Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 70 of 310
Found at i:22323686 original size:29 final size:28
Alignment explanation
Indices: 22323649--22323800 Score: 104
Period size: 29 Copynumber: 5.5 Consensus size: 28
22323639 GTAAAAAATA
22323649 TTATATATATTATTTTTATTTATGTATTAT
1 TTAT-TATATTATTTTTATTTAT-TATTAT
* *
22323679 TTATTATATTATCTATA-TT-TTATTA-
1 TTATTATATTATTTTTATTTATTATTAT
* * *
22323704 -TA-TATTTTATTTATATATT-TTATTAG
1 TTATTATATTATTTTTAT-TTATTATTAT
* *
22323730 ATATTATATCA-TTTTATTATATATATTAT
1 TTATTATATTATTTTTATT-TAT-TATTAT
* *
22323759 TCATTATATTATTTTTATTTTATTATTTT
1 TTATTATATTATTTTTA-TTTATTATTAT
22323788 ATTATT-TATTATT
1 -TTATTATATTATT
22323801 ATGTATAATT
Statistics
Matches: 98, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
23 11 0.11
24 2 0.02
25 8 0.08
26 6 0.06
27 9 0.09
28 8 0.08
29 36 0.37
30 16 0.16
31 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (28 bp):
TTATTATATTATTTTTATTTATTATTAT
Found at i:22323701 original size:11 final size:11
Alignment explanation
Indices: 22323646--22323756 Score: 55
Period size: 12 Copynumber: 9.5 Consensus size: 11
22323636 TATGTAAAAA
*
22323646 ATATTATATAT
1 ATATTTTATAT
22323657 ATTATTTT-TAT
1 A-TATTTTATAT
* *
22323668 TTATGTATTATTT
1 ATAT-T-TTATAT
* *
22323681 ATTATATTATCT
1 A-TATTTTATAT
22323693 ATATTTTATTAT
1 ATATTTTA-TAT
22323705 ATATTTTATTTAT
1 ATATTTTA--TAT
22323718 ATATTTTAT-T
1 ATATTTTATAT
* *
22323728 AGATATTATAT
1 ATATTTTATAT
*
22323739 CATTTTATTATAT
1 -ATATT-TTATAT
22323752 ATATT
1 ATATT
22323757 ATTCATTATA
Statistics
Matches: 76, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
10 11 0.14
11 13 0.17
12 29 0.38
13 20 0.26
14 3 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
ATATTTTATAT
Found at i:22323735 original size:32 final size:31
Alignment explanation
Indices: 22323699--22323791 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 31
22323689 ATCTATATTT
22323699 TATTATATATTTTATTTATATATTTTATTAGA
1 TATTATATATTTTATTTATATATTTTATTA-A
22323731 TATTATATCATTTTATTATATATATTATTCATT-A
1 TATTATAT-ATTTTATT-TATATATT-TT-ATTAA
22323765 TA-T-TAT-TTTTATTT-TATTATTTTATTA
1 TATTATATATTTTATTTATA-TATTTTATTA
22323792 TTTATTATTA
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
27 3 0.05
28 4 0.07
29 5 0.09
30 7 0.13
32 11 0.20
33 9 0.16
34 11 0.20
35 2 0.04
36 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (31 bp):
TATTATATATTTTATTTATATATTTTATTAA
Found at i:22336237 original size:10 final size:10
Alignment explanation
Indices: 22336222--22336271 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
22336212 TAATTTTAGG
22336222 ATTTAT-TTT
1 ATTTATCTTT
22336231 CATTTATCTTT
1 -ATTTATCTTT
*
22336242 AATTATCTTT
1 ATTTATCTTT
22336252 ATTTAT-TTGT
1 ATTTATCTT-T
22336262 ATTTATCTTT
1 ATTTATCTTT
22336272 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:22342661 original size:12 final size:12
Alignment explanation
Indices: 22342646--22342709 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
22342636 AAAAATGGTG
22342646 AAAATAATAATA
1 AAAATAATAATA
22342658 AAAATAATAATA
1 AAAATAATAATA
* * **
22342670 CAAATACCAACAACG
1 -AAA-A-TAATAATA
22342685 AAAATAATAATA
1 AAAATAATAATA
*
22342697 ATAATAATAATA
1 AAAATAATAATA
22342709 A
1 A
22342710 CGTAAATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
12 28 0.70
13 4 0.10
14 4 0.10
15 4 0.10
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:22342786 original size:3 final size:3
Alignment explanation
Indices: 22342778--22342940 Score: 88
Period size: 3 Copynumber: 55.0 Consensus size: 3
22342768 TAACATGGTG
* * * *
22342778 ATA ATA ATA GTA ATA AT- ACA ACA ATA ATA ATA A-A GTGGA A-A ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA AT-A
* * * * *
22342823 ATA ATA ATA CATTA AGA AGA ATA GTA ATA AT- ATA TTA ATA ATA ACA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
22342869 ATA ATA A-A A-A ATA ATA ATA AAA ATA ATG AT- ATA TTA ATA AGG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
22342914 ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
22342941 CCACGCTGAT
Statistics
Matches: 122, Mismatches: 27, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
2 12 0.10
3 102 0.84
4 5 0.04
5 3 0.02
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:22343002 original size:26 final size:28
Alignment explanation
Indices: 22342973--22343030 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
22342963 ATAAAGAATG
* *
22342973 ATAATAAGAATAATGAT-A-TGTTAATA
1 ATAATAAGAATAATAATAACTGATAATA
*
22342999 ATAATAGGAATAATAATAACTGATAATA
1 ATAATAAGAATAATAATAACTGATAATA
22343027 ATAA
1 ATAA
22343031 AATAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 15 0.56
27 1 0.04
28 11 0.41
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (28 bp):
ATAATAAGAATAATAATAACTGATAATA
Found at i:22343049 original size:25 final size:25
Alignment explanation
Indices: 22342993--22343051 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
22342983 TAATGATATG
*
22342993 TTAATAATAATAGGAATAATAATAA
1 TTAATAATAATAGAAATAATAATAA
* * *
22343018 CTGATAATAATA-AAATAATATTAAA
1 TTAATAATAATAGAAATAATAAT-AA
22343043 TTAATAATA
1 TTAATAATA
22343052 GTTAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
TTAATAATAATAGAAATAATAATAA
Found at i:22343129 original size:14 final size:14
Alignment explanation
Indices: 22343094--22343132 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
22343084 CATAAATACA
*
22343094 AATAGAAAGATAAT
1 AATAGAAATATAAT
22343108 ACATAGAAATATAAT
1 A-ATAGAAATATAAT
22343123 AATAGAAATA
1 AATAGAAATA
22343133 ATAGATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (14 bp):
AATAGAAATATAAT
Found at i:22344265 original size:20 final size:20
Alignment explanation
Indices: 22344231--22344272 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22344221 GGACTATTAA
*
22344231 TTTGGTTTTATTATTTGGATT
1 TTTGGTTTTAATATTTGG-TT
22344252 TTTGG-TTTAATATTTGGTT
1 TTTGGTTTTAATATTTGGTT
22344271 TT
1 TT
22344273 ATTTTGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.67
Consensus pattern (20 bp):
TTTGGTTTTAATATTTGGTT
Found at i:22347969 original size:20 final size:21
Alignment explanation
Indices: 22347934--22347973 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22347924 TTTTTCAAAT
22347934 AATTATTAAAAAATTATTAAG
1 AATTATTAAAAAATTATTAAG
*
22347955 AATTA-TAAGAAATTATTAA
1 AATTATTAAAAAATTATTAA
22347974 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTATTAAAAAATTATTAAG
Found at i:22350010 original size:19 final size:19
Alignment explanation
Indices: 22349977--22350029 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
22349967 AGCTAAACTT
*
22349977 AAAT-TTTAAATAATATAAA
1 AAATATTTAAA-AATAAAAA
22349996 AAATATTTAAAAATAAAAA
1 AAATATTTAAAAATAAAAA
*
22350015 AAATTATTTAGAAAT
1 AAA-TATTTAAAAAT
22350030 TATTTTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATATTTAAAAATAAAAA
Found at i:22351004 original size:12 final size:12
Alignment explanation
Indices: 22350989--22351020 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22350979 TACTATTATT
22350989 ATTATCATCATC
1 ATTATCATCATC
*
22351001 ATTATTATCATC
1 ATTATCATCATC
22351013 ATTATCAT
1 ATTATCAT
22351021 TGTTGTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTATCATCATC
Found at i:22351004 original size:15 final size:15
Alignment explanation
Indices: 22350986--22351014 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22350976 TATTACTATT
22350986 ATTATTATCATCATC
1 ATTATTATCATCATC
22351001 ATTATTATCATCAT
1 ATTATTATCATCAT
22351015 TATCATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATTATCATCATC
Found at i:22351004 original size:18 final size:18
Alignment explanation
Indices: 22350983--22351021 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22350973 TATTATTACT
*
22350983 ATTATTATTATCATCATC
1 ATTATTATCATCATCATC
*
22351001 ATTATTATCATCATTATC
1 ATTATTATCATCATCATC
22351019 ATT
1 ATT
22351022 GTTGTTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTATTATCATCATCATC
Found at i:22351358 original size:21 final size:20
Alignment explanation
Indices: 22351315--22351374 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
