Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 111 of 173
Found at i:34436734 original size:20 final size:19
Alignment explanation
Indices: 34436695--34436735 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
34436685 ACCTAAAAAT
* *
34436695 AATATTAAAAATTATTTTA
1 AATATTAAAAAATATATTA
34436714 AATATTAAAAAATACTATTA
1 AATATTAAAAAATA-TATTA
34436734 AA
1 AA
34436736 AACCTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATTAAAAAATATATTA
Found at i:34439005 original size:20 final size:20
Alignment explanation
Indices: 34438980--34439020 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34438970 GGTTGTTGAT
34438980 GATGCCTAGGCTTGTGTCAA
1 GATGCCTAGGCTTGTGTCAA
34439000 GATGCCTAGGCTTGTGTCAA
1 GATGCCTAGGCTTGTGTCAA
34439020 G
1 G
34439021 CTATGTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (20 bp):
GATGCCTAGGCTTGTGTCAA
Found at i:34451207 original size:20 final size:20
Alignment explanation
Indices: 34451182--34451281 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
34451172 ATAAATGCGT
34451182 AACAGAGGCACTGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
34451202 AACAGAGGCAC-GATTA-TGCA
1 AACAGAGGCACTGA--AGTGCA
* *
34451222 ACCAGAGGCACCT-TAGTTG--
1 AACAGAGGCA-CTGAAG-TGCA
* * *
34451241 AATAGAGACACTGAAGTGTA
1 AACAGAGGCACTGAAGTGCA
*
34451261 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
34451281 A
1 A
34451282 TCCCGTACAA
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
18 4 0.07
19 12 0.20
20 41 0.67
21 4 0.07
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (20 bp):
AACAGAGGCACTGAAGTGCA
Found at i:34453847 original size:18 final size:18
Alignment explanation
Indices: 34453820--34453869 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
34453810 TAGTGCTTAA
*
34453820 AAAAATACTTTTGGCTCC
1 AAAAACACTTTTGGCTCC
34453838 AAAAACACTTTTGGCTCC
1 AAAAACACTTTTGGCTCC
*
34453856 AAAAGCACTTTTGG
1 AAAAACACTTTTGG
34453870 AAGAAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (18 bp):
AAAAACACTTTTGGCTCC
Found at i:34454211 original size:29 final size:30
Alignment explanation
Indices: 34454154--34454220 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
34454144 ATTGATAAAT
*
34454154 AATTAATATTTATTACTTAAAATATTTAA-
1 AATTTATATTTATTACTTAAAATATTTAAC
34454183 AATTTATATTTCATATA-TTAAAATA-TTAAC
1 AATTTATATTT-AT-TACTTAAAATATTTAAC
*
34454213 AAGTTATA
1 AATTTATA
34454221 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 14 0.42
30 17 0.52
31 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
AATTTATATTTATTACTTAAAATATTTAAC
Found at i:34454272 original size:19 final size:20
Alignment explanation
Indices: 34454240--34454277 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
34454230 TTATATTCTT
34454240 ACTAAATTATAATAATATTA
1 ACTAAATTATAATAATATTA
* *
34454260 ACTAATTTA-AATATTATT
1 ACTAAATTATAATAATATT
34454278 TAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAAATTATAATAATATTA
Found at i:34455440 original size:14 final size:14
Alignment explanation
Indices: 34455407--34455451 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
34455397 AATATTTTCG
34455407 AAAAACATTTTTT-
1 AAAAACATTTTTTA
* *
34455420 TACAACATTTTTTA
1 AAAAACATTTTTTA
*
34455434 AAAAACACTTTTTA
1 AAAAACATTTTTTA
34455448 AAAA
1 AAAA
34455452 TATTCCCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAACATTTTTTA
Found at i:34458885 original size:14 final size:14
Alignment explanation
Indices: 34458866--34458904 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34458856 TGTTATATTG
34458866 TATTTGTATATATA
1 TATTTGTATATATA
* *
34458880 TATTTGTAAATATT
1 TATTTGTATATATA
*
34458894 TATTCGTATAT
1 TATTTGTATAT
34458905 GTTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:34463637 original size:45 final size:45
Alignment explanation
Indices: 34463584--34464444 Score: 413
Period size: 45 Copynumber: 19.3 Consensus size: 45
34463574 GACCGAATAT
*
34463584 ACAGATCTTATCTTTCCATACTGGTGGTGAAGTAGATCGGAA-AAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATC-GAAGAAA
** * **
34463629 GTAGATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATC-AAGGATG
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAA-GAAA
* * *
34463673 ACAGATCTTGCCTTTCCATACTGGTGGCGAAGCAGATCGAAGAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
* * * *
34463718 ACAGATATTGTC-TT-CATGTACTGG-CGTGAAGTAGATCAAAGATA
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAAGAAA
* * * **
34463762 CCAGATCTTGTCTTTCCATACTGGCGGCGAAGCGGATCGAAGAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
* ***
34463807 ACAGATCTTGTCTTTCCATACTGGTGGCGAAACGGATCGAAGAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
* * * * *
34463852 ACAGATCTTGTC-TT-CATGTATTGG-CGTGAAGCAGATCAAAGATA
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAAGAAA
*** * * * *
34463896 GTGGATCTTGTCTTCCCATACTGGTGGCGAAATAGATTGAAGAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
* *
34463941 ACAGATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATC-AAAAAA
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAAGAAA
* * ** * *
34463984 ACATATTTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAAAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
* * * * * *
34464029 ATAAATCTTATC-TT-CATGTACTGG-CGTGAAGTAGATCAAAGATA
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAAGAAA
* * * * * * * *
34464073 GCAGGTCCTGTC-TTCCTATA-TCGGTAGCGAAGTGGATCGAA-TAT
1 ACAGATCTTGTCTTTCC-ATACT-GGTGGTGAAGTAGATCGAAGAAA
* *
34464117 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAA-AAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
* * * * **
34464161 AGTAAATCTTGTC-TT-CATGTGCTGG-CGTGAAGTAGATC-AAGGATG
1 A-CAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAA-GAAA
* * ** * *
34464206 ACAGATTTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAG-AAA
* * * *
34464252 ACAAATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATCAAATG-TA
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAA-GAAA
* * * ** * *
34464296 ACATATATTGTC-TCCTCATACTGGTGGCAAAGCAGATCGAAGGAA
1 ACAGATCTTGTCTTTC-CATACTGGTGGTGAAGTAGATCGAAGAAA
* * **
34464341 ACAGATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATCAAAGGTA
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGTAGATCGAAGAAA
* ** * * * *
34464385 ACAGATCTTGCCTCCCCATATTGGTGGTGGAGCAGATTGAAGAAA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
*
34464430 AGCAAATCTTGTCTT
1 A-CAGATCTTGTCTT
34464445 CATGTATCGG
Statistics
Matches: 599, Mismatches: 162, Indels: 109
0.69 0.19 0.13
Matches are distributed among these distances:
42 2 0.00
43 38 0.06
44 246 0.41
45 269 0.45
46 44 0.07
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGAAA
Found at i:34463677 original size:89 final size:87
Alignment explanation
Indices: 34463584--34464503 Score: 512
Period size: 89 Copynumber: 10.3 Consensus size: 87
34463574 GACCGAATAT
* * *
34463584 ACAGATCTTATCTTTCCATACTGGTGGTGAAGTAGATCGGAAAAAGTAGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATC-GAAAAAGCAGATCTTGTCTTCATGTA
*
34463649 CTGGCGTGAAGTAGATCAAGGATG
65 CTGGCGTGAAGTAGATCAA-GATA
* * * *
34463673 ACAGATCTTGCCTTTCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATATTGTCTTCATGTA
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATCGAA-AAAGCAGATCTTGTCTTCATGTA
34463738 CTGGCGTGAAGTAGATCAAAGATA
65 CTGGCGTGAAGTAGATC-AAGATA
* * * * *
34463762 CCAGATCTTGTCTTTCCATACTGGCGGCGAAGCGGATCGAAGAAAACAGATCTTGTCTTTCCA--
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATCGAA-AAAGCAGATCTTGTC-TT-CATG
* * *** *
34463825 TACTGGTGGCGAAACGGATCGAAGAAA
63 TACTGG-CGTGAAGTAGATC-AAGATA
* * ** **
34463852 ACAGATCTTGTC-TT-CATGTATTGG-CGTGAAGCAGATC-AAAGATAGTGGATCTTGTCTTCCC
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGCAGATCGAAA-A-AGCAGATCTTGTCTTCAT
* * * * * *
34463913 ATACTGGTGGCGAAATAGATTGAAGAAA
62 GTACTGG-CGTGAAGTAGA-TCAAGATA
* * * * * * * ***
34463941 ACAGATCTTGTC-TT-CATGTACTGG-CGTGAAGTAGATCAAAAAAACATATTTTGTCTCCCCAT
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGCAGATCGAAAAAGCAGATCTTGTCTTCATGT
* * * *
34464003 ACTGGTGGTGGAGTAGATCGAAAAAA
64 ACTGG-CGTGAAGTAGATC-AAGATA
* * * * * * * *
34464029 ATAAATCTTATC-TT-CATGTACTGG-CGTGAAGTAGATC-AAAGATAGCAGGTCCTGTCTTCCT
1 ACAGATCTTGTCTTTCCA--TACTGGTGGTGAAGCAGATCGAAA-A-AGCAGATCTTGTCTTCAT
* * * * *
34464090 ATA-TCGGTAGCGAAGTGGATCGA-ATA
62 GTACT-GG-CGTGAAGTAGATCAAGATA
* * * * *
34464116 TACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCGAAAAAAGTAAATCTTGTCTTCATGT
1 -ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATCG-AAAAAGCAGATCTTGTCTTCATGT
* *
34464181 GCTGGCGTGAAGTAGATCAAGGATG
64 ACTGGCGTGAAGTAGATCAA-GATA
* * ** * * * * *
34464206 ACAGATTTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGT
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATCG-A-AAAAGCAGATCTTGTCTTCATGT
34464271 ACTGGCGTGAAGTAGATCAA-ATGTA
64 ACTGGCGTGAAGTAGATCAAGA--TA
* * * **
34464296 ACATATATTGTC-TCCTCATACTGGTGGCAAAGCAGATCGAAGGAAA-CAGATCTTGTCTTCATG
1 ACAGATCTTGTCTTTC-CATACTGGTGGTGAAGCAGATCGAA--AAAGCAGATCTTGTCTTCATG
*
34464359 TACTGGCGTGAAGTAGATCAAAGGTA
63 TACTGGCGTGAAGTAGATC-AAGATA
* ** * * * *
34464385 ACAGATCTTGCCTCCCCATATTGGTGGTGGAGCAGATTGAAGAAAAGCAAATCTTGTCTTCATGT
1 ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATCG-A-AAAAGCAGATCTTGTCTTCATGT
34464450 A-TCGGCGTGAAGTAGATCAA-ATACA
64 ACT-GGCGTGAAGTAGATCAAGAT--A
* * **
34464475 ACAAATATTGTCTCCCCATACTGGTGGTG
1 ACAGATCTTGTCTTTCCATACTGGTGGTG
34464504 GAATAGATTG
Statistics
Matches: 677, Mismatches: 113, Indels: 81
0.78 0.13 0.09
Matches are distributed among these distances:
87 8 0.01
88 110 0.16
89 375 0.55
90 178 0.26
91 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (87 bp):
ACAGATCTTGTCTTTCCATACTGGTGGTGAAGCAGATCGAAAAAGCAGATCTTGTCTTCATGTAC
TGGCGTGAAGTAGATCAAGATA
Found at i:34463964 original size:134 final size:134
Alignment explanation
Indices: 34463673--34463954 Score: 429
Period size: 134 Copynumber: 2.1 Consensus size: 134
34463663 ATCAAGGATG
* *
34463673 ACAGATCTTGCCTTTCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATATTGTCTTCATGTA
1 ACAGATCTTGTCTTTCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATATTGTCTTCATGTA
* * * *
34463738 CTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTTCCATACTGGCGGCGAAGCGGATCGAA
66 CTGGCGTGAAGCAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGCGGCGAAACAGATCGAA
34463803 GAAA
