Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 23 of 770
Found at i:6398911 original size:2 final size:2
Alignment explanation
Indices: 6398904--6398938 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6398894 TAGGCAGAGT
6398904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6398939 GTTTATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6399410 original size:30 final size:30
Alignment explanation
Indices: 6399374--6399433 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6399364 TCTCATGAAG
6399374 AGCTGATGCAATGGGTGCAAAACACGACAT
1 AGCTGATGCAATGGGTGCAAAACACGACAT
6399404 AGCTGATGCAATGGGTGCAAAACACGACAT
1 AGCTGATGCAATGGGTGCAAAACACGACAT
6399434 TCTCTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (30 bp):
AGCTGATGCAATGGGTGCAAAACACGACAT
Found at i:6402252 original size:3 final size:3
Alignment explanation
Indices: 6402244--6402368 Score: 94
Period size: 3 Copynumber: 41.7 Consensus size: 3
6402234 ATATCTTTAG
* *
6402244 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA TAA TCA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
* * * * * *
6402289 TAA TAA TAC TTA TAA TAA TATT TAA TAA TCA T-A CAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
6402334 TTA TAA TATT TAA TAA TAA T-A CAA TAA TAA AAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
6402369 TGTTTAACAA
Statistics
Matches: 94, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
2 3 0.03
3 84 0.89
4 7 0.07
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6402260 original size:33 final size:35
Alignment explanation
Indices: 6402221--6402363 Score: 151
Period size: 36 Copynumber: 4.2 Consensus size: 35
6402211 TATGTTGAAT
* * *
6402221 AATAATAATACTTAT-ATCTTTAGTAATAAT-AAT
1 AATAATAATACTTATAATATTTAATAATAATCAAC
*
6402254 AATAATAATA---ATAATAATTAATAATAATCATAC
1 AATAATAATACTTATAATATTTAATAATAATCA-AC
6402287 AATAATAATACTTATAATAATATT--TAATAATCATAC
1 AATAATAATACTTATAAT-AT-TTAATAATAATCA-AC
6402323 AATAATAATACTTATAATATTTAATAATAAT--AC
1 AATAATAATACTTATAATATTTAATAATAATCAAC
6402356 AATAATAA
1 AATAATAA
6402364 AAATATGTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
30 2 0.02
31 12 0.13
32 1 0.01
33 31 0.33
34 2 0.02
35 2 0.02
36 42 0.44
37 1 0.01
38 2 0.02
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (35 bp):
AATAATAATACTTATAATATTTAATAATAATCAAC
Found at i:6403812 original size:5 final size:5
Alignment explanation
Indices: 6403796--6403915 Score: 52
Period size: 5 Copynumber: 24.0 Consensus size: 5
6403786 ATTATTTACC
* * * * *
6403796 TATAT CTATAT TATAT TTTAT TACAT AATAT T-TAT TATAC TATTT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
6403846 TTTA- T-TAT TATAT TATTT TACACT T-TAAT ATATGT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATA-T TAT-AT -TATAT TATAT TATAT
* *
6403891 TATTAT TACAT CATAT T-TAT TATAT
1 TA-TAT TATAT TATAT TATAT TATAT
6403916 ATTTTTGTAT
Statistics
Matches: 83, Mismatches: 22, Indels: 19
0.67 0.18 0.15
Matches are distributed among these distances:
3 2 0.02
4 10 0.12
5 55 0.66
6 15 0.18
7 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:6403831 original size:24 final size:25
Alignment explanation
Indices: 6403774--6403947 Score: 82
Period size: 24 Copynumber: 6.8 Consensus size: 25
6403764 AAAAAGGATT
*
6403774 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
6403798 TATCTATATTATATT-TTA-TTACATAA
1 TAT-T-TATTATATTATTATTTACAT-A
* *
6403824 TATTTATTATACTA-T-TTTATAT-
1 TATTTATTATATTATTATTTACATA
*
6403846 TTTATTATTATATTATTTTACACTTTA-ATA
1 TAT-TTATTATATTA--TT--A-TTTACATA
6403876 TATGTTATTTTATATTATTA-TTACATCA
1 TAT-TTA--TTATATTATTATTTACAT-A
**
6403904 TATTTATTATA-TATT-TTTGTATA
1 TATTTATTATATTATTATTTACATA
6403927 T-TATTATCTATATTATTATTT
1 TAT-TTAT-TATATTATTATTT
6403948 TGATAGATTT
Statistics
Matches: 117, Mismatches: 9, Indels: 46
0.68 0.05 0.27
Matches are distributed among these distances:
22 3 0.03
23 16 0.14
24 29 0.25
25 16 0.14
26 16 0.14
27 11 0.09
28 5 0.04
29 2 0.02
30 11 0.09
32 8 0.07
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:6403857 original size:23 final size:23
Alignment explanation
Indices: 6403827--6403898 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
6403817 TACATAATAT
*
6403827 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
6403850 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
6403873 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
6403896 TTA
1 TTA
6403899 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:6403926 original size:10 final size:11
Alignment explanation
Indices: 6403771--6403945 Score: 61
Period size: 10 Copynumber: 15.8 Consensus size: 11
6403761 AAAAAAAAGG
6403771 ATTTATT-TAT
1 ATTTATTATAT
6403781 A--TATTAT-T
1 ATTTATTATAT
*
6403789 ATTTACCTATAT
1 ATTTA-TTATAT
* *
6403801 CTATATTATAT
1 ATTTATTATAT
6403812 -TTTATTACATAAT
1 ATTTATT--AT-AT
6403825 ATTTATTATACT
1 ATTTATTATA-T
6403837 A-TT-TTATAT
1 ATTTATTATAT
6403846 -TTTATTAT-T
1 ATTTATTATAT
* *
6403855 ATATTATTTTAC
1 AT-TTATTATAT
6403867 ACTTTA--ATAT
1 A-TTTATTATAT
*
6403877 ATGTTATTTTAT
1 AT-TTATTATAT
6403889 ATTATTATTACATCAT
1 A-T-TTATT--AT-AT
6403905 ATTTATTATAT
1 ATTTATTATAT
*
6403916 ATTT-TTGTAT
1 ATTTATTATAT
*
6403926 A-TTATTATCT
1 ATTTATTATAT
6403936 ATATTATTAT
1 AT-TTATTAT
6403946 TTTGATAGAT
Statistics
Matches: 124, Mismatches: 15, Indels: 50
0.66 0.08 0.26
Matches are distributed among these distances:
8 6 0.05
9 8 0.06
10 35 0.28
11 23 0.19
12 27 0.22
13 9 0.07
14 11 0.09
15 2 0.02
16 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (11 bp):
ATTTATTATAT
Found at i:6404416 original size:33 final size:33
Alignment explanation
Indices: 6404379--6404445 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
6404369 TGTATGTTCG
6404379 TATATTTTGCTTATTCATCTTCAATATATGCTA
1 TATATTTTGCTTATTCATCTTCAATATATGCTA
6404412 TATATTTTGCTTATTCATCTTCAATATATGCTA
1 TATATTTTGCTTATTCATCTTCAATATATGCTA
6404445 T
1 T
6404446 GTATATCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (33 bp):
TATATTTTGCTTATTCATCTTCAATATATGCTA
Found at i:6416128 original size:88 final size:88
Alignment explanation
Indices: 6416018--6416211 Score: 298
Period size: 88 Copynumber: 2.2 Consensus size: 88
6416008 GAAGAAACAG
* * *
6416018 ATTTGGCATCTCTGTATTCGACAAGGAGCAGATTGAAGACATAACTGGTTTGGCTTTCACGTGTT
1 ATTTGACATCTCTGTATTCGACAAGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
6416083 TACGTTGAAGCAAATCTAAGATA
66 TACGTTGAAGCAAATCTAAGATA
* * *
6416106 ATTTGACGTCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 ATTTGACATCTCTGTATTCGACAAGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
* * *
6416171 TATGTTGAAGCAAATCTAAGGTG
66 TACGTTGAAGCAAATCTAAGATA
*
6416194 ATTTGGCATCTCTGTATT
1 ATTTGACATCTCTGTATT
6416212 GTCAGAGAGC
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (88 bp):
ATTTGACATCTCTGTATTCGACAAGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGATA
Found at i:6416256 original size:44 final size:44
Alignment explanation
Indices: 6416193--6416328 Score: 204
Period size: 44 Copynumber: 3.1 Consensus size: 44
6416183 AATCTAAGGT
6416193 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGACA
**
6416237 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATGACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGACA
* *
6416281 GATTTGGCGTCTCTGTATTGGT-AGAGAGCAGATCGAAA-ATAACA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATC-AAAGATGACA
6416325 GATT
1 GATT
6416329 GTTGTTCCTG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
44 80 0.95
45 4 0.05
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATGACA
Found at i:6416724 original size:35 final size:35
Alignment explanation
Indices: 6416683--6416761 Score: 140
Period size: 35 Copynumber: 2.3 Consensus size: 35
6416673 CCAAAAGTCC
6416683 TACACCCGGTTTTAGTCTAAACCCAACAGACCCAT
1 TACACCCGGTTTTAGTCTAAACCCAACAGACCCAT
* *
6416718 TACACCCGGTTTTAGTCTAAACCCAGCAGATCCAT
1 TACACCCGGTTTTAGTCTAAACCCAACAGACCCAT
6416753 TACACCCGG
1 TACACCCGG
6416762 GGCCCAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (35 bp):
TACACCCGGTTTTAGTCTAAACCCAACAGACCCAT
Found at i:6417509 original size:23 final size:23
Alignment explanation
Indices: 6417479--6417550 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
6417469 TACATAATAT
*
6417479 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
6417502 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
6417525 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
6417548 TTA
1 TTA
6417551 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:6429686 original size:45 final size:45
Alignment explanation
Indices: 6429620--6429792 Score: 301
Period size: 45 Copynumber: 3.8 Consensus size: 45
6429610 TATCGTACGG
* * *
6429620 TACTATTCGGGCCTTTGAGCCTAACAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
6429665 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
6429710 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
6429755 TACTATTCGGGCCTTCAAGCCTAGCAAGCTATAATGCC
1 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC
6429793 AATGAAATGA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 123 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:6435638 original size:18 final size:18
Alignment explanation
Indices: 6435617--6435892 Score: 101
Period size: 18 Copynumber: 15.3 Consensus size: 18
6435607 GAACAATTAT
6435617 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
6435635 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
6435653 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
6435671 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
6435697 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
6435715 TTATTCAGTAA-AATCA-
1 TTATTCAGTAACAGTCAG
* *
6435731 TATATTCAGTAACAATTAAG
1 T-TATTCAGTAAC-AGTCAG
6435751 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
*
6435768 TTCATTCAGT----GACA-
1 TT-ATTCAGTAACAGTCAG
* *
6435782 --ATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
6435798 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
6435816 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
6435834 ATATCCAGTAATAGTCAAG
1 TTATTCAGTAACAGTC-AG
* * *