22351305 TACATATTAT
* *
22351315 CATTGTTCAT-AATTTGACTC
1 CATTGTTCATGGA-TTGACCC
22351335 CATTGTTCATGGACTTGACCC
1 CATTGTTCATGGA-TTGACCC
*
22351356 CATTATTCATAGGATTGAC
1 CATTGTTCAT-GGATTGAC
22351375 ATTCTGAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (20 bp):
CATTGTTCATGGATTGACCC
Found at i:22355828 original size:8 final size:8
Alignment explanation
Indices: 22355786--22355810 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22355776 ATATAGACTA
22355786 AATAAAAT
1 AATAAAAT
22355794 AATAAAAT
1 AATAAAAT
22355802 AATAAAAT
1 AATAAAAT
22355810 A
1 A
22355811 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:22355834 original size:29 final size:31
Alignment explanation
Indices: 22355783--22355851 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
22355773 TATATATAGA
*
22355783 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
22355812 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
22355843 CTAATTAAA
1 CTAATTAAA
22355852 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:22356099 original size:31 final size:30
Alignment explanation
Indices: 22356064--22356122 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
22356054 CACCCTTAAA
* * * *
22356064 ATATTTGCACTATTATTCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCCTCAAATTTTTC
22356095 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
22356123 AAGTATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:22356465 original size:18 final size:18
Alignment explanation
Indices: 22356422--22356469 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
22356412 AGCTTAAGTG
* *
22356422 AATTTCAAACTCAAGTAA
1 AATTTCAAACTTAAGAAA
* *
22356440 ACTCTCAAACTTAAGAAA
1 AATTTCAAACTTAAGAAA
22356458 AATTTCAAACTT
1 AATTTCAAACTT
22356470 TTACCTAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (18 bp):
AATTTCAAACTTAAGAAA
Found at i:22356674 original size:70 final size:69
Alignment explanation
Indices: 22356543--22357462 Score: 578
Period size: 70 Copynumber: 13.3 Consensus size: 69
22356533 TTTATAACAT
* * * * * * * * *
22356543 CAGTTGGGAGCGTGGGCTCAG-GCTAACTACTTTGGAGGATGCGGTATTAAATCTTCGAGCCTTA
1 CAGTTGGGAGCTTGAGCTC-GCGCTAACTA-TTTGGAGGCTACAGTATTGAACCTGCAAGCCTTA
**
22356607 GGATTA
64 AAATTA
*
22356613 CAGTTGGGAGCTTGAGCTCGCGCTAACTGATTTGGAGGCTACAGTATTGAACCTACAAGCCTTAA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACT-ATTTGGAGGCTACAGTATTGAACCTGCAAGCCTTAA
22356678 AATTA
65 AATTA
***** * * * * *
22356683 CAACCAAGAGCTTGAGCTCACGCTAACTATTTTGGGGGTTGCGGTATTGAACCTGCAAGCCTTAA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTA-TTTGGAGGCTACAGTATTGAACCTGCAAGCCTTAA
*
22356748 AACTA
65 AATTA
* * * * *
22356753 CAATTGGGGAGCTTGAGCTCGTGCTAACTATTTTAGAGACTAC-GATATTGAACCTGCAAGTCTT
1 CAGTT-GGGAGCTTGAGCTCGCGCTAACTA-TTTGGAGGCTACAG-TATTGAACCTGCAAGCCTT
*
22356817 AAAACTA
63 AAAATTA
* * * ** * * * * * * *
22356824 CAGCTGAGAGCTTAAGCTTACACTAATTGTTTTGGGGGTTGC-GATATTGAACCTGCGAGCCTTA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACT-ATTTGGAGGCTACAG-TATTGAACCTGCAAGCCTTA
*
22356888 AAGTTA
64 AAATTA
* * * * *
22356894 CATTTGGGAGCTGGAGCTTGTGCTAACTATTTCAGGA-GCTAC-GATATTGAACCTACAAGCCTT
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTATTT--GGAGGCTACAG-TATTGAACCTGCAAGCCTT
*
22356957 AAAGTTA
63 AAAATTA
* * * * ** * *
22356964 TAGCTGGGAGGTTGAGCTCTCGCTAACTATTTCAGG-GGCTATGGTATTGAACATGCGAGCCTTA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTATTT--GGAGGCTACAGTATTGAACCTGCAAGCCTTA
*
22357028 AAGTTA
64 AAATTA
* * * * * * *
22357034 CAGTTAGGATCTGGAGCTTGCGCTAACTATTTCGAGGCTGCAGTATTGAACCTGCGAGCCTTAAA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTATTTGGAGGCTACAGTATTGAACCTGCAAGCCTTAAA
*
22357099 ACTA
66 ATTA
* * * * * * *
22357103 TAGCTGGGAGCTTAAGCTCGCGCTAATTATTTTGGGGGCTACAATATTGAACCTGTAAGCCTT--
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTA-TTTGGAGGCTACAGTATTGAACCTGCAAGCCTTAA
22357166 AA--A
65 AATTA
* ** *
22357169 -A-TTGGGAGTTTGAGCTCATGCTAACTATTTCAGG-GGCTACAGTATTGAACCTGCAAGCTTTA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTATTT--GGAGGCTACAGTATTGAACCTGCAAGCCTTA
22357231 AAATTA
64 AAATTA
* * *** * *
22357237 CAGTTGGGAGCTTGAGCTCTCAG-TAACTATTTTGGGGGCTGTGGCATTGAACCTGCGAGCCTTA
1 CAGTTGGGAGCTTGAGCTCGC-GCTAACTA-TTTGGAGGCTACAGTATTGAACCTGCAAGCCTTA
*
22357301 AAGTTA
64 AAATTA
** * * *** *
22357307 CAACTGGGAGCTTGAGCTCGCGCTAACTATTTTGAGGGTTGTGGTATTGAA-CTCGTAAGCCTTA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACTATTTGGA-GGCTACAGTATTGAACCT-GCAAGCCTTA
22357371 AAATTA
64 AAATTA
** * * * * * * * * *
22357377 CAACTAGAAGCTT-AACTCGCACTAACTGTTTTGG-GGCTAAAATATTAAACCTACAAGCCTTAA
1 CAGTTGGGAGCTTGAGCTCGCGCTAACT-ATTTGGAGGCTACAGTATTGAACCTGCAAGCCTTAA
22357440 AATTA
65 AATTA
* *
22357445 CAGTTGGTAGATTGAGCT
1 CAGTTGGGAGCTTGAGCT
22357463 TGCACTACTT
Statistics
Matches: 662, Mismatches: 159, Indels: 59
0.75 0.18 0.07
Matches are distributed among these distances:
63 3 0.00
64 44 0.07
65 3 0.00
66 3 0.00
68 35 0.05
69 81 0.12
70 429 0.65
71 64 0.10
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (69 bp):
CAGTTGGGAGCTTGAGCTCGCGCTAACTATTTGGAGGCTACAGTATTGAACCTGCAAGCCTTAAA
ATTA
Found at i:22356969 original size:140 final size:139
Alignment explanation
Indices: 22356564--22357338 Score: 684
Period size: 140 Copynumber: 5.6 Consensus size: 139
22356554 GTGGGCTCAG
* * * * * * * *
22356564 GCTAACTACTTTGGAGGATGCGGTATTAAATCTTCGAGCCTT-AGGATTACAGTTGGGAGCTTGA
1 GCTAACTATTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAG-TTACAGTTGGGAGCTTGA
* * ***
22356628 GCTCGCGCTAACTGATTT--GGAGGCTACAGTATTGAACCTACAAGCCTTAAAATTACAACCAAG
65 GCTCGCGCTAACT-ATTTCAGGA-GCTACAGTATTGAACCTGCAAGCCTTAAAATTACAGCTGGG
*
22356691 AGCTTGAGCTCAC
128 AGCTTGAGCT-TC
* * ** *
22356704 GCTAACTATTTTGGGGGTTGCGGTATTGAACCTGCAAGCCTTAAAACTACAATTGGGGAGCTTGA
1 GCTAACTATTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAGTTACAGTT-GGGAGCTTGA
* * * * *
22356769 GCTCGTGCTAACTATTTTA-GAGACTAC-GATATTGAACCTGCAAGTCTTAAAACTACAGCTGAG
65 GCTCGCGCTAACTATTTCAGGAG-CTACAG-TATTGAACCTGCAAGCCTTAAAATTACAGCTGGG
*
22356832 AGCTTAAGCTTAC
128 AGCTTGAGCTT-C
* * * * *
22356845 ACTAATTGTTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAGTTACATTTGGGAGCTGGAG
1 GCTAACTATTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAGTTACAGTTGGGAGCTTGAG
* * * * *
22356910 CTTGTGCTAACTATTTCAGGAGCTAC-GATATTGAACCTACAAGCCTTAAAGTTATAGCTGGGAG
66 CTCGCGCTAACTATTTCAGGAGCTACAG-TATTGAACCTGCAAGCCTTAAAATTACAGCTGGGAG
*
22356974 GTTGAGCTCTC
130 CTTGAGCT-TC
* * * * * *
22356985 GCTAACTATTTCAGGGGCTATG-G-TATTGAACATGCGAGCCTTAAAGTTACAGTTAGGATCTGG
1 GCTAACTATTT-TGGGGGT-TGCGATATTGAACCTGCGAGCCTTAAAGTTACAGTTGGGAGCTTG
* * * * *
22357048 AGCTTGCGCTAACTATTTC--GAGGCTGCAGTATTGAACCTGCGAGCCTTAAAACTATAGCTGGG
64 AGCTCGCGCTAACTATTTCAGGA-GCTACAGTATTGAACCTGCAAGCCTTAAAATTACAGCTGGG
* *
22357111 AGCTTAAGCTCGC
128 AGCTTGAGCT-TC
* * * * ** *
22357124 GCTAATTATTTTGGGGGCTACAATATTGAACCTGTAAGCCTT-AA---A-A-TTGGGAGTTTGAG
1 GCTAACTATTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAGTTACAGTTGGGAGCTTGAG
** * * *
22357183 CTCATGCTAACTATTTCAGGGGCTACAGTATTGAACCTGCAAGCTTTAAAATTACAGTTGGGAGC
66 CTCGCGCTAACTATTTCAGGAGCTACAGTATTGAACCTGCAAGCCTTAAAATTACAGCTGGGAGC
22357248 TTGAGCTCTC
131 TTGAGCT-TC
* * ** **
22357258 AG-TAACTATTTTGGGGGCTGTGGCATTGAACCTGCGAGCCTTAAAGTTACAACTGGGAGCTTGA
1 -GCTAACTATTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAGTTACAGTTGGGAGCTTGA
22357322 GCTCGCGCTAACTATTT
65 GCTCGCGCTAACTATTT
22357339 TGAGGGTTGT
Statistics
Matches: 517, Mismatches: 94, Indels: 48
0.78 0.14 0.07
Matches are distributed among these distances:
133 23 0.04
134 79 0.15
135 5 0.01
137 1 0.00
138 9 0.02
139 71 0.14
140 204 0.39
141 123 0.24
142 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (139 bp):
GCTAACTATTTTGGGGGTTGCGATATTGAACCTGCGAGCCTTAAAGTTACAGTTGGGAGCTTGAG
CTCGCGCTAACTATTTCAGGAGCTACAGTATTGAACCTGCAAGCCTTAAAATTACAGCTGGGAGC
TTGAGCTTC
Found at i:22382870 original size:41 final size:41
Alignment explanation
Indices: 22382771--22382871 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
22382761 TTCCGAATCT
* * *
22382771 ATGAAAAGGTTGAAAAGAAAGTTATCTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAGATATCCGAAAAGGATAACAA
* **
22382812 ATGAAAAGGTTGAAAAGGATGATATCCGAAAAGGATATGAA
1 ATGAAAAGGTTGAAAAGGAAGATATCCGAAAAGGATAACAA
22382853 ATGAAAAGGTTGAAAAGGA
1 ATGAAAAGGTTGAAAAGGA
22382872 CAATATTTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.51, C:0.04, G:0.26, T:0.19
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGAAGATATCCGAAAAGGATAACAA
Found at i:22385715 original size:47 final size:45
Alignment explanation
Indices: 22385605--22385876 Score: 293
Period size: 47 Copynumber: 5.8 Consensus size: 45
22385595 TTATTTGTGT
* * *
22385605 GCCAATGTAAGACATGTCTGGGACATAGCATCGGCATTGAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATT--GATGAGA
*
22385652 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGATGAGA
22385698 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATT--GATGAGA
* * *
22385746 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCAT--TGATG-AGA
* *
22385792 GCCAGTGTAAGACATGTCTAGGACATGGCATCGAC-TTGATGGATGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAT-GA-GA
*
22385838 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATT
22385877 ATACCCTATG
Statistics
Matches: 196, Mismatches: 12, Indels: 33
0.81 0.05 0.14
Matches are distributed among these distances:
44 4 0.02
45 5 0.03
46 75 0.38
47 82 0.42
48 26 0.13
49 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGATGAGA
Found at i:22385740 original size:94 final size:92
Alignment explanation
Indices: 22385605--22385873 Score: 364
Period size: 94 Copynumber: 2.9 Consensus size: 92
22385595 TTATTTGTGT
* *
22385605 GCCAATGTAAGACATGTCTGGGACATAGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGA-GAGAGCTAGTGTAAGACATGTC
**
22385670 TGGGACATGCATCGGCCACATTATG-AGA
65 TGGGACATGCATCGGCCACAAGATGTA-A
22385698 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGA-GAGAGCTAGTGTAAGACATGT
*
22385763 CTGGGACATGCATCGGCCTCAAGATGTAA
64 CTGGGACATGCATCGGCCACAAGATGTAA
* * *
22385792 GCCAGTGTAAGACATGTCTAGGACATGGCATCGAC-TTGATG-GATGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGA-GAGA-GAGCTAGTGTAAGA-CATG
*
22385855 TCTAGGACATGGCATCGGC
63 TCTGGGACAT-GCATCGGC
22385874 ATTATACCCT
Statistics
Matches: 160, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
91 2 0.01
92 17 0.11
93 46 0.29
94 94 0.59
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (92 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGAGAGAGCTAGTGTAAGACATGTCT
GGGACATGCATCGGCCACAAGATGTAA
Found at i:22385863 original size:140 final size:140
Alignment explanation
Indices: 22385610--22385876 Score: 382
Period size: 140 Copynumber: 1.9 Consensus size: 140
22385600 TGTGTGCCAA
** * *
22385610 TGTAAGACATGTCTGGGACATAGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGA
1 TGTAAGACATGTCTGGGACATAGCATCGGCATCAAGACGAGAGCCAGTGTAAGACATGTCTAGGA
*
22385675 CATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
66 CATGCATCGG-CACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAG
22385740 ATGAGAGCTAG
130 ATGAGAGCTAG
* *
22385751 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATGTA-AGCCAGTGTAAGACATGTCTAGG
1 TGTAAGACATGTCTGGGACATAGCATCGGCATCAAGACG-AGAGCCAGTGTAAGACATGTCTAGG
22385814 ACATGGCATC-G-AC-TTGATGGATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
65 ACAT-GCATCGGCACATT-AT-GA-GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT
22385876 T
126 T
22385877 ATACCCTATG
Statistics
Matches: 114, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
137 2 0.02
138 4 0.04
139 2 0.02
140 79 0.69
141 27 0.24
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
TGTAAGACATGTCTGGGACATAGCATCGGCATCAAGACGAGAGCCAGTGTAAGACATGTCTAGGA
CATGCATCGGCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGA
TGAGAGCTAG
Found at i:22396457 original size:50 final size:51
Alignment explanation
Indices: 22396364--22396546 Score: 161
Period size: 51 Copynumber: 3.6 Consensus size: 51
22396354 TAAAATGGTT
* * *** *
22396364 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAGC
* *
22396414 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAGC
* * * * * ** **
22396465 TTCGATCACATGTGTGGTATTAAGTGCAGGCCACTATGTGTAAAAGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAGC
* * * * *
22396516 TTTGGTCACAAGTGTGGTACTATGTGAAGGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGC
22396547 CACTTTGTGA
Statistics
Matches: 107, Mismatches: 25, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 41 0.38
51 66 0.62
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAGC
Found at i:22396514 original size:51 final size:51
Alignment explanation
Indices: 22396425--22396600 Score: 167
Period size: 51 Copynumber: 3.5 Consensus size: 51
22396415 TAGGTCGCAT
* * ** *** * *
22396425 GTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAGCTTCGATCACAT
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAA
* *
22396476 GTGTGGTATTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAA
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAA
* * * *
22396527 GTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA-CTACAA
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGATC-ACAA
* *
22396578 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTAAGTGCAGGCCAC
22396601 CGGGTATCAG
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 3 0.03
51 101 0.97
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (51 bp):
GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATCACAA
Found at i:22401109 original size:21 final size:21
Alignment explanation
Indices: 22401085--22401136 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
22401075 TAACTTTCCC
22401085 TTAACTTAACCCGAGTGTCCT
1 TTAACTTAACCCGAGTGTCCT
22401106 TTAACTTAACCCGAGTGTCCT
1 TTAACTTAACCCGAGTGTCCT
22401127 TTAACTTAAC
1 TTAACTTAAC
22401137 TCAAGTCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (21 bp):
TTAACTTAACCCGAGTGTCCT
Found at i:22408682 original size:37 final size:37
Alignment explanation
Indices: 22408641--22408721 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
22408631 AACATGAAGC
* *
22408641 AAGAACTCCTTCCTCCTTCCTTAGAATTTTCGGCCAA
1 AAGAAATCATTCCTCCTTCCTTAGAATTTTCGGCCAA
*
22408678 AAGAAATGATTCCTCCTTCCTTAGAATTTTCGGCCAA
1 AAGAAATCATTCCTCCTTCCTTAGAATTTTCGGCCAA
22408715 AAGAAAT
1 AAGAAAT
22408722 GAAAAAGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (37 bp):
AAGAAATCATTCCTCCTTCCTTAGAATTTTCGGCCAA
Found at i:22408722 original size:37 final size:37
Alignment explanation
Indices: 22408650--22408723 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
22408640 CAAGAACTCC
22408650 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
22408687 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
22408724 AAAAGGATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (37 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGA
Found at i:22415427 original size:40 final size:40
Alignment explanation
Indices: 22415357--22415524 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
22415347 CGGGGTTTAG
** * *
22415357 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
22415396 CCGGATATGGTCACTGGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
22415436 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
22415476 CCAGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
22415517 CCGGATAT
1 CCGGATAT
22415525 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 15 0.14
40 61 0.59
41 28 0.27
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:22415507 original size:41 final size:39
Alignment explanation
Indices: 22415420--22415524 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 39
22415410 TGGCATAAAT
* *
22415420 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCAGATATAGTCGCTAGCACAAAA
* *
22415460 GCCTTCGGATCTTAGTCCAGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCAGATATAGTCGC-TAGCACAAAA
*
22415501 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTC-GGACTTAGCCCAGATAT
22415525 CATTCGAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 3 0.05
40 23 0.42
41 26 0.47
42 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCAGATATAGTCGCTAGCACAAAA
Found at i:22428776 original size:49 final size:49
