Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 316 of 328
Found at i:93754008 original size:8 final size:8
Alignment explanation
Indices: 93753979--93754025 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
93753969 AAAAAGCAAC
*
93753979 AGAAGAAA
1 AGAAAAAA
93753987 AGAAAAATA
1 AGAAAAA-A
*
93753996 GGAAAAAA
1 AGAAAAAA
93754004 AGAAAAAA
1 AGAAAAAA
*
93754012 A-AGAAAA
1 AGAAAAAA
93754019 AGAAAAA
1 AGAAAAA
93754026 GAAAAAGGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.19
8 19 0.59
9 7 0.22
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
AGAAAAAA
Found at i:93754009 original size:6 final size:6
Alignment explanation
Indices: 93753966--93754032 Score: 50
Period size: 6 Copynumber: 10.5 Consensus size: 6
93753956 TAACTAGGGT
93753966 AAGAAA AAGCAACA GAAG-AA AAGAAAA ATAGGAAA AA-AAGA AA-AAA
1 AAGAAA AAG-AA-A -AAGAAA AAG-AAA A-A-GAAA AAGAA-A AAGAAA
93754012 AAGAAA AAGAAA AAGAAA AAG
1 AAGAAA AAGAAA AAGAAA AAG
93754033 GGGACATGCC
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
5 8 0.15
6 27 0.52
7 7 0.13
8 6 0.12
9 4 0.08
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:93754017 original size:17 final size:17
Alignment explanation
Indices: 93753979--93754032 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
93753969 AAAAAGCAAC
* *
93753979 AGAAGAAAAGAAAAATA
1 AGAAAAAAAGAAAAAAA
*
93753996 GGAAAAAAAGAAAAAAA
1 AGAAAAAAAGAAAAAAA
93754013 AGAAAAAGAA-AAAGAAAA
1 AGAAAAA-AAGAAA-AAAA
93754031 AG
1 AG
93754033 GGGACATGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 23 0.74
18 8 0.26
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAGAAAAAAA
Found at i:93761208 original size:46 final size:46
Alignment explanation
Indices: 93761148--93761459 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
93761138 TTTGACATGA
* * * * * *
93761148 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
93761194 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *
93761240 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93761286 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93761332 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93761378 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93761416 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93761460 AGAGCACACT
Statistics
Matches: 244, Mismatches: 13, Indels: 18
0.89 0.05 0.07
Matches are distributed among these distances:
38 34 0.14
40 3 0.01
43 1 0.00
44 3 0.01
45 4 0.02
46 199 0.82
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:93761423 original size:38 final size:38
Alignment explanation
Indices: 93761372--93761447 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
93761362 ACATTTTATA
93761372 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
93761410 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
93761448 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:93763609 original size:11 final size:11
Alignment explanation
Indices: 93763593--93763644 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
93763583 TATACTAAAT
93763593 AAATAATAATA
1 AAATAATAATA
*
93763604 AAATAAT-ATT
1 AAATAATAATA
* *
93763614 AAATATCTCATA
1 AAATA-ATAATA
*
93763626 AAATATTAATA
1 AAATAATAATA
93763637 AAATAATA
1 AAATAATA
93763645 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:93770317 original size:2 final size:2
Alignment explanation
Indices: 93770310--93770337 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
93770300 TGTATTGTGT
93770310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93770338 AATGAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93770547 original size:17 final size:17
Alignment explanation
Indices: 93770525--93770558 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
93770515 AAAAAGTTGA
93770525 AAAAAGAAATAGATTAG
1 AAAAAGAAATAGATTAG
93770542 AAAAAGAAATAGATTAG
1 AAAAAGAAATAGATTAG
93770559 GGTGGTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAAAGAAATAGATTAG
Found at i:93771280 original size:14 final size:14
Alignment explanation
Indices: 93771261--93771332 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 14
93771251 CCATCTTCTG
93771261 AATATTATTTATAA
1 AATATTATTTATAA
93771275 AATATTATTTATATTA
1 AATATTATTTATA--A
* *
93771291 AATTATGATTCA-AA
1 AA-TATTATTTATAA
*
93771305 AATTTTTATTTATAA
1 AA-TATTATTTATAA
93771320 AATATTATTTATA
1 AATATTATTTATA
93771333 TTATATGTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 33 0.69
15 4 0.08
16 4 0.08
17 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
AATATTATTTATAA
Found at i:93771706 original size:3 final size:3
Alignment explanation
Indices: 93771698--93771724 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
93771688 CCATTTCCTT
93771698 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
93771725 CCTGTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:93779271 original size:16 final size:17
Alignment explanation
Indices: 93779250--93779286 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
93779240 TAATCTAGCC
*
93779250 TAATTATATA-ATGTTA
1 TAATTATATATATATTA
93779266 TAATTATATATATATTA
1 TAATTATATATATATTA
93779283 TAAT
1 TAAT
93779287 CTATCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATTATATATATATTA
Found at i:93779336 original size:10 final size:11
Alignment explanation
Indices: 93779310--93779335 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93779300 AATTACATGT
93779310 TTTTTCCATTA
1 TTTTTCCATTA
93779321 TTTTTCCATTA
1 TTTTTCCATTA
93779332 TTTT
1 TTTT
93779336 CTTGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTCCATTA
Found at i:93780067 original size:22 final size:22
Alignment explanation
Indices: 93780028--93780069 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
93780018 TCAAGAGGGT
**
93780028 AAAAATTAAATTGTAATTTTTA
1 AAAAATTAAATTAAAATTTTTA
93780050 AAAAATTAAATTAAAATTTT
1 AAAAATTAAATTAAAATTTT
93780070 ATCATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAATTAAATTAAAATTTTTA
Found at i:93784919 original size:14 final size:14
Alignment explanation
Indices: 93784882--93784911 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93784872 GTAAAAAAAA
*
93784882 AAATAAAATATGAT
1 AAATAAAATATAAT
93784896 AAATAAAATATAAT
1 AAATAAAATATAAT
93784910 AA
1 AA
93784912 GTATAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAATAAAATATAAT
Found at i:93785069 original size:2 final size:2
Alignment explanation
Indices: 93785062--93785093 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93785052 AGTTTTATTT
93785062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93785094 CGAAGCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93785290 original size:33 final size:32
Alignment explanation
Indices: 93785230--93785291 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
93785220 AATAATAGTG
*
93785230 TAAAAAATATAATAAATAATAAGAAAATAATT
1 TAAAAAATATAATAAATAAAAAGAAAATAATT
*
93785262 TAAAAAATGATAGTAAA-AAAAAGTAAAATA
1 TAAAAAAT-ATAATAAATAAAAAG-AAAATA
93785292 GTAATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (32 bp):
TAAAAAATATAATAAATAAAAAGAAAATAATT
Found at i:93786697 original size:133 final size:133
Alignment explanation
Indices: 93786458--93787060 Score: 917
Period size: 133 Copynumber: 4.6 Consensus size: 133
93786448 TTGGAACTTT
* * * **
93786458 ATCTGCTCCGCTCTTGCTCAACGAAGATAAGATCTGCAATTTAGCCTGCT-CACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* * * *
93786522 GAAGATAAGGCTGATGATTGGAATCTGCTCTATTGTCGGTACGTGGAGATAAGATTCACCAACAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
93786587 TTG
131 TTG
* *
93786590 ATCTGTTCCCCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* *
93786655 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACTGTACGTGGAGATAAGATTTACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
93786720 TTG
131 TTG
* *
93786723 A----------T-CTGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTTCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* * *
93786777 GAAGATAAGGCTGATGATTGGAATCTGCTCTATCGCCGGTACTTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
*
93786842 TTT
131 TTG
* *
93786845 ATTTGCTCCGCTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
93786910 GAAGATAAGGCTGATGATTGGAATCTGCTCCATC-ACCGGTACGTGGAGATAAGATTCACCAAAA
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGA-CGGTACGTGGAGATAAGATTCACCAAAA
93786974 TTTG
130 TTTG
93786978 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
93787043 GAAGATAAGGCTGATGAT
66 GAAGATAAGGCTGATGAT
93787061 ATCTGTAATC
Statistics
Matches: 428, Mismatches: 30, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
122 113 0.26
123 1 0.00
132 44 0.10
133 270 0.63
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (133 bp):
ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
TTG
Found at i:93786959 original size:255 final size:257
Alignment explanation
Indices: 93786472--93787060 Score: 909
Period size: 255 Copynumber: 2.3 Consensus size: 257
93786462 GCTCCGCTCT
* *
93786472 TGCTCAACGAAGATAAGATCTGCA-ATTTAGCCTGCT-CACTCCTGCTCAGTGAAGATAAGGCTG
1 TGCTCAGCGAAGATAAGACCTG-ATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTG
* * * *
93786535 ATGATTGGAATCTGCTCTATTGTCGGTACGTGGAGATAAGATTCACCAACATTTGATCTGTTCCC
65 ATGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCC
*
93786600 CTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
130 CTCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
* *
93786665 CTGATGATTGGAATCTGCTCCATCGACTGTACGTGGAGATAAGATTTACCAAAATTTGA-T-C
195 CTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAATTTGACTCC
*
93786726 TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTTCTCAGTGAAGATAAGGCTGA
1 TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * * *
93786791 TGATTGGAATCTGCTCTATCGCCGGTACTTGGAGATAAGATTCACCAAAATTTTATTTGCTCCGC
66 TGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCCC
93786856 TCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGC
131 TCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGC
93786921 TGATGATTGGAATCTGCTCCATC-ACCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCT
196 TGATGATTGGAATCTGCTCCATCGA-CGGTACGTGGAGATAAGATTCACCAAAATTTGA------
93786985 CCGCTCC
254 ---CTCC
*
93786992 TGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
1 TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
93787057 TGAT
66 TGAT
93787061 ATCTGTAATC
Statistics
Matches: 305, Mismatches: 16, Indels: 16
0.91 0.05 0.05
Matches are distributed among these distances:
253 1 0.00
254 33 0.11
255 202 0.66
265 1 0.00
266 68 0.22