6435853 -TATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
6435870 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
6435888 TTATT
1 TTATT
6435893 TTATACTTTT
Statistics
Matches: 193, Mismatches: 41, Indels: 48
0.68 0.15 0.17
Matches are distributed among these distances:
11 7 0.04
14 4 0.02
15 2 0.01
16 1 0.01
17 17 0.09
18 129 0.67
19 16 0.08
20 1 0.01
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:6435657 original size:36 final size:36
Alignment explanation
Indices: 6435604--6435892 Score: 145
Period size: 36 Copynumber: 8.0 Consensus size: 36
6435594 TTATTAACAA
* * *
6435604 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAGTCAGTTAT
* * **
6435639 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAGTCAGTTAT
* * * *
6435675 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAATAGTCAGTTAT
* * *
6435719 TCAGTAA-AATC-ATATATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAAT-TATTCAGTAA-TAGTCAGTTAT
* *
6435755 TCAGTAACAGTC-ATTCATTCAG---T-GACA---AT
1 TCAGTAACAATCAATT-ATTCAGTAATAGTCAGTTAT
** *
6435784 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAGTCAGTTAT
* *
6435820 TCAGTAACAGTCTAA-TATCCAGTAATAGTCAAG-TAT
1 TCAGTAACAATC-AATTATTCAGTAATAGTC-AGTTAT
* * * *
6435856 CCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAGTCAGTTAT
6435892 T
1 T
6435893 TTATACTTTT
Statistics
Matches: 188, Mismatches: 41, Indels: 49
0.68 0.15 0.18
Matches are distributed among these distances:
29 17 0.09
30 3 0.02
32 2 0.01
33 2 0.01
35 13 0.07
36 107 0.57
37 17 0.09
42 4 0.02
43 5 0.03
44 18 0.10
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAATAGTCAGTTAT
Found at i:6435757 original size:19 final size:18
Alignment explanation
Indices: 6435697--6435763 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
6435687 AATTGATCGG
* * *
6435697 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATTAA
*
6435715 TTATTCAGTAA-AA-TCA
1 TTATTCAGTAACAATTAA
6435731 TATATTCAGTAACAATTAA
1 T-TATTCAGTAACAATTAA
6435750 GTTATTCAGTAACA
1 -TTATTCAGTAACA
6435764 GTCATTCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 12 0.30
19 14 0.35
20 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAATTAA
Found at i:6435760 original size:54 final size:54
Alignment explanation
Indices: 6435696--6435885 Score: 157
Period size: 54 Copynumber: 3.6 Consensus size: 54
6435686 CAATTGATCG
* *
6435696 GTTATCCAGTAACAGTCAATTATTCAGTAA-AATCATATATTCAGTAACAATTAA
1 GTTATCCAGTAACAGTCAATTATTCAGTAACAATC-TATATTCAGTAATAATCAA
* * *
6435750 GTTATTCAGTAACAGTC-ATTCATTCAGT---GA-C-A-ATTCAGTAATGATCAA
1 GTTATCCAGTAACAGTCAATT-ATTCAGTAACAATCTATATTCAGTAATAATCAA
* * * * * * *
6435798 -TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATCCAGTAATAGTCAA
1 GTTATCCAGTAACAGTCAATTATTCAGTAACAATCT-ATATTCAGTAATAATCAA
* *
6435852 G-TATCCGGTAACAGTCAATTATTCAGTAATAATC
1 GTTATCCAGTAACAGTCAATTATTCAGTAACAATC
6435886 AGTTATTTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
47 21 0.20
48 15 0.14
49 1 0.01
51 2 0.02
52 1 0.01
53 4 0.04
54 62 0.58
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (54 bp):
GTTATCCAGTAACAGTCAATTATTCAGTAACAATCTATATTCAGTAATAATCAA
Found at i:6435783 original size:37 final size:36
Alignment explanation
Indices: 6435702--6435784 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
6435692 ATCGGTTATC
* *
6435702 CAGTAACAGTCAA-TTATTCAGTAAAATCATATATT
1 CAGTAACAATTAAGTTATTCAGTAAAATCATATATT
*
6435737 CAGTAACAATTAAGTTATTCAGTAACAGTCAT-TCATT
1 CAGTAACAATTAAGTTATTCAGTAA-AATCATAT-ATT
*
6435774 CAGTGACAATT
1 CAGTAACAATT
6435785 CAGTAATGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 11 0.27
36 12 0.29
37 18 0.44
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (36 bp):
CAGTAACAATTAAGTTATTCAGTAAAATCATATATT
Found at i:6436469 original size:2 final size:2
Alignment explanation
Indices: 6436462--6436495 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6436452 TCAAACATTC
6436462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6436496 TCATAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6436570 original size:2 final size:2
Alignment explanation
Indices: 6436563--6436590 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6436553 CACCTACTAC
6436563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6436591 TAAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6445503 original size:26 final size:27
Alignment explanation
Indices: 6445467--6445529 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
6445457 ACACGTTAGG
*
6445467 AAAGAATAGCC-TTGTGGCTAACTCTA
1 AAAGAATAGCCTTTGTGGCGAACTCTA
*
6445493 AAAGAATAGCCTTTGTGGCGAACTCTG
1 AAAGAATAGCCTTTGTGGCGAACTCTA
*
6445520 AGAGAATAGC
1 AAAGAATAGC
6445530 TTTAGTGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGCGAACTCTA
Found at i:6446001 original size:49 final size:49
Alignment explanation
Indices: 6445929--6446032 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 49
6445919 TGTCATCTAT
*
6445929 GTATGTGTTACTTCTTGAATAATGATGAGGTGTTGGCTCAGAGTTTGAA
1 GTATGTGTTACTTCTTGAATAATGATGAGGTGTCGGCTCAGAGTTTGAA
6445978 GTATGTGTTACTTCTTGAATAATGATGAGGTGTCGGCTCAGAGTTTGAA
1 GTATGTGTTACTTCTTGAATAATGATGAGGTGTCGGCTCAGAGTTTGAA
*
6446027 GGATGT
1 GTATGT
6446033 AAGTGATGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.38
Consensus pattern (49 bp):
GTATGTGTTACTTCTTGAATAATGATGAGGTGTCGGCTCAGAGTTTGAA
Found at i:6451850 original size:87 final size:87
Alignment explanation
Indices: 6451695--6451858 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
6451685 TGCATAAGAA
* * * * *
6451695 TGAGTTCCTTGCTTTTAATGAGTTCATAACCTAGAGTTTGGGTGATCCTAGTGAGACAAACTTAA
1 TGAGTTCCTTACTCTTAATGAATTCATAACCTAGAGTTTAGGTGATCCAAGTGAGACAAACTTAA
*
6451760 TGAATTGACTGACGTGTGAGGT
66 TGAATTCACTGACGTGTGAGGT
* ** * * * * *
6451782 TGAGTTTCTTACTCTTAATGAATTCATATTCTAGAGTTTAGGTGGTTCAATTGAGACAGACTTGA
1 TGAGTTCCTTACTCTTAATGAATTCATAACCTAGAGTTTAGGTGATCCAAGTGAGACAAACTTAA
6451847 TGAATTCACTGA
66 TGAATTCACTGA
6451859 ATTATAAAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (87 bp):
TGAGTTCCTTACTCTTAATGAATTCATAACCTAGAGTTTAGGTGATCCAAGTGAGACAAACTTAA
TGAATTCACTGACGTGTGAGGT
Found at i:6458837 original size:16 final size:16
Alignment explanation
Indices: 6458818--6458850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6458808 GTGAATGTGT
6458818 TAAATTTAGAAT-TTTG
1 TAAATTTA-AATATTTG
6458834 TAAATTTAAATATTTG
1 TAAATTTAAATATTTG
6458850 T
1 T
6458851 TGGATAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TAAATTTAAATATTTG
Found at i:6461772 original size:24 final size:25
Alignment explanation
Indices: 6461745--6461793 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6461735 TTTTTTTTAT
*
6461745 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
6461769 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
6461794 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:6461786 original size:25 final size:23
Alignment explanation
Indices: 6461757--6461821 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
6461747 AATAAAAAAC
*
6461757 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
6461782 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
6461803 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
6461822 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:6461816 original size:19 final size:20
Alignment explanation
Indices: 6461783--6461821 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
6461773 TCAAATACAT
6461783 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
6461803 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
6461822 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:6465130 original size:19 final size:18
Alignment explanation
Indices: 6465104--6465139 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
6465094 CAAAATTAAT
6465104 TTTAAAAAATTCTAAATA
1 TTTAAAAAATTCTAAATA
6465122 TTTATAAAAATTCTAAAT
1 TTTA-AAAAATTCTAAAT
6465140 TCTATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAAAATTCTAAATA
Found at i:6465151 original size:26 final size:26
Alignment explanation
Indices: 6465110--6465164 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
6465100 TAATTTTAAA
* *
6465110 AAATTCTAAATATTTATAAAAATTCT
1 AAATTCTAAATATTTAAAAAAATTAT
* *
6465136 AAATTCTATATTTTTAAAAAAATTAT
1 AAATTCTAAATATTTAAAAAAATTAT
6465162 AAA
1 AAA
6465165 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATTCTAAATATTTAAAAAAATTAT
Found at i:6465158 original size:19 final size:19
Alignment explanation
Indices: 6465136--6465184 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
6465126 TAAAAATTCT
* *
6465136 AAATTCTATATTTTTAAAA
1 AAATTCTAAAATTTTAAAA
*
6465155 AAATTATAAAATTTTAAAA
1 AAATTCTAAAATTTTAAAA
*
6465174 AATTTCTAAAA
1 AAATTCTAAAA
6465185 AATACATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTCTAAAATTTTAAAA
Found at i:6465429 original size:21 final size:21
Alignment explanation
Indices: 6465401--6465447 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6465391 GAATAATTTC
6465401 ACTC-AATTCGA-TTCAACTTG
1 ACTCGAATTCGATTTC-ACTTG
**
6465421 ACTCGAATTTTATTTCACTTG
1 ACTCGAATTCGATTTCACTTG
6465442 ACTCGA
1 ACTCGA
6465448 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (21 bp):
ACTCGAATTCGATTTCACTTG
Found at i:6465634 original size:17 final size:16
Alignment explanation
Indices: 6465605--6465638 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6465595 ATAAAGAAAG
6465605 AAAAGAAACAAAAATA
1 AAAAGAAACAAAAATA
*
6465621 AAAAGGAAATAAAAATA
1 AAAA-GAAACAAAAATA
6465638 A
1 A
6465639 TTTAATCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAGAAACAAAAATA
Found at i:6465649 original size:17 final size:17
Alignment explanation
Indices: 6465629--6465666 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6465619 TAAAAAGGAA
6465629 ATAA-AAATAATTTAAT
1 ATAAGAAATAATTTAAT
*
6465645 CATAAGAAATATTTTAAT
1 -ATAAGAAATAATTTAAT
6465663 ATAA
1 ATAA
6465667 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAAGAAATAATTTAAT
Found at i:6468625 original size:19 final size:20
Alignment explanation
Indices: 6468598--6468639 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
6468588 TCCGAGTCAA
*
6468598 TTTACTTCAATTAT-TCATG
1 TTTACTTCAATAATCTCATG
* *