Alignment explanation
Indices: 22428720--22428842 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 49
22428710 TATTTGAATA
* * *
22428720 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATG
* * * *
22428769 AATGTGAAAGTG--TATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATG
*
22428816 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
22428843 TCCCGAAGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
47 46 0.75
48 1 0.02
49 14 0.23
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATG
Found at i:22429011 original size:37 final size:37
Alignment explanation
Indices: 22428961--22429066 Score: 167
Period size: 37 Copynumber: 2.9 Consensus size: 37
22428951 CCGAGCTCTA
* * *
22428961 AAGACCCAATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
22428998 AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
* *
22429035 AAGACCCGATAACTTCATGTGGAGATTTTGTC
1 AAGACCCGATGACTACATGTGGAGATTTTGTC
22429067 TGAGCTAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACATGTGGAGATTTTGTCCGGGT
Found at i:22436669 original size:47 final size:49
Alignment explanation
Indices: 22436601--22436731 Score: 135
Period size: 55 Copynumber: 2.6 Consensus size: 49
22436591 GTGATTACAT
*
22436601 GTAAGACCACATTTGGA-ACGTTGGCATTGT-A-C-GATATGTGTATGCGA
1 GTAAGACCACATTT-AATACGTTGGCATTGTGATCTG-TATGTGTATGCGA
* *
22436648 GTAAGACCACGTTTAATACGTTGGAATCAATATGTGATTCTGTATGTGTGTGCGA
1 GTAAGACCACATTTAATACGTTGG---C-AT-TGTGA-TCTGTATGTGTATGCGA
22436703 GTAAGACCACATTTAATACGTTGGCATTG
1 GTAAGACCACATTTAATACGTTGGCATTG
22436732 ATATGTGATT
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
46 1 0.01
47 20 0.29
50 3 0.04
51 4 0.06
52 4 0.06
53 1 0.01
55 36 0.51
56 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (49 bp):
GTAAGACCACATTTAATACGTTGGCATTGTGATCTGTATGTGTATGCGA
Found at i:22436702 original size:55 final size:56
Alignment explanation
Indices: 22436632--22436766 Score: 191
Period size: 55 Copynumber: 2.4 Consensus size: 56
22436622 TGGCATTGTA
*
22436632 CGATATGTGTATGCGAGTAAGACCACGTTTAATACGTTGGAATCAATATGTGATTC
1 CGATATGTGTATGCGAGTAAGACCACATTTAATACGTTGGAATCAATATGTGATTC
* * * **
22436688 TG-TATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATTGATATGTGATTC
1 CGATATGTGTATGCGAGTAAGACCACATTTAATACGTTGGAATCAATATGTGATTC
* *
22436743 CGATATGTGTTTACGAGTAAGACC
1 CGATATGTGTATGCGAGTAAGACC
22436767 CTATTTGGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 49 0.71
56 20 0.29
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
CGATATGTGTATGCGAGTAAGACCACATTTAATACGTTGGAATCAATATGTGATTC
Found at i:22436784 original size:56 final size:55
Alignment explanation
Indices: 22436635--22436793 Score: 160
Period size: 55 Copynumber: 2.9 Consensus size: 55
22436625 CATTGTACGA
* * * * * * *
22436635 TATGTGTATGCGAGTAAGACCACGTTTAATACGTTGGAATCAATATGTGATTCTG
1 TATGTGTGTACGAGTAAGACCACATTTAAGACGTTGGCATCGATATGTGATTCCG
* * *
22436690 TATGTGTGTGCGAGTAAGACCACATTTAATACGTTGGCATTGATATGTGATTCCG
1 TATGTGTGTACGAGTAAGACCACATTTAAGACGTTGGCATCGATATGTGATTCCG
* **
22436745 ATATGTGTTTACGAGTAAGACC-CTATTTGGGACAG-TGGCATCGATATGT
1 -TATGTGTGTACGAGTAAGACCAC-ATTTAAGAC-GTTGGCATCGATATGT
22436794 AATTACATGT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
55 50 0.56
56 38 0.43
57 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (55 bp):
TATGTGTGTACGAGTAAGACCACATTTAAGACGTTGGCATCGATATGTGATTCCG
Found at i:22438084 original size:13 final size:14
Alignment explanation
Indices: 22438056--22438088 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22438046 CATTTTGACC
*
22438056 ATGTTTATATTTAT
1 ATGTTTATATTGAT
22438070 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
22438083 ATGTTT
1 ATGTTT
22438089 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:22440682 original size:27 final size:27
Alignment explanation
Indices: 22440642--22440712 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
22440632 TCTCCCTTAG
22440642 GGGAATTTCGGTAATTTTAAAAGTCAA
1 GGGAATTTCGGTAATTTTAAAAGTCAA
* * * * * *
22440669 GGGTATTTCAGTAATTATATAGGTCGA
1 GGGAATTTCGGTAATTTTAAAAGTCAA
22440696 GGGAATTTCGGTAATTT
1 GGGAATTTCGGTAATTT
22440713 CACACATTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (27 bp):
GGGAATTTCGGTAATTTTAAAAGTCAA
Found at i:22442079 original size:4 final size:4
Alignment explanation
Indices: 22442070--22442096 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22442060 TATTTGCAAA
22442070 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
22442097 ACAAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:22445777 original size:40 final size:40
Alignment explanation
Indices: 22445722--22445896 Score: 273
Period size: 40 Copynumber: 4.4 Consensus size: 40
22445712 GATGATAACT
22445722 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
22445762 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
* * * *
22445802 GGGCTAAGACCCGAAGGTATTTGTGAGAGTTGTTGTATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
* *
22445842 GGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
22445882 -GGCTAA-ATCCCGAAG
1 GGGCTAAGA-CCCGAAG
22445897 ATACTTGGGG
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 112 0.90
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
Found at i:22446165 original size:22 final size:22
Alignment explanation
Indices: 22446123--22446166 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22446113 AAAATGTGCA
* *
22446123 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
22446145 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
22446167 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:22453929 original size:40 final size:40
Alignment explanation
Indices: 22453882--22454058 Score: 259
Period size: 40 Copynumber: 4.5 Consensus size: 40
22453872 CGGATGATAA
* *
22453882 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
22453922 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
22453962 TCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
22454002 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
22454042 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
22454059 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 110 0.89
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:22454327 original size:22 final size:22
Alignment explanation
Indices: 22454285--22454328 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22454275 AAAATGTGCA
* *
22454285 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
22454307 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
22454329 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:22456770 original size:18 final size:18
Alignment explanation
Indices: 22456747--22456850 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
22456737 TAATTTAGTC
22456747 ATTCAGTAACTATCAAGT
1 ATTCAGTAACTATCAAGT
* **
22456765 ATTCAGTACAGTAGTTTAGTT
1 ATTCAGTA-ACTA-TCAAG-T
* *
22456786 ATTCAATAACTATCAATT
1 ATTCAGTAACTATCAAGT
* * **
22456804 ATTCAATATAGTAATTTAGTT
1 ATTCAGTA-ACT-ATCAAG-T
*
22456825 ATTCAGTAACTATCAATT
1 ATTCAGTAACTATCAAGT
22456843 ATTCAGTA
1 ATTCAGTA
22456851 CAGTAGTTTA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 26 0.41
19 10 0.16
20 11 0.17
21 16 0.25
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
ATTCAGTAACTATCAAGT
Found at i:22456783 original size:39 final size:39
Alignment explanation
Indices: 22456724--22456860 Score: 202
Period size: 39 Copynumber: 3.5 Consensus size: 39
22456714 TAACAATTAG
* *
22456724 TTATTCAGTACAATAATTTAGTCATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* * *
22456763 GTATTCAGTACAGTAGTTTAGTTATTCAATAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* *
22456802 TTATTCAATATAGTAATTTAGTTATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
*
22456841 TTATTCAGTACAGTAGTTTA
1 TTATTCAGTACAGTAATTTA
22456861 CCCCCATTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (39 bp):
TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
Found at i:22456806 original size:78 final size:78
Alignment explanation
Indices: 22456710--22456860 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 78
22456700 TATCATACAA