131 GAAA
* *
34463807 ACAGATCTTGTCTTTCCATACTGGTGGCGAAACGGATCGAAGAAAACAGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTTCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATATTGTCTTCATGTA
* *** * * *
34463872 TTGGCGTGAAGCAGATCAAAGATAGTGGATCTTGTCTTCCCATACTGGTGGCGAAATAGATTGAA
66 CTGGCGTGAAGCAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGCGGCGAAACAGATCGAA
34463937 GAAA
131 GAAA
34463941 ACAGATCTTGTCTT
1 ACAGATCTTGTCTT
34463955 CATGTACTGG
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (134 bp):
ACAGATCTTGTCTTTCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATATTGTCTTCATGTA
CTGGCGTGAAGCAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGCGGCGAAACAGATCGAA
GAAA
Found at i:34464282 original size:90 final size:90
Alignment explanation
Indices: 34464131--34464517 Score: 460
Period size: 90 Copynumber: 4.3 Consensus size: 90
34464121 ATCTTATCTT
* * ** *
34464131 CCCATACTGGTGGTGAAGTAGATCGAA-AAAAGTAAATCTTGTCTTCATGTGCTGGCGTGAAGTA
1 CCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
* *
34464195 GATCAAGGATGACAGATTTTGCCTC
66 GATCAAGGATAACAGATATTGCCTC
34464220 CCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
1 CCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
* * *
34464285 GATCAAATG-TAACATATATTGTCTC
66 GATC-AAGGATAACAGATATTGCCTC
* *** * * * *
34464310 CTCATACTGGTGGCAAAGCAGATCGAAG-GAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTA
1 CCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
*
34464374 GATCAAAGG-TAACAGATCTTGCCTC
66 GATC-AAGGATAACAGATATTGCCTC
* * *
34464399 CCCATATTGGTGGTGGAGCAGATTGAAGAAAAGCAAATCTTGTCTTCATGTA-TCGGCGTGAAGT
1 CCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACT-GGCGTGAAGT
** * * *
34464463 AGATCAAATACAACAAATATTGTCTC
65 AGATCAAGGATAACAGATATTGCCTC
*
34464489 CCCATACTGGTGGTGGAATAGATTGAAGA
1 CCCATACTGGTGGTGGAGTAGATTGAAGA
34464518 TTACAGATCT
Statistics
Matches: 253, Mismatches: 40, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
89 105 0.42
90 145 0.57
91 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (90 bp):
CCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
GATCAAGGATAACAGATATTGCCTC
Found at i:34464528 original size:179 final size:179
Alignment explanation
Indices: 34464131--34464501 Score: 550
Period size: 179 Copynumber: 2.1 Consensus size: 179
34464121 ATCTTATCTT
** * * * * *
34464131 CCCATACTGGTGGTGAAGTAGATCGAA-AAAAGTAAATCTTGTCTTCATGTGCTGGCGTGAAGTA
1 CCCATACTGGTGGCAAAGCAGATCGAAGGAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTA
* * *
34464195 GATCAAGGATGACAGATTTTGCCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAAACAAATCT
65 GATCAAGGATAACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAACAAATCT
** *
34464260 TGTCTTCATGTACTGGCGTGAAGTAGATCAAATGTAACATATATTGTCTC
130 TGTCTTCATGTACTGGCGTGAAGTAGATCAAATACAACAAATATTGTCTC
*
34464310 CTCATACTGGTGGCAAAGCAGATCGAAGGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
1 CCCATACTGGTGGCAAAGCAGATCGAAGGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* *
34464375 ATCAAAGG-TAACAGATCTTGCCTCCCCATATTGGTGGTGGAGCAGATTGAAGAAAAGCAAATCT
66 ATC-AAGGATAACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAACAAATCT
34464439 TGTCTTCATGTA-TCGGCGTGAAGTAGATCAAATACAACAAATATTGTCTC
130 TGTCTTCATGTACT-GGCGTGAAGTAGATCAAATACAACAAATATTGTCTC
34464489 CCCATACTGGTGG
1 CCCATACTGGTGG
34464502 TGGAATAGAT
Statistics
Matches: 172, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
178 1 0.01
179 164 0.95
180 7 0.04
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (179 bp):
CCCATACTGGTGGCAAAGCAGATCGAAGGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
ATCAAGGATAACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAACAAATCTT
GTCTTCATGTACTGGCGTGAAGTAGATCAAATACAACAAATATTGTCTC
Found at i:34466186 original size:14 final size:14
Alignment explanation
Indices: 34466167--34466205 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34466157 TGTTATATTG
34466167 TATTTGTATATATA
1 TATTTGTATATATA
* *
34466181 TATTTGTAAATATT
1 TATTTGTATATATA
*
34466195 TATTCGTATAT
1 TATTTGTATAT
34466206 GTTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:34468111 original size:20 final size:20
Alignment explanation
Indices: 34468060--34468111 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
34468050 ATTTTATTTA
*
34468060 ATTAAT-TATT-TTAATGTT
1 ATTAATCTATTATAAATGTT
34468078 ATT-ATCGTTATTATAAATGTT
1 ATTAATC--TATTATAAATGTT
34468099 ATTAATCTATTAT
1 ATTAATCTATTAT
34468112 TATTCATGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 2 0.07
18 3 0.11
20 10 0.36
21 10 0.36
22 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (20 bp):
ATTAATCTATTATAAATGTT
Found at i:34470137 original size:11 final size:11
Alignment explanation
Indices: 34470123--34470147 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34470113 AAAAACAATG
34470123 ATAAAAAAGTA
1 ATAAAAAAGTA
34470134 ATAAAAAAGTA
1 ATAAAAAAGTA
34470145 ATA
1 ATA
34470148 TCAGGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (11 bp):
ATAAAAAAGTA
Found at i:34470413 original size:29 final size:31
Alignment explanation
Indices: 34470376--34470459 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 31
34470366 CAAGTTACGC
34470376 AAATT-AAAGGG-TAAAAATATAAAT-A-AGA
1 AAATTAAAAGGGCTAAAAAT-TAAATAACAGA
* *
34470404 AAATTAAAAGGGCTAGAAATTGAATAACAGA
1 AAATTAAAAGGGCTAAAAATTAAATAACAGA
* *
34470435 AAA-TAAAAGGGGT-GAAATTAAATAA
1 AAATTAAAAGGGCTAAAAATTAAATAA
34470460 GTAAAGGACT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.10
29 21 0.44
30 16 0.33
31 6 0.12
ACGTcount: A:0.60, C:0.02, G:0.18, T:0.20
Consensus pattern (31 bp):
AAATTAAAAGGGCTAAAAATTAAATAACAGA
Found at i:34471650 original size:15 final size:16
Alignment explanation
Indices: 34471632--34471666 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
34471622 ATTTTTTAAA
*
34471632 TTTTGGGCTTTTA-GG
1 TTTTAGGCTTTTAGGG
34471647 TTTTAGGCTTTTAGGG
1 TTTTAGGCTTTTAGGG
34471663 TTTT
1 TTTT
34471667 TGTATTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.09, C:0.06, G:0.29, T:0.57
Consensus pattern (16 bp):
TTTTAGGCTTTTAGGG
Found at i:34472030 original size:47 final size:48
Alignment explanation
Indices: 34471979--34472086 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 48
34471969 CTTGCTCCAT
*
34471979 TGCAACTTCGA-GAAGATAAGATTTG-TTGTAGTTTCAATCCAACCCAC
1 TGCAACTTCAATGAA-ATAAGATTTGTTTGTAGTTTCAATCCAACCCAC
* *
34472026 TGCAACTTCAATTAAATAAGATTTGTTATTGTAGTTTCAATCCGACCCAC
1 TGCAACTTCAATGAAATAAGATTTG-T-TTGTAGTTTCAATCCAACCCAC
34472076 TGCAACTTCAA
1 TGCAACTTCAA
34472087 GGGTATAGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
47 20 0.37
48 2 0.04
50 32 0.59
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (48 bp):
TGCAACTTCAATGAAATAAGATTTGTTTGTAGTTTCAATCCAACCCAC
Found at i:34472126 original size:44 final size:43
Alignment explanation
Indices: 34472072--34472401 Score: 179
Period size: 44 Copynumber: 7.1 Consensus size: 43
34472062 TCAATCCGAC
*
34472072 CCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTAATCTTGCT
1 CCACTACAACTTC-AGGGTATAGGATTTGTAGCTTAATCTTGCT
* *
34472116 CCACTACAACTTTAGAGAG-ATAAGATTTGTTATGATAACTTCAATC-TGAC-
1 CCACTACAACTTCAG-G-GTATAGGATTTG-TA-G----CTT-AATCTTG-CT
* * *
34472166 CCATTACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTACT
1 CCACTACAACTTCAGGG-TATAGGATTTGTAGCTTAATCTTGCT
* *
34472210 CCACTACAACTTCAGGGAGATAAGATTTGTTATGGTAACTTCAATC-TGAC-
1 CCACTACAACTTCAGGG-TATAGGATTTG-TA--G---CTT-AATCTTG-CT
* * *
34472260 CCACTGCAACTTCAGGGGTATAGGATTTGGAGCTTCATCTTGCT
1 CCACTACAACTTCA-GGGTATAGGATTTGTAGCTTAATCTTGCT
* * * *
34472304 CCACTACAACTTTAGGGAGATAAGATTTGCTATGGTAACTTAAATC-TG-A
1 CCACTACAACTTCAGGG-TATAGGATTTG-TA--G---CTT-AATCTTGCT
* *
34472353 CCACTACAACTTCAGAGGCATAGGATTTGTAGCTTCATCTTGCT
1 CCACTACAACTTCAG-GGTATAGGATTTGTAGCTTAATCTTGCT
34472397 CCACT
1 CCACT
34472402 GCAAATTTAG
Statistics
Matches: 220, Mismatches: 30, Indels: 72
0.68 0.09 0.22
Matches are distributed among these distances:
42 3 0.01
43 18 0.08
44 82 0.37
45 6 0.03
46 2 0.01
47 3 0.01
48 4 0.02
49 27 0.12
50 60 0.27
51 15 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
CCACTACAACTTCAGGGTATAGGATTTGTAGCTTAATCTTGCT
Found at i:34472193 original size:50 final size:49
Alignment explanation
Indices: 34471992--34472367 Score: 235
Period size: 50 Copynumber: 8.0 Consensus size: 49
34471982 AACTTCGAGA
** ** * ***
34471992 AGATAAGATTTG-T-TGTAGTTTCAATCCAACCCACTGCAACTTCAATT
1 AGATAAGATTTGTTATGTAACTTCAATCTGACCCACTACAACTTCAGGG
* ** * *
34472039 AAATAAGATTTGTTATTGTAGTTTCAATCCGACCCACTGCAACTTCAAGGG
1 AGATAAGATTTGTTA-TGTAACTTCAATCTGACCCACTACAACTTC-AGGG
* * * *
34472090 -TATAGGATTTG-TA-G---CTT-AATCTTG-CTCCACTACAACTTTAGAG
1 AGATAAGATTTGTTATGTAACTTCAATC-TGAC-CCACTACAACTTCAGGG
*
34472133 AGATAAGATTTGTTATGATAACTTCAATCTGACCCATTACAACTTCAGGG
1 AGATAAGATTTGTTATG-TAACTTCAATCTGACCCACTACAACTTCAGGG
* * *
34472183 ATATAGGATTTG-TA-G---CTTC-ATCTTACTCCACTACAACTTCAGGG
1 AGATAAGATTTGTTATGTAACTTCAATCTGAC-CCACTACAACTTCAGGG
*
34472227 AGATAAGATTTGTTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGG
1 AGATAAGATTTGTTAT-GTAACTTCAATCTGACCCACTACAACTTCAGGG
* * *
34472277 -GTATAGGATTTG----G-AGCTTC-ATCTTG-CTCCACTACAACTTTAGGG
1 AG-ATAAGATTTGTTATGTAACTTCAATC-TGAC-CCACTACAACTTCAGGG
* *
34472321 AGATAAGATTTGCTATGGTAACTTAAATCTGA-CCACTACAACTTCAG
1 AGATAAGATTTGTTAT-GTAACTTCAATCTGACCCACTACAACTTCAG
34472368 AGGCATAGGA
Statistics
Matches: 261, Mismatches: 33, Indels: 68
0.72 0.09 0.19
Matches are distributed among these distances:
43 18 0.07
44 84 0.32
45 6 0.02
46 1 0.00
47 13 0.05
48 2 0.01
49 20 0.08
50 102 0.39
51 15 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (49 bp):
AGATAAGATTTGTTATGTAACTTCAATCTGACCCACTACAACTTCAGGG
Found at i:34472581 original size:281 final size:282
Alignment explanation
Indices: 34472064--34472750 Score: 857
Period size: 281 Copynumber: 2.4 Consensus size: 282
34472054 TTGTAGTTTC
* * *
34472064 AATCCGACCCACTGCAACTTCA-AGGGTATAGGATTTGTAGCTTAATCTTGCTCCACTACAACTT
1 AATCCAACCCACTGCAACTTCAGA-GGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTT
* * * * * * *
34472128 TAGAGAGATAAGATT-TG-TTATGATAACTTCAATCTGACCCATTACAACTTCAGGGATATAGGA
65 TAGGGAGATAAGATTCAGCATA-G-TAACTTTATTCTGACCCATTACAACTTTAGGGGTATAGGA
* *
34472191 TTTGTAGCTTCATCTTACTCCACTACAACTTCAGGGAGATAAGATTTGTTATGGTAACTTCAATC
128 TTTGTAGCTTCATCTTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAACTTCAATC
* * * *
34472256 TGACCCACTGCAACTTCAGGGGTATAGGATTTGGAGCTTCATCTTGCTCCACTACAACTTTAGGG
193 TGACCCACTGCAACTTCAAGGGTATAGGATTTGGAGCTTCATCTTACTCCACTACAACTTCAAGG
*
34472321 AGATAAGATTTGCTATGGTAACTTA
258 AGATAAGATTCGCTATGGTAACTTA
** * * *
34472346 AATCTGA-CCACTACAACTTCAGAGGCATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAATTT
1 AATCCAACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTT
34472410 AGGGAGATAAGATTCAGCATAGTAACTTTATTCTGACCCATTACAACTTTAGGGGTATAGGATTT
66 AGGGAGATAAGATTCAGCATAGTAACTTTATTCTGACCCATTACAACTTTAGGGGTATAGGATTT
* ** * *
34472475 GTAGCTTCATCTTGCTCCACTGTAACTTTAGGTA-ACTAAGATTCGCTATGGTAACTTCAATGC-
131 GTAGCTTCATCTTACTCCACTACAACTTCAGGGAGA-TAAGATTCGCTATGGTAACTTCAAT-CT
* * *
34472538 GACCCGCTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAAGGA
194 GACCCACTGCAACTTCAAGGGTATAGGATTTGGAGCTTCATCTTACTCCACTACAACTTCAAGGA
* *
34472603 GATAAGATTCGCTATGGTAGCTTC
259 GATAAGATTCGCTATGGTAACTTA
* * * * * * *
34472627 AATCCAACCCACTGCAACTTTAGGGGTATAGGATTTATAACTTCATCTTACTCCACTGTAACTTC
1 AATCCAACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTT
* * * * * * *
34472692 AGGGAGATAAGATTCACCATTGT-AGTTTCATTCTAACCTACTGCAACTTTAGGGGTATA
66 AGGGAGATAAGATTCAGCATAGTAACTTT-ATTCTGACCCATTACAACTTTAGGGGTATA
34472751 AAAATTGTAG
Statistics
Matches: 349, Mismatches: 49, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
280 1 0.00
281 242 0.69
282 104 0.30
283 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (282 bp):
AATCCAACCCACTGCAACTTCAGAGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTT
AGGGAGATAAGATTCAGCATAGTAACTTTATTCTGACCCATTACAACTTTAGGGGTATAGGATTT
GTAGCTTCATCTTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAACTTCAATCTGA
CCCACTGCAACTTCAAGGGTATAGGATTTGGAGCTTCATCTTACTCCACTACAACTTCAAGGAGA
TAAGATTCGCTATGGTAACTTA
Found at i:34472594 original size:44 final size:44
Alignment explanation
Indices: 34472544--34472692 Score: 140
Period size: 44 Copynumber: 3.2 Consensus size: 44
34472534 ATGCGACCCG
34472544 CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
1 CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
* **
34472588 CTGCAACTTCAAGGAG-ATAAGATTCGCTATGGTAGCTTCAATCCAAC-CCA
1 CTGCAACTTCAAGG-GTATAGGA-T---T-T-GTAGCTTC-ATCTTACTCCA
* * * *
34472638 CTGCAACTTTAGGGGTATAGGATTTATAACTTCATCTTACTCCA
1 CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
*
34472682 CTGTAACTTCA
1 CTGCAACTTCA
34472693 GGGAGATAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
43 5 0.06
44 37 0.45
45 3 0.04
46 1 0.01
48 1 0.01
49 3 0.04
50 28 0.34
51 5 0.06
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
CTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCA
Found at i:34472644 original size:50 final size:50
Alignment explanation
Indices: 34472511--34472661 Score: 138
Period size: 50 Copynumber: 3.1 Consensus size: 50
34472501 TTTAGGTAAC
* * * *
34472511 TAAGATTCGCTATGGTAACTTCAATGCGACCCGCTGCAACTTCAAGGGTA
1 TAAGATTCGCTATGGTAGCTTCAATCCAACCCACTGCAACTTCAAGGGTA
* **
34472561 TAGGA-T---T-T-GTAGCTTC-ATCTTACTCCACTGCAACTTCAAGGAG-A
1 TAAGATTCGCTATGGTAGCTTCAATCCAAC-CCACTGCAACTTCAAGG-GTA
* *
34472605 TAAGATTCGCTATGGTAGCTTCAATCCAACCCACTGCAACTTTAGGGGTA
1 TAAGATTCGCTATGGTAGCTTCAATCCAACCCACTGCAACTTCAAGGGTA
*
34472655 TAGGATT
1 TAAGATT
34472662 TATAACTTCA
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
43 4 0.05
44 28 0.35
45 3 0.04
46 1 0.01
48 1 0.01
49 3 0.04
50 34 0.43
51 5 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
TAAGATTCGCTATGGTAGCTTCAATCCAACCCACTGCAACTTCAAGGGTA
Found at i:34472706 original size:94 final size:94
Alignment explanation
Indices: 34472061--34472750 Score: 830
Period size: 94 Copynumber: 7.4 Consensus size: 94
34472051 TTATTGTAGT
* * * *
34472061 TTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTAATCTTGCTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * *
34472126 TTTAGAGAGATAAGATTTGTTATGATAAC
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * * * *
34472155 TTCAATCTGACCCATTACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTACTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * *
34472220 TTCAGGGAGATAAGATTTGTTATGGTAAC
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* *
34472249 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGGAGCTTCATCTTGCTCCACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
*
34472314 TTTAGGGAGATAAGATTTGCTATGGTAAC
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * * * *
34472343 TTAAATCTGA-CCACTACAACTTCAGAGGCATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAA
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
*
34472407 TTTAGGGAGATAAGATTCAGC-ATAGTAAC
66 TTTAGGGAGATAAGATTC-GCTATGGTAAC
* * * * * *
34472436 TTTATTCTGACCCATTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGTAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
*
34472501 TTTAGGTA-ACTAAGATTCGCTATGGTAAC
66 TTTAGGGAGA-TAAGATTCGCTATGGTAAC
* * *
34472530 TTCAATGC-GACCCGCTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAA
1 TTCAAT-CTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAA
* * *
34472594 CTTCAAGGAGATAAGATTCGCTATGGTAGC
65 CTTTAGGGAGATAAGATTCGCTATGGTAAC
** * * * * *
34472624 TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTTATAACTTCATCTTACTCCACTGTAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * * **
34472689 TTCAGGGAGATAAGATTCACCATTGTAGT
66 TTTAGGGAGATAAGATTCGCTATGGTAAC
* * * *
34472718 TTCATTCTAACCTACTGCAACTTTAGGGGTATA
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATA
34472751 AAAATTGTAG
Statistics
Matches: 525, Mismatches: 64, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
93 84 0.16
94 439 0.84
95 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (94 bp):
TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
TTTAGGGAGATAAGATTCGCTATGGTAAC
Found at i:34472776 original size:94 final size:94
Alignment explanation
Indices: 34472490--34472799 Score: 230
Period size: 94 Copynumber: 3.3 Consensus size: 94
34472480 TTCATCTTGC
* * * * * * *
34472490 TCCACTGTAACTT-TAGGTA-ACTAAGATTCGCTATGGTAACTTCAATGCGACCCGCTGCAACTT
1 TCCACTGTAACTTCAAGG-AGA-TAAGATTCACCATGGTAGCTTCAATCCAACCCACTGCAACTT
* * ** * * * * * *
34472553 CAAGGGTATAGGATTTGTAGCTTCATCTTAC
64 TAGGGGTATAAAAATTATAACTTAATCTCAA
* * *
34472584 TCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGCTTCAATCCAACCCACTGCAACTTTA
1 TCCACTGTAACTTCAAGGAGATAAGATTCACCATGGTAGCTTCAATCCAACCCACTGCAACTTTA
** * * * *
34472649 GGGGTATAGGATTTATAACTTCATCTTAC
66 GGGGTATAAAAATTATAACTTAATCTCAA
* * * * * *
34472678 TCCACTGTAACTTCAGGGAGATAAGATTCACCATTGTAGTTTCATTCTAACCTACTGCAACTTTA
1 TCCACTGTAACTTCAAGGAGATAAGATTCACCATGGTAGCTTCAATCCAACCCACTGCAACTTTA
* *
34472743 GGGGTATAAAAATTGTAGCTTTAATC-CAA
66 GGGGTATAAAAATTATAAC-TTAATCTCAA
* * * *
34472772 TCCACTATAACTTTAAGGATATAGGATT
1 TCCACTGTAACTTCAAGGAGATAAGATT
34472800 TGTAGTTTCA
Statistics
Matches: 181, Mismatches: 32, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
94 172 0.95
95 9 0.05
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (94 bp):
TCCACTGTAACTTCAAGGAGATAAGATTCACCATGGTAGCTTCAATCCAACCCACTGCAACTTTA
GGGGTATAAAAATTATAACTTAATCTCAA
Found at i:34482662 original size:20 final size:20
Alignment explanation
Indices: 34482637--34482685 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
34482627 TGAGTTATTT
*
34482637 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAC
*
34482657 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
34482677 AAG-AAGCAA
1 AAGTAAGCAA
34482686 AGGCCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:34490212 original size:78 final size:81
Alignment explanation
Indices: 34490069--34490252 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 81
34490059 GCTACTCGTT
* * *
34490069 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
34490134 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
**
34490149 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
34490211 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
34490228 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34490253 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
77 3 0.03
78 46 0.50
79 29 0.32
80 14 0.15
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:34490252 original size:40 final size:40
Alignment explanation
Indices: 34490050--34490252 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
34490040 CGGAATTTAA
** *
34490050 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34490090 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34490130 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34490169 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34490208 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34490248 CCGGA
1 CCGGA
34490253 CATCATTCAA
Statistics
Matches: 142, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.01
38 23 0.16
39 23 0.16
40 83 0.58
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34498047 original size:40 final size:39
Alignment explanation
Indices: 34498010--34498194 Score: 230
Period size: 41 Copynumber: 4.6 Consensus size: 39
34498000 GCTACTCGTT
*
34498010 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
34498050 CAAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAA-TGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
*
34498091 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
* * * * *
34498130 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
34498171 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
34498195 ACATCATTCA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 3 0.02
39 33 0.26
40 44 0.34
41 46 0.36
42 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:34498183 original size:79 final size:81
Alignment explanation
Indices: 34498010--34498195 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 81
34498000 GCTACTCGTT
* *
34498010 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATTGCCTTCGGGACTTAACCCG
* *
34498075 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
**
34498091 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCACAAA-TGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATTGCCTTCGGGA-CTTAACCC
* *
34498153 GGATATGGTCACTTAGCA
65 GGATATAGTAAC-TAGCA
34498171 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34498196 CATCATTCAA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