6468617 TTTATTTCACTAATCTCATG
1 TTTACTTCAATAATCTCATG
6468637 TTT
1 TTT
6468640 TTTTTTCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTACTTCAATAATCTCATG
Found at i:6468989 original size:581 final size:581
Alignment explanation
Indices: 6467878--6469046 Score: 1449
Period size: 581 Copynumber: 2.0 Consensus size: 581
6467868 CTATCGTTGG
* * * * *** *
6467878 TGGCGAAGAGTAAGGAATTCGACTGAAAAGGAAATAACGCTCGCCACAGTAGTGGCGTAAGAAGG
1 TGGCGAAGAGTAAGAAAATAGACTGAAAAGGAAATAACGCTCGCCACAGCAGCAACGTAAGAAAG
* ** *
6467943 GACGCAATCGCATGACAGGTTTATCATCAGCTTCGGCAGAAGAATCGCCACCTATGTCTATGTAG
66 GACGCAATCGCATGACAAGTTTATCATCAGCTT--GCAG-AGAATCGCCACCTATGTCTACATAA
* *
6468008 TATCCGAGTCAATTCACTTCACTTATTCCTGTTCATTTCACTAATCTCATGTTTTTTTCACAAGC
128 TATCCGAGTCAATTCACTTCAATTATTCATGTTCATTTCACTAATCTCATGTTTTTTTCACAAGC
*** * * * * *
6468073 ACTGTACTACACACCATCATCACATGTGGGCGGTTCTCTTATTCTAGAAGATACATATTTCGGGG
193 ACCACACTACACACCACCATCACATGTGGGCAGTTCTCTTATTATAGAAGATACATATTTCAGGC
* * * * * *
6468138 CACCTATGTCCCCCCAATCTTCACCCCCATGCCGATGTCGATGTCGACCCAGATGTTTGGCCAGA
258 CACATATGTCCCCACAATCTTCACCCCCATGCCAATATCGATGTCGACCCAGATGTTTGACCAAA
* * *
6468203 TGCTGAGGCATGCACCACCACCGATGAGGACATCGCTACAGACGCCCATGCAGCAGTCGATGCCA
323 TGCTGAGGCATACACCACCACCGATGACGACATCGCTACAGACGCCCATGCAGCAGTCGATCCCA
* * *
6468268 GTATTAATGTCGAAGATAATGCCAATGTACTTGGGATTTGGGGCACCTTATTGTTACACATTGAT
388 ATATTAATGTCGAAGACAATGCCAATGTACTTGGGATTTGGGGCACCTTATTGTTACACATTAAT
* *
6468333 AGTGACACAAACGCTGACCGTATCACTATTCTTTTAGGGTGGTTTATCAGCATAACCATTGGCCA
453 AGTGACAAAAACGCTGACCGCATCACTATTCTTTTAGGGTGGTTTATCAGCATAACCATTGGCCA
* *
6468398 CGGAAGCGGAGGATACACGATGGGAGCCTAAGACGACAGAGCAGTCGACCATAG-AGGACGATAA
518 CGGAAGCGGAGGATACACGATAGGAGCCTAAGACGACAGAGCAGTCAACCAT-GTAGGACGATAA
* * *
6468462 TGGCGAAGAGTAAGAAAATAGACTGAAAAGGCAATTACGAC-CGCTACAGCAGCAACGTAAGAAA
1 TGGCGAAGAGTAAGAAAATAGACTGAAAAGGAAATAACG-CTCGCCACAGCAGCAACGTAAGAAA
* * * * *
6468526 TGATGCGATCGCATGACAAGTTTATCATCAGCTT-C-G-GTATCGCCGCCTATGTCTACATAATA
65 GGACGCAATCGCATGACAAGTTTATCATCAGCTTGCAGAGAATCGCCACCTATGTCTACATAATA
* *
6468588 TCCGAGTCAATTTACTTCAATTATTCATGTTTATTTCACTAATCTCATGTTTTTTTTTCACAAGC
130 TCCGAGTCAATTCACTTCAATTATTCATGTTCATTTCACTAATCTCATG--TTTTTTTCACAAGC
* * * * * *
6468653 ACCACACTACACACCACCATCGCATGTGGGCAGTTCTTTTGTTATAGTAGGTACATATTTTAGGC
193 ACCACACTACACACCACCATCACATGTGGGCAGTTCTCTTATTATAGAAGATACATATTTCAGGC
* * * * *
6468718 CA-ATGATGTCCCCTACAATCTTTA-CGCCATGTCAATATCGATGTTGACCTAGATGTTTGACCA
258 CACAT-ATGTCCCC-ACAATCTTCACCCCCATGCCAATATCGATGTCGACCCAGATGTTTGACCA
* * * *
6468781 AATGCTGGGGGCATACACCGCCACCGATGACGACA-CTGCTACAGATGCCTATGCAGCAGTCGAT
321 AATGCT-GAGGCATACACCACCACCGATGACGACATC-GCTACAGACGCCCATGCAGCAGTCGAT
* * *
6468845 CCCAATATTAATGTCGAGGGCAATGCCAATGTACTTGGGATTTGGGGCATCTTATTGTTACACAT
384 CCCAATATTAATGTCGAAGACAATGCCAATGTACTTGGGATTTGGGGCACCTTATTGTTACACAT
* * * * * *
6468910 TAATAGTGACAAAAATGCTGTCTGCATCACTATT-TTATTGGGGTGGCTTT-TCGGCGTAACCAT
449 TAATAGTGACAAAAACGCTGACCGCATCACTATTCTT-TTAGGGTGG-TTTATCAGCATAACCAT
* * * * * *
6468973 TGGCCGCGGGAGCGGAGGATACACGATAGGAGCTTAGGACGGCAGAGCAGTCAACCATGTAGGAT
512 TGGCCACGGAAGCGGAGGATACACGATAGGAGCCTAAGACGACAGAGCAGTCAACCATGTAGGAC
6469038 GATAA
577 GATAA
6469043 TGGC
1 TGGC
6469047 ATTGGCGTAG
Statistics
Matches: 497, Mismatches: 78, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
578 66 0.13
579 1 0.00
580 117 0.24
581 228 0.46
582 3 0.01
584 81 0.16
585 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (581 bp):
TGGCGAAGAGTAAGAAAATAGACTGAAAAGGAAATAACGCTCGCCACAGCAGCAACGTAAGAAAG
GACGCAATCGCATGACAAGTTTATCATCAGCTTGCAGAGAATCGCCACCTATGTCTACATAATAT
CCGAGTCAATTCACTTCAATTATTCATGTTCATTTCACTAATCTCATGTTTTTTTCACAAGCACC
ACACTACACACCACCATCACATGTGGGCAGTTCTCTTATTATAGAAGATACATATTTCAGGCCAC
ATATGTCCCCACAATCTTCACCCCCATGCCAATATCGATGTCGACCCAGATGTTTGACCAAATGC
TGAGGCATACACCACCACCGATGACGACATCGCTACAGACGCCCATGCAGCAGTCGATCCCAATA
TTAATGTCGAAGACAATGCCAATGTACTTGGGATTTGGGGCACCTTATTGTTACACATTAATAGT
GACAAAAACGCTGACCGCATCACTATTCTTTTAGGGTGGTTTATCAGCATAACCATTGGCCACGG
AAGCGGAGGATACACGATAGGAGCCTAAGACGACAGAGCAGTCAACCATGTAGGACGATAA
Found at i:6474818 original size:12 final size:12
Alignment explanation
Indices: 6474801--6474916 Score: 85
Period size: 12 Copynumber: 9.7 Consensus size: 12
6474791 AATAAGATTA
*
6474801 TAATAATAATAT
1 TAATAATAATAG
*
6474813 TAATAAAAATGAG
1 TAATAATAAT-AG
6474826 -AATAA-AA-AGG
1 TAATAATAATA-G
*
6474836 ATAGTAATAATAG
1 -TAATAATAATAG
6474849 TAATAATAATAG
1 TAATAATAATAG
* *
6474861 TAATAGTAAAAG
1 TAATAATAATAG
*
6474873 GAATAATAATAG
1 TAATAATAATAG
* *
6474885 CAATAATAAGAG
1 TAATAATAATAG
***
6474897 CGTTAATAATAG
1 TAATAATAATAG
6474909 TAATAATA
1 TAATAATA
6474917 TAAATAATAA
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
9 1 0.01
10 1 0.01
11 2 0.02
12 72 0.89
13 4 0.05
14 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.28
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:6474884 original size:36 final size:34
Alignment explanation
Indices: 6474802--6474893 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 34
6474792 ATAAGATTAT
* *
6474802 AATAATAATATTAATAAAAATGAGAATAAAAAGG
1 AATAATAATAGTAATAATAATGAGAATAAAAAGG
6474836 ATAGTAATAATAGTAATAATAAT-AGTAATAGTAAAAGG
1 A-A-TAATAATAGTAATAATAATGAG-AATA--AAAAGG
*
6474874 AATAATAATAGCAATAATAA
1 AATAATAATAGTAATAATAA
6474894 GAGCGTTAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
34 1 0.02
35 3 0.06
36 38 0.76
37 1 0.02
38 7 0.14
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.26
Consensus pattern (34 bp):
AATAATAATAGTAATAATAATGAGAATAAAAAGG
Found at i:6474907 original size:3 final size:3
Alignment explanation
Indices: 6474699--6474893 Score: 51
Period size: 3 Copynumber: 66.3 Consensus size: 3
6474689 AAAAGAAAAT
* * * * * * *
6474699 ATA ATA ATA ATA ACA AAA ATA GTA ATA ATA AT- GTA TTAA ATG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * * * * *
6474744 A-A AGA ATA ATA GTA ACA ATA ATT TTA A-A AAA ATG ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * **
6474790 A-A ATA A-G ATT ATA ATA ATA ATA TTA ATA AAA ATG AGA ATA AAA AGG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6474836 ATA GTA ATA ATA GTA ATA ATA ATA GTA ATA GTA A-A AGGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
**
6474881 ATA GCA ATA ATA A
1 ATA ATA ATA ATA A
6474894 GAGCGTTAAT
Statistics
Matches: 129, Mismatches: 55, Indels: 16
0.64 0.28 0.08
Matches are distributed among these distances:
2 10 0.08
3 115 0.89
4 4 0.03
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6475216 original size:3 final size:3
Alignment explanation
Indices: 6475210--6475258 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
6475200 AAAATGGTGG
* * *
6475210 TAA TAA TAA TAA CAA TAA TAA CAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6475258 T
1 T
6475259 TGAATAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6476958 original size:45 final size:44
Alignment explanation
Indices: 6476894--6477018 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 44
6476884 TAATTCATAG
* *
6476894 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-CTAAT
* * *
6476939 CTTCAGTCTGCTCCACTGCAACTTCGGGGAGATAAGGCTTGTAAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAA-GATTCTAAT
** *
6476984 -TTCAACCTGTTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
6477019 GTTTGTTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 30 0.43
45 36 0.51
46 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTAAT
Found at i:6477013 original size:44 final size:45
Alignment explanation
Indices: 6476901--6477024 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 45
6476891 TAGCTTCAGT
* * * **
6476901 CTGCTCCACTGCAACTTCAGGGAAATAA-GATTCCTTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATT-GTAATCTTCAAC
* *
6476946 CTGCTCCACTGCAACTTCGGGGAGATAAGGCTTGTAAT-TTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAATCTTCAAC
* *
6476990 CTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGT
6477025 TTTGACCTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 36 0.53
45 29 0.43
46 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTAATCTTCAAC
Found at i:6477092 original size:44 final size:43
Alignment explanation
Indices: 6477038--6477498 Score: 303
Period size: 44 Copynumber: 10.5 Consensus size: 43
6477028 GACCTTTAGC
*
6477038 CTGTTACCCTACTACTTAGGAGGTTAAAGCTCACTGTCTTCGAT
1 CTGTTACCCTACTGCTTAGG-GGTTAAAGCTCACTGTCTTCGAT
* * * * * *
6477082 CTGTTCCCCTACTGCTTAGGGTGATAAGATCTGTAAT-T-TTC-AGC
1 CTGTTACCCTACTGCTTAGGG-GTTAA-AGCT-CACTGTCTTCGA-T
* *
6477126 CTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTCTCTTCGAT
1 CTGTTACCCTACTGCTT-AGGGGTTAAAGCTCACTGTCTTCGAT
* * * * * * *
6477170 CTGCTACTCTACTGCTTAGGGTGATAAGATCTGTAAT-T-TTC-AG
1 CTGTTACCCTACTGCTTAGGG-GTTAA-AGCT-CACTGTCTTCGAT
* *
6477213 CTTGTTACCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGAT
1 C-TGTTACCCTACTGCTTA-GGGGTTAAAGCTCACTGTCTTCGAT
* * * * * * * *
6477258 CTGCTCCCCTACTGCTTAGGGTGATAAA-ATCTA-TAATTTTCAAC
1 CTGTTACCCTACTGCTTAGGG-GTTAAAGCTC-ACT-GTCTTCGAT
*
6477302 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAAGCTCACTGTCTTCGAT
* *
6477346 CTGTTCCCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAAGCTCACTGTCTTCGAT
* * * * * * * * *
6477390 CTGTTCCCCTATTGCTTAGGGTGATAAGATCTGTAAT-TTTTAGCT
1 CTGTTACCCTACTGCTTAGGG-GTTAA-AGCT-CACTGTCTTCGAT
* *
6477435 -TGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAAGCTCACTGTCTTCGAT
*
6477478 CTGTTCCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
6477499 TGATAAGATC
Statistics
Matches: 318, Mismatches: 71, Indels: 57
0.71 0.16 0.13
Matches are distributed among these distances:
42 6 0.02
43 33 0.10
44 240 0.75
45 33 0.10
46 6 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTAAAGCTCACTGTCTTCGAT
Found at i:6477151 original size:88 final size:88
Alignment explanation
Indices: 6477035--6477366 Score: 522
Period size: 88 Copynumber: 3.8 Consensus size: 88
6477025 TTTGACCTTT
* * *
6477035 AGCCTGTTACCCTACTACTT-AGGAGGTTAAAGCTCACTGTCTTCGATCTGTTCCCCTACTGCTT
1 AGCCTGTTACCCTACTGCTTAAGG-GGTTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTT
6477099 AGGGTGATAAGATCTGTAATTTTC
65 AGGGTGATAAGATCTGTAATTTTC
* * *