* * *
22456710 TCAATAACAATTAGTTATTCAGTACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
1 TCAATAACAATCAATTATTCAATACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
22456775 GTAGTTTAGTTAT
66 GTAGTTTAGTTAT
* * * * *
22456788 TCAATAACTATCAATTATTCAATATAGTAATTTAGTTATTCAGTAACTATCAATTATTCAGTACA
1 TCAATAACAATCAATTATTCAATACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
22456853 GTAGTTTA
66 GTAGTTTA
22456861 CCCCCATTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (78 bp):
TCAATAACAATCAATTATTCAATACAATAATTTAGTCATTCAGTAACTATCAAGTATTCAGTACA
GTAGTTTAGTTAT
Found at i:22457052 original size:44 final size:44
Alignment explanation
Indices: 22457003--22457094 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
22456993 TCGAAGTGAC
*
22457003 AGTAACAGTACGACACACA-AGGTGCCTCATCGACTCAAAGTCAA
1 AGTAACAGTACGACACACATA-GTGCCTCATCAACTCAAAGTCAA
** * *
22457047 AGTAACAGTACGACACTTATAGTGCCTCATCAACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCAA
22457091 AGTA
1 AGTA
22457095 TCCCTGAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCAACTCAAAGTCAA
Found at i:22465062 original size:24 final size:24
Alignment explanation
Indices: 22465030--22465356 Score: 121
Period size: 24 Copynumber: 13.6 Consensus size: 24
22465020 AAGGAAATTT
* *
22465030 GCACCCATAGTGCCATGTTAACCC
1 GCACACATAGTGCCATGTAAACCC
* *
22465054 GCACACATAGTGCC-T-TAGTACTTC
1 GCACACATAGTGCCATGTA-AAC-CC
* * * * *
22465078 ACATACATATTGACAT-TCAAATCC
1 GCACACATAGTGCCATGT-AAACCC
* *
22465102 GCACACATAGTGCCATATAAATCC
1 GCACACATAGTGCCATGTAAACCC
** **
22465126 GCACACATAGTGCCATACAAATTC
1 GCACACATAGTGCCATGTAAACCC
* * **
22465150 GCACACATAGTACCTTAGT-AATTC
1 GCACACATAGTGCCAT-GTAAACCC
* * * * *
22465174 ACATACATATTGACAT-TCAAATCC
1 GCACACATAGTGCCATGT-AAACCC
* *
22465198 GCACACATAGTGCCATATAAATCC
1 GCACACATAGTGCCATGTAAACCC
** **
22465222 GCACACATAGTGCCATACAAATTC
1 GCACACATAGTGCCATGTAAACCC
* * **
22465246 GCACACATAGTACCTTAGT-AATTC
1 GCACACATAGTGCCAT-GTAAACCC
* * * * *
22465270 ACATACATATTGACAT-TCAAATCC
1 GCACACATAGTGCCATGT-AAACCC
* **
22465294 GCACACATAGTGCCATATAAATTC
1 GCACACATAGTGCCATGTAAACCC
***
22465318 GCACACATAGTGCCAT-TCAAATTA
1 GCACACATAGTGCCATGT-AAACCC
22465342 GCACACATAGTGCCA
1 GCACACATAGTGCCA
22465357 AATTCATTTC
Statistics
Matches: 238, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.01
23 4 0.02
24 224 0.94
25 6 0.03
26 1 0.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCCATGTAAACCC
Found at i:22465112 original size:48 final size:48
Alignment explanation
Indices: 22465052--22465356 Score: 328
Period size: 48 Copynumber: 6.4 Consensus size: 48
22465042 CCATGTTAAC
* * * *
22465052 CCGCACACATAGTGCCTTAGT-ACTTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATA-TAAATTCACACACATAGTGACATTCAAAT
* * * *
22465100 CCGCACACATAGTGCCATATAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
* * * * *
22465148 TCGCACACATAGTACCTTAGT-AATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATA-TAAATTCACACACATAGTGACATTCAAAT
* * * *
22465196 CCGCACACATAGTGCCATATAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
* * * * *
22465244 TCGCACACATAGTACCTTAGT-AATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATA-TAAATTCACACACATAGTGACATTCAAAT
* *
22465292 CCGCACACATAGTGCCATATAAATTCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
**
22465340 TAGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
22465357 AATTCATTTC
Statistics
Matches: 208, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
47 3 0.01
48 203 0.98
49 2 0.01
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (48 bp):
CCGCACACATAGTGCCATATAAATTCACACACATAGTGACATTCAAAT
Found at i:22465169 original size:96 final size:96
Alignment explanation
Indices: 22465053--22465352 Score: 555
Period size: 96 Copynumber: 3.1 Consensus size: 96
22465043 CATGTTAACC
* *
22465053 CGCACACATAGTGCCTTAGTACTTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
22465118 ATAAATCCGCACACATAGTGCCATACAAATT
66 ATAAATCCGCACACATAGTGCCATACAAATT
22465149 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
22465214 ATAAATCCGCACACATAGTGCCATACAAATT
66 ATAAATCCGCACACATAGTGCCATACAAATT
22465245 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
1 CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
* *
22465310 ATAAATTCGCACACATAGTGCCATTCAAATT
66 ATAAATCCGCACACATAGTGCCATACAAATT
*
22465341 AGCACACATAGT
1 CGCACACATAGT
22465353 GCCAAATTCA
Statistics
Matches: 199, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 199 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (96 bp):
CGCACACATAGTACCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCAT
ATAAATCCGCACACATAGTGCCATACAAATT
Found at i:22465361 original size:26 final size:25
Alignment explanation
Indices: 22465092--22465362 Score: 189
Period size: 24 Copynumber: 11.2 Consensus size: 25
22465082 ACATATTGAC
*
22465092 ATTCAAATCCGCACACATAGTGCC-
1 ATTCAAATTCGCACACATAGTGCCA
*
22465116 ATAT-AAATCCGCACACATAGTGCC-
1 AT-TCAAATTCGCACACATAGTGCCA
* *
22465140 ATACAAATTCGCACACATAGTACC-
1 ATTCAAATTCGCACACATAGTGCCA
* * * *
22465164 -TT-AGTAATTCACATACATATTGAC-
1 ATTCA--AATTCGCACACATAGTGCCA
*
22465188 ATTCAAATCCGCACACATAGTGCC-
1 ATTCAAATTCGCACACATAGTGCCA
*
22465212 ATAT-AAATCCGCACACATAGTGCC-
1 AT-TCAAATTCGCACACATAGTGCCA
* *
22465236 ATACAAATTCGCACACATAGTACC-
1 ATTCAAATTCGCACACATAGTGCCA
* * * *
22465260 -TT-AGTAATTCACATACATATTGAC-
1 ATTCA--AATTCGCACACATAGTGCCA
*
22465284 ATTCAAATCCGCACACATAGTGCC-
1 ATTCAAATTCGCACACATAGTGCCA
22465308 ATAT-AAATTCGCACACATAGTGCC-
1 AT-TCAAATTCGCACACATAGTGCCA
*
22465332 ATTCAAATTAGCACACATAGTGCCAA
1 ATTCAAATTCGCACACATAGTGCC-A
22465358 ATTCA
1 ATTCA
22465363 TTTCGTTTTA
Statistics
Matches: 201, Mismatches: 30, Indels: 30
0.77 0.11 0.11
Matches are distributed among these distances:
22 2 0.01
23 3 0.01
24 182 0.91
25 7 0.03
26 7 0.03
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.25
Consensus pattern (25 bp):
ATTCAAATTCGCACACATAGTGCCA
Found at i:22469266 original size:14 final size:14
Alignment explanation
Indices: 22469247--22469285 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
22469237 AAAAAGAAAA
22469247 TTTGGGAAAATACT
1 TTTGGGAAAATACT
*
22469261 TTTGGGAAAATATT
1 TTTGGGAAAATACT
22469275 TTTGGGAAAAT
1 TTTGGGAAAAT
22469286 TTGATTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (14 bp):
TTTGGGAAAATACT
Found at i:22470768 original size:53 final size:53
Alignment explanation
Indices: 22470706--22470810 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
22470696 TATGCCGCCT
*
22470706 CATTCCTCTTTAATAGCTTAATT-TCCATTTTGGTCCTTATTATTTTCTTTTAG
1 CATTCCTCTTTAATAGCTTAATTGT-CATTTTGGTCCTCATTATTTTCTTTTAG
*
22470759 CATTCCTCTTTAATGGCTTAATTGTCATTTTGGTCCTCATTATTTTCTTTTA
1 CATTCCTCTTTAATAGCTTAATTGTCATTTTGGTCCTCATTATTTTCTTTTA
22470811 CTTTATTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 48 0.98
54 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.54
Consensus pattern (53 bp):
CATTCCTCTTTAATAGCTTAATTGTCATTTTGGTCCTCATTATTTTCTTTTAG
Found at i:22478269 original size:40 final size:40
Alignment explanation
Indices: 22478091--22478262 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
22478081 GCTACTCGTT
* *
22478091 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
22478131 CAAATGTCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
22478171 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* *
22478211 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
22478250 CAAATGCCTTCGG
1 CAAATGCCTTCGG
22478263 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 33 0.28
40 85 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:22478898 original size:56 final size:56
Alignment explanation
Indices: 22478831--22479006 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
22478821 TATTAGTTTA
*
22478831 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
22478887 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
22478943 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
22478999 TTGCCCAT
1 TTGCCCAT
22479007 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:22485023 original size:40 final size:40
Alignment explanation