78 3 0.03
79 43 0.45
80 24 0.25
81 25 0.26
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATTGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:34498195 original size:40 final size:40
Alignment explanation
Indices: 34497991--34498195 Score: 256
Period size: 40 Copynumber: 5.1 Consensus size: 40
34497981 CGGAATTTAA
** *
34497991 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34498031 CCGGTTATAGTAACTCGCACAAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAA-TGCCTTCGGGACTTAGC
*
34498072 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34498112 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34498151 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34498191 CCGGA
1 CCGGA
34498196 CATCATTCAA
Statistics
Matches: 146, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
38 3 0.02
39 35 0.24
40 61 0.42
41 47 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34504167 original size:16 final size:16
Alignment explanation
Indices: 34504146--34504180 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34504136 AACCCCAACC
34504146 TCTATTCTTCTGAACT
1 TCTATTCTTCTGAACT
*
34504162 TCTATTTTTCTGAACT
1 TCTATTCTTCTGAACT
34504178 TCT
1 TCT
34504181 TCAATTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (16 bp):
TCTATTCTTCTGAACT
Found at i:34505921 original size:20 final size:20
Alignment explanation
Indices: 34505893--34505967 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
34505883 AAGACTATGA
*
34505893 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
34505913 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* * *
34505933 TCCATTTCATTAACTTACTT
1 ACCATTCCATTTACTTACTT
*
34505953 TCCATTCCATTTACT
1 ACCATTCCATTTACT
34505968 GAGCATAAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:34505935 original size:15 final size:16
Alignment explanation
Indices: 34505907--34505939 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34505897 CTCCATTTAC
34505907 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
34505923 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
34505938 TT
1 TT
34505940 CATTAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:34512259 original size:25 final size:25
Alignment explanation
Indices: 34512231--34512280 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
34512221 GACCATATGG
34512231 GGTAAACAAATTTAACCTAAAGAGA
1 GGTAAACAAATTTAACCTAAAGAGA
*
34512256 GGTAAACGAATTTAACCTAAAGAGA
1 GGTAAACAAATTTAACCTAAAGAGA
34512281 TATTTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (25 bp):
GGTAAACAAATTTAACCTAAAGAGA
Found at i:34517140 original size:11 final size:11
Alignment explanation
Indices: 34517124--34517170 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
34517114 TCAATTATTT
34517124 TCTCAATTTCC
1 TCTCAATTTCC
*
34517135 TCTCAATTACC
1 TCTCAATTTCC
*
34517146 TCTCAATTTGC
1 TCTCAATTTCC
*
34517157 TCTCAAATTCC
1 TCTCAATTTCC
34517168 TCT
1 TCT
34517171 TAAATTTCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:34517181 original size:22 final size:23
Alignment explanation
Indices: 34517128--34517186 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
34517118 TTATTTTCTC
*
34517128 AATTTCCTCTC-AATTACCTCTC
1 AATTTCCTCTCAAATTACCTCTA
*
34517150 AATTTGCTCTCAAATT-CCTCTTA
1 AATTTCCTCTCAAATTACCTC-TA
*
34517173 AATTT-CTCTTAAAT
1 AATTTCCTCTCAAAT
34517187 CCTATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTCCTCTCAAATTACCTCTA
Found at i:34518348 original size:7 final size:7
Alignment explanation
Indices: 34518336--34518361 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34518326 TAGTCGATTG
34518336 GTATTTA
1 GTATTTA
34518343 GTATTTA
1 GTATTTA
34518350 GTATTTA
1 GTATTTA
34518357 GTATT
1 GTATT
34518362 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:34519318 original size:21 final size:21
Alignment explanation
Indices: 34519292--34519338 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
34519282 CAACTCCGAC
*
34519292 AACCAG-ATGCCCTACTGGAGG
1 AACCAGAAT-CCCTACCGGAGG
34519313 AACCAGAATCCCTACCGGAGG
1 AACCAGAATCCCTACCGGAGG
34519334 AACCA
1 AACCA
34519339 CAACCGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.11
Consensus pattern (21 bp):
AACCAGAATCCCTACCGGAGG
Found at i:34519619 original size:15 final size:15
Alignment explanation
Indices: 34519599--34519648 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
34519589 GACAAATCTT
34519599 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
* *
34519614 AAACCCTAAACCCT--
1 AAACCCTTAA-CTTAA
34519628 -AACCCTTAACTTAA
1 AAACCCTTAACTTAA
34519642 AAACCCT
1 AAACCCT
34519649 AAACCCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:34519632 original size:28 final size:28
Alignment explanation
Indices: 34519600--34519655 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
34519590 ACAAATCTTA
34519600 AACCCTTAACTTAAAAACCCTAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCT
34519628 AACCCTTAACTTAAAAACCCTAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCT
34519656 TAACTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (28 bp):
AACCCTTAACTTAAAAACCCTAAACCCT
Found at i:34519645 original size:21 final size:21
Alignment explanation
Indices: 34519621--34519676 Score: 94
Period size: 22 Copynumber: 2.6 Consensus size: 21
34519611 TAAAAACCCT
34519621 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
34519642 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
34519664 AAATCCTAACCCT
1 AAACCCTAACCCT
34519677 AACCCTAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:34519674 original size:28 final size:26
Alignment explanation
Indices: 34519600--34519682 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 26
34519590 ACAAATCTTA
34519600 AACCCTTAACTTAAAAACCCTAAACCCT
1 AACCCTTAACTTAAAAA-CCT-AACCCT
34519628 AACCCTTAACTT--AAA---AACCCT
1 AACCCTTAACTTAAAAACCTAACCCT
34519649 AAACCCTTAACTTAAAAATCCTAACCCT
1 -AACCCTTAACTTAAAAA-CCTAACCCT
34519677 AACCCT
1 AACCCT
34519683 AACCCTAACC
Statistics
Matches: 48, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
21 6 0.12
22 12 0.25
24 3 0.06
26 3 0.06
27 6 0.12
28 18 0.38
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (26 bp):
AACCCTTAACTTAAAAACCTAACCCT
Found at i:34519679 original size:6 final size:6
Alignment explanation
Indices: 34519668--34519694 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34519658 ACTTAAAAAT
34519668 CCTAAC CCTAAC CCTAAC CCTAAC CCT
1 CCTAAC CCTAAC CCTAAC CCTAAC CCT
34519695 TGACTGGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAC
Found at i:34523049 original size:126 final size:125
Alignment explanation
Indices: 34522780--34523097 Score: 492
Period size: 126 Copynumber: 2.5 Consensus size: 125
34522770 CCCAAACATG
* * * *
34522780 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCAAAAATTTTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
34522845 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * *
34522905 CTGCTGTAGCAAAAGCGCGTTCACGAGGGCACGGTTTCACAAATTCTTCTCATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
34522970 TTGAAGCGTTTTTTACACTATTTGCTCAGAAATGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCG-TTTTTACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * * *
34523031 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTGACATATTCTTCTCAAAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
34523096 TT
66 TT
34523098 TGATTTTATC
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
125 65 0.38
126 108 0.62
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
Found at i:34523230 original size:21 final size:22
Alignment explanation
Indices: 34523190--34523232 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
34523180 CCCTAAAAAT
* *
34523190 CCTAAAAACTCTAAACCCTAAC
1 CCTAAAAACTCAAAAACCTAAC
34523212 CCTAAAAAC-CAAAAACCTAAC
1 CCTAAAAACTCAAAAACCTAAC
34523233 GTGGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (22 bp):
CCTAAAAACTCAAAAACCTAAC
Found at i:34528688 original size:9 final size:10
Alignment explanation
Indices: 34528669--34528693 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34528659 TTTAGTTCTT
34528669 AAAAAGAAAA
1 AAAAAGAAAA
34528679 AAAAAGAAAA
1 AAAAAGAAAA
34528689 AAAAA
1 AAAAA
34528694 AGAAGACAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:34528689 original size:11 final size:11
Alignment explanation
Indices: 34528669--34528697 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
34528659 TTTAGTTCTT
34528669 AAAAAG-AAAA
1 AAAAAGAAAAA
34528679 AAAAAGAAAAA
1 AAAAAGAAAAA
34528690 AAAAAGAA
1 AAAAAGAA
34528698 GACAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:34531232 original size:25 final size:25
Alignment explanation
Indices: 34531192--34531280 Score: 110
Period size: 25 Copynumber: 3.5 Consensus size: 25
34531182 GGAGCTACAT
*
34531192 GTTAT-TGGCTCGCATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
*
34531216 GTTACATGGCTCACATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
*
34531241 GTTATATGGCTCGAGA-GAGGGCTTCCC
1 GTTATATGGCTC-ACATGA--GCTTCCC
34531268 GTTATATGGCTCA
1 GTTATATGGCTCA
34531281 AGAGAGGGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.07
25 31 0.54
26 3 0.05
27 19 0.33
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCCC
Found at i:34531269 original size:27 final size:26
Alignment explanation
Indices: 34531209--34531293 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
34531199 GCTCGCATGA
* *
34531209 GCTTCCCGTTACATGGCTCACATGA--
1 GCTTCCCGTTATATGGCTCAGA-GAGG
34531234 GCTTCCCGTTATATGGCTCGAGAGAGG
1 GCTTCCCGTTATATGGCTC-AGAGAGG
34531261 GCTTCCCGTTATATGGCTCAAGAGAGG
1 GCTTCCCGTTATATGGCTC-AGAGAGG
34531288 GCTTCC
1 GCTTCC
34531294 TGATTATGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 32 0.59
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (26 bp):
GCTTCCCGTTATATGGCTCAGAGAGG
Found at i:34531306 original size:27 final size:26
Alignment explanation
Indices: 34531234--34531306 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
34531224 GCTCACATGA
* *
34531234 GCTTCCCGTTATATGGCTCGAGAGAGG
1 GCTTCCCGTTATGT-GCTCAAGAGAGG
*
34531261 GCTTCCCGTTATATGGCTCAAGAGAGG
1 GCTTCCCGTTATGT-GCTCAAGAGAGG
*
34531288 GCTTCCTGATTATGTGCTC
1 GCTTCCCG-TTATGTGCTC
34531307 TAATGAGCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 37 0.88
28 5 0.12
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (26 bp):