6477123 AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTCTCTTCGATCTGCTACTCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTA
6477188 GGGTGATAAGATCTGTAATTTTC
66 GGGTGATAAGATCTGTAATTTTC
* * *
6477211 AGCTTGTTACCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTA
* *
6477276 GGGTGATAAAATCTATAATTTTC
66 GGGTGATAAGATCTGTAATTTTC
* * *
6477299 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTA
6477364 GGG
66 GGG
6477367 GGTTAAGGCT
Statistics
Matches: 225, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
88 222 0.99
89 3 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (88 bp):
AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTA
GGGTGATAAGATCTGTAATTTTC
Found at i:6477361 original size:132 final size:132
Alignment explanation
Indices: 6477215--6477498 Score: 478
Period size: 132 Copynumber: 2.2 Consensus size: 132
6477205 ATTTTCAGCT
*
6477215 TGTTACCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTAGGGT
1 TGTTCCCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTAGGGT
*
6477280 GATAAAATCTATAATTTTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
66 GATAAAATCTATAATTTTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGA
6477345 TC
131 TC
* * *
6477347 TGTTCCCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTATTGCTTAGGGT
1 TGTTCCCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTAGGGT
* * * * *
6477412 GATAAGATCTGTAATTTTTAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGA
66 GATAAAATCTATAATTTTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGA
6477477 TC
131 TC
6477479 TGTTCCCCTACTGCTTAGGG
1 TGTTCCCCTACTGCTTAGGG
6477499 TGATAAGATC
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 142 1.00
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (132 bp):
TGTTCCCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTAGGGT
GATAAAATCTATAATTTTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGA
TC
Found at i:6477394 original size:88 final size:85
Alignment explanation
Indices: 6477037--6477410 Score: 424
Period size: 88 Copynumber: 4.3 Consensus size: 85
6477027 TGACCTTTAG
* * *
6477037 CCTGTTACCCTACTACTTAGGAGGTTAAAGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGG
* *
6477102 GTGATAAGATCTGTAATTTTCA
66 GTGATAAG-GCT-CAATTTTCA
* * * * *
6477124 GCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTCTCTTCGATCTGCTACTCTACTGCTTAG
1 -CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAG
* *
6477189 GGTGATAAGATCTGTAATTTTCA
65 GGTGATAAG-GCT-CAATTTTCA
* * *
6477212 GCTTGTTACCCTACTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTAG
1 -CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAG
** *
6477277 GGTGATAAAATCTATAATTTTCAA
65 GGTGAT-AAGGCT-CAATTTTC-A
6477301 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGG
* * *
6477366 GGGTTAAGGCTCACTGTCTTCGA
66 GTGATAAGGCTCAAT-T-TTC-A
* * *
6477389 TCTGTTCCCCTATTGCTTAGGG
1 CCTGTTACCCTACTGCTTAGGG
6477411 TGATAAGATC
Statistics
Matches: 253, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
86 2 0.01
87 5 0.02
88 243 0.96
89 3 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (85 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGG
GTGATAAGGCTCAATTTTCA
Found at i:6477444 original size:88 final size:88
Alignment explanation
Indices: 6477346--6477552 Score: 378
Period size: 88 Copynumber: 2.4 Consensus size: 88
6477336 TGTCTTCGAT
* * *
6477346 CTGTTCCCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTATTGCTTAGGG
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGGG
6477411 TGATAAGATCTGTAATTTTTAGC
66 TGATAAGATCTGTAATTTTTAGC
*
6477434 TTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGGG
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGGG
6477499 TGATAAGATCTGTAATTTTTAGC
66 TGATAAGATCTGTAATTTTTAGC
6477522 CTGTTACCCTACTACTTAGGGGGTTAAGGCT
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCT
6477553 GGTGGCTTAA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 114 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (88 bp):
CTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGCTTAGGG
TGATAAGATCTGTAATTTTTAGC
Found at i:6477526 original size:44 final size:44
Alignment explanation
Indices: 6477033--6477552 Score: 262
Period size: 44 Copynumber: 11.8 Consensus size: 44
6477023 GTTTTGACCT
* * * *
6477033 TTAG-CCTGTTACCCTACTACTTAGGAG-GTTAAAGCTCACTGTC
1 TTAGACCTGTTACCCTACTGCTTAGG-GTGATAAGGCTCAATGTC
* * * * *
6477076 TTCGATCTGTTCCCCTACTGCTTAGGGTGATAAGATCTGTAAT-T-
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAG-GCT-CAATGTC
* * *
6477120 TTCAG-CCTGTTACCCTACTGCTTAAGGG-GTTAAGGCTCACTCTC
1 TT-AGACCTGTTACCCTACTGCTT-AGGGTGATAAGGCTCAATGTC
* * * * * *
6477164 TTCGATCTGCTACTCTACTGCTTAGGGTGATAAGATCTGTAAT-T-
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAG-GCT-CAATGTC
* * * *
6477208 TTCAG-CTTGTTACCCTACTGCTTAGGGGGCTAAGGCTCACTGTC
1 TT-AGACCTGTTACCCTACTGCTTAGGGTGATAAGGCTCAATGTC
* * * * ** *
6477252 TTCGATCTGCTCCCCTACTGCTTAGGGTGATAAAATCTATAAT-T-
1 TTAGACCTGTTACCCTACTGCTTAGGGTGAT-AAGGCT-CAATGTC
* * *
6477296 TTCA-ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTC
1 TT-AGACCTGTTACCCTACTGCTTAGGGTGATAAGGCTCAATGTC
* * * * * *
6477340 TTCGATCTGTTCCCCTACTGCTTAGGGGGTTAAGGCTCACTGTC
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAGGCTCAATGTC
* * * * * * *
6477384 TTCGATCTGTTCCCCTATTGCTTAGGGTGATAAGATCTGTAAT-TT
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAG-GCT-CAATGTC
* * * * *
6477429 TTAG-CTTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTC
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAGGCTCAATGTC
* * * * * *
6477472 TTCGATCTGTTCCCCTACTGCTTAGGGTGATAAGATCTGTAAT-TT
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAG-GCT-CAATGTC
* * *
6477517 TTAG-CCTGTTACCCTACTACTTAGGGGGTTAAGGCT
1 TTAGACCTGTTACCCTACTGCTTAGGGTGATAAGGCT
6477553 GGTGGCTTAA
Statistics
Matches: 354, Mismatches: 95, Indels: 56
0.70 0.19 0.11
Matches are distributed among these distances:
42 8 0.02
43 29 0.08
44 278 0.79
45 29 0.08
46 10 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (44 bp):
TTAGACCTGTTACCCTACTGCTTAGGGTGATAAGGCTCAATGTC
Found at i:6477526 original size:132 final size:131
Alignment explanation
Indices: 6477032--6477542 Score: 439
Period size: 132 Copynumber: 3.9 Consensus size: 131
6477022 TGTTTTGACC
* *
6477032 TTTAGCCTGTTACCCTACTACTTAGGAGGTTAAAGCTCACTGTCTTCGATCTGTTCCCCTACTGC
1 TTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGC
* * * * *
6477097 TTAGGGTGATAAGATCTGTAAT-T-TTCAG-CCTGTTACCCTACTGCTTAAGGG-GTTAAG-GCT
66 TTAGGGGGATAAG-GCT-CAATGTCTT-AGACCTGTTACCCTACTGCTT-AGGGTGATAAGATCT
* *
6477157 CACTCT
127 TAAT-T
* * * * * * * * * * * * *
6477163 CTTCGATCTGCTACTCTACTGCTTAGGGTGATAAGATCTGTAAT-T-TTC-AGCTTGTTACCCTA
1 TTTAG-CCTGTTACCCTACTACTTAGGGGGTTAAG-GCT-CACTGTCTTCGATC-TGTTCCCCTA
* * * * * * *
6477225 CTGCTTAGGGGGCTAAGGCTCACTGTCTTCGATCTGCTCCCCTACTGCTTAGGGTGATAAAATCT
62 CTGCTTAGGGGGATAAGGCTCAATGTCTTAGACCTGTTACCCTACTGCTTAGGGTGATAAGATCT
6477290 ATAATT
127 -TAATT
* * *
6477296 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGC
1 TTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGC
* * * * * *
6477361 TTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTATTGCTTAGGGTGATAAGATCTGTAA
66 TTAGGGGGATAAGGCTCAATGTCTTAGACCTGTTACCCTACTGCTTAGGGTGATAAGATCT-TAA
6477426 TT
130 TT
*
6477428 TTTAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGC
1 TTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGC
* * * * *
6477493 TTAGGGTGATAAGATCTGTAAT-TTTTAG-CCTGTTACCCTACTACTTAGGG
66 TTAGGGGGATAAG-GCT-CAATGTCTTAGACCTGTTACCCTACTGCTTAGGG
6477543 GGTTAAGGCT
Statistics
Matches: 302, Mismatches: 63, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
130 4 0.01
131 16 0.05
132 261 0.86
133 15 0.05
134 6 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (131 bp):
TTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGTTCCCCTACTGC
TTAGGGGGATAAGGCTCAATGTCTTAGACCTGTTACCCTACTGCTTAGGGTGATAAGATCTTAAT
T
Found at i:6482221 original size:5 final size:5
Alignment explanation
Indices: 6482200--6482252 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
6482190 TGTTAAAATA
* *
6482200 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
6482248 TATAT
1 TATAT
6482253 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:6482231 original size:10 final size:9
Alignment explanation
Indices: 6482197--6482253 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
6482187 ATGTGTTAAA
6482197 ATATATATT
1 ATATATATT
*
6482206 AAAT-TATT
1 ATATATATT
6482214 AT-TATATT
1 ATATATATT
6482222 ATAGTATATT
1 ATA-TATATT
6482232 ATAT-TA-T
1 ATATATATT
6482239 ATATTATATT
1 ATA-TATATT
6482249 ATATA
1 ATATA
6482254 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:6482243 original size:12 final size:12
Alignment explanation
Indices: 6482198--6482253 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
6482188 TGTGTTAAAA
*
6482198 TATATATTAAAT
1 TATATATTATAT
6482210 TAT-TATTATATT
1 TATATATTATA-T
6482222 ATAGTATATTATAT
1 -TA-TATATTATAT
6482236 TATATATTATAT
1 TATATATTATAT
6482248 TATATA
1 TATATA
6482254 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:6483591 original size:18 final size:19
Alignment explanation
Indices: 6483570--6483608 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
6483560 ATATATAGAT
6483570 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
6483588 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
6483607 AT
1 AT
6483609 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:6483958 original size:39 final size:39
Alignment explanation
Indices: 6483848--6483982 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
6483838 GACCTCGAGT
* * * *
6483848 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
6483889 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
6483927 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
6483966 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
6483983 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:6488697 original size:9 final size:9
Alignment explanation
Indices: 6488679--6488710 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
