
*
4728581 TAAAATTTATTAAAAATTTTAAAAAATATA
1 TAAAAATTATT-AAAATTTTAAAAAATATA
4728611 AATATCGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 10 0.37
32 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAAATTATTAAAATTTTAAAAAATATATT
Found at i:4728621 original size:18 final size:17
Alignment explanation
Indices: 4728600--4728651 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
4728590 TTAAAAATTT
*
4728600 TAAAAAATATAAATATCG
1 TAAAAAATATAAA-ATCA
**
4728618 TAAAATTTTATAAAATCA
1 TAAAA-AATATAAAATCA
4728636 TAAATAAATATAAAAT
1 TAAA-AAATATAAAAT
4728652 GTATCAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAAAATATAAAATCA
Found at i:4728632 original size:37 final size:33
Alignment explanation
Indices: 4728551--4728649 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 33
4728541 ACAAAAGTTA
*
4728551 TAAAAATTATT-AAATTTTAAAAAATAT--ATT
1 TAAAATTTATTAAAATTTTAAAAAATATAAATT
4728581 TAAAATTTATTAAAAATTTTAAAAAATATAAATAT
1 TAAAATTTATT-AAAATTTTAAAAAATATAAAT-T
**
4728616 CGTAAAATTT-TATAAAATCATAAATAAATATAAA
1 --TAAAATTTAT-TAAAATTTTAAA-AAATATAAA
4728650 ATGTATCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
30 10 0.18
32 16 0.28
34 2 0.04
35 1 0.02
36 10 0.18
37 18 0.32
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (33 bp):
TAAAATTTATTAAAATTTTAAAAAATATAAATT
Found at i:4729791 original size:30 final size:31
Alignment explanation
Indices: 4729743--4729805 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
4729733 TTTCTTATGT
4729743 CAATATTTCGAAACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
*
4729774 CAATATTT-GATACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
4729804 CA
1 CA
4729806 TAATATGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (31 bp):
CAATATTTCGAAACCCATATCTTTGACTTTC
Found at i:4729797 original size:15 final size:16
Alignment explanation
Indices: 4729755--4729800 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
4729745 ATATTTCGAA
4729755 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
** *
4729771 TTCCA-ATATTTGA-T
1 ACCCATATCTTTGACT
4729785 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
4729801 TTCCATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (16 bp):
ACCCATATCTTTGACT
Found at i:4734195 original size:27 final size:27
Alignment explanation
Indices: 4734145--4734198 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4734135 GAGGTTCAGC
*
4734145 AAATTTTGCCTACGTCTTCAGGCACTA
1 AAATTTTGCCTACGTCCTCAGGCACTA
* * *
4734172 AAATTTTGTCTATGTCCTCGGGCACTA
1 AAATTTTGCCTACGTCCTCAGGCACTA
4734199 CCAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
AAATTTTGCCTACGTCCTCAGGCACTA
Found at i:4734457 original size:30 final size:31
Alignment explanation
Indices: 4734400--4734459 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
4734390 TTTCTTATGC
*
4734400 CAATATTTCGATACCCATTTCTCTGACTTTT
1 CAATATTTCGATACCCATATCTCTGACTTTT
* *
4734431 CAATATTT-GATACCTATATCTTTGACTTT
1 CAATATTTCGATACCCATATCTCTGACTTT
4734460 CCATAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (31 bp):
CAATATTTCGATACCCATATCTCTGACTTTT
Found at i:4738509 original size:45 final size:45
Alignment explanation
Indices: 4738269--4738652 Score: 202
Period size: 45 Copynumber: 8.4 Consensus size: 45
4738259 AGCCACCAGC
** * *
4738269 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * ** * * * * *
4738314 CTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTAAATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AA---AGATAGCAAAT
* * * * * * *
4738363 CTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---CATAGCTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * * ** * * * **
4738404 CTTATCTCCCTGAAGTTGTAATAGAGCAAGTTGAAGTTA-TAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* *
4738448 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGGGTAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * * * * *
4738493 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAAGCTACAAATGACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AAAG----ATA-G-CAAAT
* **
4738545 CTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * ** * * *
4738590 CTTATCTCCCTGAAGTTGTAGTGAAGCAAGTTGAAGACAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
4738635 CTTATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
4738653 TAGCAGAGTA
Statistics
Matches: 251, Mismatches: 72, Indels: 32
0.71 0.20 0.09
Matches are distributed among these distances:
41 29 0.12
42 1 0.00
44 31 0.12
45 112 0.45
46 6 0.02
47 2 0.01
48 1 0.00
49 32 0.13
50 1 0.00
51 5 0.02
52 31 0.12
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
Found at i:4738666 original size:142 final size:140
Alignment explanation
Indices: 4738404--4738659 Score: 309
Period size: 142 Copynumber: 1.8 Consensus size: 140
4738394 CATAGCTAAC
* ** *
4738404 CTTATCTCCCTGAAGTTGTAATAGAGCAAGTTGAAGTTATAGGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAATAGAGCAAACTAAAG-TATAGGTCTTATCTCCCTGAAGTTGCAG
* ** * * **
4738469 TGGAGCAAACTAAGGGTAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAAGCTAC
65 TGAAGCAAACTAAGGACAACAAATCTTATCTCCCTGAAGTTGCAGCAGAACAGATTAAAAGCTAC
4738534 AAATGACAAGT
130 AAATGACAAGT
* *
4738545 CTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAG-ATAGTGAATCTTATCTCCCTGAAGTTGT
1 CTTATCTCCCTGAAGTTGCAATAGAGCAAACTAAAGTATAG-G--TCTTATCTCCCTGAAGTTGC
** *
4738609 AGTGAAGCAAGTTGAA-GACAACAAATCTTATCTCCCTGAAGTTGTAGCAGA
63 AGTGAAGCAAACT-AAGGACAACAAATCTTATCTCCCTGAAGTTGCAGCAGA
4738660 GTAGATTTAG
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
139 4 0.04
140 1 0.01
141 31 0.33
142 57 0.60
143 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (140 bp):
CTTATCTCCCTGAAGTTGCAATAGAGCAAACTAAAGTATAGGTCTTATCTCCCTGAAGTTGCAGT
GAAGCAAACTAAGGACAACAAATCTTATCTCCCTGAAGTTGCAGCAGAACAGATTAAAAGCTACA
AATGACAAGT
Found at i:4738882 original size:21 final size:19
Alignment explanation
Indices: 4738856--4738895 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
4738846 TTTTGCCCGG
4738856 ACCCAAAACTAAATAAATAAA
1 ACCCAAAA-TAAA-AAATAAA
4738877 ACCCAAAATAAAAAATAAA
1 ACCCAAAATAAAAAATAAA
4738896 CAGTCCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (19 bp):
ACCCAAAATAAAAAATAAA
Found at i:4740980 original size:21 final size:21
Alignment explanation
Indices: 4740956--4740998 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4740946 GAGAAAAATT
*
4740956 AAAGATAAAGGTGAGGCAATA
1 AAAGATAAAGGTGAGACAATA
* *
4740977 AAAGTTACAGGTGAGACAATA
1 AAAGATAAAGGTGAGACAATA
4740998 A
1 A
4740999 GGCAAATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.26, T:0.16
Consensus pattern (21 bp):
AAAGATAAAGGTGAGACAATA
Found at i:4743764 original size:57 final size:59
Alignment explanation
Indices: 4743653--4743801 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 59
4743643 AATTGACGGT
*
4743653 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACCGGTGATCC-AT-CTGATATAGCCCTCCTGAAGAATATGTG-G
4743716 AAAAAGATCTAGCCCGGACCGGTGAT-C-T-TGATATAGCCCTCCTGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACCGGTGATCCATCTGATATAGCCCTCCTGAAGAATATGTGG
* * * *
4743772 AAAATGGATTTAGCCCGGACGGGTAATCCA
1 AAAA-AGATCTAGCCCGGACCGGTGATCCA
4743802 AATTAGGGTC
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
56 5 0.06
57 45 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACCGGTGATCCATCTGATATAGCCCTCCTGAAGAATATGTGG
Found at i:4744028 original size:66 final size:66
Alignment explanation
Indices: 4743922--4744047 Score: 234
Period size: 66 Copynumber: 1.9 Consensus size: 66
4743912 ATTTATATTA
* *
4743922 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCACAGGAGTGTGCTATCTT
4743987 G
66 G
4743988 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCACAGGAGTGTGCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCACAGGAGTGTGCT
4744048 CTCTGAAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (66 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCACAGGAGTGTGCTATCTT
G
Found at i:4747039 original size:21 final size:19
Alignment explanation
Indices: 4747002--4747040 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
4746992 GTCTTAAAAT
*
4747002 TTGTTTTAAATATATATAA
1 TTGTTTTAAATAAATATAA
4747021 TTGTTTTAAAAATAAATATA
1 TTGTTTT--AAATAAATATA
4747041 TAATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTGTTTTAAATAAATATAA
Found at i:4748116 original size:15 final size:15
Alignment explanation
Indices: 4748098--4748127 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4748088 TTTGTTGAGG
4748098 GATAAAAACAATATA
1 GATAAAAACAATATA
*
4748113 GATAAAAACATTATA
1 GATAAAAACAATATA
4748128 AATATTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (15 bp):
GATAAAAACAATATA
Found at i:4751538 original size:27 final size:27
Alignment explanation
Indices: 4751494--4751565 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
4751484 GATGATGGGC
*
4751494 CTGCCACAGACGGCACCAAAGGTGCCTA
1 CTGCCACAGGCGGCACCAAAGGTGCC-A
* *
4751522 -TGGCAGAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCGGCACCAAAGGTGCCA
4751548 CTGCCACAGGCGGCACCA
1 CTGCCACAGGCGGCACCA
4751566 CTTCAGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.26, C:0.35, G:0.31, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAAAGGTGCCA
Found at i:4752033 original size:76 final size:77
Alignment explanation
Indices: 4751828--4752048 Score: 225
Period size: 82 Copynumber: 2.8 Consensus size: 77
4751818 GTTTAGTTAT
* * *
4751828 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACT-ATATTATTGTTA--GTTA-TTAT
4751893 TTGGATTAGTAAAAACCC
62 TT-G-TTAGTAAAAACCC
* *** * *
4751911 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTATATTATTGTTAGTTATTATTT-
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATATTATTGTTAGTTATTATTTG
*
4751974 TTAGT-AAAATCC
65 TTAGTAAAAACCC
4751986 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTGTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTATTATTGTT-AGTAAAAAACTA-TATTA-T-TGTTAGTTATTA
4752049 GGATTAGTGG
Statistics
Matches: 116, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
75 24 0.21
76 26 0.22
77 1 0.01
78 12 0.10
79 6 0.05
80 4 0.03
82 29 0.25
83 14 0.12
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATATTATTGTTAGTTATTATTTGT
TAGTAAAAACCC
Found at i:4752041 original size:41 final size:41
Alignment explanation
Indices: 4751828--4752048 Score: 134
Period size: 40 Copynumber: 5.6 Consensus size: 41
4751818 GTTTAGTTAT
* *
4751828 TAATAATTATTGTTACTTAG-TATTATTGTT-AGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATT-TTGAGTAAAAAAC
* * *
4751868 TAA-TATTATTATTATGGTTAGTTATT-TGGATT-AGTAAAAACCC
1 TAATTATTATTGTTA--GTTAGTTATTAT--TTTGAGTAAAAA-AC
* ****
4751911 TAATTATTATT-TTAGTTAG-TATGATTGTT-AGT-TTTTAC
1 TAATTATTATTGTTAGTTAGTTATTATT-TTGAGTAAAAAAC
* * **
4751949 --ATTA-TATTATT-GTTAGTTATTATTTTTAGTAAAATCC
1 TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
4751986 TAATTATTATTGTTAGTTAG-TATTATTTTGAGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
4752026 T-ATTATTATTG-T-GTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTTATTA
4752049 GGATTAGTGG
Statistics
Matches: 142, Mismatches: 21, Indels: 38
0.71 0.10 0.19
Matches are distributed among these distances:
35 11 0.08
36 15 0.11
37 7 0.05
38 7 0.05
39 23 0.16
40 35 0.25
41 16 0.11
42 14 0.10
43 7 0.05
44 7 0.05
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (41 bp):
TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
Found at i:4755595 original size:12 final size:12
Alignment explanation
Indices: 4755554--4755596 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4755544 GAATGTAATT
* *
4755554 GCTCGGGATCTG
1 GCTCGGGCTCTA
*
4755566 GCTCGAGCTCTA
1 GCTCGGGCTCTA
4755578 GCTCGGGCTCTA
1 GCTCGGGCTCTA
*
4755590 GTTCGGG
1 GCTCGGG
4755597 ATCATGATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (12 bp):
GCTCGGGCTCTA
Found at i:4757622 original size:157 final size:154
Alignment explanation
Indices: 4757221--4758282 Score: 1387
Period size: 157 Copynumber: 6.9 Consensus size: 154
4757211 ACTTCAAAAC
* * * *
4757221 AAATTTATTAAAAAATCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCTCGGATTTTCTTACTTT
1 AAATTT-TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
*
4757285 CAATAAAAATATATTATTTTCTAATTTTATTAATTTACATTATTTTAGTACATTATGTTTGAAAT
65 CAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
* *
4757350 GTATTAATTTA--GTGTATTTAAAA
130 GTATTAATTTAGTGTGTTTTTAAAT
*
4757373 AATATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTATTTTCCCGGATTTTATTACTTT
1 AA-ATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT
*
4757438 CAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAAT
65 CAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
4757503 GTATTAATTTAGTGTGTGTTTTAAAT
130 GTATTAATTTAGTGTGT-TTTTAAAT
*
4757529 AAATTTTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTT
1 AAA-TTTT-AAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTT
* *
4757594 TCAATAAAAATATATTATTTTCTAATTTTACTATTTTACATTATTTTAGTACGTTATGTTTGAAA
64 TCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* * * **
4757659 TATATTAATTAATTGTGTTTTT-TTT
129 TGTATTAATTTAGTGTGTTTTTAAAT
* * * *
4757684 TAA-TTT--AAAAAGCCTTATTTCGGCCCTTTATTC--ATATTTTTCCC-GATTTTATTACTTTC
1 AAATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTC
4757743 AATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
66 AATAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
***
4757807 GTATTAATTTA-T-TGTTTTTTTTT
130 GTATTAATTTAGTGTGTTTTTAAAT
* *
4757830 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTT
1 AAATTT--TAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTT
*
4757895 T-AA-AAAAATATACACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
64 TCAATAAAAATAT--ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
4757958 AATGTATTAATTTAGTGTGTTTTTTAAAT
127 AATGTATTAATTTAGTGTG-TTTTTAAAT
* * * *
4757987 AAATTTCAAAAAATAACCCTTATTTTGGCCTTTTGTTCGTATTTTTTTCCCGAATTTTATTACTT
1 AAATTT-TAAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTT
4758052 TCAATAAAAATATATTATTTTC-ATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
64 TCAATAAAAATATATTATTTTCTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
4758116 ATGTATTAATTTAGTGTGTTTTTTAAAT
128 ATGTATTAATTTAGTGTG-TTTTTAAAT
* * * * * * ** * *
4758144 AAA-TTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGA-TTTTTTACCGAAGCCTCATT-GT
1 AAATTTTA--AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGA-TTTTATTACT
* * *
4758206 TTC---AAAAACATATTATTTTCGT-AGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGA
63 TTCAATAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
*
4758267 AATGCATTAATTTAGT
127 AATGTATTAATTTAGT
4758283 AAAAAACTCT
Statistics
Matches: 820, Mismatches: 58, Indels: 64
0.87 0.06 0.07
Matches are distributed among these distances:
145 7 0.01
146 6 0.01
147 86 0.10
148 10 0.01
149 1 0.00
150 25 0.03
151 24 0.03
152 109 0.13
153 115 0.14
154 74 0.09
155 25 0.03
156 51 0.06
157 277 0.34
158 2 0.00
159 8 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (154 bp):
AAATTTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTC
AATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
TATTAATTTAGTGTGTTTTTAAAT
Found at i:4758136 original size:458 final size:453
Alignment explanation
Indices: 4757221--4758471 Score: 1581
Period size: 458 Copynumber: 2.8 Consensus size: 453
4757211 ACTTCAAAAC
* * *
4757221 AAATTTATTAAAAAATCCTTATTTCGGCCCTTTGTTCGTATTTTTTCTCGGATTTTCTTACTTTC
1 AAATTTA-TAAAAAA-CCTTATTTCGGCCCTTTGTTCATA-TTTTTC-CCGATTTTATTACTTTC
*
4757286 AATAAAAATATATTATTTTC-TAATTTTATTAATTTACATTATTTTAGTACATTATGTTTGAAAT
62 AATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
** *
4757350 GTATTAATTTAGTGTATTTAAAAAATATT-TTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTAT
126 GTATTAATTTA-TGT-TTT-TTAAAT-TTAGTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTAT
* *
4757414 TATTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATT
187 TTTTTTCCCGAATTTTATTACTTT-AA-AAAAATATATTATTTTCTAATTTTATTATTTTACATT
* *
4757479 ATTTTAGTACATTATTTTTGAAATGTATTAATTTAGTGTGTGTTTTAAATAAATTTTTAAAAAAA
250 ATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA--TTTAAAAAAA
* * * *
4757544 ACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCGGATTTTATTACTTTCAATAAAAATATAT
313 ACCCTTATTTTGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATAT
* *
4757609 TATTTTCTAATTTTACTATTTTACATTATTTTAGTACGTTATGTTTGAAATATATTAATTAATTG
378 TATTTTCTAATTTTACTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAAGTG
*
4757674 TGTTTTTT-TT
443 TGTTTTTTAAT
* * *
4757684 TAA-TT-TAAAAAGCCTTATTTCGGCCCTTTATTCATATTTTTCCCGATTTTATTACTTTCAATA
1 AAATTTATAAAAAACCTTATTTCGGCCCTTTGTTCATATTTTTCCCGATTTTATTACTTTCAATA
4757747 AAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
66 AAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
*
4757812 AATTTATTGTTTTTTTTTAAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTT
131 AATTTA-TG---TTTTTTAAATTTAGTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTT
*
4757877 TCCCGAATTTTATTACTTTAAAAAAATATACACTATTTTCTAATTTTATTATTTTACATTATTTT
192 TCCCGAATTTTATTACTTTAAAAAAATAT--ATTATTTTCTAATTTTATTATTTTACATTATTTT
4757942 AGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAAATAACCCT
255 AGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAAAA-AACCCT
*
4758007 TATTTTGGCCTTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTT
318 TATTTTGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTT
* * *
4758072 TC-ATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
383 TCTA-ATTTTACTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAAGTGTGTT
4758136 TTTTAAAT
447 TTTT-AAT
* * * ** * *
4758144 AAATTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGAT-TTTTTACCGAAGCCTCATT-GTT
1 AAATTTA-TAAAAAAC-CTTATTTCGGCCCTTTGTTC--ATATTTTTCCCG-A-TTTTATTACTT
* * *
4758207 TC---AAAAACATATTATTTTCGTAGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAA
60 TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* *
4758269 TG--------CA------TT-AATTTAGT-AAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTT
125 TGTATTAATTTATGTTTTTTAAATTTAGTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTT
* * * *
4758318 TTTTCC-AGATTTTATTACTTTCAAAAAATATTTTATTTTCGT-ATTTTATTATTTTACATTCTT
190 TTTCCCGA-ATTTTATTACTTTAAAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATT
* * * *
4758381 TTAGTACATTGTGTTTGAAATGTATTAATTTAGTGT-TTTTTTATATAAATTTAGTAAAAAACCT