GCTTCCCGTTATGTGCTCAAGAGAGG
Found at i:34538387 original size:24 final size:24
Alignment explanation
Indices: 34538311--34538390 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
34538301 TCTGAGCCTA
**
34538311 GAGCTTCCC-ATTAATGGCTCTTCG
1 GAGCTTCCCGATT-ATGGCTCTTAT
* **
34538335 GAGCTACCCG-TTATTGGCTCGCAT
1 GAGCTTCCCGATTA-TGGCTCTTAT
*
34538359 AAGCTTCCCGATTATGGCTCTTAT
1 GAGCTTCCCGATTATGGCTCTTAT
34538383 GAGCTTCC
1 GAGCTTCC
34538391 TGTTACATGG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
23 1 0.02
24 39 0.91
25 3 0.07
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTCTTAT
Found at i:34543206 original size:34 final size:34
Alignment explanation
Indices: 34543162--34543426 Score: 126
Period size: 35 Copynumber: 7.4 Consensus size: 34
34543152 AGTTTATTTG
* *
34543162 ACTAGTGCTGGGCAC-ATATTCGTCGGTTTATCCG
1 ACTAGAGCTGGGCACAATATT-GTCGGTTTATCCA
* * *
34543196 ACTTGCGCTGGGCACAAATATTGTTGGTTTATCCA
1 ACTAGAGCTGGGCAC-AATATTGTCGGTTTATCCA
* *
34543231 ACTAGAGCTGGGCTCACCATTTATTTTGTTGGTTTATCCA
1 ACTAGAGCTGGG--CA-CA---ATATTGTCGGTTTATCCA
* ** * *
34543271 AATAGCA-CTGGGCACAAATAACGTTGCTTTATCCA
1 ACTAG-AGCTGGGCAC-AATATTGTCGGTTTATCCA
*
34543306 ACTAGAGCTGCGCTCACTAATTATTCGTCGGTTTATCCA
1 ACTAGAGCTG-G-GCAC-AA-TATT-GTCGGTTTATCCA
** * * **
34543345 ACTAGCA-CTGGGCGTAACT-TCCGTCAGTTTATCTG
1 ACTAG-AGCTGGGCACAA-TAT-TGTCGGTTTATCCA
* *
34543380 ACTAGTGTTGGGCACACAT-TTGTCGGTTTATCCA
1 ACTAGAGCTGGGCACA-ATATTGTCGGTTTATCCA
*
34543414 ACTAGCGCTGGGC
1 ACTAGAGCTGGGC
34543427 GCAAACTCTT
Statistics
Matches: 175, Mismatches: 37, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
34 35 0.20
35 66 0.38
36 10 0.06
37 10 0.06
38 7 0.04
39 19 0.11
40 27 0.15
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (34 bp):
ACTAGAGCTGGGCACAATATTGTCGGTTTATCCA
Found at i:34543241 original size:35 final size:35
Alignment explanation
Indices: 34543162--34543357 Score: 130
Period size: 35 Copynumber: 5.4 Consensus size: 35
34543152 AGTTTATTTG
* * *
34543162 ACTAGTGCTGGGCAC--ATATTCGTCGGTTTATCCG
1 ACTAGAGCTGGGCACAAATATT-GTTGGTTTATCCA
* *
34543196 ACTTGCGCTGGGCACAAATATTGTTGGTTTATCCA
1 ACTAGAGCTGGGCACAAATATTGTTGGTTTATCCA
* *
34543231 ACTAGAGCTGGGCTCACCATTTATTTTGTTGGTTTATCCA
1 ACTAGAGCTGGG--CA-CA--AATATTGTTGGTTTATCCA
* ** *
34543271 AATAGCA-CTGGGCACAAATAACGTTGCTTTATCCA
1 ACTAG-AGCTGGGCACAAATATTGTTGGTTTATCCA
* * *
34543306 ACTAGAGCTGCGCTCACTAATTATTCGTCGGTTTATCCA
1 ACTAGAGCTG-G-GCAC-AAATATT-GTTGGTTTATCCA
34543345 ACTAGCA-CTGGGC
1 ACTAG-AGCTGGGC
34543358 GTAACTTCCG
Statistics
Matches: 126, Mismatches: 22, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
34 14 0.11
35 42 0.33
36 6 0.05
37 8 0.06
38 9 0.07
39 19 0.15
40 27 0.21
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (35 bp):
ACTAGAGCTGGGCACAAATATTGTTGGTTTATCCA
Found at i:34543286 original size:75 final size:74
Alignment explanation
Indices: 34543178--34543357 Score: 234
Period size: 75 Copynumber: 2.4 Consensus size: 74
34543168 GCTGGGCACA
* * * * ** * *
34543178 TATTCGTCGGTTTATCCGACTTGCGCTGGGCACAAATATTGTTGGTTTATCCAACTAGAGCTGGG
1 TATTCGTCGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGCG
*
34543243 CTCACCATT
66 CTCACCAAT
* *
34543252 TATTTTGTTGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGC
1 TA-TTCGTCGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGC
*
34543317 GCTCACTAAT
65 GCTCACCAAT
*
34543327 TATTCGTCGGTTTATCCAACTAGCACTGGGC
1 TATTCGTCGGTTTATCCAAATAGCACTGGGC
34543358 GTAACTTCCG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 28 0.31
75 62 0.69
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (74 bp):
TATTCGTCGGTTTATCCAAATAGCACTGGGCACAAATAACGTTGCTTTATCCAACTAGAGCTGCG
CTCACCAAT
Found at i:34547818 original size:27 final size:27
Alignment explanation
Indices: 34547787--34547871 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
34547777 GAGGCTATCC
* *
34547787 TTCATAGTTTGCCATAAAGGCTTTTCT
1 TTCATAGTTCGCCAAAAAGGCTTTTCT
* *
34547814 TTCAT-GATTCGCTAAAAAGCCTTTTCT
1 TTCATAG-TTCGCCAAAAAGGCTTTTCT
* *
34547841 TTCATAATTCGCCACAAAGGCTTTTCCT
1 TTCATAGTTCGCCAAAAAGGCTTTT-CT
34547869 TTC
1 TTC
34547872 TTGACATGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.87
28 5 0.11
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (27 bp):
TTCATAGTTCGCCAAAAAGGCTTTTCT
Found at i:34553346 original size:27 final size:27
Alignment explanation
Indices: 34553323--34553551 Score: 243
Period size: 27 Copynumber: 8.5 Consensus size: 27
34553313 AGGGGTATAA
* *
34553323 CAGTCATTTTACCTTATGATGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
34553350 C-GATCATTTTACCCTATGAAGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
34553377 C-GATCATTTTAGCTTATG-GTGGTATTT
1 CAG-TCATTTTACCCTATGAG-GGTATTT
34553404 CAGTCATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
*
34553431 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
34553458 CGGTCATTTTACCCTATGAGAGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
34553485 CGGTCATTTTACCCTTTGAGGGTTTTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
34553512 C-GTTTATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
34553539 CGGTTATTTTACC
1 CAGTCATTTTACC
34553552 TATTTTAGGG
Statistics
Matches: 176, Mismatches: 18, Indels: 16
0.84 0.09 0.08
Matches are distributed among these distances:
26 2 0.01
27 171 0.97
28 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:34553438 original size:81 final size:81
Alignment explanation
Indices: 34553323--34553551 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 81
34553313 AGGGGTATAA
* * ** *
34553323 CAGTCATTTTACCTTATGATGGTATTTCGATCATTTTACCCTATGAAGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
* * *
34553388 GCTTATG-GTGGTATTT
66 CCCTATGAG-AGTATTT
34553404 CAGTCATTTTACCCTAT-AGGGGTATTTC-AGTCATTTTACCCTATGGGGGTATTTCGGTCATTT
1 CAGTCATTTTACCCTATGA-GGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCGGTCATTT
34553467 TACCCTATGAGAGTATTT
64 TACCCTATGAGAGTATTT
* * * * * *
34553485 CGGTCATTTTACCCTTTGAGGGTTTTTCGTTTATTTTACCCTATGGGGGTATTTCGGTTATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
34553550 CC
66 CC
34553552 TATTTTAGGG
Statistics
Matches: 129, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.02
81 125 0.97
82 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
CCCTATGAGAGTATTT
Found at i:34563863 original size:26 final size:26
Alignment explanation
Indices: 34563825--34563874 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
34563815 ATATACAATT
*
34563825 GGTATGTACGTATAGCAATTTACATC
1 GGTATGTACGTATAACAATTTACATC
*
34563851 GGTATGTATGTATAACAATTTACA
1 GGTATGTACGTATAACAATTTACA
34563875 GTACAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (26 bp):
GGTATGTACGTATAACAATTTACATC
Found at i:34571471 original size:43 final size:43
Alignment explanation
Indices: 34571422--34571538 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
34571412 GAATCATATA
* *
34571422 CGATGCCAATGTCCTAGACATGGTCTTACACATTTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTAACTT
* **
34571465 CGATGCCAACGTCCCAGACATGGTCTTACATGTTTTCTAACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTAACTT
* * *
34571508 CAATGCCGATGTCCCAAACATGGTCTTACAC
1 CGATGCCAATGTCCCAGACATGGTCTTACAC
34571539 GAAATCACAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTAACTT
Found at i:34571807 original size:31 final size:31
Alignment explanation
Indices: 34571661--34571806 Score: 170
Period size: 31 Copynumber: 4.7 Consensus size: 31
34571651 ATCTAATGCT
* ** *
34571661 CAAATC-AATTTGGCAACATATATCAATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
**
34571691 TGAATCAAATTCGGCAATGTATATCTC-TATA
1 CAAATCAAATTCGGCAATGTATATC-CATATA
*
34571722 CAAATCAAATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
34571753 CAAATCAAATTCAGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
34571784 TAAATCAAATTTGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
34571807 AAACATATAC
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
30 5 0.05
31 93 0.95
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:34573606 original size:17 final size:17
Alignment explanation
Indices: 34573584--34573617 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34573574 ATTCTCAACT
34573584 ATTAAAAATTATTTTGG
1 ATTAAAAATTATTTTGG
34573601 ATTAAAAATTATTTTGG
1 ATTAAAAATTATTTTGG
34573618 TTGGAGAAGA
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:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTAAAAATTATTTTGG
Found at i:34574825 original size:30 final size:31
Alignment explanation
Indices: 34574770--34574870 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 31
34574760 TACAGTGTAA
* * *
34574770 AGGGTATGAAAATGAAAACGTGAATGATTAT
1 AGGGTATGAATATGAAAATGTGAATGATTAC
* **
34574801 AGGGTATG-ATATGTAAATGTGAATGAAGAC
1 AGGGTATGAATATGAAAATGTGAATGATTAC
* *
34574831 AGGGTATGAATATGAAAATATGAATTATTAC
1 AGGGTATGAATATGAAAATGTGAATGATTAC
*
34574862 AGAGTATGA
1 AGGGTATGA
34574871 TAATGCAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 24 0.42
31 33 0.58
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.28
Consensus pattern (31 bp):
AGGGTATGAATATGAAAATGTGAATGATTAC
Found at i:34577329 original size:15 final size:15
Alignment explanation
Indices: 34577309--34577341 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34577299 GATTTCTTGT
34577309 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
34577324 TTTTCATTTATTTCC
1 TTTTCATTTATTTAC
34577339 TTT
1 TTT
34577342 CTTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:34580868 original size:20 final size:20
Alignment explanation
Indices: 34580827--34580879 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
34580817 ATAATTTTGT
** *
34580827 TTAGTATCGATATTTTCTAA
1 TTAGTATCGATACATTCAAA
*
34580847 TTTGTATCGATACATTCAAA
1 TTAGTATCGATACATTCAAA
*
34580867 TTAATATCGATAC
1 TTAGTATCGATAC
34580880 TTTGAATTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (20 bp):
TTAGTATCGATACATTCAAA
Found at i:34582527 original size:14 final size:13
Alignment explanation
Indices: 34582503--34582549 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
34582493 ATTCCATCAG
34582503 TTTAAGTTAATTAA
1 TTTAA-TTAATTAA
*
34582517 TTTAATATAATTAG
1 TTTAAT-TAATTAA
*
34582531 TTTAATTAA-TAC
1 TTTAATTAATTAA
34582543 TTTAATT
1 TTTAATT
34582550 TTGATTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 9 0.30