6488669 TGCAATATTG
6488679 ATGC-ATGA
1 ATGCAATGA
6488687 ATGCAATGA
1 ATGCAATGA
6488696 ATGCAATGA
1 ATGCAATGA
6488705 ATGCAA
1 ATGCAA
6488711 AAAAGGCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:6490043 original size:3 final size:3
Alignment explanation
Indices: 6490035--6490069 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6490025 AAAATATCGG
6490035 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6490070 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6490074 original size:3 final size:3
Alignment explanation
Indices: 6490068--6490098 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6490058 ATTATTATTA
6490068 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
6490099 ACAAGCCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:6490863 original size:23 final size:24
Alignment explanation
Indices: 6490833--6490877 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
6490823 ACATTAAAAT
6490833 ATAATATTAAC-ATAAAAATAACA
1 ATAATATTAACAATAAAAATAACA
*
6490856 ATAATATTCACAATAAAAATAA
1 ATAATATTAACAATAAAAATAA
6490878 TGTTCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (24 bp):
ATAATATTAACAATAAAAATAACA
Found at i:6491117 original size:3 final size:3
Alignment explanation
Indices: 6491109--6491162 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
6491099 ATACAAGATG
6491109 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6491156 ATA ATA A
1 ATA ATA A
6491163 AATCCAAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6491641 original size:3 final size:3
Alignment explanation
Indices: 6491633--6491711 Score: 64
Period size: 3 Copynumber: 28.0 Consensus size: 3
6491623 ATTAACAATG
* * *
6491633 ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA A-A AAA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6491678 AT- ATA ATA A-A ATA ATA AGTA ATTA A-A A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA
6491712 CTATATATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
2 14 0.22
3 43 0.68
4 6 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6491699 original size:28 final size:25
Alignment explanation
Indices: 6491633--6491708 Score: 64
Period size: 28 Copynumber: 2.8 Consensus size: 25
6491623 ATTAACAATG
*
6491633 ATAATAATAATAGTAATAATATTAAA
1 ATAATAATAATAATAA-AATATTAAA
*
6491659 ATAAAAAAATAATAATAAAATATAATAAA
1 AT--AATAATAATAATAAAATAT--TAAA
6491688 ATAATAAGTAATTAA-AAAATA
1 ATAATAA-TAA-TAATAAAATA
6491709 ATACTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 2 0.05
27 9 0.22
28 21 0.51
29 9 0.22
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (25 bp):
ATAATAATAATAATAAAATATTAAA
Found at i:6491777 original size:38 final size:36
Alignment explanation
Indices: 6491662--6491778 Score: 92
Period size: 39 Copynumber: 3.1 Consensus size: 36
6491652 TATTAAAATA
* *
6491662 AAAAAATAATAATAAAATATAATAAAATAATAAGTAATT
1 AAAAAATAATACT-ATATATAATAAAATAATAA-TAA-T
** *
6491701 AAAAAATAATACTATATAT-ATACATGTACATAGGTAAT
1 AAAAAATAATACTATATATAATA-AAATA-ATA-ATAAT
* *
6491739 AAAAACTATATACTACTATATAATATAATAATAATAAT
1 AAAAAATA-ATACTA-TATATAATAAAATAATAATAAT
6491777 AA
1 AA
6491779 TATTGAAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
37 3 0.05
38 22 0.35
39 27 0.44
40 7 0.11
41 3 0.05
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (36 bp):
AAAAAATAATACTATATATAATAAAATAATAATAAT
Found at i:6491900 original size:3 final size:3
Alignment explanation
Indices: 6491892--6491930 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
6491882 ACGCTATTGT
*
6491892 ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6491931 GCAAAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:6492037 original size:2 final size:2
Alignment explanation
Indices: 6492030--6492055 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6492020 TATACACTAT
6492030 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6492056 ATAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6492320 original size:118 final size:119
Alignment explanation
Indices: 6492041--6492368 Score: 535
Period size: 118 Copynumber: 2.8 Consensus size: 119
6492031 ATATATATAT
* * * *
6492041 ATATA-TATATATATAATAATAATATTGCAATGCAAGAAAGCAAATATAATAAAATATTAAAATA
1 ATATACTA-ATATAT-ATAATAATATTGCGATGAAAAAAAACAAATATAATAAAATATTAAAATA
6492105 AAGTAATAAAAAAGAGCACTAC--TATATATATATATGCATATACGTAAGAAAAAA
64 AAGTAATAAAAAAGAGCACTACTATATATATATATATGCATATACGTAAGAAAAAA
6492159 ATATACTAATATATATAATAATATTGCGATGAAAAAAAACAAATATAATAAAATATTAAAATAAA
1 ATATACTAATATATATAATAATATTGCGATGAAAAAAAACAAATATAATAAAATATTAAAATAAA
6492224 GTAATAAAAAAGAGCACTACTATATATATATATATGCATATACGTAAG-AAAAA
66 GTAATAAAAAAGAGCACTACTATATATATATATATGCATATACGTAAGAAAAAA
6492277 ATATACTAATATATATAATAATATTGCGATGAAAAAAAACAAATATAATAAAATATTAAAATAAA
1 ATATACTAATATATATAATAATATTGCGATGAAAAAAAACAAATATAATAAAATATTAAAATAAA
* *
6492342 ATAAT-GAAAA-A-CACTACTATATATATA
66 GTAATAAAAAAGAGCACTACTATATATATA
6492369 CATGTACGCA
Statistics
Matches: 201, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
115 16 0.08
116 1 0.00
117 71 0.35
118 85 0.42
119 28 0.14
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (119 bp):
ATATACTAATATATATAATAATATTGCGATGAAAAAAAACAAATATAATAAAATATTAAAATAAA
GTAATAAAAAAGAGCACTACTATATATATATATATGCATATACGTAAGAAAAAA
Found at i:6493921 original size:26 final size:25
Alignment explanation
Indices: 6493877--6493985 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 25
6493867 TGATACAAAT
*
6493877 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
* *
6493903 TTATATTGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
*
6493929 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
6493954 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
6493980 TGATAA
1 TGATAA
6493986 GAATATCATG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 24 0.32
26 48 0.65
27 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.39
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:6493983 original size:51 final size:52
Alignment explanation
Indices: 6493877--6493985 Score: 193
Period size: 51 Copynumber: 2.1 Consensus size: 52
6493867 TGATACAAAT
* *
6493877 TGATAATAGGTTAGGTAAATGTTCCATTATATTGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
6493929 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
6493980 TGATAA
1 TGATAA
6493986 GAATATCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 32 0.58
52 23 0.42
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.39
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:6495498 original size:26 final size:26
Alignment explanation
Indices: 6495469--6495521 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6495459 TTTACAGTTT
6495469 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6495495 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6495521 T
1 T
6495522 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6496670 original size:23 final size:23
Alignment explanation
Indices: 6496641--6496687 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6496631 CATAATGTGT
*
6496641 TGGGTTTTGGGGTTTAATGTAAA
1 TGGGTTTTGGGATTTAATGTAAA
6496664 TGGGTTTTGGGATTTAATGTAAA
1 TGGGTTTTGGGATTTAATGTAAA
6496687 T
1 T
6496688 AGGCCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (23 bp):
TGGGTTTTGGGATTTAATGTAAA
Found at i:6498183 original size:21 final size:22
Alignment explanation
Indices: 6498153--6498193 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6498143 ATATAATTAC
*
6498153 AATAACAATAATGGTAATAAAA
1 AATAACAATAATAGTAATAAAA
6498175 AATAA-AATAATAGTAATAA
1 AATAACAATAATAGTAATAA
6498194 TAGCACGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AATAACAATAATAGTAATAAAA
Found at i:6498319 original size:35 final size:34
Alignment explanation
Indices: 6498254--6498320 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
6498244 CATGATAGTG
* **
6498254 AAATAATAATAGTAATAATGTTAATAAAGATACA
1 AAATAATAATAGTAAAAATGCCAATAAAGATACA
* *
6498288 AAATGATAATAAGTAAAAATGCCAATGAAGATA
1 AAATAATAAT-AGTAAAAATGCCAATAAAGATA
6498321 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.25
Consensus pattern (34 bp):
AAATAATAATAGTAAAAATGCCAATAAAGATACA
Found at i:6498404 original size:12 final size:12
Alignment explanation
Indices: 6498360--6498407 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6498350 TGTTCATGCG
*
6498360 TAAATATAAAGA
1 TAAATATAAACA
**
6498372 TAGGTATAATACA
1 TAAATATAA-ACA
6498385 TAAAATATAAACA
1 T-AAATATAAACA
6498398 TAAATATAAA
1 TAAATATAAA
6498408 GAGAGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 16 0.55
13 7 0.24
14 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (12 bp):
TAAATATAAACA
Found at i:6498471 original size:3 final size:3
Alignment explanation
Indices: 6498465--6498563 Score: 58
Period size: 3 Copynumber: 32.3 Consensus size: 3
6498455 CAATAATAGC
* * * * *
6498465 AAT AAT AAT AAAT ATT GAT AAT AAAC AAT AAT AA- AAGG AAT AAA AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * *
6498512 AAT AGT AAT AAT AAG AAT ATTT AAT AAT AAT AAT AAT AAC AAC AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
6498558 -AT AAT A
1 AAT AAT A
6498564 TATACATGAA
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
2 4 0.05
3 60 0.82
4 9 0.12
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6501952 original size:9 final size:9
Alignment explanation
Indices: 6501934--6501965 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
6501924 TGCAATGCCG
6501934 ATGC-ATGA
1 ATGCAATGA
6501942 ATGCAATGA
1 ATGCAATGA
6501951 ATGCAATGA
1 ATGCAATGA
6501960 ATGCAA
1 ATGCAA
6501966 AAAACGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:6505979 original size:22 final size:22
Alignment explanation
Indices: 6505954--6505995 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6505944 ATATAATTAC
* *
6505954 AATAACAATAATGGTAATAAAA
1 AATAAAAATAATAGTAATAAAA
6505976 AATAAAAATAATAGTAATAA
1 AATAAAAATAATAGTAATAA
6505996 TAGCACGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AATAAAAATAATAGTAATAAAA
Found at i:6506121 original size:35 final size:34
Alignment explanation
Indices: 6506056--6506122 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
6506046 CATGATAGTG
* **