Indices: 22484845--22485069 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
22484835 GCTACTTGTT
* *
22484845 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
22484885 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
22484925 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* *
22484965 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
22485004 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
22485045 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22485070 CATCATTCAA
Statistics
Matches: 161, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 113 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:22485053 original size:79 final size:79
Alignment explanation
Indices: 22484845--22485069 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 79
22484835 GCTACTTGTT
* * ** * * *
22484845 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
22484910 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
22484925 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
22484989 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
22485004 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
22485068 GA
64 GA
22485070 CATCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 58 0.47
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:22485053 original size:119 final size:120
Alignment explanation
Indices: 22484847--22485067 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 120
22484837 TACTTGTTCA
*
22484847 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
22484912 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
* * * **
22484967 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
22485029 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
22485068 GACATCATTC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
Found at i:22486029 original size:39 final size:39
Alignment explanation
Indices: 22485985--22486130 Score: 184
Period size: 39 Copynumber: 3.7 Consensus size: 39
22485975 TCATATTTAA
* * * *
22485985 TCAGTAACAATTAGTTATTCAGTACAGTAATTTAGTCAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* * * *
22486024 TCAGTAACTATCAAATATTTAGTGCAGTAGTTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* * **
22486063 TCAATAATTATCAATTATTCAAAACAGTAATTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
22486102 TCAGTAACTATCAATTATTCAGTACAGTA
1 TCAGTAACTATCAATTATTCAGTACAGTA
22486131 GCTTACCCCT
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (39 bp):
TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
Found at i:22486742 original size:8 final size:9
Alignment explanation
Indices: 22486727--22486762 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
22486717 TCTATTTCCC
22486727 CTTTTTTTT
1 CTTTTTTTT
22486736 CTTTTTTTT
1 CTTTTTTTT
22486745 CTTCTTTCTTT
1 CTT-TTT-TTT
22486756 CTTTTTT
1 CTTTTTT
22486763 CCTGCTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.52
10 6 0.24
11 6 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:22486886 original size:24 final size:25
Alignment explanation
Indices: 22486854--22486918 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 25
22486844 TGTTTTATTT
*
22486854 ATTTTATTAACTTAATATAT-TATA
1 ATTTAATTAACTTAATATATCTATA
*
22486878 ATTTAATT-ACTATAA-ATATCTATC
1 ATTTAATTAACT-TAATATATCTATA
*
22486902 ATATAATTAA--TAATATA
1 ATTTAATTAACTTAATATA
22486919 ATAGAAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 20 0.59
25 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTAATTAACTTAATATATCTATA
Found at i:22507183 original size:43 final size:43
Alignment explanation
Indices: 22507131--22507299 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
22507121 ATAGGATTCT
* *
22507131 GATATGTGATTTCGTGTAAGACCACGTCTGGGAAATTGGCATC
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* * *
22507174 GATTTGTGATTTGCATGTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCATC
* * ** * * **
22507218 G-TATATGAGTTCATGTAAGACCTTGTCTAGGACAGTGGTGTC
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* * *
22507260 GATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGC
1 GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGC
22507300 GTTGTATGAA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 26 0.26
43 46 0.46
44 28 0.28
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
GATATGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:22514630 original size:43 final size:42
Alignment explanation
Indices: 22514574--22514730 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 42
22514564 ATATTGTACA
*
22514574 ATGCCAACT-TCCTAGATGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACTGTCCTAGACGTGGTCTTACATG-AATCACAT-TCG
*
22514617 ATGCC-ACTGTCCTAGACAGT-GTCTTACACGAATCACAATTACG
1 ATGCCAACTGTCCTAGAC-GTGGTCTTACATGAATCAC-ATT-CG
* * *
22514660 ATGCCAA-TGTCCCAGACATGGTCTTA-ATCGAAATCACATATCA
1 ATGCCAACTGTCCTAGACGTGGTCTTACAT-G-AATCACAT-TCG
22514703 ATGCCAAC-GTCCTAGACGTGGTCTTACA
1 ATGCCAACTGTCCTAGACGTGGTCTTACA
22514731 CGAGAACACA
Statistics
Matches: 95, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
42 12 0.13
43 72 0.76
44 11 0.12
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCAACTGTCCTAGACGTGGTCTTACATGAATCACATTCG
Found at i:22515287 original size:28 final size:26
Alignment explanation
Indices: 22515253--22515304 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
22515243 CACAATTCAT
*
22515253 TTATTTTACATTTTAGTCCCTCAATTTA
1 TTATTTTACAATTTAG-CCCT-AATTTA
*
22515281 TTATTTTGCAATTTAGCCCTAATT
1 TTATTTTACAATTTAGCCCTAATT
22515305 ACTCAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 4 0.18
28 14 0.64
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (26 bp):
TTATTTTACAATTTAGCCCTAATTTA
Found at i:22515502 original size:17 final size:18
Alignment explanation
Indices: 22515471--22515505 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22515461 GAAGCAACGA
22515471 TATCAAAAACGTAAAAAT
1 TATCAAAAACGTAAAAAT
22515489 TATCAAAAAC-TAAAAAT
1 TATCAAAAACGTAAAAAT
22515506 AAAACATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (18 bp):
TATCAAAAACGTAAAAAT
Found at i:22520698 original size:31 final size:31
Alignment explanation
Indices: 22520653--22520807 Score: 240
Period size: 31 Copynumber: 5.0 Consensus size: 31
22520643 TTAGTCTTGA
22520653 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
22520683 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* * *
22520714 CAAATCACTAGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
22520745 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
22520776 CATATCATTGGGCCGAAGCCTTTACAGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCA-TAAAT
22520808 GGTTTGGCCC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
30 5 0.04
31 103 0.91
32 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:22520869 original size:42 final size:42
Alignment explanation
Indices: 22520822--22520913 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
22520812 TGGCCCTTAG
* **
22520822 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
*
22520864 GCCCATTTCAATATCACATGAAATACCAATGTATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
22520906 GCCCATTT
1 GCCCATTT
22520914 GGGGGGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
Found at i:22521001 original size:38 final size:38
Alignment explanation
Indices: 22520956--22521047 Score: 184
Period size: 38 Copynumber: 2.4 Consensus size: 38
22520946 TCCACCCATA
22520956 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
22520994 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
22521032 CCAGCCCTACACTCCA
1 CCAGCCCTACACTCCA
22521048 CAGTTGCAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.15
Consensus pattern (38 bp):
CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
Found at i:22522073 original size:27 final size:27
Alignment explanation
Indices: 22522043--22522128 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
22522033 GTAAATCTAC
22522043 AAACCAAGGGTATTTCGT-TAATTTTGT
1 AAACCAAGGGTATTTC-TATAATTTTGT
*
22522070 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
22522096 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