253 TTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTA-AAAAAAACCC
4758445 TTATTTTGGCCATTTGTTCGTATTTTT
317 TTATTTTGGCCATTTGTTCGTATTTTT
4758472 CTTATTTTCG
Statistics
Matches: 712, Mismatches: 53, Indels: 70
0.85 0.06 0.08
Matches are distributed among these distances:
439 31 0.04
440 19 0.03
441 62 0.09
442 2 0.00
443 60 0.08
444 8 0.01
445 2 0.00
455 1 0.00
456 11 0.02
457 100 0.14
458 273 0.38
459 25 0.04
460 10 0.01
461 2 0.00
462 2 0.00
463 68 0.10
464 17 0.02
465 8 0.01
466 7 0.01
467 4 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (453 bp):
AAATTTATAAAAAACCTTATTTCGGCCCTTTGTTCATATTTTTCCCGATTTTATTACTTTCAATA
AAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT
AATTTATGTTTTTTAAATTTAGTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCC
GAATTTTATTACTTTAAAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACA
TTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTTGG
CCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTT
TACTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAAGTGTGTTTTTTAAT
Found at i:4758349 original size:130 final size:131
Alignment explanation
Indices: 4758145--4758414 Score: 359
Period size: 132 Copynumber: 2.1 Consensus size: 131
4758135 TTTTTAAATA
* *
4758145 AATTTAGTAAAAAACTCTTCTTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATTGTTTCA
1 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATTCTTTCA
*
4758210 AAAACATA-TTATTTTCGTAGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCAT
66 AAAACATATTTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCAT
4758274 T
131 T
* * * ** *
4758275 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCC--AGATTTTATTACTT
1 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGA-TTTTTTACCGAAG-CCTCATT-CTT
* * *
4758338 TCAAAAA-ATATTTTATTTTCGTATTTTATTATTTTACATTCTTTTAGTACATTGTGTTTGAAAT
63 TCAAAAACATA-TTTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
*
4758402 GTATT
127 GCATT
4758407 AATTTAGT
1 AATTTAGT
4758415 GTTTTTTTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
129 2 0.02
130 43 0.35
131 17 0.14
132 60 0.49
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (131 bp):
AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGATTTTTTACCGAAGCCTCATTCTTTCA
AAAACATATTTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCAT
T
Found at i:4758855 original size:5 final size:5
Alignment explanation
Indices: 4758845--4758891 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
4758835 CTTCTTCTTC
* * *
4758845 TCCTT TCCTT TCCTT T-CTT CTCCTT TCCTT TTCTT TCTTT TTCTT TC
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TC
4758892 TTCTCCTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 3 0.09
5 28 0.82
6 3 0.09
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
TCCTT
Found at i:4758864 original size:20 final size:20
Alignment explanation
Indices: 4758839--4758883 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4758829 CTCCCTCTTC
4758839 TTCTTCTCCTTTCCTTTCCT
1 TTCTTCTCCTTTCCTTTCCT
*
4758859 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTCCT
4758879 TTCTT
1 TTCTT
4758884 TTTCTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTCCTTTCCTTTCCT
Found at i:4758890 original size:20 final size:20
Alignment explanation
Indices: 4758813--4758908 Score: 70
Period size: 20 Copynumber: 4.6 Consensus size: 20
4758803 TTATTTTTTT
* * *
4758813 CTTTCTTTTTCCTTCCCTCC
1 CTTTCTTTTTCTTTCCTTTC
4758833 CTCTTCTTCTTCTCCTTTCCTTTC
1 CT-TTCTT-TT-T-CTTTCCTTTC
* * *
4758857 CTTTCTTCTCCTTTCCTTTT
1 CTTTCTTTTTCTTTCCTTTC
4758877 CTTTCTTTTTCTTT-CTTCTC
1 CTTTCTTTTTCTTTCCTT-TC
4758897 C-TTCTTTCTTCT
1 CTTTCTTT-TTCT
4758909 CCTCCAGCCG
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 9 0.15
20 29 0.48
21 5 0.08
22 3 0.05
23 6 0.10
24 9 0.15
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTCTTTTTCTTTCCTTTC
Found at i:4758892 original size:10 final size:10
Alignment explanation
Indices: 4758839--4758903 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 10
4758829 CTCCCTCTTC
*
4758839 TTCTTCTCCT
1 TTCTTTTCCT
*
4758849 TTCCTTTCCT
1 TTCTTTTCCT
*
4758859 TTCTTCTCCT
1 TTCTTTTCCT
4758869 TTCCTTTT-CT
1 TT-CTTTTCCT
*
4758879 TTCTTTTTCT
1 TTCTTTTCCT
*
4758889 TTCTTCTCC-
1 TTCTTTTCCT
4758898 TTCTTT
1 TTCTTT
4758904 CTTCTCCTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
9 10 0.22
10 31 0.69
11 4 0.09
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (10 bp):
TTCTTTTCCT
Found at i:4758895 original size:13 final size:13
Alignment explanation
Indices: 4758857--4758911 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
4758847 CTTTCCTTTC
4758857 CTTTCTTCTCCTTT
1 CTTTCTTCTCC-TT
**
4758871 CCTTTTCTTTCTTTTT
1 -C-TTTC-TTCTCCTT
4758887 CTTTCTTCTCCTT
1 CTTTCTTCTCCTT
4758900 CTTTCTTCTCCT
1 CTTTCTTCTCCT
4758912 CCAGCCGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 18 0.53
14 4 0.12
15 2 0.06
16 6 0.18
17 4 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
CTTTCTTCTCCTT
Found at i:4758990 original size:27 final size:27
Alignment explanation
Indices: 4758944--4759009 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
4758934 ATAAGGGCTA
* * *
4758944 GTGCCGCCTGTGGCAGTGGCACCTTTG
1 GTGCCGCCTGTGCCACTGGCACCTCTG
*
4758971 GTGCCGCCTTTGCCACTGGCACCTCTG
1 GTGCCGCCTGTGCCACTGGCACCTCTG
4758998 GTGCCGCCTGTG
1 GTGCCGCCTGTG
4759010 GCAGGCCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.06, C:0.35, G:0.33, T:0.26
Consensus pattern (27 bp):
GTGCCGCCTGTGCCACTGGCACCTCTG
Found at i:4759594 original size:27 final size:29
Alignment explanation
Indices: 4759564--4759623 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
4759554 TGTCTCCTGC
*
4759564 GGTTAGGATTTTGG-GTTATT-GGTTTAG
1 GGTTAGGATTTTGGTGTTATTAAGTTTAG
* *
4759591 GGTTAGGGTTTTGGTGTTTTTAAGTTTAG
1 GGTTAGGATTTTGGTGTTATTAAGTTTAG
4759620 GGTT
1 GGTT
4759624 TTAGAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 5 0.18
29 10 0.36
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (29 bp):
GGTTAGGATTTTGGTGTTATTAAGTTTAG
Found at i:4759832 original size:96 final size:96
Alignment explanation
Indices: 4759609--4759946 Score: 348
Period size: 96 Copynumber: 3.5 Consensus size: 96
4759599 TTTTGGTGTT
* * * * ** ** *
4759609 TTTA-AGTTT-AGGGTTTT-AGAGAAAAATTAAATAAATAAGGGTTTAGGGTTTGTCAATTAAAT
1 TTTAGAGTTTAAGGTTTTTAAGA-AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAAAT
* *
4759671 TAATTATAAATTTTT-CAAAATTGGATT-AGG
65 TAATTATAAATTTTTAAAAAATTAGATTAAGG
* * * * * *
4759701 TTTCGTGTTTATTGTTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATT
1 TTTAGAGTTTA-AGGTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAAAT
4759766 TAATTA-AAATTTTTTAAAAAATTAGATTAAGG
65 TAATTATAAA-TTTTTAAAAAATTAGATTAAGG
* * *
4759798 TTTAGAG-TTAAGAGTTTTTAAGGAAAAATCAATTAAATTAGGGTTCAGGATTACTTGAGTAAAT
1 TTTAGAGTTTAAG-GTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAAAT
* *
4759862 TAATTATAAATTTTTATAAAATTAGATTAGGG
65 TAATTATAAATTTTTAAAAAATTAGATTAAGG
* * * *
4759894 TTTAGTGTTTAAGGTTTTTAAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 TTTAGAGTTTAAGGTTTTTAAG-AAAAAATCAATTAAATTAGGGTTTAGGGTT
4759947 TAGGGTTACT
Statistics
Matches: 202, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
92 3 0.01
93 4 0.02
94 3 0.01
95 50 0.25
96 102 0.50
97 40 0.20
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (96 bp):
TTTAGAGTTTAAGGTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAAATT
AATTATAAATTTTTAAAAAATTAGATTAAGG
Found at i:4762902 original size:21 final size:22
Alignment explanation
Indices: 4762855--4762918 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
4762845 TTTTGTCCAA
* *
4762855 CTTCCAGCGGGGGTTGTGGTTG
1 CTTCCGGCGGGGGTTCTGGTTG
4762877 C-TCCGGCGGGGGTTCTGGTT-
1 CTTCCGGCGGGGGTTCTGGTTG
** *
4762897 CTTCCGGTTGGGGATCTGGTTG
1 CTTCCGGCGGGGGTTCTGGTTG
4762919 TCGGTGTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.03, C:0.20, G:0.44, T:0.33
Consensus pattern (22 bp):
CTTCCGGCGGGGGTTCTGGTTG
Found at i:4765044 original size:22 final size:21
Alignment explanation
Indices: 4765019--4765067 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
4765009 TCTTTTAAAT
* *
4765019 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTAGAGA-GAAATTGAG
4765041 AGAATATTAGAGAGAAATTGAG
1 AGAA-ATTAGAGAGAAATTGAG
4765063 AGAAA
1 AGAAA
4765068 GGATTTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (21 bp):
AGAAATTAGAGAGAAATTGAG
Found at i:4765063 original size:10 final size:10
Alignment explanation
Indices: 4765019--4765067 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
4765009 TCTTTTAAAT
4765019 AGAAATTTGAG
1 AGAAA-TTGAG
*
4765030 AGGAATTTGAG
1 A-GAAATTGAG
4765041 AGAATATTAGAG
1 AGAA-ATT-GAG
4765053 AGAAATTGAG
1 AGAAATTGAG
4765063 AGAAA
1 AGAAA
4765068 GGATTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 11 0.33
11 12 0.36
12 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:4766210 original size:16 final size:16
Alignment explanation
Indices: 4766191--4766246 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
4766181 CGTTTGGTTC
4766191 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
*
4766207 ACTGTAATTGAATAGA
1 ACTGTAATGGAATAGA