6506056 AAATAATAATAGTAATAATGTTAATAAAGATACA
1 AAATAATAATAGTAAAAATGCCAATAAAGATACA
* *
6506090 AAATGATAATAAGTAAAAATGCCAATGAAGATA
1 AAATAATAAT-AGTAAAAATGCCAATAAAGATA
6506123 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.25
Consensus pattern (34 bp):
AAATAATAATAGTAAAAATGCCAATAAAGATACA
Found at i:6506205 original size:12 final size:12
Alignment explanation
Indices: 6506161--6506208 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6506151 TGTTCATGCG
*
6506161 TAAATATAAAGA
1 TAAATATAAACA
**
6506173 TAGGTATAATACA
1 TAAATATAA-ACA
6506186 TAAAATATAAACA
1 T-AAATATAAACA
6506199 TAAATATAAA
1 TAAATATAAA
6506209 GAGAGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 16 0.55
13 7 0.24
14 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (12 bp):
TAAATATAAACA
Found at i:6506272 original size:3 final size:3
Alignment explanation
Indices: 6506266--6506348 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
6506256 CAATAATAGC
* * * * *
6506266 AAT AAT AAT AAAT ATT GAT AAT AAAC AAT AAT AA- AAGG AAT AAA AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AAT
* * *
6506313 AAT AGT AAT AAT AAG AAT ATTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
6506349 CAACAACAAT
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
2 2 0.03
3 49 0.82
4 9 0.15
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6506854 original size:47 final size:47
Alignment explanation
Indices: 6506785--6506879 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
6506775 AGGATAAGAT
6506785 AGATTCAAAAATAGAAAGAAAAAAAAAGGAAAAGAAAACCTTAGCCC
1 AGATTCAAAAATAGAAAGAAAAAAAAAGGAAAAGAAAACCTTAGCCC
6506832 AGATTCAAAAATAGAAAGAAAAAAAAAGGAAAAGAAAACCTTAGCCC
1 AGATTCAAAAATAGAAAGAAAAAAAAAGGAAAAGAAAACCTTAGCCC
6506879 A
1 A
6506880 TTTTGAACCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.11
Consensus pattern (47 bp):
AGATTCAAAAATAGAAAGAAAAAAAAAGGAAAAGAAAACCTTAGCCC
Found at i:6508140 original size:3 final size:3
Alignment explanation
Indices: 6508132--6508177 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
6508122 ATTTTATTCA
* * * *
6508132 ATT ATT ATT CTT ACT ATT ATT ATT GTT ATT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6508178 CCACCATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6508306 original size:15 final size:16
Alignment explanation
Indices: 6508282--6508331 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
6508272 TTTATTTACT
*
6508282 TATTACTTTATTATTA
1 TATTAATTTATTATTA
6508298 -ATTAATTTAGTATTATTA
1 TATTAA-TT--TATTATTA
6508316 TATT-ATTTATTATTA
1 TATTAATTTATTATTA
6508331 T
1 T
6508332 TATCCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 13 0.45
16 2 0.07
17 2 0.07
18 9 0.31
19 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTAATTTATTATTA
Found at i:6508342 original size:18 final size:18
Alignment explanation
Indices: 6508290--6508334 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
6508280 CTTATTACTT
6508290 TATTATTA-ATTAATTTAG
1 TATTATTATATT-ATTTAG
*
6508308 TATTATTATATTATTTAT
1 TATTATTATATTATTTAG
6508326 TATTATTAT
1 TATTATTAT
6508335 CCTTTTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TATTATTATATTATTTAG
Found at i:6508484 original size:12 final size:12
Alignment explanation
Indices: 6508457--6508685 Score: 81
Period size: 12 Copynumber: 19.8 Consensus size: 12
6508447 TTCACATATA
6508457 TATTATTATT--
1 TATTATTATTAC
6508467 TA-TATTATTAC
1 TATTATTATTAC
***
6508478 TATTATTAACGC
1 TATTATTATTAC
* *
6508490 TCTTATTATTGC
1 TATTATTATTAC
*
6508502 TATTATTATTCC
1 TATTATTATTAC
* *
6508514 TTTTACTATTAC
1 TATTATTATTAC
6508526 TATTATTA-TAC
1 TATTATTATTAC
*
6508537 TATTATTACTATCC
1 TATTATTA-T-TAC
6508551 T-TT-TTATT-C
1 TATTATTATTAC
* *
6508560 TCATTTTTATTAA
1 T-ATTATTATTAC
6508573 TATTATTATTA-
1 TATTATTATTAC
* * *
6508584 TAATCTTATT-T
1 TATTATTATTAC
*
6508595 TATTACTATTA-
1 TATTATTATTAC
* *
6508606 TCATT-TTTTTAA
1 T-ATTATTATTAC
* *
6508618 AATTATTGTTAC
1 TATTATTATTAC
*
6508630 TATTATTCTTTTAC
1 TATTA-T-TATTAC
* *
6508644 CA-T-TTAATAC
1 TATTATTATTAC
6508654 -ATTATTATTAC
1 TATTATTATTAC
* * *
6508665 TATTTTTGTTAT
1 TATTATTATTAC
6508677 TATTATTAT
1 TATTATTAT
6508686 ATTTTCTTTT
Statistics
Matches: 162, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
9 10 0.06
10 8 0.05
11 46 0.28
12 84 0.52
13 5 0.03
14 9 0.06
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:6521463 original size:73 final size:71
Alignment explanation
Indices: 6521266--6522104 Score: 843
Period size: 73 Copynumber: 11.6 Consensus size: 71
6521256 TTTATTTCGG
* * * * *
6521266 TTTTAAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT-A
* *
6521331 AATTCTG
65 ATTTCTA
* *
6521338 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTTCAGGACACGCTGAGGTAATT
1 T-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
6521403 TTAATTTCTA
62 TTAATTTCTA
* * * *
6521413 TTTGTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT-
*
6521478 AATTTCTT
64 AATTTCTA
6521486 TCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA----
1 T-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
6521547 AA--TC-A
64 AATTTCTA
*** *
6521552 -TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTT
*
6521615 TCAATTTCTGT
63 T-AATTTCT-A
6521626 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTT
6521691 TAATTTCTA
63 TAATTTCTA
** ** * *
6521700 TTTAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTTA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTA
*
6521765 ATTTCTG
65 ATTTCTA
* *
6521772 TTTGTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTA----A
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTA
6521833 A--TC-A
65 ATTTCTA
*** *
6521837 -TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTT
*
6521900 TCAATTTCTGT
63 T-AATTTCT-A
6521911 TTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 TTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-AT
*
6521976 TTTAATTTCTG
61 TTTAATTTCTA
* ** * *
6521987 TTTTAAAAAAAAAAAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACCCG-TCGAGGTATTT
1 TTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT-GAGGTATTT
6522051 TCAATTTCTA
63 T-AATTTCTA
* * * * *
6522061 CTTTCCAAAAATCAACTCAGATTGCAATAGGTGAGTTGGGCCTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
6522105 GGGTCTCACG
Statistics
Matches: 645, Mismatches: 72, Indels: 99
0.79 0.09 0.12
Matches are distributed among these distances:
62 4 0.01
63 74 0.11
64 2 0.00
65 24 0.04
66 2 0.00
67 2 0.00
68 2 0.00
69 2 0.00
70 4 0.01
72 76 0.12
73 146 0.23
74 111 0.17
75 79 0.12
76 14 0.02
77 56 0.09
78 7 0.01
79 38 0.06
80 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (71 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAA
TTTCTA
Found at i:6521588 original size:63 final size:66
Alignment explanation
Indices: 6521492--6522036 Score: 422
Period size: 63 Copynumber: 7.7 Consensus size: 66
6521482 TCTTTCTTTC
6521492 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-AA-TC-ATC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATAATTCTATC
6521554 A
66 A
*
6521555 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA---T-AA
*
6521619 TTTCTGTTTTTCA
59 -TTC----TATCA
6521632 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-A---TAA-TT
*
6521697 CTATTTA
61 CTA-TCA
** * *
6521704 AAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-A---TAA-TT
* **
6521769 CTGTTTGT
61 C--TATCA
* * * *
6521777 CAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTA-AA-TC-ATA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATAATTCTATC
6521839 A
66 A
*
6521840 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA---T-AA
*
6521904 TTTCTGTTTTTCAAA
59 -TTC----TATC--A
6521919 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-A---TAA-TT
* *
6521984 CTGTTTTAA
61 C---TATCA
** *
6521993 AAAAAAAAAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
6522037 CCGTCGAGGT
Statistics
Matches: 410, Mismatches: 33, Indels: 67
0.80 0.06 0.13
Matches are distributed among these distances:
62 4 0.01
63 76 0.19
65 24 0.06
66 2 0.00
68 2 0.00
70 4 0.01
71 1 0.00
72 69 0.17
73 50 0.12
74 43 0.10
75 17 0.04
76 9 0.02
77 60 0.15
78 7 0.02
79 40 0.10
80 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (66 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATAATTCTATC
A
Found at i:6521934 original size:287 final size:283
Alignment explanation
Indices: 6521270--6522104 Score: 1248
Period size: 285 Copynumber: 2.9 Consensus size: 283
6521260 TTTCGGTTTT
* * * * *
6521270 AAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAA
* * * *
6521332 ATTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCTTCAGGACACGCTGAG
65 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*** ** * *
6521397 GTAATTTTAATTTCTATTTGTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGAC
130 GTAATTTTAATTTCTATTTAAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGAC
*
6521462 ACGTTGAGGTATTTTCAATTTCTTTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
195 ACG-TGAGGTATTTTCAATTTC-TT-TTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
*
6521527 CCTCAGGACACGCTGAGGTAAATCATCA
256 CCTCAGGACACGCTGAGGTAAATCATAA
6521555 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
6521620 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
66 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
6521685 TAATTTTAATTTCTATTT-AAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
131 TAATTTTAATTTCTATTTAAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
* *
6521749 TGCTGAGGTAATTTT-AATTTCTGTTTGTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGC
196 CG-TGAGGT-ATTTTCAATTTCT-TTT-TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
6521813 CTCAGGACACGCTGAGGTAAATCATAA
257 CTCAGGACACGCTGAGGTAAATCATAA
6521840 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
6521905 TTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
66 TTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * *
6521970 GGTAATTTTAATTTCTGTTTTAAAAAAAAAAAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG
129 GGTAATTTTAATTTCT-ATTTAAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG
* * * * *