22522126 AAA
1 AAA
22522129 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.04
27 22 0.45
28 6 0.12
29 18 0.37
30 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:22522211 original size:27 final size:27
Alignment explanation
Indices: 22522133--22522533 Score: 180
Period size: 27 Copynumber: 14.9 Consensus size: 27
22522123 TGTAAATTAG
* *
22522133 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
22522159 GGGGTATTTTGGAAATTTTCCT-AATCGA
1 -GGGTATTTTGGTAATTTT-ATAAATCGA
* *
22522187 AGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
22522214 GGGTAAAATGATAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * * *
22522241 GGGTAAAACGGTAATTCTAGAAATCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
***** * **
22522268 GGGTAAAACAGTAATTCTAGGAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** *
22522295 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
***** * *
22522322 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
22522349 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * *
22522376 GGGCATTTTAGTAATTTTA-CAATCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
22522402 TGGTATTTTGGTAATTTTATAAACCGG
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
22522429 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* ** *
22522456 AGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
** * *
22522483 GGGTATTTCAGTAATTTTACAAA-CTAA
1 GGGTATTTTGGTAATTTTATAAATC-GA
* *
22522510 GGTTATTTCGGTAATTTTAGTAAA
1 GGGTATTTTGGTAATTTTA-TAAA
22522534 CTAAAGTATT
Statistics
Matches: 304, Mismatches: 64, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
26 23 0.08
27 276 0.91
28 5 0.02
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:22522282 original size:81 final size:81
Alignment explanation
Indices: 22522197--22522378 Score: 222
Period size: 81 Copynumber: 2.2 Consensus size: 81
22522187 AGGTATTTTG
* *
22522197 GTAATTTTGTAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTAGA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTAGA
22522262 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * * *
22522278 GTAATTCTAG-GAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
1 GTAATT-TTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTAG
** **
22522342 AAATTGAGGGTAAAATG
65 AAATCAAGGGTAAAACA
* *
22522359 GTAATTCTATAAATCGAGGG
1 GTAATTTTGTAAATCGAGGG
22522379 CATTTTAGTA
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
81 81 0.98
82 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTAGA
AATCAAGGGTAAAACA
Found at i:22522391 original size:54 final size:54
Alignment explanation
Indices: 22522196--22522378 Score: 251
Period size: 54 Copynumber: 3.4 Consensus size: 54
22522186 AAGGTATTTT
* * *
22522196 GGTAATTTTGTAAATCGAGGGTAAAA-TGATAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAAC
* * **
22522250 GGTAATTCTAGAAATCAAGGGTAAAACAGTAATTCTAGGAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC
* * * *
22522304 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC
22522358 GGTAATTCTATAAATCGAGGG
1 GGTAATTCTATAAATCGAGGG
22522379 CATTTTAGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 110 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:22524764 original size:31 final size:31
Alignment explanation
Indices: 22524719--22524873 Score: 240
Period size: 31 Copynumber: 5.0 Consensus size: 31
22524709 TTAGTCTTGA
22524719 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
22524749 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* * *
22524780 CAAATCACTAGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
22524811 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
22524842 CATATCATTGGGCCGAAGCCTTTACAGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCA-TAAAT
22524874 GGTTTGGCCC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
30 5 0.04
31 103 0.91
32 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:22524935 original size:42 final size:42
Alignment explanation
Indices: 22524888--22524979 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
22524878 TGGCCCTTAG
* **
22524888 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
*
22524930 GCCCATTTCAATATCACATGAAATACCAATGTATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
22524972 GCCCATTT
1 GCCCATTT
22524980 GGGGGGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGGATGTATGCAA
Found at i:22525067 original size:38 final size:38
Alignment explanation
Indices: 22525022--22525113 Score: 184
Period size: 38 Copynumber: 2.4 Consensus size: 38
22525012 TCCACCCATA
22525022 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
22525060 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
22525098 CCAGCCCTACACTCCA
1 CCAGCCCTACACTCCA
22525114 CAGTTGCAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.15
Consensus pattern (38 bp):
CCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCAC
Found at i:22526054 original size:27 final size:27
Alignment explanation
Indices: 22525992--22526069 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
22525982 GGGCATATTC
22525992 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
22526019 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
22526046 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
22526070 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:22526140 original size:27 final size:27
Alignment explanation
Indices: 22526110--22526234 Score: 96
Period size: 27 Copynumber: 4.6 Consensus size: 27
22526100 GTAAATCTAC
22526110 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
22526137 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
** *
22526163 AGAAAGTTAAGGGTATTTCTATAACTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* **
22526193 AAATC-AGAGGTATTT-TGATAATTTTAC
1 AAACCAAG-GGTATTTCT-ATAATTTTGT
*
22526220 AAACCAGGGGTATTT
1 AAACCAAGGGTATTT
22526235 TGGTAATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
26 4 0.05
27 48 0.61
28 8 0.10
29 18 0.23
30 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:22526282 original size:27 final size:27
Alignment explanation
Indices: 22526188--22526627 Score: 156
Period size: 27 Copynumber: 16.3 Consensus size: 27
22526178 TTTCTATAAC
*
22526188 TTTGTAAATC-AGAGGTATTTTGATAAT
1 TTTGTAAATCGAG-GGTATTTTGGTAAT
** *
22526215 TTTACAAA-CCAGGGGTATTTTGGTAAT
1 TTTGTAAATCGA-GGGTATTTTGGTAAT
*
22526242 TTTCCT-AATCGAGGGTATTTTGGTAAT
1 TTT-GTAAATCGAGGGTATTTTGGTAAT
* ***
22526269 TTTGTAAATTGAGGGTAAAATGGTAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
* * *** *
22526296 TCTATAAATCGAGGGTAAAATGATAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
* * ****
22526323 TTCGTAAATCGTGGGTAAAACGGTAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
****
22526350 TTTGTAAATCGAGGGTAAAACGGTAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
* * * ****
22526377 TCTATAAA-CTGAGGCTAAAACGGTAAT
1 TTTGTAAATC-GAGGGTATTTTGGTAAT
**** **
22526404 TTTGTAAATCGAGGGTAAAACGACAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
* * *
22526431 TCTGTAAATCGAGGGTACTTTAGTAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
** * * *
22526458 TTTACAAATTGAGGGCATTTTAGTAA-
1 TTTGTAAATCGAGGGTATTTTGGTAAT
* * * *
22526484 TTT-TACAATTGATGGTATTTCGATAAT
1 TTTGTA-AATCGAGGGTATTTTGGTAAT
* * * *
22526511 TTTATAAACCGGGGGTACTTTGGTAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
* * * ***
22526538 TTTGCAAGTCGAAGGTATTTCAATAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
** ***
22526565 TTTACAAATCGAGGGTATTTCAATAAT
1 TTTGTAAATCGAGGGTATTTTGGTAAT
** *
22526592 TTTACAAA-CTAAGGGTATTTTGGTAAT
1 TTTGTAAATC-GAGGGTATTTTGGTAAT
22526619 TTTAGTAAA
1 TTT-GTAAA
22526628 CTAAAGTATT
Statistics
Matches: 324, Mismatches: 77, Indels: 23
0.76 0.18 0.05
Matches are distributed among these distances:
25 1 0.00
26 22 0.07
27 292 0.90
28 9 0.03
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
TTTGTAAATCGAGGGTATTTTGGTAAT
Found at i:22526312 original size:81 final size:81
Alignment explanation
Indices: 22526263--22526447 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 81
22526253 AGGGTATTTT
* * *