13 4 0.13
14 17 0.57
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:34589603 original size:23 final size:23
Alignment explanation
Indices: 34589577--34589623 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34589567 TAATGGACAC
* *
34589577 TATGGAACCT-CATCCATTGTCAT
1 TATGCAACCTCCA-CCATTCTCAT
34589600 TATGCAACCTCCACCATTCTCAT
1 TATGCAACCTCCACCATTCTCAT
34589623 T
1 T
34589624 GATAACTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (23 bp):
TATGCAACCTCCACCATTCTCAT
Found at i:34591329 original size:7 final size:7
Alignment explanation
Indices: 34591317--34591341 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34591307 CATAGGTTGT
34591317 TTTTAAA
1 TTTTAAA
34591324 TTTTAAA
1 TTTTAAA
34591331 TTTTAAA
1 TTTTAAA
34591338 TTTT
1 TTTT
34591342 CTATGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:34599583 original size:17 final size:18
Alignment explanation
Indices: 34599563--34599601 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
34599553 TTTAGAAAGG
*
34599563 TATTTGATTTAATA-ATT
1 TATTTGATTTAAGAGATT
*
34599580 TATTTTATTTAAGAGATT
1 TATTTGATTTAAGAGATT
34599598 TATT
1 TATT
34599602 AAGTTCAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
TATTTGATTTAAGAGATT
Found at i:34600761 original size:20 final size:20
Alignment explanation
Indices: 34600735--34600883 Score: 81
Period size: 20 Copynumber: 7.5 Consensus size: 20
34600725 TTACACTTAC
34600735 GTGCCCCTGTTTGTACTTCA
1 GTGCCCCTGTTTGTACTTCA
* * * *
34600755 GTACCCCTGATTGCATTTACA
1 GTGCCCCTGTTTGTACTT-CA
* * **
34600776 -TGCCCCTATTTGTTCTTTG
1 GTGCCCCTGTTTGTACTTCA
** * *
34600795 GTGCCCCTAATGGCACTTACA
1 GTGCCCCTGTTTGTACTT-CA
**
34600816 -TGCCCCTGTTTGTACTTTG
1 GTGCCCCTGTTTGTACTTCA
*
34600835 GTACCCCT-TATTGTACTT-A
1 GTGCCCCTGT-TTGTACTTCA
*
34600854 CGTGCCCCTGTTTGTACTTCG
1 -GTGCCCCTGTTTGTACTTCA
*
34600875 GTACCCCTG
1 GTGCCCCTG
34600884 AATGCACATC
Statistics
Matches: 92, Mismatches: 29, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
19 1 0.01
20 88 0.96
21 3 0.03
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.38
Consensus pattern (20 bp):
GTGCCCCTGTTTGTACTTCA
Found at i:34600802 original size:40 final size:40
Alignment explanation
Indices: 34600728--34600916 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
34600718 TAAATTATTA
* *
34600728 CACTTACGTGCCCCTGTTTGTACTTCAGTACCCCTGATTG
1 CACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTG
* * * * * * *
34600768 CATTTACATGCCCCTATTTGTTCTTTGGTGCCCCTAATGG
1 CACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTG
* *
34600808 CACTTACATGCCCCTGTTTGTACTTTGGTACCCCTTATTG
1 CACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTG
* * *
34600848 TACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATG
1 CACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTG
* * * *
34600888 CACAT-CTGTGCCCCTATTTGCACTTCGGT
1 CACTTAC-ATGCCCCTGTTTGTACTTCGGT
34600917 GCCTCTAATC
Statistics
Matches: 124, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 123 0.99
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (40 bp):
CACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTG
Found at i:34600918 original size:20 final size:20
Alignment explanation
Indices: 34600776--34600970 Score: 78
Period size: 20 Copynumber: 9.7 Consensus size: 20
34600766 TGCATTTACA
** *
34600776 TGCCCCTATTTGTTCTTTGG
1 TGCCCCTATTTGCACTTCGG
* * *
34600796 TGCCCCTAATGGCACTTAC-A
1 TGCCCCTATTTGCACTT-CGG
* * *
34600816 TGCCCCTGTTTGTACTTTGG
1 TGCCCCTATTTGCACTTCGG
* *
34600836 TACCCCT-TATTGTACTTAC-G
1 TGCCCCTAT-TTGCACTT-CGG
* *
34600856 TGCCCCTGTTTGTACTTCGG
1 TGCCCCTATTTGCACTTCGG
* * * *
34600876 TACCCCTGA-ATGCACATCTG
1 TGCCCCT-ATTTGCACTTCGG
34600896 TGCCCCTATTTGCACTTCGG
1 TGCCCCTATTTGCACTTCGG
* * **
34600916 TGCCTCTAATCCCACATT-GG
1 TGCCCCTATTTGCAC-TTCGG
* *
34600936 TGCTCCT-TATTGCACTTTGG
1 TGCCCCTAT-TTGCACTTCGG
34600956 TGCCCCTATTATGCA
1 TGCCCCTATT-TGCA
34600971 TCTATGATGC
Statistics
Matches: 127, Mismatches: 35, Indels: 25
0.68 0.19 0.13
Matches are distributed among these distances:
19 5 0.04
20 114 0.90
21 8 0.06
ACGTcount: A:0.14, C:0.31, G:0.18, T:0.37
Consensus pattern (20 bp):
TGCCCCTATTTGCACTTCGG
Found at i:34600932 original size:40 final size:39
Alignment explanation
Indices: 34600855--34600962 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 39
34600845 TTGTACTTAC
* * *
34600855 GTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACATCT-
1 GTGCCCCT-TTTGCACTTCGGTGCCCCTGAATCCACAT-TG
*
34600895 GTGCCCCTATTTGCACTTCGGTGCCTCT-AATCCCACATTG
1 GTGCCCCT-TTTGCACTTCGGTGCCCCTGAAT-CCACATTG
* *
34600935 GTGCTCCTTATTGCACTTTGGTGCCCCT
1 GTGCCCCTT-TTGCACTTCGGTGCCCCT
34600963 ATTATGCATC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 5 0.09
40 52 0.91
ACGTcount: A:0.13, C:0.33, G:0.19, T:0.34
Consensus pattern (39 bp):
GTGCCCCTTTTGCACTTCGGTGCCCCTGAATCCACATTG
Found at i:34608946 original size:10 final size:10
Alignment explanation
Indices: 34608915--34608959 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
34608905 TTTTATTTTT
34608915 AAAATCATTAA
1 AAAATCATT-A
*
34608926 AAAACCA-TA
1 AAAATCATTA
34608935 AAAATCATTA
1 AAAATCATTA
*
34608945 AAAATTATTA
1 AAAATCATTA
34608955 AAAAT
1 AAAAT
34608960 AATATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 7 0.23
10 17 0.57
11 6 0.20
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATCATTA
Found at i:34608956 original size:20 final size:19
Alignment explanation
Indices: 34608915--34608977 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
34608905 TTTTATTTTT
**
34608915 AAAATCATTAAAAAACCATA
1 AAAATCATT-AAAAATTATA
34608935 AAAATCATTAAAAATTATTA
1 AAAATCATTAAAAATTA-TA
*
34608955 AAAAT-AATATAAAATTATA
1 AAAATCATTA-AAAATTATA
34608974 AAAA
1 AAAA
34608978 AATACTTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 15 0.39
20 23 0.61
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATCATTAAAAATTATA
Found at i:34609076 original size:16 final size:17
Alignment explanation
Indices: 34609014--34609077 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 17
34609004 TAAGGTGAAA
34609014 AAATTAT-AAAATATAG
1 AAATTATAAAAATATAG
* *
34609030 AAATTTATAAAAACAATTAT
1 AAA-TTATAAAAA-TA-TAG
* *
34609050 AAATGAAAAAAATATA-
1 AAATTATAAAAATATAG
34609066 AAATTATAAAAA
1 AAATTATAAAAA
34609078 AGTAAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 13 0.35
17 6 0.16
18 5 0.14
19 8 0.22
20 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (17 bp):
AAATTATAAAAATATAG
Found at i:34609076 original size:17 final size:17
Alignment explanation
Indices: 34609013--34609078 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
34609003 TTAAGGTGAA
* *
34609013 AAAATTATAAAATATAG
1 AAAATTATAAAAAATAT
*
34609030 AAATTTATAAAAACA-ATT
1 AAAATTATAAAAA-ATA-T
*
34609048 ATAAATGA-AAAAAATAT
1 A-AAATTATAAAAAATAT
34609065 AAAATTATAAAAAA
1 AAAATTATAAAAAA
34609079 GTAAAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.13
17 21 0.55
18 8 0.21
19 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:34609085 original size:17 final size:16
Alignment explanation
Indices: 34609012--34609085 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 16
34609002 ATTAAGGTGA
*
34609012 AAAAATTATAAAATAT
1 AAAAATTATAAAAAAT
*
34609028 AGAAATTTATAAAAACAATT
1 A-AAAATTAT-AAAA-AA-T
* *
34609048 ATAAATGA-AAAAAAT
1 AAAAATTATAAAAAAT
34609063 ATAAAATTATAAAAAAGT
1 A-AAAATTATAAAAAA-T
34609081 AAAAA
1 AAAAA
34609086 AAATATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
15 2 0.05
16 8 0.18
17 21 0.48
18 6 0.14
19 5 0.11
20 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:34609086 original size:44 final size:42
Alignment explanation
Indices: 34608993--34609094 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 42
34608983 TTCTAAGAAT
* * * **
34608993 TATAAAAAAAT-TAAGGTGAAAAAATTATAAAATATAGAAATT
1 TATAAAAAAATATAA-ATGAAAAAAATATAAAATATAAAAAAG
34609035 TATAAAAACAATTATAAATGAAAAAAATATAAAATTATAAAAAAG
1 TATAAAAA-AA-TATAAATGAAAAAAATATAAAA-TATAAAAAAG
34609080 TA-AAAAAAATATAAA
1 TATAAAAAAATATAAA
34609095 ATAATTATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 14 0.27
43 4 0.08
44 21 0.41
45 12 0.24
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (42 bp):
TATAAAAAAATATAAATGAAAAAAATATAAAATATAAAAAAG
Found at i:34609224 original size:20 final size:20
Alignment explanation
Indices: 34609201--34609254 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
34609191 TAAATATTAT
* *
34609201 AAAAATATAGAAAAGTGAAA
1 AAAAATATAAAAAAATGAAA
* * *
34609221 AAAATTATAAAAAAATTACA
1 AAAAATATAAAAAAATGAAA
34609241 AAAAATATTAAAAA
1 AAAAATA-TAAAAA
34609255 TTATATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAAATATAAAAAAATGAAA
Found at i:34609232 original size:10 final size:10
Alignment explanation
Indices: 34609219--34609278 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
34609209 AGAAAAGTGA
34609219 AAAAAATTAT
1 AAAAAATTAT
*
34609229 AAAAAAATTAC
1 -AAAAAATTAT
34609240 AAAAAA-TAT
1 AAAAAATTAT
*
34609249 TAAAAATTAT
1 AAAAAATTAT
* *
34609259 ATAAAAGTA-
1 AAAAAATTAT
34609268 AAAAAA-TAT
1 AAAAAATTAT
34609277 AA
1 AA
34609279 TTTTTTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
8 2 0.05
9 14 0.35
10 15 0.38
11 9 0.22
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:34609254 original size:30 final size:28
Alignment explanation
Indices: 34609182--34609276 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
34609172 CTAAAATACC
*
34609182 AAAAAAA-ATTAAATATTATAAAAATA-T
1 AAAAAAATATTAAAAATTATAAAAA-AGT
* * * *
34609209 AGAAAAGTGA-AAAAAATTATAAAAAAATT
1 AAAAAAAT-ATTAAAAATTAT-AAAAAAGT
*
34609238 ACAAAAAATATTAAAAATTATATAAAAGT
1 A-AAAAAATATTAAAAATTATAAAAAAGT
34609267 AAAAAAATAT
1 AAAAAAATAT
34609277 AATTTTTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
27 5 0.09
28 18 0.34
29 16 0.30
30 14 0.26
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAAAAATATTAAAAATTATAAAAAAGT
Found at i:34609263 original size:11 final size:11
Alignment explanation
Indices: 34609220--34609264 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
34609210 GAAAAGTGAA
*
34609220 AAAAATTATAA
1 AAAAATTATAT
*
34609231 AAAAATTACA-
1 AAAAATTATAT
34609241 AAAAA-TAT-T
1 AAAAATTATAT
34609250 AAAAATTATAT
1 AAAAATTATAT
34609261 AAAA
1 AAAA
34609265 GTAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 7 0.24
10 8 0.28
11 14 0.48