*
4766223 ATTGTAATGGAATA-A
1 ACTGTAATGGAATAGA
4766238 AGCTGTAAT
1 A-CTGTAAT
4766247 CAGTAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 2 0.06
16 33 0.94
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.30
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:4766542 original size:55 final size:54
Alignment explanation
Indices: 4766412--4766568 Score: 151
Period size: 55 Copynumber: 2.9 Consensus size: 54
4766402 TATTGGTATT
* * *
4766412 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACC
1 AAATTTTAATATA-ATTATTATT-AATATAATTT-A-AAAATAATATATAATTTAACA
* * *
4766469 ATATTTTAACAT--TTATTATTAATATAATTTAAAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAATATAATTTAAAAATAATATATAATTTAACA
* *
4766521 AAATTCTTAATATAATTATTATT-ATATGAATTAAAAAATCATAATATA
1 AAATT-TTAATATAATTATTATTAATAT-AATTTAAAAATAAT-ATATA
4766569 TAATACAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
52 22 0.26
53 7 0.08
54 13 0.15
55 28 0.33
56 5 0.06
57 9 0.11
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (54 bp):
AAATTTTAATATAATTATTATTAATATAATTTAAAAATAATATATAATTTAACA
Found at i:4768129 original size:35 final size:36
Alignment explanation
Indices: 4768083--4768154 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
4768073 TCTTTGTTTT
4768083 TATCCATACATATTATTATTTTAGGT-ATTTGGAAC
1 TATCCATACATATTATTATTTTAGGTAATTTGGAAC
4768118 TATCCATACATATTATTATTTTAGGTAATTTGGAAC
1 TATCCATACATATTATTATTTTAGGTAATTTGGAAC
4768154 T
1 T
4768155 GTGATACTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 26 0.72
36 10 0.28
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (36 bp):
TATCCATACATATTATTATTTTAGGTAATTTGGAAC
Found at i:4770016 original size:21 final size:21
Alignment explanation
Indices: 4769991--4770064 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
4769981 ATTTTTGAGG
4769991 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4770012 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4770033 ATAT--AATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
4770050 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
4770065 ATATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.08
19 22 0.43
21 25 0.49
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:4770040 original size:19 final size:19
Alignment explanation
Indices: 4769997--4770064 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
4769987 GAGGATATGC
4769997 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
4770016 GCAATCTTAGATATGATATAT
1 --AATCTTAGATATGATATAT
**
4770037 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
4770056 AATCTTAGA
1 AATCTTAGA
4770065 ATATATGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 26 0.58
21 19 0.42
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
AATCTTAGATATGATATAT
Found at i:4770764 original size:16 final size:16
Alignment explanation
Indices: 4770743--4770776 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4770733 TATGAGGTAA
* *
4770743 TTATTTTTATTTTATT
1 TTATTTATATATTATT
4770759 TTATTTATATATTATT
1 TTATTTATATATTATT
4770775 TT
1 TT
4770777 TAATCTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTATATATTATT
Found at i:4770863 original size:25 final size:23
Alignment explanation
Indices: 4770835--4770908 Score: 58
Period size: 27 Copynumber: 2.9 Consensus size: 23
4770825 TATGTATTTT
4770835 TATACATATTATATATTTTTATATA
1 TATA-ATATTATATATTTTT-TATA
*
4770860 TATATGTTTATTATATACTTTTTTATA
1 TATA---ATATTATATA-TTTTTTATA
*
4770887 TATGAATATATATGTATTTTTT
1 TAT-AATAT-TATATATTTTTT
4770909 TAAATGCTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
25 13 0.32
26 5 0.12
27 16 0.40
28 6 0.15
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (23 bp):
TATAATATTATATATTTTTTATA
Found at i:4771263 original size:19 final size:18
Alignment explanation
Indices: 4771235--4771273 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4771225 TTCTAGGCCT
* *
4771235 TTGTTATTTATTATTGCA
1 TTGTTATTTAATATAGCA
4771253 TTGTATATTTAATATAGCA
1 TTGT-TATTTAATATAGCA
4771272 TT
1 TT
4771274 ACATCATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (18 bp):
TTGTTATTTAATATAGCA
Found at i:4771635 original size:98 final size:98
Alignment explanation
Indices: 4771513--4771707 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
4771503 CTAAAAACAA
* * *
4771513 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGTCCTAACGGATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGGATTGGGTGTGATTTC
4771578 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
4771611 TAAAGGAAATATTCTGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGGATTGGGTGTGATTTC
4771676 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
4771708 ATTTTATTGT
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:0.28, C:0.09, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGGATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:4773739 original size:24 final size:24
Alignment explanation
Indices: 4773710--4773761 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
4773700 GATAGACAAA
4773710 ATGATGGAATCTCAGGGGAGTATG
1 ATGATGGAATCTCAGGGGAGTATG
4773734 ATGATGGAATCTCAGGGGAGTATG
1 ATGATGGAATCTCAGGGGAGTATG
4773758 ATGA
1 ATGA
4773762 CTCAGTTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.37, T:0.25
Consensus pattern (24 bp):
ATGATGGAATCTCAGGGGAGTATG
Found at i:4775316 original size:32 final size:32
Alignment explanation
Indices: 4775275--4775337 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
4775265 TACTTTAAAG
4775275 ATGTTCAAAACACACTTGTTGCCTTTTGAGTA
1 ATGTTCAAAACACACTTGTTGCCTTTTGAGTA
4775307 ATGTTCAAAACACACTTGTTGCCTTTTGAGT
1 ATGTTCAAAACACACTTGTTGCCTTTTGAGT
4775338 GGGATTTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (32 bp):
ATGTTCAAAACACACTTGTTGCCTTTTGAGTA
Found at i:4775924 original size:12 final size:11
Alignment explanation
Indices: 4775898--4775935 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
4775888 GTTCAGATTT
*
4775898 AAAAAA-AACA
1 AAAAAACAAAA
4775908 AAAAAACAAAA
1 AAAAAACAAAA
4775919 ACAAAAACAAAA
1 A-AAAAACAAAA
4775931 AAAAA
1 AAAAA
4775936 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 6 0.24
11 8 0.32
12 11 0.44
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:4777362 original size:44 final size:43
Alignment explanation
Indices: 4777283--4777494 Score: 117
Period size: 44 Copynumber: 4.8 Consensus size: 43
4777273 GCCACCAAGC
* * * * *
4777283 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGAT
1 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGTAGAT
* *
4777327 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAGAT
1 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATG-TAGAT
* * * *** *
4777371 CTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG-C
1 CTTGTC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATGTAGAT
* * * * * * *
4777415 CTTGTCTCACTCAGCAGCAGCGGAGAAGGTTGAATATTGTAGAT
1 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGTAGAT
* *
4777459 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
4777495 CGGCGGATCT
Statistics
Matches: 119, Mismatches: 38, Indels: 22
0.66 0.21 0.12
Matches are distributed among these distances:
42 5 0.04
43 9 0.08
44 94 0.79
45 8 0.07
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
CTTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGTAGAT
Found at i:4777454 original size:132 final size:131
Alignment explanation
Indices: 4777213--4777601 Score: 643
Period size: 132 Copynumber: 2.9 Consensus size: 131
4777203 CTGCATTGAC
*
4777213 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCG-ATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
4777278 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCA
65 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
4777343 GT
130 GT
* *
4777345 AGTGGAGCAGATCGAAGATGACAGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGC-GATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
4777410 CAAGCCTTGTCTCACTCAGCAGCAGCGGAGAAGGTTGAATATTGTAGATCTTATCTCCCTAAGCA
65 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
4777475 GT
130 GT
*
4777477 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGC-GATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
4777542 TAAGCCTTGTCTCCCTCAACAGCAGCAGAGAAGGTTGAAGATTGTAGATCCTATCTCCCT
65 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
4777602 GAAGTTGCAG
Statistics
Matches: 239, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
132 238 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGACGGCGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
AAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
T
Found at i:4777634 original size:44 final size:43
Alignment explanation
Indices: 4777586--4778088 Score: 361
Period size: 44 Copynumber: 11.6 Consensus size: 43
4777576 TTGAAGATTG
* **
4777586 TAGATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACC
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
* * *** *
4777629 TTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC
1 -TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
* *
4777671 TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACC
* * * **