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (257 bp):
TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
TGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCCC
TCCTGCTCAACGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGC
TGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAATTTGACTCC
Found at i:93797215 original size:14 final size:14
Alignment explanation
Indices: 93797175--93797207 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
93797165 CGGTAAAAAA
93797175 AATAAATAAAATAT
1 AATAAATAAAATAT
*
93797189 GATAAATAAAATAT
1 AATAAATAAAATAT
93797203 AATAA
1 AATAA
93797208 GTATAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:93797216 original size:23 final size:23
Alignment explanation
Indices: 93797168--93797217 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
93797158 TAGTAAACGG
*
93797168 TAAAAAAAATAAATAAAATATGA
1 TAAAAAAAATAAATAAAATATAA
* *
93797191 TAAATAAAATATAAT-AAGTATAA
1 TAAAAAAAATA-AATAAAATATAA
93797214 TAAA
1 TAAA
93797218 CTATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAAAAAATAAATAAAATATAA
Found at i:93797368 original size:2 final size:2
Alignment explanation
Indices: 93797361--93797387 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93797351 TTTATTTTAA
93797361 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
93797388 CGAAGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93798848 original size:43 final size:45
Alignment explanation
Indices: 93798801--93799369 Score: 182
Period size: 43 Copynumber: 12.9 Consensus size: 45
93798791 GCAATTTAGC
93798801 CTGCT-CACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* ** * * * ** ** *
93798844 CTGCTCTA-TTGTCGGT-ACGTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTCCT-GCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * * **
93798890 CTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
93798933 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* * * * ** ** *
93798977 CTGCTCCA-TCGTCGGT-ACGTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTCCT-GCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * **
93799023 CTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGAT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
*
93799066 CTGCTCCACTCCTTCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* * * * * ** ** *
93799110 CTGCTCCA-TCGCCGGT-ACTTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * * * **
93799156 CTGCTTCGCTCCTGCTCAGCGAAGATAAGACCTGGT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
*
93799199 CTGCTCCACTCTTGCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* * * * * ** ** *
93799243 CTGCTCCA-TCACCGGT-ACCTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * * **
93799289 CTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
93799332 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGAT
93799370 ATCTGTAATC
Statistics
Matches: 361, Mismatches: 125, Indels: 80
0.64 0.22 0.14
Matches are distributed among these distances:
42 17 0.05
43 146 0.40
44 75 0.21
45 4 0.01
46 86 0.24
47 33 0.09
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
Found at i:93798993 original size:133 final size:133
Alignment explanation
Indices: 93798756--93799369 Score: 1077
Period size: 133 Copynumber: 4.6 Consensus size: 133
93798746 TTGGAACTTT
* * * **
93798756 ATCTGCTCCGCTCTTGCTCAACGAAGATAAGATCTGCAATTTAGCCTGCT-CACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* * *
93798820 GAAGATAAGGCTGATGATTGGAATCTGCTCTATTGTCGGTACGTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93798885 TTG
131 TTG
93798888 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
*
93798953 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGTCGGTACGTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93799018 TTG
131 TTG
* *
93799021 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTTCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
*
93799086 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACTTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93799151 TTG
131 TTG
* *
93799154 ATCTGCTTCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCTTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* *
93799219 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCACCGGTACCTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93799284 TTG
131 TTG
93799287 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
93799352 GAAGATAAGGCTGATGAT
66 GAAGATAAGGCTGATGAT
93799370 ATCTGTAATC
Statistics
Matches: 462, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
132 45 0.10
133 417 0.90
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (133 bp):
ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
TTG
Found at i:93800269 original size:17 final size:17
Alignment explanation
Indices: 93800210--93800269 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
93800200 TAATAAATTT
93800210 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
93800229 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
93800243 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
93800261 AAAATATAA
1 AAAATATAA
93800270 AATATAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:93800781 original size:18 final size:18
Alignment explanation
Indices: 93800745--93800843 Score: 164
Period size: 18 Copynumber: 5.5 Consensus size: 18
93800735 AATCATATCT
*
93800745 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
93800764 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
93800782 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
93800799 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
93800817 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
93800835 TCTAAGATT
1 TCTAAGATT
93800844 ACATATCATT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
17 16 0.21
18 49 0.64
19 11 0.14
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:93800803 original size:35 final size:36
Alignment explanation
Indices: 93800745--93800852 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
93800735 AATCATATCT
93800745 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
93800782 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
93800817 TCTAAGATTGCA-ATCATATCTAAGATTACATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
93800853 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
35 35 0.52
36 17 0.25
37 15 0.22
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:93801027 original size:2 final size:2
Alignment explanation
Indices: 93801020--93801044 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93801010 TTTATTTTAA
93801020 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93801045 CGAAGCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93802654 original size:133 final size:133
Alignment explanation
Indices: 93802415--93803017 Score: 899
Period size: 133 Copynumber: 4.6 Consensus size: 133
93802405 TTGGAACTTT
* * * **
93802415 ATCTGCTCCGCTCTTGCTCAACGAAGATAAGATCTGCAATTTAGCCTGCT-CACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* * * *
93802479 GAAGATAAGGCTGATGATTGGAATCTGCTCTATTGTCGGTACGTGGAGATAAGATTCACCAACAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
93802544 TTG
131 TTG
* *
93802547 ATCTGTTCCCCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* *
93802612 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACTGTACGTGGAGATAAGATTTACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
93802677 TTG
131 TTG
* *
93802680 A----------T-CTGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTTCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* * *
93802734 GAAGATAAGGCTGATGATTGGAATCTGCTCTATCGCCGGTACTTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
*
93802799 TTT
131 TTG
* * *
93802802 ATTTGCTCCGCTCCTGCTCAACGAAGATAAGACCTAGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
93802867 GAAGATAAGGCTGATGATTGGAATCTGCTCCATC-ACCGGTACGTGGAGATAAGATTCACCAAAA
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGA-CGGTACGTGGAGATAAGATTCACCAAAA
93802931 TTTG
130 TTTG
*
93802935 ATCTGCTCCGCTCCTGCTTAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
93803000 GAAGATAAGGCTGATGAT
66 GAAGATAAGGCTGATGAT
93803018 ATCTGTAATC
Statistics
Matches: 425, Mismatches: 33, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
122 113 0.27
123 1 0.00
132 44 0.10
133 267 0.63
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (133 bp):
ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAAT
TTG
Found at i:93802916 original size:255 final size:257
Alignment explanation
Indices: 93802429--93803017 Score: 900
Period size: 255 Copynumber: 2.3 Consensus size: 257
93802419 GCTCCGCTCT
* *
93802429 TGCTCAACGAAGATAAGATCTGCA-ATTTAGCCTGCT-CACTCCTGCTCAGTGAAGATAAGGCTG
1 TGCTCAGCGAAGATAAGACCTG-ATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTG
* * * *
93802492 ATGATTGGAATCTGCTCTATTGTCGGTACGTGGAGATAAGATTCACCAACATTTGATCTGTTCCC
65 ATGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCC
* *
93802557 CTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
130 CTCCTGCTCAACGAAGATAAGACCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
* *
93802622 CTGATGATTGGAATCTGCTCCATCGACTGTACGTGGAGATAAGATTTACCAAAATTTGA-T-C
195 CTGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAATTTGACTGC
*
93802683 TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTTCTCAGTGAAGATAAGGCTGA
1 TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
* * * *
93802748 TGATTGGAATCTGCTCTATCGCCGGTACTTGGAGATAAGATTCACCAAAATTTTATTTGCTCCGC
66 TGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCCC
93802813 TCCTGCTCAACGAAGATAAGACCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGC
131 TCCTGCTCAACGAAGATAAGACCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGC
93802878 TGATGATTGGAATCTGCTCCATC-ACCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGC
196 TGATGATTGGAATCTGCTCCATCGA-CGGTACGTGGAGATAAGATTCACCAAAATTTGA-CTGC
*
93802941 TCCGCTCCTGCTTAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGAT
1 T--G---CT-C--AGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGAT
93803006 AAGGCTGATGAT
58 AAGGCTGATGAT
93803018 ATCTGTAATC
Statistics
Matches: 304, Mismatches: 17, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
253 1 0.00
254 33 0.11
255 201 0.66
257 1 0.00
258 2 0.01
260 1 0.00
263 2 0.01
264 1 0.00
266 62 0.20
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (257 bp):
TGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
TGATTGGAATCTGCTCTATCGCCGGTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCCC
TCCTGCTCAACGAAGATAAGACCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGC
TGATGATTGGAATCTGCTCCATCGACGGTACGTGGAGATAAGATTCACCAAAATTTGACTGC
Found at i:93813168 original size:14 final size:14
Alignment explanation
Indices: 93813128--93813160 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
93813118 CGGTAAAAAA
93813128 AATAAATAAAATAT
1 AATAAATAAAATAT
*
93813142 GATAAATAAAATAT
1 AATAAATAAAATAT
93813156 AATAA
1 AATAA
93813161 GTATAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:93813169 original size:23 final size:23
Alignment explanation
Indices: 93813121--93813170 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
93813111 TAGTAAACGG
*
93813121 TAAAAAAAATAAATAAAATATGA
1 TAAAAAAAATAAATAAAATATAA
* *
93813144 TAAATAAAATATAAT-AAGTATAA
1 TAAAAAAAATA-AATAAAATATAA
93813167 TAAA
1 TAAA
93813171 CTATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAAAAAATAAATAAAATATAA
Found at i:93813321 original size:2 final size:2
Alignment explanation
Indices: 93813314--93813340 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93813304 TTTATTTTAA
93813314 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
93813341 CGAAGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93814801 original size:43 final size:45
Alignment explanation
Indices: 93814754--93815322 Score: 182
Period size: 43 Copynumber: 12.9 Consensus size: 45
93814744 GCAATTTAGC
93814754 CTGCT-CACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* ** * * * ** ** *
93814797 CTGCTCTA-TTGTCGGT-ACGTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTCCT-GCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * * **
93814843 CTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
93814886 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* * * * ** ** *
93814930 CTGCTCCA-TCGTCGGT-ACGTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTCCT-GCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * **
93814976 CTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGAT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
*
93815019 CTGCTCCACTCCTTCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* * * * * ** ** *
93815063 CTGCTCCA-TCGCCGGT-ACTTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * * * **
93815109 CTGCTTCGCTCCTGCTCAGCGAAGATAAGACCTGGT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
*
93815152 CTGCTCCACTCTTGCTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
* * * * * ** ** *
93815196 CTGCTCCA-TCACCGGT-ACCTGGAGATAAGATTCACCAAAATTTG-AT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-GC-TGATGATTGGAAT
* * * * * **
93815242 CTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGT-ATT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
93815285 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGAT
93815323 ATCTGTAATC
Statistics
Matches: 361, Mismatches: 125, Indels: 80
0.64 0.22 0.14
Matches are distributed among these distances:
42 17 0.05
43 146 0.40
44 75 0.21
45 4 0.01
46 86 0.24
47 33 0.09
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTGATGATTGGAAT
Found at i:93814946 original size:133 final size:133
Alignment explanation
Indices: 93814709--93815322 Score: 1077
Period size: 133 Copynumber: 4.6 Consensus size: 133
93814699 TTGGAACTTT
* * * **
93814709 ATCTGCTCCGCTCTTGCTCAACGAAGATAAGATCTGCAATTTAGCCTGCT-CACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* * *
93814773 GAAGATAAGGCTGATGATTGGAATCTGCTCTATTGTCGGTACGTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93814838 TTG
131 TTG
93814841 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
*
93814906 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGTCGGTACGTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93814971 TTG
131 TTG
* *
93814974 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGATATTTAGCCTGCTCCACTCCTTCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
*
93815039 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACTTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93815104 TTG
131 TTG
* *
93815107 ATCTGCTTCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCTTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
* *
93815172 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCACCGGTACCTGGAGATAAGATTCACCAAAAT
66 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
93815237 TTG
131 TTG
93815240 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
1 ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
93815305 GAAGATAAGGCTGATGAT
66 GAAGATAAGGCTGATGAT
93815323 ATCTGTAATC
Statistics
Matches: 462, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
132 45 0.10
133 417 0.90
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (133 bp):
ATCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTGGTATTTAGCCTGCTCCACTCCTGCTCAGT
GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACCAAAAT
TTG
Found at i:93816222 original size:17 final size:17
Alignment explanation
Indices: 93816163--93816222 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
93816153 TAATAAATTT
93816163 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
93816182 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
93816196 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
93816214 AAAATATAA
1 AAAATATAA
93816223 AATATAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:93816734 original size:18 final size:18
Alignment explanation
Indices: 93816698--93816796 Score: 164
Period size: 18 Copynumber: 5.5 Consensus size: 18
93816688 AATCATATCT
*
93816698 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
93816717 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
93816735 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
93816752 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
93816770 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
93816788 TCTAAGATT
1 TCTAAGATT
93816797 ACATATCATT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
17 16 0.21
18 49 0.64
19 11 0.14
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:93816756 original size:35 final size:36
Alignment explanation
Indices: 93816698--93816805 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
93816688 AATCATATCT
93816698 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
93816735 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
93816770 TCTAAGATTGCA-ATCATATCTAAGATTACATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
93816806 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
35 35 0.52
36 17 0.25
37 15 0.22
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:93817823 original size:16 final size:16
Alignment explanation
Indices: 93817802--93817855 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
93817792 TTTGGTTCGT
93817802 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
* * **
93817818 TGTAATAGTATAGAAT
1 TGTAATGGAATAGAGC
93817834 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
93817850 TGTAAT
1 TGTAAT
93817856 CGGTAATTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:93817928 original size:44 final size:45
Alignment explanation
Indices: 93817837--93817928 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 45
93817827 ATAGAATTGT
*
93817837 AATGGAATAGAGCTGTAATCGGTAATTAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCGGTAATTAATTGTTTGGTTGAATGG
**
93817882 AATGGAATAGAACTGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCGGTAATTAAT-TGTTTGGTTGAATGG
93817926 AAT
1 AAT
93817929 TATGTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 4 0.09
44 21 0.49
45 18 0.42
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.37
Consensus pattern (45 bp):
AATGGAATAGAACTGTAATCGGTAATTAATTGTTTGGTTGAATGG
Found at i:93818540 original size:29 final size:28
Alignment explanation
Indices: 93818457--93818556 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 28
93818447 CTCTCTAATT
93818457 TTCATCATGACTCTTAACCACTCATCTTC
1 TTCATCAT-ACTCTTAACCACTCATCTTC
* ** * *
93818486 TTCATC-TAATCTTTTCTCTTCACATCTTC
1 TTCATCATACTCTTAAC-C-ACTCATCTTC
*
93818515 TTCATCATCACTCTTAAGCACTCATCTTC
1 TTCATCAT-ACTCTTAACCACTCATCTTC
*
93818544 TTCAT-ATAATCTT
1 TTCATCATACTCTT
93818557 TTCCCTTAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
27 11 0.20
28 4 0.07
29 33 0.60
30 2 0.04
31 5 0.09
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (28 bp):
TTCATCATACTCTTAACCACTCATCTTC
Found at i:93818941 original size:143 final size:143
Alignment explanation
Indices: 93818717--93818993 Score: 414
Period size: 144 Copynumber: 1.9 Consensus size: 143
93818707 TTTTATAGAC
* * * **
93818717 CTATTATTAAAAAATGGGTTTTAGTTTTAGTTTTTTGTTATCTTATGGAAATTGATTGAGAATTG
1 CTATTATTAAAAAATGAGTTTTAGTTTTAATTTTTTGTTATCTTATCGAAATTGATCAAGAATTG
* *
93818782 AAATTGTTGAGAAATGAGTTTTTATTC-TTTCTTGTTATATTCTAGAAATTGATAGAGAGTAGAA
66 AAAGTGTTGAGAAATGAATTTTTATTCTTTTCTTGTTATATTCTAGAAATTGAT--AGAGTAGAA
93818846 GAGAATTTTACAAAT
129 GAGAATTTTACAAAT
* * *
93818861 CTATTATTAAGAAATGAGTTTTAGTTTTAATTTTTT-TTATCTTCTCGAAATTGATCAAGAGTTG
1 CTATTATTAAAAAATGAGTTTTAGTTTTAATTTTTTGTTATCTTATCGAAATTGATCAAGAATTG
* *
93818925 AAAGTGTTGATAAATGAATTTTTATTCTTTTCTTGTTATGTTCTAGAAATTGATAGAGTAGAAGA
66 AAAGTGTTGAGAAATGAATTTTTATTCTTTTCTTGTTATATTCTAGAAATTGATAGAGTAGAAGA
93818990 GAAT
131 GAAT
93818994 GAGGAGTAAG
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
142 15 0.12
143 47 0.39
144 58 0.48
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (143 bp):
CTATTATTAAAAAATGAGTTTTAGTTTTAATTTTTTGTTATCTTATCGAAATTGATCAAGAATTG
AAAGTGTTGAGAAATGAATTTTTATTCTTTTCTTGTTATATTCTAGAAATTGATAGAGTAGAAGA
GAATTTTACAAAT
Found at i:93820444 original size:9 final size:9
Alignment explanation
Indices: 93820400--93820520 Score: 57
Period size: 9 Copynumber: 12.8 Consensus size: 9
93820390 ATTATTATTA
93820400 TTATAAA-T
1 TTATAAATT
*
93820408 TTATAAGTT
1 TTATAAATT
*
93820417 TATATCAATT
1 T-TATAAATT
*
93820427 ATA-ATAATT
1 TTATA-AATT
93820436 TTATAAATT
1 TTATAAATT
* *
93820445 TTATGATTT
1 TTATAAATT
93820454 TTATAGAATT
1 TTATA-AATT
*
93820464 TTAATATATTT
1 TT-ATA-AATT
*
93820475 TTATAAAAT
1 TTATAAATT
*
93820484 TTAAAATATT
1 TTATAA-ATT
**
93820494 TTAGATATGTT
1 TT--ATAAATT
*
93820505 TTATAACTT
1 TTATAAATT
93820514 TTATAAA
1 TTATAAA
93820521 AAGAATTATA
Statistics
Matches: 82, Mismatches: 22, Indels: 17
0.68 0.18 0.14
Matches are distributed among these distances:
8 6 0.07
9 43 0.52
10 19 0.23
11 12 0.15
12 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (9 bp):
TTATAAATT
Found at i:93820448 original size:20 final size:19