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:34609272 original size:19 final size:18
Alignment explanation
Indices: 34609227--34609274 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
34609217 GAAAAAAATT
34609227 ATAAAAAAATTACAAAAA
1 ATAAAAAAATTACAAAAA
* *
34609245 ATATTAAAAATTATATAAAA
1 ATA-AAAAAATTACA-AAAA
*
34609265 GTAAAAAAAT
1 ATAAAAAAAT
34609275 ATAATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAAAAAATTACAAAAA
Found at i:34609624 original size:17 final size:18
Alignment explanation
Indices: 34609604--34609640 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
34609594 TTAAAAATTC
*
34609604 ATAATTTTTA-CATTTTT
1 ATAATTTATATCATTTTT
34609621 ATAATTTATATCATTTTT
1 ATAATTTATATCATTTTT
34609639 AT
1 AT
34609641 TTTTAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATAATTTATATCATTTTT
Found at i:34609768 original size:19 final size:19
Alignment explanation
Indices: 34609649--34609830 Score: 81
Period size: 19 Copynumber: 9.4 Consensus size: 19
34609639 ATTTTTAATG
* *
34609649 ATTTTAATA-TGTTTTAGCA
1 ATTTTAATATTTTTTTA-TA
34609668 ATTTTAA-ATTATTTTTATA
1 ATTTTAATATT-TTTTTATA
* *
34609687 GTTTATAAT-TTTTTTCAT-
1 ATTT-TAATATTTTTTTATA
*
34609705 -TTATAATAATTTTTTTATAA
1 ATTTTAAT-ATTTTTTTAT-A
**
34609725 ATTTCT-ATATATTTTTT-GC
1 ATTT-TAATAT-TTTTTTATA
*
34609744 ACTTTAATATTTTTTTATA
1 ATTTTAATATTTTTTTATA
* *
34609763 ATTTTAAAATTTCTTTATA
1 ATTTTAATATTTTTTTATA
* *** *
34609782 ATTTTTATATAAACTTTATG
1 ATTTTAATAT-TTTTTTATA
*
34609802 ATTTTGTATAATTTTTTTATA
1 ATTTT-AAT-ATTTTTTTATA
34609823 ATTTTAAT
1 ATTTTAAT
34609831 TATAAAATAC
Statistics
Matches: 122, Mismatches: 25, Indels: 31
0.69 0.14 0.17
Matches are distributed among these distances:
16 4 0.03
17 2 0.02
18 16 0.13
19 49 0.40
20 25 0.20
21 23 0.19
22 3 0.02
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTAATATTTTTTTATA
Found at i:34609786 original size:30 final size:29
Alignment explanation
Indices: 34609752--34609829 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
34609742 GCACTTTAAT
*
34609752 ATTTTTTTATAATTTTAAAATTTCTTTATA
1 ATTTTTTTATAATTTTAAAATTT-TGTATA
* * **
34609782 ATTTTTATATAAACTTTATGATTTTGTATA
1 ATTTTTTTAT-AATTTTAAAATTTTGTATA
34609812 ATTTTTTTATAATTTTAA
1 ATTTTTTTATAATTTTAA
34609830 TTATAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 6 0.15
30 23 0.59
31 10 0.26
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTTTTATAATTTTAAAATTTTGTATA
Found at i:34615010 original size:32 final size:33
Alignment explanation
Indices: 34614972--34615034 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
34614962 TAGATTGCTC
* *
34614972 CCCCTTA-ATAAAATTCATTTTCAATTTAAGCT
1 CCCCTTATATAAAAATAATTTTCAATTTAAGCT
34615004 CCCCTTATATAAAAATAATTTTCAATTTAAG
1 CCCCTTATATAAAAATAATTTTCAATTTAAG
34615035 GCATAAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (33 bp):
CCCCTTATATAAAAATAATTTTCAATTTAAGCT
Found at i:34624055 original size:9 final size:9
Alignment explanation
Indices: 34624041--34624068 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
34624031 ACTAGGCTTG
34624041 AAGCTCCTT
1 AAGCTCCTT
34624050 AAGCTCCTT
1 AAGCTCCTT
34624059 AAGCTCCTT
1 AAGCTCCTT
34624068 A
1 A
34624069 GGTTCCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (9 bp):
AAGCTCCTT
Found at i:34626417 original size:16 final size:17
Alignment explanation
Indices: 34626391--34626423 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
34626381 TTTATTATAC
34626391 TTATAAAAATGATTTTT
1 TTATAAAAATGATTTTT
34626408 TTAT-AAAATGATTTTT
1 TTATAAAAATGATTTTT
34626424 ATAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTATAAAAATGATTTTT
Found at i:34626424 original size:14 final size:15
Alignment explanation
Indices: 34626391--34626428 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
34626381 TTTATTATAC
34626391 TTATAAAAATGATTTTT
1 TTAT-AAAATGA-TTTT
34626408 TTATAAAATGA-TTT
1 TTATAAAATGATTTT
34626422 TTATAAA
1 TTATAAA
34626429 GAAAACTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
16 7 0.33
17 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TTATAAAATGATTTT
Found at i:34632875 original size:22 final size:21
Alignment explanation
Indices: 34632845--34632890 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
34632835 AGTATGTTGC
*
34632845 GTTGTGACGAGGAACCCTTGAA
1 GTTGGGACGAGGAACCCTT-AA
34632867 GTTGGGACGAGGAACCCTTAA
1 GTTGGGACGAGGAACCCTTAA
34632888 GTT
1 GTT
34632891 ACGACATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (21 bp):
GTTGGGACGAGGAACCCTTAA
Found at i:34633933 original size:16 final size:16
Alignment explanation
Indices: 34633913--34633965 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
34633903 TTGGTTCGCT
*
34633913 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
* *
34633929 GTAATGGAATATATGC
1 GTAATGGAATAGAGGC
34633945 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
34633961 GTAAT
1 GTAAT
34633966 AGGTAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:34634029 original size:44 final size:46
Alignment explanation
Indices: 34633947--34634039 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
34633937 ATATATGCGT
* *
34633947 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGG
34633993 AATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGG
34634037 AAT
1 AAT
34634040 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 3 0.07
46 18 0.40
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:34634036 original size:39 final size:44
Alignment explanation
Indices: 34633947--34634044 Score: 125
Period size: 46 Copynumber: 2.3 Consensus size: 44
34633937 ATATATGCGT
* *
34633947 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTT--ATGG
34633993 AATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTATGG
34634032 AATGGAATAGAGG
1 AATGGAATAGAGG
34634045 TGTAACAACA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
39 14 0.28
40 1 0.02
43 1 0.02
44 13 0.26
45 3 0.06
46 18 0.36
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:34634215 original size:16 final size:16
Alignment explanation
Indices: 34634196--34634316 Score: 60
Period size: 16 Copynumber: 7.4 Consensus size: 16
34634186 AATTATTATT
34634196 AAATATAATTTAATAAA
1 AAATATAATTTAAT-AA
34634213 AATATATAATTT-ATAA
1 AA-ATATAATTTAATAA
*
34634229 AATATATGAATTTACT-A
1 AA-ATAT-AATTTAATAA
34634246 AAATCATAATATATAATACTA
1 AAAT-ATAAT-T-TAATA--A
*
34634267 TAAAAATAATTTAA-AA
1 -AAATATAATTTAATAA
* *
34634283 TAAT-T-A-TT-AT-T
1 AAATATAATTTAATAA
34634294 AAATATAATTTAATAA
1 AAATATAATTTAATAA
34634310 AAATATA
1 AAATATA
34634317 TAATTTGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 33
0.66 0.07 0.27
Matches are distributed among these distances:
11 4 0.05
12 3 0.04
13 2 0.03
14 3 0.04
15 4 0.05
16 22 0.28
17 15 0.19
18 14 0.17
19 3 0.04
20 1 0.01
21 6 0.08
22 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:34634249 original size:18 final size:16
Alignment explanation
Indices: 34634198--34634330 Score: 71
Period size: 18 Copynumber: 8.0 Consensus size: 16
34634188 TTATTATTAA
34634198 ATATAATTTAATAAAAAT
1 ATATAATTT-AT-AAAAT
34634216 ATATAATTTATAAAAT
1 ATATAATTTATAAAAT
34634232 ATATGAATTTACTAAAAT
1 ATAT-AATTTA-TAAAAT
* * *
34634250 -CATAATATATAATACT
1 ATATAATTTATAA-AAT
*
34634266 ATAAAAATAATT-TAAAAT
1 AT-ATAAT--TTATAAAAT
* *
34634284 A-ATTA-TTAT-TAA-
1 ATATAATTTATAAAAT
34634296 ATATAATTTAATAAAAAT
1 ATATAATTT-AT-AAAAT
34634314 ATATAATTTGATAAAAT
1 ATATAATTT-ATAAAAT
34634331 TCTTAGTATT
Statistics
Matches: 88, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
12 1 0.01
13 7 0.08
14 3 0.03
15 5 0.06
16 18 0.20
17 17 0.19
18 33 0.38
19 3 0.03
20 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATAATTTATAAAAT
Found at i:34634393 original size:15 final size:14
Alignment explanation
Indices: 34634370--34634428 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 14
34634360 TACTAAAATC
*
34634370 ATAATATATAATACT
1 ATAAAATATAATA-T
34634385 ATAAAATATAAT-T
1 ATAAAATATAATAT
34634398 -TAAAATA-AATATT
1 ATAAAATATAATA-T
* *
34634411 ATTAAATATAATTT
1 ATAAAATATAATAT
34634425 ATAA
1 ATAA
34634429 TCTACTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
11 3 0.08
12 7 0.19
13 2 0.06
14 10 0.28
15 14 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAAATATAATAT
Found at i:34650639 original size:62 final size:62
Alignment explanation
Indices: 34650557--34650676 Score: 224
Period size: 62 Copynumber: 1.9 Consensus size: 62
34650547 GCTAAATAAG
34650557 TCAATTTCCATAAAGCCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAATTAT
1 TCAATTTCCATAAAGCCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAATTAT
34650619 TCAATTTCCATAAA-CTCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAA
1 TCAATTTCCATAAAGC-CACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAA
34650677 AAATAATTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 1 0.02
62 56 0.98
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (62 bp):
TCAATTTCCATAAAGCCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAATTAT
Found at i:34651410 original size:10 final size:10
Alignment explanation
Indices: 34651395--34651433 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
34651385 AGTTTAATTT
34651395 TTAATTAATC
1 TTAATTAATC
34651405 TTAATTAAT-
1 TTAATTAATC
*
34651414 TTAATTAAAC
1 TTAATTAATC
34651424 TTTAATTAAT
1 -TTAATTAAT
34651434 TAACCATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 9 0.36
11 8 0.32
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAATTAATC
Found at i:34651418 original size:19 final size:20
Alignment explanation
Indices: 34651394--34651434 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
34651384 TAGTTTAATT
*
34651394 TTTAATTAATC-TTAATTAA
1 TTTAATTAAACTTTAATTAA
34651413 TTTAATTAAACTTTAATTAA
1 TTTAATTAAACTTTAATTAA
34651433 TT
1 TT
34651435 AACCATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATTAAACTTTAATTAA
Found at i:34657462 original size:40 final size:39
Alignment explanation
Indices: 34657378--34657562 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
34657368 TCGAATGATG
* * * *
34657378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34657418 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34657458 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34657497 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
34657538 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