4777715 AAG-TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
1 TAGATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-ACC
* * *
4777760 AAG-TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCC
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
* *
4777802 GATA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 --TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
* * * * *
4777846 TTAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCT--CATC
1 -TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAACC
* * * *
4777888 -AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACC
* * * **
4777932 AAG-TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
1 TAGATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-ACC
*
4777977 AAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
1 TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
* **
4778019 GATA-ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACC
1 --TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
*
4778063 TTAGATCTTATCTCTCTGAAGTTGCA
1 -TAGATCTTATCTCCCTGAAGTTGCA
4778089 AAGAGCAGAT
Statistics
Matches: 370, Mismatches: 62, Indels: 54
0.76 0.13 0.11
Matches are distributed among these distances:
40 45 0.12
41 17 0.05
42 9 0.02
43 20 0.05
44 207 0.56
45 70 0.19
46 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
Found at i:4777784 original size:89 final size:85
Alignment explanation
Indices: 4777672--4778190 Score: 334
Period size: 89 Copynumber: 6.0 Consensus size: 85
4777662 GATCGCATCT
4777672 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAGTCTTAT-CTCCTGAAGTTG
* *
4777737 CAGTGGGGCAGACTGAAGATGGCA
63 CAGTGGAGCAGA-TGAAGATAGCA
* * * *
4777761 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGA-TTAAAGCCGATAATCCTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAG-C-A-AGTCTTATCT-CCTGAAGTT
* * * *
4777825 GCAGTGGAGCGGATTAA-A-ACCTT
62 GCAGTGGAGCAGATGAAGATAGC-A
* * * * * *
4777848 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCT--CATCAAATCTTATCTCTCTGAAGTTG
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAAGCAAGTCTTATCTC-CTGAAGTTG
4777910 CAGTGGAGCAGACT-AAG-TAAGCA
63 CAGTGGAGCAGA-TGAAGAT-AGCA
* *
4777933 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-A-AGCAAGTCTTATCT-CCTGAAGT
* *
4777997 TGCAGTGGAGCAGATTAA-A-ACCGA
61 TGCAGTGGAGCAGATGAAGATAGC-A
* * ** * * *
4778021 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGC-AAG-TCTTATCTC-CTGAAGTT
** * *
4778086 GCA-AAGAGCAGATCG--CAT--CT
62 GCAGTGGAGCAGAT-GAAGATAGCA
* * *
4778106 AGTCTTCTCTCACTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AAGCAAGTCTTAT-CTCCTGAAGTTG
*
4778171 TAGT-GAGGCAGACTGAAGAT
63 CAGTGGA-GCAGA-TGAAGAT
4778191 GGCACTAATT
Statistics
Matches: 335, Mismatches: 55, Indels: 82
0.71 0.12 0.17
Matches are distributed among these distances:
83 2 0.01
84 96 0.29
85 23 0.07
86 13 0.04
87 29 0.09
88 50 0.15
89 120 0.36
90 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (85 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCTTATCTCCTGAAGTTGCAG
TGGAGCAGATGAAGATAGCA
Found at i:4777832 original size:217 final size:217
Alignment explanation
Indices: 4777589--4778194 Score: 1077
Period size: 217 Copynumber: 2.8 Consensus size: 217
4777579 AAGATTGTAG
4777589 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
*
4777654 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
4777719 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAATTGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAATTGCA
*
4777784 GTGGAGCAGATTAAAGCCGATA
196 GTGGAGCAGATTAAAACCGATA
* *
4777806 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* * * *
4777871 AGAGAGCAGATCTCATCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
4777936 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAATTGCA
4778001 GTGGAGCAGATTAAAACCGATA
196 GTGGAGCAGATTAAAACCGATA
4778023 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* * * *
4778088 AAAGAGCAGATCGCATCTAGTCTTCTCTCACTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
4778153 CTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
4778195 CTAATTCCTA
Statistics
Matches: 369, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
217 369 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAATTGCA
GTGGAGCAGATTAAAACCGATA
Found at i:4777989 original size:173 final size:173
Alignment explanation
Indices: 4777718--4778041 Score: 433
Period size: 173 Copynumber: 1.9 Consensus size: 173
4777708 AGTAAGCAAG
* *
4777718 TCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAATTGC
1 TCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAATTGC
* * * * *
4777783 AGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-T
66 AGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGA
* *
4777847 TAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCTCATCAAA
131 TA-ATCCTATCTCCCTGAAGTTACAGAGAGCAGATCTCATCAAA
*
4777891 TCTTAT-CTCTCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATC-CTCCTGAAGT
1 TCTTATCCTC-CTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTC-CCTGAAAT
* * * * *
4777952 TGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
63 TGCAGTGGAGCAGACTAAAGACGACAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
4778017 CCGATAATCCTATCTCCCTGAAGTT
127 CCGATAATCCTATCTCCCTGAAGTT
4778042 GCAGTGGAGT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
171 2 0.02
172 45 0.34
173 82 0.63
174 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (173 bp):
TCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAATTGC
AGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGA
TAATCCTATCTCCCTGAAGTTACAGAGAGCAGATCTCATCAAA
Found at i:4778166 original size:44 final size:43
Alignment explanation
Indices: 4777672--4778184 Score: 310
Period size: 44 Copynumber: 11.8 Consensus size: 43
4777662 GATCGCATCT
*
4777672 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* *
4777716 AGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
* * ***
4777761 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCG-A
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * * * * *
4777804 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-A
* * *
4777848 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGATCT-CAT---CA
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGA-CTAAATAAGCA
* *
4777889 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* *
4777933 AGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
* *
4777978 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-A
* * ** * * *
4778021 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTAA-AACCTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-A
** ** *
4778065 AGATCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-TCGCAT---CT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACT-AAATAAGCA
* *
4778106 AGTCTTCTCTCACTGAAGTTGCAGTGAAGCAGACTAAATAAGCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
*
4778150 AGTCTTATCCTCCTGAAGTTGTAGT-GAGGCAGACT
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT
4778185 GAAGATGGCA
Statistics
Matches: 371, Mismatches: 62, Indels: 72
0.73 0.12 0.14
Matches are distributed among these distances:
40 42 0.11
41 20 0.05
42 5 0.01
43 24 0.06
44 201 0.54
45 77 0.21
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
Found at i:4778386 original size:21 final size:21
Alignment explanation
Indices: 4778361--4778460 Score: 120
Period size: 21 Copynumber: 4.9 Consensus size: 21
4778351 ATTTTTGAGG
4778361 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4778382 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
4778403 ATAT--AATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
4778420 ATATGCAATCTTAGAATAT-AT
1 ATATGCAATCTTAG-ATATGAT
* *
4778441 GATTTTGTAATCTTAGATAT
1 -A-TATGCAATCTTAGATAT
4778461 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
17 4 0.06
19 21 0.30
20 4 0.06
21 25 0.36
22 5 0.07
23 11 0.16
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:4778404 original size:40 final size:37
Alignment explanation
Indices: 4778360--4778441 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 37
4778350 AATTTTTGAG
4778360 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCTTAGA-AT
**
4778400 GATATATAATCTTAGATATGATATGCAATCTTAGAAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGAAT
4778437 -ATATG
1 GATATG
4778442 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
36 4 0.10
37 2 0.05
38 15 0.38
40 18 0.46
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (37 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGAAT
Found at i:4778410 original size:19 final size:19
Alignment explanation
Indices: 4778367--4778434 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
4778357 GAGGATATGC
4778367 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
4778386 GCAATCTTAGATATGATATAT
1 --AATCTTAGATATGATATAT
**
4778407 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
4778426 AATCTTAGA
1 AATCTTAGA
4778435 ATATATGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 26 0.58
21 19 0.42
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
AATCTTAGATATGATATAT
Found at i:4778801 original size:21 final size:21