Alignment explanation
Indices: 93820425--93820496 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
93820415 TTTATATCAA
93820425 TTATAATAATTTTATAAATT
1 TTATAAT-ATTTTATAAATT
*
93820445 TTATGAT-TTTTATAGAATT
1 TTATAATATTTTATA-AATT
*
93820464 TTA-ATATATTTTTATAAAAT
1 TTATA-ATA-TTTTATAAATT
*
93820484 TTAAAATATTTTA
1 TTATAATATTTTA
93820497 GATATGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 7 0.16
19 14 0.32
20 15 0.34
21 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATAATATTTTATAAATT
Found at i:93828561 original size:37 final size:37
Alignment explanation
Indices: 93828507--93828586 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
93828497 CACAATCTCA
*
93828507 TCCA-TCTTCTCATATCATCTATTTTATGCAAATTGC
1 TCCACTCTTCTCATATCATATATTTTATGCAAATTGC
93828543 TCCACTCTTCTCATATCATATATTTTATGCAAATTGC
1 TCCACTCTTCTCATATCATATATTTTATGCAAATTGC
93828580 TCCACTC
1 TCCACTC
93828587 AGGACAAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 4 0.10
37 38 0.90
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (37 bp):
TCCACTCTTCTCATATCATATATTTTATGCAAATTGC
Found at i:93830307 original size:3 final size:3
Alignment explanation
Indices: 93830299--93830347 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
93830289 TTATGCTGTG
93830299 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
93830347 A
1 A
93830348 AGGAATGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:93832063 original size:4 final size:4
Alignment explanation
Indices: 93832056--93832112 Score: 82
Period size: 4 Copynumber: 14.8 Consensus size: 4
93832046 TATATATATA
*
93832056 TATG TATG TATG --TG TGTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
93832102 TATG TCTG TAT
1 TATG TATG TAT
93832113 ATTGTGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
4 46 0.96
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:93833612 original size:19 final size:19
Alignment explanation
Indices: 93833583--93833643 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
93833573 TTAATTTTTT
93833583 AAAATTGATTAAAATTTGTA
1 AAAATT-ATTAAAATTTGTA
* *
93833603 AAAATTATTAAAAATTGTG
1 AAAATTATTAAAATTTGTA
*
93833622 AAAACTA-TAAGAATTT-TA
1 AAAATTATTAA-AATTTGTA
93833640 AAAA
1 AAAA
93833644 ATTGTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.23
19 21 0.60
20 6 0.17
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (19 bp):
AAAATTATTAAAATTTGTA
Found at i:93834806 original size:24 final size:24
Alignment explanation
Indices: 93834778--93834829 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
93834768 TTTCTAAAAG
* *
93834778 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
93834802 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
93834826 ATTT
1 ATTT
93834830 GACCTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:93839747 original size:95 final size:95
Alignment explanation
Indices: 93839645--93839831 Score: 365
Period size: 95 Copynumber: 2.0 Consensus size: 95
93839635 CCCCTGTCTC
93839645 GGGACATAAACTTGAAATACTACATTTGAGTTTGGATTTGAATCATAACTTTAAAAGTAATTTAT
1 GGGACATAAACTTGAAATACTACATTTGAGTTTGGATTTGAATCATAACTTTAAAAGTAATTTAT
93839710 CATAACCCTGTAATTACATGAAATAGACAA
66 CATAACCCTGTAATTACATGAAATAGACAA
93839740 GGGACATAAACTTGAAATACTACATTTGAGTTTGGATTTGAATCATAACTTTAAAAGTAATTTAT
1 GGGACATAAACTTGAAATACTACATTTGAGTTTGGATTTGAATCATAACTTTAAAAGTAATTTAT
*
93839805 CATAACCCTGTAATTAGATGAAATAGA
66 CATAACCCTGTAATTACATGAAATAGA
93839832 TTATTATGTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (95 bp):
GGGACATAAACTTGAAATACTACATTTGAGTTTGGATTTGAATCATAACTTTAAAAGTAATTTAT
CATAACCCTGTAATTACATGAAATAGACAA
Found at i:93843765 original size:2 final size:2
Alignment explanation
Indices: 93843760--93843797 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
93843750 ACATACATAC
93843760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93843798 TGTTTTGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93844608 original size:21 final size:20
Alignment explanation
Indices: 93844583--93844631 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
93844573 AAATAGATAC
*
93844583 CATAAAAATTTTAAAACTTTT
1 CATAAAAATTCTAAAA-TTTT
93844604 CAT-AAAATTCTAAAATTTT
1 CATAAAAATTCTAAAATTTT
93844623 CTATAAAAA
1 C-ATAAAAA
93844632 AAAACCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 5 0.20
20 13 0.52
21 7 0.28
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
CATAAAAATTCTAAAATTTT
Found at i:93847947 original size:63 final size:63
Alignment explanation
Indices: 93847876--93848003 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
93847866 TTGGGGCTAA
*
93847876 AGTAAGGAAATTTTGGTAAGGAAATGATTAAATTGGATTAAGAAAAGAGGAGAAAGGGACTAG
1 AGTAAGGAAATTTTGGTAAGGAAATGATTAAATTGAATTAAGAAAAGAGGAGAAAGGGACTAG
93847939 AGTAAGGAAATTTTGGTAAGGAAATGATTAAATTGAATTAAGAAAAGAGGAGAAAGGGACTAG
1 AGTAAGGAAATTTTGGTAAGGAAATGATTAAATTGAATTAAGAAAAGAGGAGAAAGGGACTAG
93848002 AG
1 AG
93848004 GTGGAAATTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.22
Consensus pattern (63 bp):
AGTAAGGAAATTTTGGTAAGGAAATGATTAAATTGAATTAAGAAAAGAGGAGAAAGGGACTAG
Found at i:93848678 original size:25 final size:23
Alignment explanation
Indices: 93848649--93848712 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
93848639 CTATTTGGCA
* *
93848649 TTTGTGTCGTATTCTGTATGTTGCC
1 TTTGTGGCGTATTCTGTA--TAGCC
* *
93848674 TTTGTGGCATACTCTG-ATAGCC
1 TTTGTGGCGTATTCTGTATAGCC
93848696 TTTGTGGCGTATTCTGT
1 TTTGTGGCGTATTCTGT
93848713 CTGGCCCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 18 0.56
24 1 0.03
25 13 0.41
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (23 bp):
TTTGTGGCGTATTCTGTATAGCC
Found at i:93848699 original size:22 final size:22
Alignment explanation
Indices: 93848671--93848736 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
93848661 TCTGTATGTT
93848671 GCCTTTGTGGCATACTCTGATA
1 GCCTTTGTGGCATACTCTGATA
* * * *
93848693 GCCTTTGTGGCGTATTCTGTCTG
1 GCCTTTGTGGCATACTCTG-ATA
* *
93848716 GCCCTTGTGGTATACTCTGAT
1 GCCTTTGTGGCATACTCTGAT
93848737 GAGTTTATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.39
Consensus pattern (22 bp):
GCCTTTGTGGCATACTCTGATA
Found at i:93848736 original size:45 final size:46
Alignment explanation
Indices: 93848649--93848736 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
93848639 CTATTTGGCA
* *
93848649 TTTGTGTCGTATTCTGTATGTTGCCTTTGTGGCATACTCTGATAGCC
1 TTTGTGGCGTATTCTGTATG-TGCCCTTGTGGCATACTCTGATAGCC
* *
93848696 TTTGTGGCGTATTCTGTCTG-GCCCTTGTGGTATACTCTGAT
1 TTTGTGGCGTATTCTGTATGTGCCCTTGTGGCATACTCTGAT
93848737 GAGTTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 19 0.51
47 18 0.49
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.44
Consensus pattern (46 bp):
TTTGTGGCGTATTCTGTATGTGCCCTTGTGGCATACTCTGATAGCC
Found at i:93850875 original size:6 final size:6
Alignment explanation
Indices: 93850864--93850888 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93850854 AATTGCATAG
93850864 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
93850889 AAAAATTGAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:93851081 original size:29 final size:29
Alignment explanation
Indices: 93851047--93851111 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
93851037 TAAATGAACT
93851047 TTAAATTT-TAAATTAAAAAAATAAAAAGA
1 TTAAATTTCTAAA-TAAAAAAATAAAAAGA
* * * *
93851076 TTAAATTTCTGAATATAAAAATATAAATA
1 TTAAATTTCTAAATAAAAAAATAAAAAGA
93851105 TTAAATT
1 TTAAATT
93851112 CCATACGAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (29 bp):
TTAAATTTCTAAATAAAAAAATAAAAAGA
Found at i:93854385 original size:2 final size:2
Alignment explanation
Indices: 93854380--93854404 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93854370 TAAAAAAAAG
93854380 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
93854405 TAAAAACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93859443 original size:137 final size:140
Alignment explanation
Indices: 93859248--93859537 Score: 399
Period size: 144 Copynumber: 2.1 Consensus size: 140
93859238 TGTTTTAAAA
* * * * *
93859248 TTTTAAACTTTCCTTTAAAATGACTTAAAAAACATATTTTTATTTTTCAAAATTTAAATTTTCTC
1 TTTTAAAATTTCCTTTAAAATGACTAAAAAAAAAGATTTTTATTTTTCAAAATCTAAATTTTCTC
* * **
93859313 C-TTTTTAAAAAAAA-TATTTTTCTTAAAGATTAACGA-TTTTATTTTGATGTAGTTGAAAAAAA
66 CTTTTTTAAAAAAAACTATTTTTCTTAAAGATTAA-AACTTTTACTTTGAAATAGTTGAAAAAAA
93859375 TTAAAAATTTG
130 TTAAAAATTTG
*
93859386 TTTTAAAATTTCCTTTAAAATGAC-AAAAAAAAAGATTTTTATTTTTCAAAATCTAAATTTTTTC
1 TTTTAAAATTTCCTTTAAAATGACTAAAAAAAAAGATTTTTATTTTTCAAAATCTAAATTTTCTC
93859450 CTTTTTTTTTAAAAAAAATGCTATTTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGAAA
66 C---TTTTTTAAAAAAAA--CTATTTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGAAA
*
93859515 AAAATTAAAATTTTG
126 AAAATTAAAAATTTG
93859530 TTTTAAAA
1 TTTTAAAA
93859538 ATTTAAACTT
Statistics
Matches: 133, Mismatches: 11, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
137 36 0.27
138 23 0.17
141 13 0.10
143 1 0.01
144 60 0.45
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (140 bp):
TTTTAAAATTTCCTTTAAAATGACTAAAAAAAAAGATTTTTATTTTTCAAAATCTAAATTTTCTC
CTTTTTTAAAAAAAACTATTTTTCTTAAAGATTAAAACTTTTACTTTGAAATAGTTGAAAAAAAT
TAAAAATTTG
Found at i:93859808 original size:23 final size:23
Alignment explanation
Indices: 93859778--93859821 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
93859768 TGCCTATGGC
*
93859778 AAAAAAAAAAAAA-AGATAGAAG
1 AAAAAAAAAAAAAGAAATAGAAG
93859800 AAAAAAAAAAAAAGAAATAGAA
1 AAAAAAAAAAAAAGAAATAGAA
93859822 TGCTTGTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAAAAAGAAATAGAAG
Found at i:93860064 original size:29 final size:29
Alignment explanation
Indices: 93860020--93860075 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
93860010 GGCCTTTGAC
* *
93860020 AGGCTCAAAAAGGAAAGAAGAAAAAAAAA
1 AGGCCCAAAAAAGAAAGAAGAAAAAAAAA
93860049 AGGCCCAAAAAAGAAAGAAGAAAAAAA
1 AGGCCCAAAAAAGAAAGAAGAAAAAAA
93860076 GAAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.70, C:0.09, G:0.20, T:0.02
Consensus pattern (29 bp):
AGGCCCAAAAAAGAAAGAAGAAAAAAAAA
Found at i:93860091 original size:15 final size:15
Alignment explanation
Indices: 93860026--93860079 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
93860016 TGACAGGCTC
*
93860026 AAAAAGGAAAGAAGA
1 AAAAAAGAAAGAAGA
****
93860041 AAAAAA-AAAGGCCC
1 AAAAAAGAAAGAAGA
93860055 AAAAAAGAAAGAAGA
1 AAAAAAGAAAGAAGA
93860070 AAAAAAGAAA
1 AAAAAAGAAA
93860080 AGAAAAATAA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.76, C:0.06, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAGAAGA
Found at i:93865911 original size:18 final size:18
Alignment explanation
Indices: 93865888--93865942 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
93865878 TTATTTCTCG
93865888 TTATTTATATCTTTTTAT
1 TTATTTATATCTTTTTAT
* *
93865906 TTATTTATTTATTTTTAT
1 TTATTTATATCTTTTTAT
*
93865924 TCTAATTA-ATCTATTTTAT
1 T-TATTTATATCT-TTTTAT
93865943 GGTTAATCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 19 0.63
19 11 0.37
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTATATCTTTTTAT
Found at i:93872905 original size:2 final size:2
Alignment explanation
Indices: 93872898--93872929 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93872888 TTATTAATAA
93872898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93872930 CTTACAACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93884434 original size:2 final size:2
Alignment explanation
Indices: 93884427--93884510 Score: 159
Period size: 2 Copynumber: 41.5 Consensus size: 2
93884417 TTTTTAAAGT
93884427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93884469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
93884511 TATCACTTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 79 0.98
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93892847 original size:52 final size:51
Alignment explanation
Indices: 93892655--93892850 Score: 160
Period size: 54 Copynumber: 3.7 Consensus size: 51
93892645 GGTTGGACCA
* *
93892655 TGGAAACAAGTGATAAGCGATATCCGTATAAGACCATAGTTGGGCTATGGCAT
1 TGGAAAAAAGTGATAAG-TA-ATCCGTATAAGACCATAGTTGGGCTATGGCAT
* * * * *
93892708 CGGAAAACAAGTGATAACTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTT
1 TGGAAAA-AAGTGATAAGT-A-ATCCGTATAAGACCATAGTTGGGCTATGGCAT
** * * * *
93892762 TGGATTAAAGTGACACAAGTGATCTGTAT-AGACCATAGTTGGGCTATGACAT
1 TGGAAAAAAGTG--ATAAGTAATCCGTATAAGACCATAGTTGGGCTATGGCAT
* ** *
93892814 TGGAGAAAAGTGATAAGTCCTCCCGTGTAAGACCATA
1 TGGAAAAAAGTGATAAGTAAT-CCGTATAAGACCATA
93892851 TCTAGGATAT
Statistics
Matches: 112, Mismatches: 25, Indels: 13
0.75 0.17 0.09
Matches are distributed among these distances:
50 6 0.05
51 4 0.04
52 38 0.34
53 16 0.14
54 44 0.39
55 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
TGGAAAAAAGTGATAAGTAATCCGTATAAGACCATAGTTGGGCTATGGCAT
Found at i:93895784 original size:25 final size:25
Alignment explanation
Indices: 93895756--93895857 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 25
93895746 TTACCTAAAT
93895756 AGCCTATGTGGCGTA-TTATTTGGAA
1 AGCCTATGTGGCG-AGTTATTTGGAA
*
93895781 AGCCT-TAGTGGAGAGGTTATTTAGGAA
1 AGCCTAT-GTGGCGA-GTTATTT-GGAA
* * *
93895808 A-CCTTTGTGGCGAGTTATCTGAAA
1 AGCCTATGTGGCGAGTTATTTGGAA
* *
93895832 AGCTTATGTGGCTTA-TTATTTGGAA
1 AGCCTATGTGGC-GAGTTATTTGGAA
93895857 A
1 A
93895858 ACCTTAGTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
24 6 0.10
25 33 0.54
26 16 0.26
27 6 0.10
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35
Consensus pattern (25 bp):
AGCCTATGTGGCGAGTTATTTGGAA
Found at i:93895812 original size:26 final size:25
Alignment explanation
Indices: 93895771--93895887 Score: 80
Period size: 26 Copynumber: 4.6 Consensus size: 25
93895761 ATGTGGCGTA
93895771 TTATTTGGAAAGCCTTAGTGGAGAGG
1 TTATTTGGAAAGCCTTAGTGGAGA-G
* *
93895797 TTATTTAGGAAA-CCTTTGTGGCGAG
1 TTATTT-GGAAAGCCTTAGTGGAGAG
* * **
93895822 TTATCTGAAAAG-CTTATGTGGCTTA-
1 TTATTTGGAAAGCCTTA-GTGG-AGAG
*
93895847 TTATTTGGAAAACCTTAGTAGTGAG-G
1 TTATTTGGAAAGCCTTAGT-G-GAGAG
*
93895873 TCATTTGGAAAGCCT
1 TTATTTGGAAAGCCT
93895888 GTAAAATGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
24 7 0.10
25 21 0.30
26 35 0.51
27 6 0.09
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.35
Consensus pattern (25 bp):
TTATTTGGAAAGCCTTAGTGGAGAG
Found at i:93895849 original size:76 final size:76
Alignment explanation
Indices: 93895720--93895887 Score: 214
Period size: 76 Copynumber: 2.2 Consensus size: 76
93895710 TTTATGACAA
* *
93895720 GTTATTTGTAAAGCCTTTGTAGCAAGTTACCTAAATAGCCTATGTGGCGTATTATTTGGAAAGCC
1 GTTATTTGGAAAGCCTTTGTAGCAAGTTACCTAAATAGCCTATGTGGCGTATTATTTGGAAAACC
*
93895785 TTAGTGGAGAG
66 TTAGTAGAGAG
* * * * *
93895796 GTTATTTAGGAAA-CCTTTGTGGCGAGTTATCTGAAA-AGCTTATGTGGCTTATTATTTGGAAAA
1 GTTATTT-GGAAAGCCTTTGTAGCAAGTTACCT-AAATAGCCTATGTGGCGTATTATTTGGAAAA
*
93895859 CCTTAGTAGTGAG
64 CCTTAGTAGAGAG
*
93895872 GTCATTTGGAAAGCCT
1 GTTATTTGGAAAGCCT
93895888 GTAAAATGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 5 0.06
76 67 0.85
77 7 0.09
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (76 bp):
GTTATTTGGAAAGCCTTTGTAGCAAGTTACCTAAATAGCCTATGTGGCGTATTATTTGGAAAACC
TTAGTAGAGAG
Found at i:93896985 original size:34 final size:34
Alignment explanation
Indices: 93896942--93897007 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
93896932 AATGCATAAT
*
93896942 TAAGTCTTTATTGTATTTTATTCCATATCACAAC
1 TAAGTCTTTATTGTATTTTATTCCACATCACAAC
*
93896976 TAAGTCTTTATTGTTTTTTATTCCACATCACA
1 TAAGTCTTTATTGTATTTTATTCCACATCACA
93897008 TTATATGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (34 bp):
TAAGTCTTTATTGTATTTTATTCCACATCACAAC
Found at i:93899417 original size:16 final size:17
Alignment explanation
Indices: 93899396--93899428 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93899386 TATTATTTTT
*
93899396 ATATAAT-TTTTAAAAA
1 ATATAATATATTAAAAA
93899412 ATATAATATATTAAAAA
1 ATATAATATATTAAAAA
93899429 TACTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAA
Found at i:93916059 original size:26 final size:26
Alignment explanation
Indices: 93916030--93916079 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
93916020 CTCAGAAAAA
93916030 TTTTGATGATTTTACCCTTGGTAATT
1 TTTTGATGATTTTACCCTTGGTAATT
*
93916056 TTTTGATGATTTTGCCCTTGGTAA
1 TTTTGATGATTTTACCCTTGGTAA
93916080 AATTTCGAGA
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:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (26 bp):
TTTTGATGATTTTACCCTTGGTAATT
Found at i:93916185 original size:6 final size:6
Alignment explanation
Indices: 93916174--93916210 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
93916164 TGCAAACGGA
* *
93916174 TCATTT TCATTT TCATTT TCATTT CCATTT CCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
93916211 TGAAAACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:93920306 original size:11 final size:11
Alignment explanation
Indices: 93920289--93920331 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
93920279 TAAATAAGAG
93920289 AAAATAAAATT
1 AAAATAAAATT
* *
93920300 TAAATAAAAATA
1 AAAAT-AAAATT
*
93920312 AAAATAAAAAT
1 AAAATAAAATT
93920323 AAAATAAAA
1 AAAATAAAA
93920332 GGACTCAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:93920310 original size:6 final size:6
Alignment explanation
Indices: 93920274--93920331 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
93920264 ATAAGTCTTC
* **
93920274 AAAAAT AAATAAG AGAAAAT -AAAAT TTAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAA-AAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
93920323 -AAAAT AAAA
1 AAAAAT AAAA
93920332 GGACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 10 0.23
6 26 0.60
7 5 0.12
8 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:93926324 original size:30 final size:30
Alignment explanation
Indices: 93926283--93926339 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
93926273 ACGGCCATGA
*
93926283 CACACGGGCGTGTGGCCTACCCGTGTGTCT
1 CACACGAGCGTGTGGCCTACCCGTGTGTCT
*
93926313 CACACGAGCGTGTGGTCTACCCGTGTG
1 CACACGAGCGTGTGGCCTACCCGTGTG
93926340 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.32, G:0.33, T:0.23
Consensus pattern (30 bp):
CACACGAGCGTGTGGCCTACCCGTGTGTCT
Found at i:93930115 original size:145 final size:151
Alignment explanation
Indices: 93929953--93930290 Score: 426
Period size: 145 Copynumber: 2.3 Consensus size: 151
93929943 ATTTCGGTAG
*
93929953 TGGACCCGATTCAACAATGAGAAAAACATTAAAAAAAAA-GACAATAGCATAAAAATCAACCAAA
1 TGGACCCGATTCAACAATGAGAAAAACATTAAAAAAAAATGACAACAGCATAAAAATCAACCAAA
*
93930017 ACC-A-AC-ATAA-A-A-AAAAA-AA-TTTCTATTGGATTCAACAATGAGGAAAAAAACATAAAA
66 ACCAACACAAAAACATAGAAAAATAACTTTCTATTGGATTCAACAATGAGGAAAAAAA-A-AAAA
*** *
93930074 AAAATTGTAGTTTCATTAGCTATA
129 AAAACCAT-GTATCATTAGCTATA
* *
93930098 TGGACCCAATTCAACAATGAGAAAAACA-TAAAAAAAAATGACAACAGCTTAAAAATCAACCAAA
1 TGGACCCGATTCAACAATGAGAAAAACATTAAAAAAAAATGACAACAGCATAAAAATCAACCAAA
*
93930162 ACCAACACAAAAAAACATTAGAAAAATAACTTTCTATTGGATTCAACAATGAGTAAAAAAAAAAA
66 ACCAACAC--AAAAACA-TAGAAAAATAACTTTCTATTGGATTCAACAATGAGGAAAAAAAAAAA
*
93930227 AAAAACCATGTATCGTTAGCTATA
128 AAAAACCATGTATCATTAGCTATA
* * *
93930251 TGGAGCTGATTCAACAATGAGAAAAACATAGAAAAAAAAA
1 TGGACCCGATTCAACAATGAGAAAAACAT-TAAAAAAAAA
93930291 ATGAAACTAT
Statistics
Matches: 165, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
144 10 0.06
145 53 0.32
146 1 0.01
147 2 0.01
150 3 0.02
151 1 0.01
153 39 0.24
154 14 0.08
155 12 0.07
156 30 0.18
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (151 bp):
TGGACCCGATTCAACAATGAGAAAAACATTAAAAAAAAATGACAACAGCATAAAAATCAACCAAA
ACCAACACAAAAACATAGAAAAATAACTTTCTATTGGATTCAACAATGAGGAAAAAAAAAAAAAA
AACCATGTATCATTAGCTATA
Found at i:93935748 original size:2 final size:2
Alignment explanation
Indices: 93935743--93935767 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93935733 GAAAAAAAGT
93935743 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
93935768 TTTATGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93941305 original size:30 final size:30
Alignment explanation
Indices: 93941271--93941339 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
93941261 TTAACTTTTG
93941271 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
** * * * *
93941301 CCACCACTTATTCCATTAGCTACACTTGTT
1 CCACCACCAACTCCACTAGCCACACTTGCT
93941331 CCACCACCA
1 CCACCACCA
93941340 CTTGTACCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.45, G:0.06, T:0.23
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:93941905 original size:30 final size:30
Alignment explanation
Indices: 93941869--93941936 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
93941859 AGGTACAAGT
93941869 GGTGGTGGAGCAAGTGTGACTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGACTAATGGAGTA
* * *
93941899 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGACTAATGGAGTA
93941929 GGTGGTGG
1 GGTGGTGG
93941937 CAAAGGCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGACTAATGGAGTA
Found at i:93942830 original size:91 final size:91
Alignment explanation
Indices: 93942616--93943041 Score: 378
Period size: 91 Copynumber: 4.7 Consensus size: 91
93942606 TAAAAACAGA
* * * *