34657563 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34657514 original size:79 final size:81
Alignment explanation
Indices: 34657378--34657560 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
34657368 TCGAATGATG
* *
34657378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
34657442 TGTGCGAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
34657457 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34657519 TTTGTGCAAGTTACTATA
64 TTTGTGCAAGATACTATA
* * *
34657537 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34657561 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:34657584 original size:79 final size:79
Alignment explanation
Indices: 34657431--34657585 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
34657421 GGACTAAGAT
* * **
34657431 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
34657496 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
34657510 CCGAAGGCATTTGTGCAAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
34657573 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
34657586 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:34668611 original size:41 final size:41
Alignment explanation
Indices: 34668548--34668904 Score: 423
Period size: 41 Copynumber: 8.7 Consensus size: 41
34668538 TGAACTTTCA
* * * *
34668548 GGGC-TTTAGTGGCGTTTATAAAAAAGTGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
34668588 AGAGC-TTTAGTGACGTTTTTAAAAAAGCGCCGCTAATGCTC
1 -GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * ** *
34668629 AGAGC-TTTAGCGACGTTTTAAAAAAAGCGCCGCTAATGCTT
1 -GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
34668670 GGGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGTTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
34668711 GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
34668752 GGGCTTTTAGCGGTGTTTTTGAGAAAGTGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
34668793 GGGCTTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * * *
34668834 GAGCTTTTAGCGACGTTTGTAAAAAAGCGCCGCTAATGCTT
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
34668875 GAGCTTTTAGCGGCGTTTTTGAAAAAGCGC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGC
34668905 TGCGAAAACA
Statistics
Matches: 283, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 3 0.01
41 280 0.99
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:34668770 original size:123 final size:123
Alignment explanation
Indices: 34668570--34668904 Score: 467
Period size: 123 Copynumber: 2.7 Consensus size: 123
34668560 CGTTTATAAA
* *
34668570 AAAGTGCCGCTAATGCTCAGAGC-TTTAGTGACGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGC
1 AAAGCGCCGCTAATGCTC-GAGCTTTTAGCGACGTTTTTAAAAAAGCGCCGCTAATGCTC-GAGC
* ** * **
34668634 -TTTAGCGACGTTTTAAAAAAAGCGCCGCTAATGCTTGGGCTTTTAGCGGTGTTTTTGAG
64 TTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCTTTTAGCGGCATTTTTGAG
* * * * * *
34668693 AAAGCGCCGTTAATGCTCGGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGCTT
1 AAAGCGCCGCTAATGCTCGAGCTTTTAGCGACGTTTTTAAAAAAGCGCCGCTAATGCTCGAGCTT
* * *
34668758 TTAGCGGTGTTTTTGAGAAAGTGCCGCTAATGCTCGGGCTTTTAGCGGCATTTTTGAG
66 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCTTTTAGCGGCATTTTTGAG
* *
34668816 AAAGCGCCGCTAATGCTCGAGCTTTTAGCGACGTTTGTAAAAAAGCGCCGCTAATGCTTGAGCTT
1 AAAGCGCCGCTAATGCTCGAGCTTTTAGCGACGTTTTTAAAAAAGCGCCGCTAATGCTCGAGCTT
34668881 TTAGCGGCGTTTTTGAAAAAGCGC
66 TTAGCGGCGTTTTTGAAAAAGCGC
34668905 TGCGAAAACA
Statistics
Matches: 182, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
122 6 0.03
123 176 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (123 bp):
AAAGCGCCGCTAATGCTCGAGCTTTTAGCGACGTTTTTAAAAAAGCGCCGCTAATGCTCGAGCTT
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCTTTTAGCGGCATTTTTGAG
Found at i:34669264 original size:14 final size:15
Alignment explanation
Indices: 34669236--34669268 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
34669226 AACGTTTATA
34669236 GATTATGGAATTAGG
1 GATTATGGAATTAGG
34669251 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
34669265 GATT
1 GATT
34669269 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:34672859 original size:20 final size:20
Alignment explanation
Indices: 34672836--34672910 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
34672826 TTTTTTAGAT
34672836 AATTATGT-TTATTTTCTTTA
1 AATTATGTATTATTTT-TTTA
* *
34672856 AATTAAGTGTTATTTTTTTA
1 AATTATGTATTATTTTTTTA
* *
34672876 ATTTCATGTATTATTTATTTA
1 AATT-ATGTATTATTTTTTTA
*
34672897 ATTTAT-TATT-TTTT
1 AATTATGTATTATTTT
34672911 ACATATACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.06
19 4 0.09
20 16 0.34
21 24 0.51
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (20 bp):
AATTATGTATTATTTTTTTA
Found at i:34672868 original size:21 final size:19
Alignment explanation
Indices: 34672836--34672876 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
34672826 TTTTTTAGAT
*
34672836 AATTATGTTTATTTTCTTTA
1 AATTAAGTTTATTTT-TTTA
34672856 AATTAAGTGTTATTTTTTTA
1 AATTAAGT-TTATTTTTTTA
34672876 A
1 A
34672877 TTTCATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (19 bp):
AATTAAGTTTATTTTTTTA
Found at i:34672889 original size:21 final size:19
Alignment explanation
Indices: 34672824--34672902 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 19
34672814 TTTTGAGTTA
34672824 ATTTTTTTAGATAATTATGTTT
1 ATTTTTTTA-AT--TTATGTTT
* *
34672846 ATTTTCTTTAAATTAAGTGTT
1 ATTTT-TTTAATTTATGT-TT
34672867 ATTTTTTTAATTTCATGTATT
1 ATTTTTTTAATTT-ATGT-TT
*
34672888 ATTTATTTAATTTAT
1 ATTTTTTTAATTTAT
34672903 TATTTTTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 14 0.29
21 24 0.50
22 6 0.12
23 4 0.08
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTTTTTTAATTTATGTTT
Found at i:34674244 original size:42 final size:42
Alignment explanation
Indices: 34674185--34674362 Score: 171
Period size: 43 Copynumber: 4.2 Consensus size: 42
34674175 AATAATTTTT
*
34674185 TAAAGGTTATGTT-TTTAGCGGTGTTTTTGCTAGAAGCGCCGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTTTGCTA-AAGCGCCGC
* * *
34674227 TAAAGGTT-TGTTCTTTAGCGGCGTTTTTAACAAAAGCGTCGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTTT-GCTAAAGCGCCGC
* **
34674269 TAAAGGTTATATTCTTTAGCGGCGTTTGCGGCTAAAGCGCCGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTT-TTGCTAAAGCGCCGC
* * * * * * * *
34674312 TAAATGTCACGATCTTTAGCGGCATTTGTGGCTATAGCGCTGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTT-TTGCTAAAGCGCCGC
34674355 TAAAGGTT
1 TAAAGGTT
34674363 CACATAAACG
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.04
42 38 0.34
43 69 0.62
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
TAAAGGTTATGTTCTTTAGCGGCGTTTTTGCTAAAGCGCCGC
Found at i:34676177 original size:17 final size:17
Alignment explanation
Indices: 34676152--34676185 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34676142 AGAGAAAATG
34676152 TCACAGCCTACACACAA
1 TCACAGCCTACACACAA
*
34676169 TCACGGCCTACACACAA
1 TCACAGCCTACACACAA
34676186 ATGTCTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.41, G:0.09, T:0.12
Consensus pattern (17 bp):
TCACAGCCTACACACAA
Found at i:34677917 original size:27 final size:26
Alignment explanation
Indices: 34677870--34677920 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
34677860 AGTATACTCG
* *
34677870 TTTTTTCACTTTGGTATCTAAACTTT
1 TTTTTTCAATTTGGTACCTAAACTTT
*
34677896 TTTTTTCTAATTTTGTACCTAAACT
1 TTTTTTC-AATTTGGTACCTAAACT
34677921 ATCCTTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTTTTCAATTTGGTACCTAAACTTT
Found at i:34685412 original size:9 final size:9
Alignment explanation
Indices: 34685395--34685431 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34685385 TGAGTTTTCG
34685395 AATTCGAAT
1 AATTCGAAT
*
34685404 AACTCGAAT
1 AATTCGAAT
*
34685413 AATTCAAAT
1 AATTCGAAT
34685422 AATTCGAAT
1 AATTCGAAT
34685431 A
1 A
34685432 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34688565 original size:50 final size:52
Alignment explanation
Indices: 34688496--34688626 Score: 178
Period size: 50 Copynumber: 2.6 Consensus size: 52
34688486 ATTTGTTTTG
* * * *
34688496 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAG-TTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
*
34688547 CA-TAAATT-ATTACATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
1 CATTAAATTAAGT-CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
*
34688598 CATTAAATTAAGTCATGCATTAAGTAACT
1 CATTAAATTAAGTCATGCATTATGTAACT
34688627 AATTTGCTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 29 0.42
51 15 0.22
52 21 0.30
53 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (52 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
Found at i:34696929 original size:30 final size:31
Alignment explanation
Indices: 34696882--34696947 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 31
34696872 GAACTCGAAT
34696882 AAATTCTAACTTTTTTAAGTATTTGTGATAC
1 AAATTCTAACTTTTTTAAGTATTTGTGATAC
34696913 AAATTCTAAC-TTTTTAAGTATTTGTGATAC
1 AAATTCTAACTTTTTTAAGTATTTGTGATAC
34696943 AAATT
1 AAATT
34696948 TGCAAGACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 25 0.71
31 10 0.29
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (31 bp):
AAATTCTAACTTTTTTAAGTATTTGTGATAC
Found at i:34697261 original size:14 final size:14
Alignment explanation
Indices: 34697242--34697269 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34697232 CTCTGTGCAC
34697242 TCTTCTTATTTTAA
1 TCTTCTTATTTTAA
34697256 TCTTCTTATTTTAA
1 TCTTCTTATTTTAA
34697270 ATTCAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
TCTTCTTATTTTAA
Found at i:34702385 original size:20 final size:20
Alignment explanation
Indices: 34702360--34702401 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
34702350 AATAAACCAC
34702360 TTTATTACTAGAGCTACTAG
1 TTTATTACTAGAGCTACTAG
34702380 TTTATTACTAGAGCTACTAG
1 TTTATTACTAGAGCTACTAG
34702400 TT
1 TT
34702402 GCAAAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTATTACTAGAGCTACTAG
Found at i:34704812 original size:20 final size:20
Alignment explanation
Indices: 34704783--34704821 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34704773 AGAGCATGAA
*
34704783 ATATCAATACCTTAGGAAAT
1 ATATCAATACCTTAAGAAAT
*
34704803 ATATCGATACCTTAAGAAA
1 ATATCAATACCTTAAGAAA
34704822 AGTACCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
ATATCAATACCTTAAGAAAT
Done.