Alignment explanation
Indices: 4778755--4778801 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4778745 ATTAAGTTTT
* *
4778755 ATTTATTTTTTTAATTTACCC
1 ATTTATTTTTTTAAATTACCA
*
4778776 TTTTATTTATTTTAAATT-CCA
1 ATTTATTT-TTTTAAATTACCA
4778797 ATTTA
1 ATTTA
4778802 ATCCTTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATTTTTTTAAATTACCA
Found at i:4779692 original size:29 final size:30
Alignment explanation
Indices: 4779633--4779690 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4779623 TCCGAGCCTT
*
4779633 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
4779663 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
4779691 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:4779920 original size:13 final size:13
Alignment explanation
Indices: 4779902--4779933 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4779892 TTTCCAGCAA
4779902 TTATGAATTTATT
1 TTATGAATTTATT
4779915 TTATGAATTTATT
1 TTATGAATTTATT
*
4779928 TGATGA
1 TTATGA
4779934 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:4780141 original size:50 final size:50
Alignment explanation
Indices: 4780028--4780269 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
4780018 ATTTGGGTAA
* * *
4780028 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
4780084 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4780134 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4780184 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
4780234 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
4780270 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:4780217 original size:100 final size:103
Alignment explanation
Indices: 4780028--4780277 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
4780018 ATTTGGGTAA
4780028 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
4780093 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
4780134 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
4780196 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
4780234 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4780278 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4781809 original size:25 final size:25
Alignment explanation
Indices: 4781758--4781809 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4781748 AATTTTGTTA
**
4781758 ATGTAATTATTATTATTATTTTCAT
1 ATGTAATTATTATTATTATTAGCAT
4781783 ATGTAATTATTATTATT-TTAGCTAT
1 ATGTAATTATTATTATTATTAGC-AT
4781808 AT
1 AT
4781810 ATATATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (25 bp):
ATGTAATTATTATTATTATTAGCAT
Found at i:4782404 original size:19 final size:19
Alignment explanation
Indices: 4782382--4782418 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4782372 AGGCCTTTGT
* *
4782382 TATATTTATTATTGCATTG
1 TATATTTAATATAGCATTG
4782401 TATATTTAATATAGCATT
1 TATATTTAATATAGCATT
4782419 ACATCATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATATTTAATATAGCATTG
Found at i:4782770 original size:98 final size:98
Alignment explanation
Indices: 4782656--4782850 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
4782646 CTAAAAACAA
* *
4782656 TAAAGGAAATATTTCGAGTTTGGGATTTTAAAAGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTTCGAGTTTGGGATTCTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
4782721 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGACGTTCTTTTAAAG
* *
4782754 TAAAGGAAATATTTCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTTCGAGTTTGGGATTCTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTC
4782819 TTAAATCTTGGATAAGTGGACGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGACGTTCTTTTAAA
4782851 ATTTTATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTTCGAGTTTGGGATTCTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGACGTTCTTTTAAAG
Found at i:4784469 original size:26 final size:26
Alignment explanation
Indices: 4784438--4784487 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
4784428 TTTACAAACC
4784438 AAACCCAAAACAAACACAATTCAAAT
1 AAACCCAAAACAAACACAATTCAAAT
*
4784464 AAACCCAAAACAAACCCAATTCAA
1 AAACCCAAAACAAACACAATTCAA
4784488 TTACAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.30, G:0.00, T:0.10
Consensus pattern (26 bp):
AAACCCAAAACAAACACAATTCAAAT
Found at i:4785619 original size:17 final size:17
Alignment explanation
Indices: 4785600--4785631 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4785590 TTATATATTT
4785600 TTTTTA-TATTTTTATA
1 TTTTTACTATTTTTATA
4785616 TTTTTACTATTTTTAT
1 TTTTTACTATTTTTAT
4785632 TTATCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTATTTTTATA
Found at i:4785630 original size:9 final size:8
Alignment explanation
Indices: 4785600--4785631 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
4785590 TTATATATTT
4785600 TTTTTATA
1 TTTTTATA
4785608 TTTTTATA
1 TTTTTATA
4785616 TTTTTACTA
1 TTTTTA-TA
4785625 TTTTTAT
1 TTTTTAT
4785632 TTATCCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:4789051 original size:20 final size:21
Alignment explanation
Indices: 4788996--4789052 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
4788986 TTAACATGGT
4788996 AATAAC-A-ATAATAAAATAA
1 AATAACAACATAATAAAATAA
*
4789015 AATAACTACATAA-AAAAT-A
1 AATAACAACATAATAAAATAA
4789034 AATAA-AACATAGATAAAAT
1 AATAACAACATA-ATAAAAT
4789053 TTGAAATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 5 0.15
19 13 0.39
20 11 0.33
21 4 0.12
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAACAACATAATAAAATAA
Found at i:4790233 original size:6 final size:6
Alignment explanation
Indices: 4790222--4790246 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4790212 CTTGCGACGA
4790222 CGATGG CGATGG CGATGG CGATGG C
1 CGATGG CGATGG CGATGG CGATGG C
4790247 ATTTTTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (6 bp):
CGATGG
Found at i:4792555 original size:7 final size:7
Alignment explanation
Indices: 4792543--4792578 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
4792533 ATTATATCAT
4792543 TTTATTA
1 TTTATTA
4792550 TTTATTA
1 TTTATTA
4792557 TTTATTA
1 TTTATTA
4792564 TTTATTA
1 TTTATTA
4792571 TTTATTA
1 TTTATTA
4792578 T
1 T
4792579 GTCCTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:4792753 original size:3 final size:3
Alignment explanation
Indices: 4792733--4792766 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4792723 GTTATTCTAC
* *
4792733 TAT TAA TAT TAA TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4792767 TACTTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4792894 original size:4 final size:4
Alignment explanation
Indices: 4792885--4792910 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4792875 TGTTTTATCT
4792885 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
4792911 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4793559 original size:107 final size:107
Alignment explanation
Indices: 4793359--4793559 Score: 314
Period size: 107 Copynumber: 1.9 Consensus size: 107
4793349 TCTAAAAAAT
* * *
4793359 AATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTACCCTAATGTGTTGGGTTTCGATTT
1 AATAAAGCAATGTTTTGCATTTGAAAATTCGAGAAAACGTACCCTAATGTGCTGGGTTTCGATTT
*
4793424 TTTCGTTCGACCAAATAGCCAAAAATCCTTATAAAATTTCAA
66 TCTCGTTCGACCAAATAGCCAAAAATCCTTATAAAATTTCAA
* *
4793466 AATAAAGCAATGTTTTGCGTTTGAAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-T
1 AATAAAGCAATGTTTTGCATTTG-AAAATTCGAGAAAACGTACCCTAATGTGCTGGGTTTCGATT
* *
4793530 TTCTCGTTGGACCAAATAGCCAAATATCCT
65 TTCTCGTTCGACCAAATAGCCAAAAATCCT
4793560 CTTGAATCTT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
107 49 0.58
108 36 0.42
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (107 bp):
AATAAAGCAATGTTTTGCATTTGAAAATTCGAGAAAACGTACCCTAATGTGCTGGGTTTCGATTT
TCTCGTTCGACCAAATAGCCAAAAATCCTTATAAAATTTCAA
Found at i:4798599 original size:44 final size:44
Alignment explanation
Indices: 4798536--4798623 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
4798526 CCCCCAACAT
*
4798536 GTTTCACAGTCCTACAAACATTGTATAAACCTAATAACCACCCA
1 GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
4798580 GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
1 GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
4798624 ACAAAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.30, G:0.06, T:0.25
Consensus pattern (44 bp):
GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
Found at i:4800050 original size:52 final size:51
Alignment explanation
Indices: 4799951--4800056 Score: 122
Period size: 52 Copynumber: 2.1 Consensus size: 51
4799941 TAAATAGACC
* * * * * *
4799951 AATTTACATAATTTATAAATGTTGAGCGTTAAATTTTTTAGAATCAAAACTA
1 AATTAACATAATGTAAAAATATTGAGCGTTAAAGTTGTTAGAATCAAAAC-A
* * *
4800003 AATTAACATAATGTAAAAATATTGAGGGTTAAAGTTGTTATATTCAAAACA
1 AATTAACATAATGTAAAAATATTGAGCGTTAAAGTTGTTAGAATCAAAACA
4800054 AAT
1 AAT
4800057 AAGTAATTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
51 4 0.09
52 41 0.91
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (51 bp):
AATTAACATAATGTAAAAATATTGAGCGTTAAAGTTGTTAGAATCAAAACA
Found at i:4800972 original size:2 final size:2
Alignment explanation
Indices: 4800965--4800993 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4800955 ATGTACATGG