93942616 AATTGAAAATAGCTCAGCACGTGAGCC--AAGACTCAACTCACTTCTCACAATATGAGTTGATTT
1 AATTGAAAATACCTCAGCATGTGA-CCTGAAG-CTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
93942679 TT---AAAACAAAATTTGTAAAATAGAT
64 TTAGCAAAACAAAATTTGAAAAAAAAAT
* * * * *
93942704 -TTTGAAAATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
93942768 -GCAAAGCATAAA-TTGAAAAAAAAAT
66 AGCAAAACA-AAATTTGAAAAAAAAAT
* *
93942793 CAATTGAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 -AATTGAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* *
93942858 TTTAAC-AAACATAAA-TTGAAAAAAAAAAGA
63 TTTAGCAAAACA-AAATTTG-AAAAAAAAA-T
* * * *
93942888 AATTGAAAATATCTCAGCATGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTAATTTTT
1 AATTGAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * *
93942951 TGGAAAAACAAAATTTGAAAAACAGAAT
65 TAGCAAAACAAAATTTGAAAAA-AAAAT
* * * * *
93942979 --TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCATGTGACCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
93943041 T
65 T
93943042 TTTGAAACAC
Statistics
Matches: 277, Mismatches: 43, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
86 2 0.01
87 49 0.18
88 2 0.01
89 33 0.12
90 10 0.04
91 92 0.33
92 43 0.16
93 16 0.06
94 30 0.11
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (91 bp):
AATTGAAAATACCTCAGCATGTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
AGCAAAACAAAATTTGAAAAAAAAAT
Found at i:93942932 original size:92 final size:87
Alignment explanation
Indices: 93942607--93943238 Score: 472
Period size: 87 Copynumber: 7.0 Consensus size: 87
93942597 ACTAAACATT
* * * * * *
93942607 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCC-AAGACTCAACTCACTTCTCACAATATGA
1 AAAAACAGAAATTGAAAATACCTCAG--C-TG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
93942671 GTTGA--TTTTT-AAAACA-AAATTTG
62 GCTGATTTTTTTAAAAACAGAAA-TTG
* * ** * * *
93942694 TAAAATAGATTTTGAAAATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAG-CTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* ** * *
93942759 TTGA-TTTTTGCAAAGCATAAATTG
63 CTGATTTTTTTAAAAACAGAAATTG
* * * *
93942783 AAAAAAAAATCAATTGAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGA--AATTGAAAATACCTCAGC-TGT--CCTGAGGCTCAACTCACCTCTCGCAATATG
* *
93942848 AGTTGATTTTTTTAACAAACATAAATTG
61 AGCTGATTTTTTTAA-AAACAGAAATTG
* * *
93942876 AAAAAAAAAAGAAATTGAAAATATCTCAGCATGTCCTGAGGCTGAACTCACCTCTCGCAATATGA
1 ---AAAAACAGAAATTGAAAATACCTCAGC-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
93942941 GTTAATTTTTTGGAAAAACA-AAATTTG
62 GCTGATTTTTT-TAAAAACAGAAA-TTG
* ** * *
93942968 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGT-CCT-GAGGCTCAACTCACCTCTCGCAATATGAG
*
93943033 CTGATTTTTTTTGAAACACAGAAATTG
63 CTGA-TTTTTTT-AAAAACAGAAATTG
* * * * * * *
93943060 AAGAACAGAAATGGAAAACACCTTAGC-GTCTTGAGGTTCAACTCACCTCTTGCAATATGAGCTG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
*
93943124 ATTTTTTTGAAACACAGAAATTG
66 ATTTTTTT-AAAAACAGAAATTG
* * * * * * *
93943147 AAGAACAGAAATGGAAAACACCTCAGC-GTCTTAAGGTTCAACTCACCTCTCACAATATGAGCTG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
*
93943211 ATTTTTTTTTAAAGACAGAAATTG
66 A--TTTTTTTAAAAACAGAAATTG
93943235 AAAA
1 AAAA
93943239 TACCTCAATG
Statistics
Matches: 455, Mismatches: 67, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
85 2 0.00
86 2 0.00
87 131 0.29
88 49 0.11
89 49 0.11
90 6 0.01
91 83 0.18
92 89 0.20
93 16 0.04
94 20 0.04
96 8 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
ATTTTTTTAAAAACAGAAATTG
Found at i:93942985 original size:13 final size:14
Alignment explanation
Indices: 93942953--93942985 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
93942943 TAATTTTTTG
93942953 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
93942967 GAAAAACAGAATTT
1 GAAAAACAAAATTT
93942981 GAAAA
1 GAAAA
93942986 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:93942985 original size:183 final size:176
Alignment explanation
Indices: 93942570--93943954 Score: 621
Period size: 148 Copynumber: 8.3 Consensus size: 176
93942560 TTAACTTATT
* * * *
93942570 TCTCGCAATATGAATTGACTCTTT--AAAACTA-AACATT-AAAAACAGAAATTGAAAATAGCTC
1 TCTCGCAATATGAGTTGATTTTTTGAAAAAC-AGAA-ATTGAAAAACAGAAATTGAAAATACCTC
** * * * *
93942631 AGCACGTGAGCCAAGACTCAACTCACTTCTCACAATATGAGTTGA--TTTTT-AAAACAAAATTT
64 AGCGTGTGA-TCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAAAAACAAAA-TT
* * ** * *
93942693 GTAAAATAGATTTTGAAAATACCTCGGTATGTGACCTGAGGCTCAACTCACC
127 GAAAAAAAGAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACC
* * * * * *
93942745 TCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGAAAAAAAAATCAATTGAAAATACCTC
1 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGA--AATTGAAAATACCTC
* *
93942809 AGCGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAACATAAA
64 AGCGTGTGATC--AAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAA-AAACA-AAA
* *
93942873 TTGAAAAAAAAAAGAAATTGAAAATATCTCAGCATGTCCTGAGGCTGAACTCACC
125 TTG---AAAAAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
* *
93942928 TCTCGCAATATGAGTTAATTTTTTGGAAAAACA-AAATTTGAAAAACAGAATTTGAAAATACCTC
1 TCTCGCAATATGAGTTGATTTTTT-GAAAAACAGAAA-TTGAAAAACAGAAATTGAAAATACCTC
* * *
93942992 AGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTTGAAACACAGAAA
64 AGCGTGTGA-TCAAGGCTCAACTCACCTCTCACAATATGAGCTGA-TTTTTTT-AAAAACA-AAA
* * * * * * *
93943057 TTGAAGAACAGAAATGGAAAACACCTTAGC--GTCTTGAGGTTCAACTCACC
125 TTGAAAAAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
* * * * * *
93943107 TCTTGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCA
1 TCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCA
* *
93943172 GCGTCT--T-AAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTT----------TT-AA
65 GCGTGTGATCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAAAAACAAAATTGAA
* * ***
93943223 AGACAGAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACC
130 AAAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
* *
93943270 TTTCGCAATATGAGTTGA-TTTTTG----AC--AAA-T-----A-A-AAATTGAAATTACCTCAG
1 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAG
* * * * * *
93943320 CGTCT--T-GAGGTTCAACTCACCTATCGCAATATGAGTTGA---TTTT----------TTGAAA
66 CGTGTGATCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAAAAACAAAATTGAAA
* * * * * *
93943369 AACAGAAATTGAAAAAACCTCAACGTGT-CTGGAGGTTCAACTTACC
131 AAAAGAAATTGAAAATACCTCAGCATGTCCT-GAGGCTCAACTCACC
* * *
93943415 TCTCGCAATATGAGCTGATTTTTT------------TT-AAAGACAGAAATTGAAAATACCTCAA
1 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAG
* ** * * * *
93943467 CGTGT-CTTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA--TTTTT---GAC--------AA
66 CGTGTGATCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAAAAACAAAATTGAAA
* * *
93943518 ACAA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
131 AAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
* *
93943563 TATCGCAATATGAGTTGA-TTTTT------------TTGAAAAACAGAAATTGAAAATACCTCAA
1 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAG
* ** ** * * *
93943615 CGTGT-CTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--GTTTT---GAC--------AA
66 CGTGTGATCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAAAAACAAAATTGAAA
* * * *
93943666 ACAA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACT
131 AAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
* * * *
93943711 TCTCGCAATATGAGTTGATTTTTTTTAGAAACATAAATT-AAAAAAATGAAAATTGAAAATACCT
1 TCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAACA-G-AAATTGAAAATACCT
** * * *
93943775 CAGCGTGTCCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGTAGAATTTGTA
63 CAGCGTGTGATCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTT------T----TTT-AA
** * * *
93943839 AGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACC
117 AAAC-AAAATTGAAAAAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
* * *
93943900 TCTCGCAATATGAGTT-AATTTTTGAAAAATAGAAATT-AAAAGCAGAAATTGAAAA
1 TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAA
93943955 ACAGAAATTA
Statistics
Matches: 1004, Mismatches: 118, Indels: 166
0.78 0.09 0.13
Matches are distributed among these distances:
141 1 0.00
144 8 0.01
145 58 0.06
146 6 0.01
147 77 0.08
148 185 0.18
149 37 0.04
150 9 0.01
154 1 0.00
155 3 0.00
157 2 0.00
161 32 0.03
162 5 0.00
163 86 0.09
164 2 0.00
171 1 0.00
174 11 0.01
175 53 0.05
176 14 0.01
177 1 0.00
178 48 0.05
179 72 0.07
180 14 0.01
181 22 0.02
182 10 0.01
183 87 0.09
184 27 0.03
185 52 0.05
186 1 0.00
187 20 0.02
188 5 0.00
189 54 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (176 bp):
TCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAG
CGTGTGATCAAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTTTAAAAACAAAATTGAAA
AAAAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
Found at i:93943155 original size:87 final size:87
Alignment explanation
Indices: 93942731--93943238 Score: 450
Period size: 92 Copynumber: 5.7 Consensus size: 87
93942721 ATGTGACCTG
* * * * * * *
93942731 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTGAAAAAAAAATC
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAACAGA--
* * *
93942794 AATTGAAAATACCTCAGCGTGTGATCTGA
64 AATGGAAAACACCTCAGC----G-TCTTA
* * *
93942823 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AACAAACATAAATTGAAAAAAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAA-AAACAGAAATTG---AAAAACA
* * * * *
93942886 GAAATTGAAAATATCTCAGCATGTCCTG
62 GAAATGGAAAACACCTCAGC--GTCTTA
* * * *
93942914 AGGCTGAACTCACCTCTCGCAATATGAGTTAATTTTTTGGAAAAACA-AAATTTGAAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAA-TTGAAAAACAGAA
* * * *
93942978 TTTGAAAATACCTCAGCGTGTGAGTCA
65 ATGGAAAACACCTCAGCGTCT---T-A
* * *
93943005 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTGAAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAAAACAGAAATTGAAAAACAGAA
* *
93943070 ATGGAAAACACCTTAGCGTCTTG
65 ATGGAAAACACCTCAGCGTCTTA
* * * *
93943093 AGGTTCAACTCACCTCTTGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAACAGAAA
93943158 TGGAAAACACCTCAGCGTCTTA
66 TGGAAAACACCTCAGCGTCTTA
* * * *
93943180 AGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTTTTAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAAAACAGAAATTGAAAA
93943239 TACCTCAATG
Statistics
Matches: 359, Mismatches: 41, Indels: 36
0.82 0.09 0.08
Matches are distributed among these distances:
87 85 0.24
88 52 0.14
89 25 0.07
90 1 0.00
91 63 0.18
92 87 0.24
93 21 0.06
94 17 0.05
96 8 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAACAGAAA
TGGAAAACACCTCAGCGTCTTA
Found at i:93943544 original size:148 final size:146