6522035 ACCCGTCGAGGTATTTTCAATTTCTACTTTCCAAAAATCAACTCAGATTGCAATAGGTGAGTTGG
193 ACACGT-GAGGTATTTTCAATTTCT--TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
6522100 GCCTC
255 GCCTC
6522105 GGGTCTCACG
Statistics
Matches: 506, Mismatches: 31, Indels: 22
0.91 0.06 0.04
Matches are distributed among these distances:
284 1 0.00
285 175 0.35
286 56 0.11
287 171 0.34
288 9 0.02
289 91 0.18
290 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (283 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTTAATTTCTATTTAAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
CGTGAGGTATTTTCAATTTCTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCA
GGACACGCTGAGGTAAATCATAA
Found at i:6521960 original size:215 final size:208
Alignment explanation
Indices: 6521631--6522036 Score: 602
Period size: 215 Copynumber: 1.9 Consensus size: 208
6521621 TCTGTTTTTC
6521631 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATT
*
6521696 TCTATTTAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAAT
66 TCTATTTAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* ** *
6521761 TTTAATTTCTGTTTGT-CAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGC
131 TTTAATTTCTGTTT-TAAAAAAAAAAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGACACGC
6521825 TGAGGTAAATCATA
195 TGAGGTAAATCATA
*
6521839 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGT-ATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-
* *
6521902 AATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
62 AATTTC--TATTT-AAAAAAAAA--AACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
* *
6521967 TGAGGTAATTTTAATTTCTGTTTTAAAAAAAAAAAACTCATATTACGAGAGGTGAGTTGAGCCTC
122 TGAGGTAATTTTAATTTCTGTTTT-AAAAAAAAAAACTCATATTACAAGAAGTGAGTTGAGCCTC
6522032 AGGAC
186 AGGAC
6522037 CCGTCGAGGT
Statistics
Matches: 177, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
207 2 0.01
208 40 0.23
209 5 0.03
210 17 0.10
212 4 0.02
213 9 0.05
214 1 0.01
215 61 0.34
216 38 0.21
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (208 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATT
TCTATTTAAAAAAAAAAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
TTTAATTTCTGTTTTAAAAAAAAAAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGACACGCT
GAGGTAAATCATA
Found at i:6521999 original size:79 final size:76
Alignment explanation
Indices: 6521838--6522138 Score: 325
Period size: 74 Copynumber: 4.0 Consensus size: 76
6521828 GGTAAATCAT
*
6521838 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTC
*
6521902 AATTTCTGTTTTTCA
63 AATTTCTG-TTTTAA
6521917 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAA
6521981 TTTCTGTTTTAA
65 TTTCTGTTTTAA
* *
6521993 AAAAAAAA--AACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACCCG-TCGAGGTATTTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT-GAGGTATTTTCAA
**
6522055 TTTCTACTTT--
65 TTTCTGTTTTAA
** * * * * * *
6522065 -CCAAAAATCAACTCAGATTGCAATAGGTGAGTTGGGCCTCGGGTCTCACG-TCGAGGTA-TTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTC
6522127 AATTTCTGTTTT
63 AATTTCTGTTTT
6522139 TCAATTTGTG
Statistics
Matches: 196, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
71 5 0.03
73 34 0.17
74 66 0.34
75 11 0.06
76 13 0.07
77 19 0.10
78 5 0.03
79 41 0.21
80 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (76 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
TTCTGTTTTAA
Found at i:6522548 original size:3 final size:3
Alignment explanation
Indices: 6522540--6522596 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
6522530 TGTATTTTGC
6522540 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6522588 TAT TAT TAT
1 TAT TAT TAT
6522597 ACAATAGCGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6522802 original size:3 final size:3
Alignment explanation
Indices: 6522787--6522849 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
6522777 TTTAATTACT
* * * *
6522787 TTA TTA TTT TTA TTA -TA TT- TTA TTA TTC TT- TTT TTA TT- TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
6522831 TTA TTA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
6522850 CATTGTTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
2 8 0.17
3 40 0.83
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6522808 original size:19 final size:19
Alignment explanation
Indices: 6522786--6522832 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6522776 TTTTAATTAC
6522786 TTTATTATT-TTTATTATAT
1 TTTATTATTCTTT-TTATAT
*
6522805 TTTATTATTCTTTTTTTAT
1 TTTATTATTCTTTTTATAT
*
6522824 TTTAATATT
1 TTTATTATT
6522833 ATTACTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTATTCTTTTTATAT
Found at i:6523098 original size:9 final size:9
Alignment explanation
Indices: 6523086--6523124 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
6523076 AATATTGCTT
6523086 TTATTTTTA
1 TTATTTTTA
6523095 TTATTTTTA
1 TTATTTTTA
**
6523104 TTATTACTA
1 TTATTTTTA
6523113 TTATTCTTTA
1 TTATT-TTTA
6523123 TT
1 TT
6523125 GTCATGGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (9 bp):
TTATTTTTA
Found at i:6523332 original size:3 final size:3
Alignment explanation
Indices: 6523324--6523360 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6523314 ACTTTGGATT
6523324 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6523361 CTTGTATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6524378 original size:3 final size:3
Alignment explanation
Indices: 6524370--6524404 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6524360 GGGCTTGTAC
6524370 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6524405 CCGATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6527102 original size:154 final size:148
Alignment explanation
Indices: 6526727--6527113 Score: 498
Period size: 154 Copynumber: 2.6 Consensus size: 148
6526717 ATCATTAATC
* * * * *
6526727 TTCTTAAAAATCAAAAC-ATTATTTTGAAATAGTT-AAAAAAATCAAAACTTTGTTTTAAGAA-T
1 TTCTTAAAGATTAAAACTTTTACTTTGAAATAATTGAAAAAAATCAAAACTTTGTTTTAA-AATT
* * *
6526789 TTAAACTTT-C--TAAAATGATTTAAAAAAACAGATTTTTATTTTTCAAAATTTAAACTTTCTCT
65 TTAAACTTTCCTTTAAAATAATTAAAAAAAACAGAATTTTATTTTTCAAAATTTAAACTTTCTCT
*
6526851 TTTTTTTTAAACACTATTT
130 TTTTTTTAAAACACTATTT
** * *
6526870 TTCTTAAAGATTAAAGTTTTTATTTTGAAGTAATTGAAAAAAATCAAAACTTTGTTTTAAAATTT
1 TTCTTAAAGATTAAAACTTTTACTTTGAAATAATTGAAAAAAATCAAAACTTTGTTTTAAAATTT
* *
6526935 TAAACTTTCCTTTAAAATAACTAAAAAAAACAGAATTTTATTTTTCAAAATTTAAACTTTTTACT
66 TAAACTTTCCTTTAAAATAATTAAAAAAAACAGAATTTTATTTTTCAAAATTTAAACTTTCT-CT
*
6527000 TTTTTTTAAAAAAATACTATTT
130 TTTTTTT---AAAACACTATTT
** *
6527022 TTCTTAAAGATTAAAACTTTTACTTTGAAATTGTTGAAAAAAAAATCAAAACTTTATTTTAAAAT
1 TTCTTAAAGATTAAAACTTTTACTTTGAAATAATTG--AAAAAAATCAAAACTTTGTTTTAAAAT
6527087 TTTAAACTTTCCTTTAAAATAATTAAA
64 TTTAAACTTTCCTTTAAAATAATTAAA
6527114 TTTTTTTATT
Statistics
Matches: 210, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
143 13 0.06
144 16 0.08
145 34 0.16
146 1 0.00
148 45 0.21
149 9 0.04
152 40 0.19
154 52 0.25
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (148 bp):
TTCTTAAAGATTAAAACTTTTACTTTGAAATAATTGAAAAAAATCAAAACTTTGTTTTAAAATTT
TAAACTTTCCTTTAAAATAATTAAAAAAAACAGAATTTTATTTTTCAAAATTTAAACTTTCTCTT
TTTTTTAAAACACTATTT
Found at i:6542308 original size:3 final size:3
Alignment explanation
Indices: 6542300--6542325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6542290 TGCAAAGAGA
6542300 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
6542326 AGGGAGGCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6542521 original size:7 final size:7
Alignment explanation
Indices: 6542504--6542534 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6542494 TTAACTGCTG
6542504 TTTTG-C
1 TTTTGAC
6542510 TTTTGAC
1 TTTTGAC
6542517 TTTTGAC
1 TTTTGAC
6542524 TTTTGAC
1 TTTTGAC
6542531 TTTT
1 TTTT
6542535 TTTAGTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.10, C:0.13, G:0.13, T:0.65
Consensus pattern (7 bp):
TTTTGAC
Found at i:6543155 original size:31 final size:31
Alignment explanation
Indices: 6543117--6543176 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6543107 ACTAAGCAGC
6543117 ACTGGTCATGCCTACTAGAGAGGCAGCACTG
1 ACTGGTCATGCCTACTAGAGAGGCAGCACTG
* *
6543148 ACTGGTCATGCTTACTAGAGAGGCGGCAC
1 ACTGGTCATGCCTACTAGAGAGGCAGCAC
6543177 ACCTATGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (31 bp):
ACTGGTCATGCCTACTAGAGAGGCAGCACTG
Found at i:6543554 original size:12 final size:12
Alignment explanation
Indices: 6543537--6543561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6543527 ATTTAATTCG
6543537 AATTTAATTTTT
1 AATTTAATTTTT
6543549 AATTTAATTTTT
1 AATTTAATTTTT
6543561 A
1 A
6543562 TAAGGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTAATTTTT
Found at i:6546041 original size:24 final size:24
Alignment explanation
Indices: 6546009--6546061 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6545999 TTGAGGCATA
6546009 CGAGCTAGAGCCAGAG-CCAAAGCC
1 CGAGCTAGAGCCAGAGTCC-AAGCC
*
6546033 CGAGCTAGAGCCCGAGTCCAAGCC
1 CGAGCTAGAGCCAGAGTCCAAGCC
6546057 CGAGC
1 CGAGC
6546062 CCGAGCCCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.28, C:0.36, G:0.30, T:0.06
Consensus pattern (24 bp):
CGAGCTAGAGCCAGAGTCCAAGCC
Found at i:6546044 original size:12 final size:12
Alignment explanation
Indices: 6546009--6546079 Score: 72
Period size: 12 Copynumber: 5.9 Consensus size: 12
6545999 TTGAGGCATA
*
6546009 CGAGCTAGAGCC
1 CGAGCCAGAGCC
* *
6546021 AGAGCCAAAGCC
1 CGAGCCAGAGCC
*
6546033 CGAGCTAGAGCC
1 CGAGCCAGAGCC
6546045 CGAGTCCA-AGCC
1 CGAG-CCAGAGCC
*
6546057 CGAGCCCGAGCC
1 CGAGCCAGAGCC
*
6546069 CGAGCCTGAGC
1 CGAGCCAGAGC
6546080 TAGAGCCTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.25, C:0.38, G:0.31, T:0.06
Consensus pattern (12 bp):
CGAGCCAGAGCC
Found at i:6546074 original size:18 final size:18
Alignment explanation
Indices: 6546016--6546079 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
6546006 ATACGAGCTA
**
6546016 GAGCCAGAGCCAAAGCCC
1 GAGCCAGAGCCCGAGCCC
* *
6546034 GAGCTAGAGCCCGAGTCC
1 GAGCCAGAGCCCGAGCCC
* *
6546052 AAGCCCGAGCCCGAGCCC
1 GAGCCAGAGCCCGAGCCC
*
6546070 GAGCCTGAGC
1 GAGCCAGAGC
6546080 TAGAGCCTGA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.25, C:0.39, G:0.31, T:0.05