4800965 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4800994 GGGCGGGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4803295 original size:12 final size:12
Alignment explanation
Indices: 4803280--4803312 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4803270 ATAAATAATT
4803280 AATTAAATTAGA
1 AATTAAATTAGA
*
4803292 AATTAAATTGGA
1 AATTAAATTAGA
4803304 AATTAAATT
1 AATTAAATT
4803313 TAGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (12 bp):
AATTAAATTAGA
Found at i:4804961 original size:112 final size:112
Alignment explanation
Indices: 4804773--4804975 Score: 406
Period size: 112 Copynumber: 1.8 Consensus size: 112
4804763 CTCACACGAG
4804773 CTTATAAAATCTCTTTTGCTAACTCAGGCATGAATTAGGACCAAATTATAATGTTTTAAAATTTT
1 CTTATAAAATCTCTTTTGCTAACTCAGGCATGAATTAGGACCAAATTATAATGTTTTAAAATTTT
4804838 CGAGTTGACATCGTGACTTCATAATTTCCTCAATGCAATCACATCAC
66 CGAGTTGACATCGTGACTTCATAATTTCCTCAATGCAATCACATCAC
4804885 CTTATAAAATCTCTTTTGCTAACTCAGGCATGAATTAGGACCAAATTATAATGTTTTAAAATTTT
1 CTTATAAAATCTCTTTTGCTAACTCAGGCATGAATTAGGACCAAATTATAATGTTTTAAAATTTT
4804950 CGAGTTGACATCGTGACTTCATAATT
66 CGAGTTGACATCGTGACTTCATAATT
4804976 ACTGTCAGAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 91 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (112 bp):
CTTATAAAATCTCTTTTGCTAACTCAGGCATGAATTAGGACCAAATTATAATGTTTTAAAATTTT
CGAGTTGACATCGTGACTTCATAATTTCCTCAATGCAATCACATCAC
Found at i:4811516 original size:50 final size:50
Alignment explanation
Indices: 4811455--4811568 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
4811445 ATTGGTATGT
* * *
4811455 TCTCACGAGCTGTGAATC-AGTAAGCTTATACAAGCTAAGAATCAGTAAGC
1 TCTCACAAGCTGTAAATCGA-TAAGCTCATACAAGCTAAGAATCAGTAAGC
* * *
4811505 TCTCACAAGCTGTAAATCGATAAGCTCATACGAGCTGAGAATCGGTAAGC
1 TCTCACAAGCTGTAAATCGATAAGCTCATACAAGCTAAGAATCAGTAAGC
**
4811555 TCTCATGAGCTGTA
1 TCTCACAAGCTGTA
4811569 GTGCGTCTGC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
TCTCACAAGCTGTAAATCGATAAGCTCATACAAGCTAAGAATCAGTAAGC
Found at i:4811556 original size:25 final size:25
Alignment explanation
Indices: 4811462--4811556 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
4811452 TGTTCTCACG
* *
4811462 AGCTGTGAATCAGTAAGCTTATACA
1 AGCTGAGAATCAGTAAGCTCATACA
*
4811487 AGCTAAGAATCAGTAAGCTC-TCACA
1 AGCTGAGAATCAGTAAGCTCAT-ACA
*
4811512 AGCTGTA-AATC-GATAAGCTCATACG
1 AGCTG-AGAATCAG-TAAGCTCATACA
*
4811537 AGCTGAGAATCGGTAAGCTC
1 AGCTGAGAATCAGTAAGCTC
4811557 TCATGAGCTG
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
24 3 0.05
25 53 0.90
26 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCTGAGAATCAGTAAGCTCATACA
Found at i:4811564 original size:25 final size:25
Alignment explanation
Indices: 4811455--4811566 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
4811445 ATTGGTATGT
* *
4811455 TCTCACGAGCTGTGAATCAGTAAGC
1 TCTCACGAGCTGAGAATCGGTAAGC
* * * *
4811480 T-TATACAAGCTAAGAATCAGTAAGC
1 TCT-CACGAGCTGAGAATCGGTAAGC
* *
4811505 TCTCACAAGCTGTA-AATCGATAAGC
1 TCTCACGAGCTG-AGAATCGGTAAGC
4811530 TCAT-ACGAGCTGAGAATCGGTAAGC
1 TC-TCACGAGCTGAGAATCGGTAAGC
*
4811555 TCTCATGAGCTG
1 TCTCACGAGCTG
4811567 TAGTGCGTCT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
24 3 0.04
25 64 0.91
26 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
TCTCACGAGCTGAGAATCGGTAAGC
Found at i:4820159 original size:10 final size:11
Alignment explanation
Indices: 4820139--4820171 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4820129 ATTTTTCCTA
4820139 GGATGTGAATT
1 GGATGTGAATT
4820150 GGAT-TGAATT
1 GGATGTGAATT
*
4820160 GAATGTGAATT
1 GGATGTGAATT
4820171 G
1 G
4820172 TATTAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (11 bp):
GGATGTGAATT
Found at i:4820165 original size:21 final size:21
Alignment explanation
Indices: 4820141--4820182 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4820131 TTTTCCTAGG
*
4820141 ATGTGAATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
4820162 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATTAAATTGA
4820183 GCTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:4823734 original size:24 final size:27
Alignment explanation
Indices: 4823707--4823759 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
4823697 AATGGAATTG
4823707 AAAT-AAA-ATATGAAAAA-AAAAGAA
1 AAATAAAACATATGAAAAATAAAAGAA
*
4823731 AAATAAAACATCTGAAAAATAAAAGAA
1 AAATAAAACATATGAAAAATAAAAGAA
4823758 AA
1 AA
4823760 CAGAGAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 3 0.12
26 9 0.36
27 9 0.36
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (27 bp):
AAATAAAACATATGAAAAATAAAAGAA
Found at i:4825612 original size:22 final size:22
Alignment explanation
Indices: 4825571--4825621 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
4825561 AATTTTTAAT
4825571 TTTAAAAAATAGAGAAACTAAA
1 TTTAAAAAATAGAGAAACTAAA
4825593 TTTATAAAAATA-A-AAGACTAAA
1 TTTA-AAAAATAGAGAA-ACTAAA
4825615 TTCTAAA
1 TT-TAAA
4825622 TATACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (22 bp):
TTTAAAAAATAGAGAAACTAAA
Found at i:4828784 original size:30 final size:30
Alignment explanation
Indices: 4828724--4828785 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
4828714 AGTTTATATC
* *
4828724 TTTATAATTTTTAAATGATTAAATTAAATT
1 TTTATAATTTTTAAATGACTAAAATAAATT
* *
4828754 TTTATCATTTTTAGA-GACTAAAATATAATT
1 TTTATAATTTTTAAATGACTAAAATA-AATT
4828784 TT
1 TT
4828786 ACCAAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTATAATTTTTAAATGACTAAAATAAATT
Found at i:4829438 original size:19 final size:19
Alignment explanation
Indices: 4829396--4829435 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4829386 TCACTCCCCC
4829396 CTTCTCTTCTTTCACCTTT
1 CTTCTCTTCTTTCACCTTT
4829415 CTTCTC-TCTTT-ACCCTTT
1 CTTCTCTTCTTTCA-CCTTT
4829433 CTT
1 CTT
4829436 TCTGCCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTCTCTTCTTTCACCTTT
Found at i:4849487 original size:16 final size:16
Alignment explanation
Indices: 4849466--4849499 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4849456 CTTCAACCTC
*
4849466 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
4849482 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
4849498 TC
1 TC
4849500 CTCTCCGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:4850398 original size:13 final size:11
Alignment explanation
Indices: 4850370--4850403 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
4850360 ATTTTTTTCT
4850370 CATATATTGTA
1 CATATATTGTA
4850381 CATATATTGTA
1 CATATATTGTA
4850392 CATATATTGTA
1 CATATATTGTA
4850403 C
1 C
4850404 TAATTCCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (11 bp):
CATATATTGTA
Found at i:4851227 original size:321 final size:321
Alignment explanation
Indices: 4850643--4851285 Score: 1232
Period size: 321 Copynumber: 2.0 Consensus size: 321
4850633 TAACCTCAAG
4850643 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
1 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
*
4850708 AAGTATTTTAAGTGTTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTGACA
66 AAGTATTTTAAGTGCTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTGACA
4850773 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTGATGTATGAGGACTATC
131 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTGATGTATGAGGACTATC
*
4850838 TTTTCGTATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAAATA
196 TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAAATA
*
4850903 CATACTCAAGGAGAGGTGTATGCACACGTGCATGTAATTACATGTTATTCTTGTTTACCAC
261 CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
*
4850964 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGTCTATGAGTAATACAAGATATGTCATAAG
1 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
*
4851029 AAGTATTTTAAGTGCTAGAATGAATTCCACTTATTATTATATATACTAGATGGATGTTTCTGACA
66 AAGTATTTTAAGTGCTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTGACA
4851094 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTGATGTATGAGGACTATC
131 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTGATGTATGAGGACTATC
*
4851159 TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAGATA
196 TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAAATA
4851224 CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
261 CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
4851285 A
1 A
4851286 CTGTGTCTGT
Statistics
Matches: 316, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
321 316 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (321 bp):
AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
AAGTATTTTAAGTGCTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTGACA
TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTGATGTATGAGGACTATC
TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAAATA
CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
Found at i:4851957 original size:20 final size:20
Alignment explanation
Indices: 4851932--4851971 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4851922 AATATTTTCC
* *
4851932 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
4851952 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
4851972 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:4853135 original size:28 final size:26
Alignment explanation