Alignment explanation
Indices: 93943150--93943754 Score: 736
Period size: 148 Copynumber: 4.1 Consensus size: 146
93943140 GAAATTGAAG
* * * * * *
93943150 AACAGAAATGGAAAACACCTCAGCGTCTTAAGGTTCAACTCACCTCTCACAATATGAGCTGATTT
1 AACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
* * * *
93943215 TTTTTTA-AAGACAGAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTTTCGCAAT
64 TTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
93943279 ATGAGTTGA--TTTTTGACA
128 ATGAGTTGATTTTTTTTA-A
* * * * *
93943297 AATAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTT
1 AACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * * *
93943362 TTTGAAAAACAGAAATTGAAAAAACCTCAACGTGT-CTGGAGGTTCAACTTACCTCTCGCAATAT
66 TTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCT-GAGGCTCAACTCACCTCTCGCAATAT
*
93943426 GAGCTGATTTTTTTTAA
130 GAGTTGATTTTTTTTAA
* *
93943443 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
93943508 -TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAAT
63 TTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
93943572 ATGAGTTGATTTTTTTGAAA
128 ATGAGTTGATTTTTTT-TAA
* *
93943592 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
93943656 GTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
64 TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
93943721 TGAGTTGATTTTTTTTAGA
129 TGAGTTGATTTTTTTTA-A
* *
93943740 AACATAAATTAAAAA
1 AACAGAAATTGAAAA
93943755 AATGAAAATT
Statistics
Matches: 406, Mismatches: 42, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
144 2 0.00
145 61 0.15
146 4 0.01
147 77 0.19
148 221 0.54
149 41 0.10
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
AACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTAA
Found at i:93943551 original size:73 final size:74
Alignment explanation
Indices: 93943150--93943734 Score: 695
Period size: 73 Copynumber: 7.9 Consensus size: 74
93943140 GAAATTGAAG
* * * * * * * *
93943150 AACAGAAATGGAAAACACCTC-A-GCGTCTTAAGGTTCAACTCACCTCTCACAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
93943213 TTTTTTTTA-A
65 -TTTTTTGACA
* *
93943223 AGACAGAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
93943288 -TTTTTGACA
65 TTTTTTGACA
* * * * * * *
93943297 AATAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
93943360 TTTTTGAAA
66 TTTTTGACA
* * * *
93943369 AACAGAAATTGAAAAAACCTCAACGTGT-CTGGAGGTTCAACTTACCTCTCGCAATATGAGCTGA
1 AACAGAAATTGAAAATACCTCAACGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
93943433 TTTTTTTTA-A
65 -TTTTTTGACA
* *
93943443 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
93943508 -TTTTTGACA
65 TTTTTTGACA
* * * *
93943517 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
93943582 TTTTTTGAAA
65 TTTTTTGACA
* *
93943592 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
93943656 GTTTTGACA
66 TTTTTGACA
* * * *
93943665 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
93943730 TTTTT
66 TTTTT
93943735 TTAGAAACAT
Statistics
Matches: 440, Mismatches: 57, Indels: 29
0.84 0.11 0.06
Matches are distributed among these distances:
71 36 0.08
72 26 0.06
73 154 0.35
74 61 0.14
75 129 0.29
76 34 0.08
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGACA
Found at i:93943776 original size:90 final size:90
Alignment explanation
Indices: 93943669--93943922 Score: 298
Period size: 90 Copynumber: 2.7 Consensus size: 90
93943659 TTGACAAACA
* *
93943669 AAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
93943734 TT-TAGAAACATAAATT-AAAAAAATG
66 TTGTA-AAACAAAAATTGAAAAAAA-G
*
93943759 AAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGA
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT--
** *
93943824 AAAGTAGAATTTGTAAGGCAAAAATTGAAAAACAG
64 ----T----TTTGTAAAACAAAAATTGAAAAAAAG
* *
93943859 -AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
93943923 GAAAAATAGA
Statistics
Matches: 142, Mismatches: 10, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
89 1 0.01
90 60 0.42
93 1 0.01
96 1 0.01
99 59 0.42
100 12 0.08
101 8 0.06
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (90 bp):
AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGTAAAACAAAAATTGAAAAAAAG
Found at i:93943959 original size:14 final size:13
Alignment explanation
Indices: 93943924--93943968 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
93943914 TTAATTTTTG
*
93943924 AAAAATAGAAATT
1 AAAAACAGAAATT
*
93943937 AAAAGCAGAAATT
1 AAAAACAGAAATT
93943950 GAAAAACAGAAATT
1 -AAAAACAGAAATT
93943964 AAAAA
1 AAAAA
93943969 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:93943980 original size:100 final size:101
Alignment explanation
Indices: 93943760--93944041 Score: 399
Period size: 100 Copynumber: 2.8 Consensus size: 101
93943750 AAAAAAATGA
* *
93943760 AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * *
93943823 AAAAGTAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAAAATAGAAATTGAAAAGCAAAAATTGAAAAACAG
*
93943859 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
93943924 AAAAATAGAAATT-AAAAGCAGAAATTGAAAAACAG
66 AAAAATAGAAATTGAAAAGCAAAAATTGAAAAACAG
* * * * *
93943959 AAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGTAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** *
93944024 AAAAGCATAAATTGAAAA
66 AAAAATAGAAATTGAAAA
93944042 AATGGAAATT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
99 56 0.34
100 88 0.54
101 19 0.12
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.25
Consensus pattern (101 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATAGAAATTGAAAAGCAAAAATTGAAAAACAG
Found at i:93944337 original size:16 final size:15
Alignment explanation
Indices: 93944312--93944359 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
93944302 CTATTTTAAG
93944312 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
93944327 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
93944344 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
93944359 T
1 T
93944360 ATTCTTAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:93945254 original size:18 final size:19
Alignment explanation
Indices: 93945231--93945294 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
93945221 TTCCTTTAAA
*
93945231 TTATTTTGT-TATTTATTT
1 TTATTTTATCTATTTATTT
*
93945249 TTATTTTATCTTTTTATTT
1 TTATTTTATCTATTTATTT
*
93945268 TTATTTCATCT-TTTACTTT
1 TTATTTTATCTATTTA-TTT
93945287 TTACTTTT
1 TTA-TTTT
93945295 TACGTTTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 12 0.31
19 24 0.62
20 3 0.08
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATTTTATCTATTTATTT
Found at i:93945266 original size:19 final size:18
Alignment explanation
Indices: 93945242--93945294 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
93945232 TATTTTGTTA
93945242 TTTATTTTTATTTTATCTT
1 TTTATTTTTATTTTATC-T
*
93945261 TTTATTTTTATTTCATCT
1 TTTATTTTTATTTTATCT
93945279 TTTACTTTTTACTTTT
1 TTTA-TTTTTA-TTTT
93945295 TACGTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 22 0.73
20 3 0.10
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTTATTTTATCT
Found at i:93955985 original size:21 final size:21
Alignment explanation
Indices: 93955942--93955985 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
93955932 TACATATGTA
**
93955942 TAAAAAATAAAAATTATTTTG
1 TAAAAAATAAAAATTATAGTG
93955963 TAAAAAATATAAAA-TATAGTG
1 TAAAAAATA-AAAATTATAGTG
93955984 TA
1 TA
93955986 GCATTTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
TAAAAAATAAAAATTATAGTG
Found at i:93956503 original size:30 final size:30
Alignment explanation
Indices: 93956438--93956503 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
93956428 TTATGCCCAT
* *
93956438 AATTATTTTTAGAAATAGTCTATTTTTATA
1 AATTATTTTGAGAAATAGTCTATTATTATA
93956468 AATTATTTTGA-AAATGAGTCT-TTATTAGTA
1 AATTATTTTGAGAAAT-AGTCTATTATTA-TA
*
93956498 CATTAT
1 AATTAT
93956504 CCAAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (30 bp):
AATTATTTTGAGAAATAGTCTATTATTATA
Found at i:93974391 original size:12 final size:11
Alignment explanation
Indices: 93974374--93974402 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
93974364 TCATTTAATA
93974374 TTTTTTTTTCC
1 TTTTTTTTTCC
93974385 TTTTTTTTTCC
1 TTTTTTTTTCC
93974396 TTTTTTT
1 TTTTTTT
93974403 ATTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:93980016 original size:52 final size:52
Alignment explanation
Indices: 93979959--93980113 Score: 152
Period size: 52 Copynumber: 3.0 Consensus size: 52
93979949 GACGGAAAAG
*
93979959 ATGTGATATGTGCTTCCATATAAGACCATAACAGGGCTATGGAATCGGTACA
1 ATGTGATATGTGCTTCCATATAAGACCATAACTGGGCTATGGAATCGGTACA
* * * * **
93980011 ATGTGAT-TCGTACTCCCCTATAAGACCATAGCTGGGCTAT-GACATCGGTATG
1 ATGTGATAT-GTGCTTCCATATAAGACCATAACTGGGCTATGGA-ATCGGTACA
* * * * * *
93980063 ATGTGATAATGTGATTCCGTAAAAGACCATATCTGGGATATGGCATCGGTA
1 ATGTGAT-ATGTGCTTCCATATAAGACCATAACTGGGCTATGGAATCGGTA
93980114 TGATATGTGA
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
51 3 0.04
52 47 0.57
53 31 0.37
54 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCATATAAGACCATAACTGGGCTATGGAATCGGTACA
Found at i:93989799 original size:17 final size:18
Alignment explanation
Indices: 93989768--93989801 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
93989758 ATATCATGTA
93989768 TTTTATTTTCATTTTCAC
1 TTTTATTTTCATTTTCAC
*
93989786 TTTT-TTTTCCTTTTCA
1 TTTTATTTTCATTTTCA
93989802 AAGAATTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTTCATTTTCAC
Found at i:93993787 original size:18 final size:18
Alignment explanation
Indices: 93993751--93993805 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
93993741 AAAAAATTAA
*
93993751 TTTAT-TTAAAAATA-CT
1 TTTATCTTAAAAATATTT
*
93993767 TTTGTCTTAAAAATATTT
1 TTTATCTTAAAAATATTT
**
93993785 TTTATCCCAAAAATATTT
1 TTTATCTTAAAAATATTT
93993803 TTT
1 TTT
93993806 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 19 0.59
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTATCTTAAAAATATTT
Found at i:93995228 original size:18 final size:19
Alignment explanation
Indices: 93995205--93995242 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
93995195 TGTTAATAAA
93995205 TTCATA-TTATATAAAATT
1 TTCATATTTATATAAAATT
*
93995223 TTCATATTTATATAATATT
1 TTCATATTTATATAAAATT
93995242 T
1 T
93995243 GTATTATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TTCATATTTATATAAAATT
Found at i:94001900 original size:15 final size:15
Alignment explanation
Indices: 94001863--94001894 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
94001853 ATCGATGCTG
94001863 AAACCAATCAATGGA
1 AAACCAATCAATGGA
94001878 AAACCAATCAATGGA