Consensus pattern (18 bp):
GAGCCAGAGCCCGAGCCC
Found at i:6550531 original size:27 final size:27
Alignment explanation
Indices: 6550493--6550566 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
6550483 AAATGGTACT
6550493 GGTGCCGCCTATCAGATAGGGGTCACC
1 GGTGCCGCCTATCAGATAGGGGTCACC
6550520 GGTGCCGCCTATCAGATAGGGGTCACC
1 GGTGCCGCCTATCAGATAGGGGTCACC
*
6550547 AGTGCCGCCTATCAGATAGG
1 GGTGCCGCCTATCAGATAGG
6550567 CACCATACCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.19
Consensus pattern (27 bp):
GGTGCCGCCTATCAGATAGGGGTCACC
Found at i:6561047 original size:15 final size:14
Alignment explanation
Indices: 6560999--6561110 Score: 102
Period size: 15 Copynumber: 7.7 Consensus size: 14
6560989 AATGTTCTTG
6560999 TTATT-TTTTA-TA
1 TTATTATTTTATTA
*
6561011 TTATTAATATTATTA
1 TTATT-ATTTTATTA
* *
6561026 CTGTTATTTCTATTA
1 TTATTATTT-TATTA
6561041 TTATTATTATTATTA
1 TTATTATT-TTATTA
6561056 TTATTATTATTATTA
1 TTATTATT-TTATTA
**
6561071 TTATTATTACCATTA
1 TTATTATT-TTATTA
*
6561086 GTATTATTTTCATTA
1 TTATTATTTT-ATTA
6561101 TTATTATTTT
1 TTATTATTTT
6561111 TAATACATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
12 5 0.06
14 7 0.09
15 69 0.84
16 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:6561125 original size:3 final size:3
Alignment explanation
Indices: 6561009--6561108 Score: 114
Period size: 3 Copynumber: 33.3 Consensus size: 3
6560999 TTATTTTTTA
* * *
6561009 TAT TAT TAA TAT TAT TAC TGT TAT T-T CTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * *
6561054 TAT TAT TAT TAT TAT TAT TAT TAT TAC CAT TAG TAT TAT T-T TCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
6561099 TAT TAT TAT T
1 TAT TAT TAT T
6561109 TTTAATACAT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.04
3 75 0.93
4 3 0.04
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6561273 original size:3 final size:3
Alignment explanation
Indices: 6561267--6561318 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
6561257 ATTGTCACTG
* * *
6561267 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTT TTT TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
6561313 TTA TTA
1 TTA TTA
6561319 CATATACTCG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6561421 original size:3 final size:3
Alignment explanation
Indices: 6561413--6561632 Score: 61
Period size: 3 Copynumber: 70.0 Consensus size: 3
6561403 TTATAAATAC
* *
6561413 ATT ATT ATT ATT ATTT ATTT ATT CATT ATT ATT GTT ATT ATT AGT ATT
1 ATT ATT ATT ATT A-TT A-TT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * * *
6561461 -TAC ATG ATT ATT ATT CTT TTT ACC ATT ACT GTT ATT ACT ATCT -TT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
** * * ** **
6561506 ATT CCT ATT TTT ATT ATT ATC ATT AAC ATT ATT GCT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* * ** *
6561552 ATT ATAT ACAT ATAT ATT TTT ACC ATC ATT ATT -TT GCATAT ATAT ATT
1 ATT AT-T A-TT AT-T ATT ATT ATT ATT ATT ATT ATT --AT-T AT-T ATT
*
6561600 ATT ATT CA-T ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
6561633 TCTTTTGTGT
Statistics
Matches: 155, Mismatches: 46, Indels: 32
0.67 0.20 0.14
Matches are distributed among these distances:
2 5 0.03
3 120 0.77
4 28 0.18
5 1 0.01
6 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:6561444 original size:27 final size:26
Alignment explanation
Indices: 6561413--6561475 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
6561403 TTATAAATAC
*
6561413 ATTATTATTATTATT-TATTTATTCATT
1 ATTATTATTATTATTATATTTA--CATG
*
6561440 ATTATTGTTATTATTAGTATTTACATG
1 ATTATTATTATTATTA-TATTTACATG
6561467 ATTATTATT
1 ATTATTATT
6561476 CTTTTTACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 25 0.81
29 6 0.19
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTATTATTATTATTATATTTACATG
Found at i:6564672 original size:80 final size:80
Alignment explanation
Indices: 6564588--6564736 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
6564578 TATGGTAACC
* * * *
6564588 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
6564652 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
6564668 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
6564733 CCGG
66 CCGG
6564737 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:6564678 original size:40 final size:38
Alignment explanation
Indices: 6564629--6564736 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
6564619 ATCACGATTT
*
6564629 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
6564669 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
6564709 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
6564737 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:6577624 original size:77 final size:78
Alignment explanation
Indices: 6577497--6577737 Score: 327
Period size: 77 Copynumber: 3.2 Consensus size: 78
6577487 TTCTGCTTTT
* * *
6577497 CAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
1 CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
*
6577562 CCGAGGTA-TTTC
66 CTGAGGTAGTTTC
*
6577574 CAATTTCAGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACG
1 CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
*
6577637 CTGAGGTATTTTC
66 CTGAGGTAGTTTC
* * *
6577650 C-ATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACAT
1 CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACAC
*
6577711 GCTGAGG-AGTTTT
65 GCTGAGGTAGTTTC
6577724 CAATTTCTGTTTTT
1 CAATTTCTGTTTTT
6577738 TTTCAATTTG
Statistics
Matches: 147, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
72 2 0.01
73 37 0.25
74 5 0.03
75 44 0.30
76 5 0.03
77 54 0.37
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (78 bp):
CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
CTGAGGTAGTTTC
Found at i:6577753 original size:15 final size:17
Alignment explanation
Indices: 6577720--6577758 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
6577710 TGCTGAGGAG
*
6577720 TTTTCAATTTCTGTTTT
1 TTTTCAATTTCTGTATT
6577737 TTTTCAA-TT-TGTATT
1 TTTTCAATTTCTGTATT
6577752 TTTTCAA
1 TTTTCAA
6577759 AAAATCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTCAATTTCTGTATT
Found at i:6578839 original size:21 final size:23
Alignment explanation
Indices: 6578797--6578840 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
6578787 ATATTTCATT
* *
6578797 TTTATATTTTAAAATCTGTTTTC
1 TTTATATTTTAAAATATATTTTC
6578820 TTTAT-TTTTAAAA-ATATTTTC
1 TTTATATTTTAAAATATATTTTC
6578841 ATGTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTATATTTTAAAATATATTTTC
Found at i:6579551 original size:27 final size:27
Alignment explanation
Indices: 6579494--6579564 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
6579484 GTTATTTTTA
* * *
6579494 TATTATTAATATTATTACTATTATTTC
1 TATTATTATTATTATTACCATTATATC
*
6579521 TATTATTATTATTATTACCGTTAGTAT-
1 TATTATTATTATTATTACCATTA-TATC
6579548 TATT-TTCATTATTATTA
1 TATTATT-ATTATTATTA
6579565 TTTTTAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 34 0.89
28 2 0.05
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTATTATTATTATTACCATTATATC
Found at i:6579583 original size:3 final size:3
Alignment explanation
Indices: 6579485--6579566 Score: 62
Period size: 3 Copynumber: 27.7 Consensus size: 3
6579475 AATGTTCTTG
* * *
6579485 TTA TTT TTA -TA TTA TTA ATA TTA TTA CTA TTA TT- TCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*** *
6579529 TTA TTA TTA CCG TTA GTA TTA TT- TTCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT
6579567 TTTAATACAT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
2 5 0.08
3 52 0.87
4 3 0.05
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6579731 original size:3 final size:3
Alignment explanation
Indices: 6579725--6579763 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
6579715 ATTGTCACTG
* * *
6579725 TTA TTA TTA TTA TTA TTA TTA TTT TTT TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6579764 CATATACTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6579862 original size:3 final size:3
Alignment explanation
Indices: 6579854--6580078 Score: 69
Period size: 3 Copynumber: 71.0 Consensus size: 3
6579844 TTATAAATAC
* *
6579854 ATT ATT ATT ATT ATT ATTT ATT CATT ATT ATT GTT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT A-TT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * * *
6579901 -TAC ATG ATT ATT ATT CTT TTT ACGTT ACC ATT ACT GTT ATT ACT ATCT
1 AT-T ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT ATT AT-T
** * * ** *
6579949 -TT ATT CCT ATT TTT ATT ATT ATC ATT AAC ATT ATT ACT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * ** * *
6579994 ATT ATT ATAT ACAT ATAT ATT TTT ACC ATC ATT ATT TTT GCATAT ATAT
1 ATT ATT AT-T A-TT AT-T ATT ATT ATT ATT ATT ATT ATT --AT-T AT-T
*
6580043 ATT ATT ATT CA-T ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
6580079 TTTTTCGTGT
Statistics
Matches: 159, Mismatches: 46, Indels: 34
0.67 0.19 0.14
Matches are distributed among these distances:
2 3 0.02
3 127 0.80
4 24 0.15
5 4 0.03
6 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:6579869 original size:23 final size:23
Alignment explanation
Indices: 6579843--6579893 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6579833 TATTTCTTCC
6579843 ATTATAAATACATTATTATTATT
1 ATTATAAATACATTATTATTATT
** * *
6579866 ATTATTTATTCATTATTATTGTT
1 ATTATAAATACATTATTATTATT
6579889 ATTAT
1 ATTAT
6579894 TAGTATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTATAAATACATTATTATTATT
Found at i:6580226 original size:17 final size:19
Alignment explanation
Indices: 6580195--6580231 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6580185 TTATTGTGTG
6580195 TTTTCATTATATATA-TAT
1 TTTTCATTATATATAGTAT
*
6580213 TTTTCA-TATCTATAGTAT
1 TTTTCATTATATATAGTAT
6580231 T
1 T
6580232 ATTTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTCATTATATATAGTAT
Found at i:6580389 original size:19 final size:19
Alignment explanation
Indices: 6580365--6580401 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6580355 CTTATATATA
6580365 TACATA-TATATATTTTATG
1 TACATATTAT-TATTTTATG
6580384 TACATATTATTATTTTAT
1 TACATATTATTATTTTAT
6580402 ATTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
TACATATTATTATTTTATG
Done.