Indices: 4853078--4853140 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
4853068 ATATATATAA
** *
4853078 AATATATATTTTTATTATATAATTACAT
1 AATAT-TA-TTTTATTATATAAAAAAAT
4853106 AATTATTATTTTATTTATATAAAAAAAT
1 AA-TATTATTTTA-TTATATAAAAAAAT
4853134 AATATTA
1 AATATTA
4853141 ATTAAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 10 0.33
28 17 0.57
29 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATTATTTTATTATATAAAAAAAT
Found at i:4860280 original size:376 final size:375
Alignment explanation
Indices: 4859588--4860337 Score: 1464
Period size: 376 Copynumber: 2.0 Consensus size: 375
4859578 AATGGAAACC
4859588 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
1 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
4859653 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATAAAGTAAAATCTAGAAGACAT
66 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATAAAGTAAAATCTAGAAGACAT
*
4859718 TGAAATGTTGCAAATGCATCATATCAGTCTTCCTCTTTGCTGAAATAGAAAAGATATAACCCAGA
131 TGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTGCTGAAATAGAAAAGATATAACCCAGA
*
4859783 TAAGATAAGCATTAACTTATCTATACAAGTAAAATTCAAGAACATGCAAATAACTCAACCCGACG
196 TAAGATAAGCATTAACTTATCTATACAAGTAAAACTCAAGAACATGCAAATAACTCAACCCGACG
4859848 AGTAAGGCAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGAC
261 AGTAAGGCAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGAC
4859913 TTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCA
326 TTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCA
4859963 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
1 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
4860028 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATACAAGTAAAATCTAGAAGACA
66 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATA-AAGTAAAATCTAGAAGACA
4860093 TTGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTGCTGAAATAGAAAAGATATAACCCAG
130 TTGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTGCTGAAATAGAAAAGATATAACCCAG
4860158 ATAAGATAAGCATTAACTTATCTATACAAGTAAAACTCAAGAACATGCAAATAACTCAACCCGAC
195 ATAAGATAAGCATTAACTTATCTATACAAGTAAAACTCAAGAACATGCAAATAACTCAACCCGAC
*
4860223 GAGTAAGGCAATATTGACACTGTGTAATCACTTAGGATTGCCGAATACATGATCATGTAAAACGA
260 GAGTAAGGCAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGA
4860288 CTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTC
325 CTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTC
4860338 GATTGCCAAG
Statistics
Matches: 371, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
375 110 0.30
376 261 0.70
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (375 bp):
ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATAAAGTAAAATCTAGAAGACAT
TGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTGCTGAAATAGAAAAGATATAACCCAGA
TAAGATAAGCATTAACTTATCTATACAAGTAAAACTCAAGAACATGCAAATAACTCAACCCGACG
AGTAAGGCAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGAC
TTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCA
Found at i:4861539 original size:23 final size:24
Alignment explanation
Indices: 4861489--4861539 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
4861479 TGGATACAAG
4861489 TTTAGTATTGATTTTGGAAAATTCT
1 TTTAGTATTGATTTT-GAAAATTCT
*
4861514 TTTAGTATTG-TTGTT-AAAATTTT
1 TTTAGTATTGATT-TTGAAAATTCT
4861537 TTT
1 TTT
4861540 TTGAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 10 0.42
24 2 0.08
25 12 0.50
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (24 bp):
TTTAGTATTGATTTTGAAAATTCT
Found at i:4865502 original size:31 final size:32
Alignment explanation
Indices: 4865467--4865534 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
4865457 AAAATTAGAT
* *
4865467 TAAATTGTGATTAAAAT-AAAAT-TTAAATACA
1 TAAATTG-CATTAAAATAAAAATATTAAATAAA
*
4865498 TAAA-TGCATTAAATTAAAAATATTAAATAAA
1 TAAATTGCATTAAAATAAAAATATTAAATAAA
4865529 TAAATT
1 TAAATT
4865535 ATTTAGTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 16 0.52
32 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (32 bp):
TAAATTGCATTAAAATAAAAATATTAAATAAA
Found at i:4866210 original size:26 final size:27
Alignment explanation
Indices: 4866178--4866235 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
4866168 CAACCAAAAC
4866178 CTAATTTTAA-TTTATTTATACAT-TTT
1 CTAATTTTAATTTTA-TTATACATATTT
4866204 CTAATTTTAATTTTATTATACATATTT
1 CTAATTTTAATTTTATTATACATATTT
4866231 -TAATT
1 CTAATT
4866236 GTATATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (27 bp):
CTAATTTTAATTTTATTATACATATTT
Found at i:4876855 original size:41 final size:41
Alignment explanation
Indices: 4876799--4877113 Score: 425
Period size: 41 Copynumber: 7.7 Consensus size: 41
4876789 TTAATATAAA
* * * *
4876799 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
4876841 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
4876882 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * * * *
4876923 CAGATCACCAGCACTTAGCGTGTTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
** * * *
4876964 CATTTCACCAGCACTTAGCTTGCTAGGTTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
4877005 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
4877046 CA-ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
4877087 TAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
4877114 TTTTAAAACC
Statistics
Matches: 240, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.00
41 234 0.98
42 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:4876940 original size:82 final size:82
Alignment explanation
Indices: 4876802--4877113 Score: 471
Period size: 82 Copynumber: 3.8 Consensus size: 82
4876792 ATATAAACAG
* * * *
4876802 ATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAG
4876867 GCTTATAGCCTAATCCA
66 GCTTATAGCCTAATCCA
* * *
4876884 GTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCGTGTTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAG
4876949 GCTTATAGCCTAATCCA
66 GCTTATAGCCTAATCCA
* * * * *
4876966 TTTCACCAGCACTTAGCTTGCTAGGTTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAG
* *
4877031 GCTTATAGCCTGATTCA
66 GCTTATAGCCTAATCCA
* * *
4877048 ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCACTTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAG
4877113 G
66 G
4877114 TTTTAAAACC
Statistics
Matches: 208, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 208 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCTAG
GCTTATAGCCTAATCCA
Found at i:4883518 original size:27 final size:26
Alignment explanation
Indices: 4883487--4883554 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
4883477 TAATTTAAAT
4883487 TATATGTATATATGTTTACAAAATATG
1 TATATGTATATATGTTTA-AAAATATG
* *
4883514 TATATATAAGTAAAT-TTTAAAAATATG
1 TATATGT-A-TATATGTTTAAAAATATG
* *
4883541 AATATGCATATATG
1 TATATGTATATATG
4883555 AAACATGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
25 4 0.12
26 1 0.03
27 18 0.56
28 5 0.16
29 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (26 bp):
TATATGTATATATGTTTAAAAATATG
Found at i:4883951 original size:7 final size:7
Alignment explanation
Indices: 4883920--4883966 Score: 51
Period size: 8 Copynumber: 6.4 Consensus size: 7
4883910 ATATGCGTAT
4883920 ATATATA
1 ATATATA
4883927 GATATAATA
1 -ATAT-ATA
4883936 ATAT-TA
1 ATATATA
*
4883942 ATATTTA
1 ATATATA
4883949 ATATAATA
1 ATAT-ATA
4883957 ATATATA
1 ATATATA
4883964 ATA
1 ATA
4883967 CTAATAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
6 6 0.17
7 12 0.34
8 14 0.40
9 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:4883960 original size:15 final size:16
Alignment explanation
Indices: 4883928--4883974 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
4883918 ATATATATAG
* *
4883928 ATATAATAATATTAAT
1 ATATAATACTAATAAT
*
4883944 ATTTAATA-TAATAAT
1 ATATAATACTAATAAT
4883959 ATATAATACTAATAAT
1 ATATAATACTAATAAT
4883975 CATACAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAATACTAATAAT
Found at i:4883971 original size:21 final size:21
Alignment explanation
Indices: 4883928--4883972 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
4883918 ATATATATAG
*
4883928 ATATAATAATATTAATATTTA
1 ATATAATAATATTAATATCTA
4883949 ATATAATAATATATAATA-CTA
1 ATATAATAATAT-TAATATCTA
4883970 ATA
1 ATA
4883973 ATCATACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATAATAATATTAATATCTA
Found at i:4891824 original size:40 final size:40
Alignment explanation
Indices: 4891769--4891854 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
4891759 GTTCGCCAAA
4891769 AGCTTCTTTAAAAATTTAACGAATTGGGCATCTACGAAAG
1 AGCTTCTTTAAAAATTTAACGAATTGGGCATCTACGAAAG
*
4891809 AGCTTCTTTAAAAATTTAACGAATTGGGCATCTATGAAAG
1 AGCTTCTTTAAAAATTTAACGAATTGGGCATCTACGAAAG
4891849 AGCTTC
1 AGCTTC
4891855 AATAAACAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (40 bp):
AGCTTCTTTAAAAATTTAACGAATTGGGCATCTACGAAAG
Found at i:4893797 original size:18 final size:19
Alignment explanation
Indices: 4893756--4893797 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4893746 AAATAAAAGA
*
4893756 AAAATTAGAAAACAAAACT
1 AAAATTAGAAAACAAAAAT
*
4893775 TAAATTA-AAAACAAAAAT
1 AAAATTAGAAAACAAAAAT
4893793 AAAAT
1 AAAAT
4893798 GTAATAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATTAGAAAACAAAAAT
Done.