1 AAACCAATCAATGGA
94001893 AA
1 AA
94001895 GTCAATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.12
Consensus pattern (15 bp):
AAACCAATCAATGGA
Found at i:94007574 original size:41 final size:41
Alignment explanation
Indices: 94007514--94007609 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
94007504 TTTAAAAAAT
*
94007514 ATATATTTTT-TGGTGCTGGCACTACAATGGTCGGCACCCGC
1 ATATATTTTTAT-GTGCTGGCACTACAATGGTCGACACCCGC
* * * *
94007555 ATGTATTTTTATGTGCTGGCACTATAATGGTCGACACTCGT
1 ATATATTTTTATGTGCTGGCACTACAATGGTCGACACCCGC
94007596 ATATATTTTTATGT
1 ATATATTTTTATGT
94007610 ACTTTTTTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 47 0.98
42 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (41 bp):
ATATATTTTTATGTGCTGGCACTACAATGGTCGACACCCGC
Found at i:94012794 original size:18 final size:18
Alignment explanation
Indices: 94012756--94012820 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
94012746 TTAGAAAAAA
*
94012756 TTTTTA-AAATTTTA-ACT
1 TTTTTATAAATTTTATA-A
*
94012773 TTTTTATATATTTT-TAGA
1 TTTTTATAAATTTTATA-A
*
94012791 TTTTTTTAAATTTTATAA
1 TTTTTATAAATTTTATAA
94012809 TTTTTATAAATT
1 TTTTTATAAATT
94012821 ATAAATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 6 0.15
18 31 0.79
19 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATAAATTTTATAA
Found at i:94012841 original size:16 final size:18
Alignment explanation
Indices: 94012790--94012827 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
94012780 ATATTTTTAG
* *
94012790 ATTTTTTTAAATTTTATA
1 ATTTTTATAAATTATATA
94012808 ATTTTTATAAATTATA-A
1 ATTTTTATAAATTATATA
94012825 ATT
1 ATT
94012828 ATAAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATAAATTATATA
Found at i:94014374 original size:93 final size:93
Alignment explanation
Indices: 94014262--94014433 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94014252 CGCCCATAAG
* *
94014262 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
94014327 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
94014355 TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
94014420 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
94014434 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:94014449 original size:46 final size:46
Alignment explanation
Indices: 94014255--94014435 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
94014245 TGTAACCCGC
* *
94014255 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
94014301 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
94014351 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
94014394 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
94014436 AACCATCCTA
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 74 0.63
47 32 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:94016280 original size:17 final size:16
Alignment explanation
Indices: 94016260--94016293 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
94016250 TTACATGGAA
94016260 AATTATTTTATCTTTTT
1 AATTATTTTAT-TTTTT
*
94016277 AATTTTTTTATTTTTT
1 AATTATTTTATTTTTT
94016293 A
1 A
94016294 GAATTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
AATTATTTTATTTTTT
Found at i:94027352 original size:17 final size:18
Alignment explanation
Indices: 94027322--94027355 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94027312 ACTGTTATTA
*
94027322 TTATTTTTTCTTTCTTTT
1 TTATTTTATCTTTCTTTT
94027340 TTATTTTAT-TTTCTTT
1 TTATTTTATCTTTCTTT
94027356 CTTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (18 bp):
TTATTTTATCTTTCTTTT
Found at i:94027365 original size:26 final size:24
Alignment explanation
Indices: 94027316--94027360 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
94027306 AAGGTTACTG
94027316 TTATTATTATTTTTTCTTTCTTTT
1 TTATTATTATTTTTTCTTTCTTTT
94027340 TTATT-TTA--TTTTCTTTCTTTT
1 TTATTATTATTTTTTCTTTCTTTT
94027361 CTTTTCGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (24 bp):
TTATTATTATTTTTTCTTTCTTTT
Found at i:94028160 original size:17 final size:18
Alignment explanation
Indices: 94028140--94028180 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
94028130 TATTTAGTTA
94028140 TTTATTTTAAAG-ATGAT
1 TTTATTTTAAAGTATGAT
*
94028157 TTTA-TTTAATGTATGAT
1 TTTATTTTAAAGTATGAT
94028174 TTTATTT
1 TTTATTT
94028181 AATGTATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 13 0.62
18 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (18 bp):
TTTATTTTAAAGTATGAT
Found at i:94028181 original size:17 final size:17
Alignment explanation
Indices: 94028152--94028187 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
94028142 TATTTTAAAG
94028152 ATGATTTTATTTAATGT
1 ATGATTTTATTTAATGT
94028169 ATGATTTTATTTAATGT
1 ATGATTTTATTTAATGT
94028186 AT
1 AT
94028188 TGTTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (17 bp):
ATGATTTTATTTAATGT
Found at i:94030260 original size:31 final size:32
Alignment explanation
Indices: 94030225--94030287 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
94030215 AAATTAATAT
94030225 AAACTTATAACA-ATCATAAAAAA-ATAATAAA
1 AAACTTATAA-ATATCATAAAAAATATAATAAA
* *
94030256 AAACTTATAAATATTATAAAAAATCTAATAAA
1 AAACTTATAAATATCATAAAAAATATAATAAA
94030288 TTTTAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 1 0.04
31 20 0.71
32 7 0.25
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (32 bp):
AAACTTATAAATATCATAAAAAATATAATAAA
Found at i:94030276 original size:28 final size:29
Alignment explanation
Indices: 94030192--94030276 Score: 68
Period size: 31 Copynumber: 2.9 Consensus size: 29
94030182 AAAAATATAA
* * *
94030192 AATATAAAA-TTAAAAATATTTTAAAATT
1 AATAAAAAACTTATAAATATTATAAAATT
* * *
94030220 AAT-ATAAACTTATAACA-ATCATAAAAAAAT
1 AATAAAAAACTTATAA-ATAT--TATAAAATT
94030250 AATAAAAAACTTATAAATATTATAAAA
1 AATAAAAAACTTATAAATATTATAAAA
94030277 AATCTAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.07
28 10 0.23
29 7 0.16
30 10 0.23
31 13 0.30
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AATAAAAAACTTATAAATATTATAAAATT
Found at i:94030377 original size:10 final size:9
Alignment explanation
Indices: 94030157--94030386 Score: 67
Period size: 10 Copynumber: 23.9 Consensus size: 9
94030147 AATATTTTCC
94030157 TATAAAAAT
1 TATAAAAAT
*
94030166 AATTAAAAAT
1 TA-TAAAAAT
*
94030176 TCTTAAAAA-
1 T-ATAAAAAT
*
94030185 AATATAAAA-
1 TATA-AAAAT
94030194 TAT-AAAAT
1 TATAAAAAT
94030202 TA-AAAATAT
1 TATAAAA-AT
*
94030211 T-TTAAAAT
1 TATAAAAAT
*
94030219 TAATATAAACT
1 T-ATA-AAAAT
*
94030230 TATAACAAT
1 TATAAAAAT
*
94030239 CATAAAAAAAT
1 --TATAAAAAT
*
94030250 AATAAAAAACT
1 TAT-AAAAA-T
*
94030261 TATAAATAT
1 TATAAAAAT
*
94030270 TATAAAAAA
1 TATAAAAAT
*
94030279 TCTAATAAAT
1 TATAA-AAAT
*
94030289 TTTAATAAAT
1 TATAA-AAAT
**
94030299 TATAAATCTTT
1 TATAAA--AAT
94030310 TATAAAAAT
1 TATAAAAAT
94030319 TAATGAAAATAT
1 T-AT-AAAA-AT
94030331 T-TAAAATAT
1 TATAAAA-AT
*
94030340 TATAAAAACG
1 TATAAAAA-T
*
94030350 TATACAAAT
1 TATAAAAAT
*
94030359 TCTTAAAAACT
1 T-ATAAAAA-T
94030370 TATAAAAAT
1 TATAAAAAT
*
94030379 CATAAAAA
1 TATAAAAA
94030387 AATATTAAGA
Statistics
Matches: 163, Mismatches: 34, Indels: 48
0.67 0.14 0.20
Matches are distributed among these distances:
7 4 0.02
8 10 0.06
9 50 0.31
10 68 0.42
11 28 0.17
12 3 0.02
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:94030384 original size:19 final size:20
Alignment explanation
Indices: 94030341--94030386 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
94030331 TTAAAATATT
*
94030341 ATAAAAACGTATACAAATTC
1 ATAAAAACGTATACAAAATC
* *
94030361 TTAAAAACTTATA-AAAATC
1 ATAAAAACGTATACAAAATC
94030380 ATAAAAA
1 ATAAAAA
94030387 AATATTAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (20 bp):
ATAAAAACGTATACAAAATC
Found at i:94030981 original size:19 final size:19
Alignment explanation
Indices: 94030931--94031005 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
94030921 ATAATTCATG
* *
94030931 TTTTTATGATTTTTTAATAA
1 TTTTTATGA-TTTTTATTAT
* * *
94030951 TTTATATCATTTTTATTTT
1 TTTTTATGATTTTTATTAT
*
94030970 ATTTTTAT-ATTTTTCAATAT
1 -TTTTTATGATTTTT-ATTAT
94030990 TTTTTATGATTTTTAT
1 TTTTTATGATTTTTAT
94031006 AAGTTTTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
19 21 0.49
20 22 0.51
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTATGATTTTTATTAT
Found at i:94031090 original size:10 final size:9
Alignment explanation
Indices: 94031054--94031126 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 9
94031044 TGTAAATATG
94031054 TTTTTATTAA
1 TTTTTA-TAA
* *
94031064 TTTTAAAAA
1 TTTTTATAA
94031073 TTGTTTATAA
1 TT-TTTATAA
*
94031083 --TTTATTA
1 TTTTTATAA
94031090 TTTTTATAA
1 TTTTTATAA
*
94031099 -TATTATAA
1 TTTTTATAA
94031107 GTTTTTATTAA
1 -TTTTTA-TAA
94031118 TTTTTATAA
1 TTTTTATAA
94031127 GTTTATATCA
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
7 6 0.12
8 7 0.14
9 13 0.27
10 20 0.41
11 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:94031132 original size:28 final size:28
Alignment explanation
Indices: 94031053--94031133 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
94031043 TTGTAAATAT
* *
94031053 GTTTTTATTAATTTTAAAAATTGTTTATAA
1 GTTTTTATTAATTTTTATAA--GTTTATAA
94031083 ---TTTATT-ATTTTTATAA-TATTATAA
1 GTTTTTATTAATTTTTATAAGT-TTATAA
94031107 GTTTTTATTAATTTTTATAAGTTTATA
1 GTTTTTATTAATTTTTATAAGTTTATA
94031134 TCAAATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
23 1 0.02
24 6 0.14
26 8 0.19
27 12 0.28
28 15 0.35
29 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (28 bp):
GTTTTTATTAATTTTTATAAGTTTATAA
Found at i:94033570 original size:30 final size:30
Alignment explanation
Indices: 94033534--94033595 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
94033524 TTATTCATTT
94033534 AAGTTTAAAGATTTATTCAAAATTTGAAAA
1 AAGTTTAAAGATTTATTCAAAATTTGAAAA
94033564 AAGTTTAAAGATTTATTCAAAATTTGAAAA
1 AAGTTTAAAGATTTATTCAAAATTTGAAAA
94033594 AA
1 AA
94033596 AATTTAGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (30 bp):
AAGTTTAAAGATTTATTCAAAATTTGAAAA
Found at i:94033887 original size:31 final size:30
Alignment explanation
Indices: 94033802--94033888 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
94033792 TTACTAAATC
* *
94033802 AACTTTGATTTGATGCAATTATACACATGA
1 AACTTTGATTTGATTCAATTATATACATGA
* *
94033832 AACTTTAATTATGATTCAGA-TATATACTTGA
1 AACTTTGATT-TGATTCA-ATTATATACATGA
*
94033863 AACTTTGATATTGGTTCAATTATATA
1 AACTTTGAT-TTGATTCAATTATATA
94033889 TAATTAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
30 10 0.21
31 35 0.74
32 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (30 bp):
AACTTTGATTTGATTCAATTATATACATGA
Done.