22526263 GGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTTCGT
1 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTTCCT
*
22526328 AAATCGTGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * **
22526344 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAA-CTGAGGCTAAAACGGTAATTTTG
1 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGATAATTTCC
22526408 TAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
** *
22526425 GACAATTCTGTAAATCGAGGGTA
1 GGTAATTTTGTAAATCGAGGGTA
22526448 CTTTAGTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (81 bp):
GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTTCCT
AAATCGAGGGTAAAAC
Found at i:22526460 original size:54 final size:54
Alignment explanation
Indices: 22526265--22526447 Score: 235
Period size: 54 Copynumber: 3.4 Consensus size: 54
22526255 GGTATTTTGG
* * * * * *
22526265 TAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGA
* *
22526319 TAATT-TCGTAAATCGTGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTCT-GTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGA
* *
22526373 TAATTCTATAAA-CTGAGGCTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGA
*
22526427 CAATTCTGTAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
22526448 CTTTAGTAAT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.02
54 107 0.96
55 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (54 bp):
TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGA
Found at i:22526581 original size:54 final size:53
Alignment explanation
Indices: 22526437--22526598 Score: 157
Period size: 53 Copynumber: 3.0 Consensus size: 53
22526427 CAATTCTGTA
* * * * *
22526437 AATCGAGGGTACTTT-AGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTAC
1 AATCGAAGGTA-TTTCAATAATTTTACAAATCGAGGGTACTTTAGTAATTTTAC
* * * * * * * *
22526490 AATTGATGGTATTTCGATAATTTTATAAACCGGGGGTACTTTGGTAATTTTGC
1 AATCGAAGGTATTTCAATAATTTTACAAATCGAGGGTACTTTAGTAATTTTAC
*
22526543 AAGTCGAAGGTATTTCAATAATTTTACAAATCGAGGGTA-TTTCAATAATTTTAC
1 AA-TCGAAGGTATTTCAATAATTTTACAAATCGAGGGTACTTT-AGTAATTTTAC
22526597 AA
1 AA
22526599 ACTAAGGGTA
Statistics
Matches: 85, Mismatches: 21, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
52 3 0.04
53 42 0.49
54 40 0.47
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
AATCGAAGGTATTTCAATAATTTTACAAATCGAGGGTACTTTAGTAATTTTAC
Found at i:22528634 original size:43 final size:43
Alignment explanation
Indices: 22528486--22528643 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
22528476 ATGTGTTATT
* *
22528486 GTGTAAGACCACGTCTGGGACGTTGGCATTGACT-TATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTAC
* * ** *
22528530 GTGTAAGACCATGTCTAGGATATTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
* *
22528572 GTGTAATACC-CTATCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTAC
* *
22528615 ATGTAAGACCACGTTTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
22528644 TGTACGAGAT
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 28 0.31
43 35 0.39
44 27 0.30
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:22529893 original size:14 final size:13
Alignment explanation
Indices: 22529870--22529901 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
22529860 AGAATATTGA
22529870 AACAATAATTAAG
1 AACAATAATTAAG
22529883 AACACATAATTAAG
1 AACA-ATAATTAAG
22529897 AACAA
1 AACAA
22529902 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:22532406 original size:25 final size:25
Alignment explanation
Indices: 22532354--22532411 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
22532344 AGAAAACCTA
*
22532354 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
22532380 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
22532405 -AAATAAA
1 AAAATAAA
22532412 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:22540008 original size:56 final size:56
Alignment explanation
Indices: 22539895--22540019 Score: 146
Period size: 56 Copynumber: 2.2 Consensus size: 56
22539885 AAGACTATGA
* * * * * *
22539895 CATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGG
1 CATCGATATGTGACGCCAACATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGG
* *
22539951 CATTGATATGTGACGCCAACATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGG
1 CATCGATATGTGACGCCAACATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGG
22540007 CATCGATATGTGA
1 CATCGATATGTGA
22540020 TTACATGTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
55 1 0.02
56 56 0.97
57 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (56 bp):
CATCGATATGTGACGCCAACATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGG
Found at i:22543315 original size:21 final size:20
Alignment explanation
Indices: 22543281--22543320 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22543271 CCTGTGAAAC
*
22543281 TTTGAAAAAATTGTTTAAGT
1 TTTGAAAAAATTGTATAAGT
*
22543301 TTTGAAAAATTTTGTATAAG
1 TTTGAAAAA-ATTGTATAAG
22543321 CTTAGTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTGAAAAAATTGTATAAGT
Found at i:22546252 original size:43 final size:43
Alignment explanation
Indices: 22546185--22546333 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 43
22546175 GGTACCATTC
* * *
22546185 GGGCCTCGAGCCGAGTAGGCTATAATATTGGTGAAATAATATT
1 GGGCCTCGAGCCTAGCAGGCTATAATACTGGTGAAATAATATT
* * * * *
22546228 GGGCCTTGAGCCTAGCAGGTTATAATGCCGGTGAAATAATATC
1 GGGCCTCGAGCCTAGCAGGCTATAATACTGGTGAAATAATATT
* * *
22546271 GGGCCTCAAGCCTAGCAGGCTATAGTGCCT-GTGAAATAATATT
1 GGGCCTCGAGCCTAGCAGGCTATAAT-ACTGGTGAAATAATATT
* * *
22546314 GGGCTTAGAGCGTAGCAGGC
1 GGGCCTCGAGCCTAGCAGGC
22546334 AAAATGCCGG
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
43 85 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
GGGCCTCGAGCCTAGCAGGCTATAATACTGGTGAAATAATATT
Found at i:22546374 original size:41 final size:40
Alignment explanation
Indices: 22546326--22546428 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
22546316 GCTTAGAGCG
*
22546326 TAGCAGGCAAAATGCCGGTGAATGAATTCAGACTTAAAATC
1 TAGCAGGCAAAATGCCGGTG-ATGAATTCAGACTTAAAACC
**** * **
22546367 TAGCAGGCTTCGTGCCGGTGATGAATTCGGGTTTAAAACC
1 TAGCAGGCAAAATGCCGGTGATGAATTCAGACTTAAAACC
** *
22546407 TAGCAGGCTTATTGCCGGTGAT
1 TAGCAGGCAAAATGCCGGTGAT
22546429 TTGATAACAG
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
40 36 0.69
41 16 0.31
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (40 bp):
TAGCAGGCAAAATGCCGGTGATGAATTCAGACTTAAAACC
Found at i:22546403 original size:40 final size:40
Alignment explanation
Indices: 22546338--22546428 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
22546328 GCAGGCAAAA
* *
22546338 TGCCGGTGAATGAATTCAGACTTAAAATCTAGCAGGCTTCG
1 TGCCGGTG-ATGAATTCAGACTTAAAACCTAGCAGGCTTAG
* ** *
22546379 TGCCGGTGATGAATTCGGGTTTAAAACCTAGCAGGCTTAT
1 TGCCGGTGATGAATTCAGACTTAAAACCTAGCAGGCTTAG
22546419 TGCCGGTGAT
1 TGCCGGTGAT
22546429 TTGATAACAG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 36 0.82
41 8 0.18
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
TGCCGGTGATGAATTCAGACTTAAAACCTAGCAGGCTTAG
Found at i:22550789 original size:49 final size:49
Alignment explanation
Indices: 22550715--22550811 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
22550705 ATGAATTAGG
* *
22550715 TTTTGAATTGTATATGGTTGCCGTACGTATGGGTTTGATTGAGAAGTTC
1 TTTTGAAATGTATATGGTTGCCGTACATATGGGTTTGATTGAGAAGTTC
* *
22550764 TTTTGAAATGTATATGGTTGTCGTACATATGTGTTTGATTGAGAAGTT
1 TTTTGAAATGTATATGGTTGCCGTACATATGGGTTTGATTGAGAAGTT
22550812 AAATTTGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.44
Consensus pattern (49 bp):
TTTTGAAATGTATATGGTTGCCGTACATATGGGTTTGATTGAGAAGTTC
Found at i:22551180 original size:43 final size:42
Alignment explanation
Indices: 22551132--22551274 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 42
22551122 CATTCGGGCA
*
22551132 TCGAGCCTAGCAGGCTATAATATCGATGAAATAATATCGATCC
1 TCGAGCCTAGCAGGCTATAAT-TCGATGAAATAATATCGAGCC
* * *
22551175 TCGAGCCTAGCAGGCTATAATGCCAGTGAAATAATATCGGGCC
1 TCGAGCCTAGCAGGCTATAATTCGA-TGAAATAATATCGAGCC
* * * * *
22551218 TCGAGCCTAGTAGGCTATAGTGTCGGTGAAATAATATCGGGCT
1 TCGAGCCTAGCAGGCTATAAT-TCGATGAAATAATATCGAGCC
* *
22551261 TAGAGCGTAGCAGG
1 TCGAGCCTAGCAGG
22551275 GAAAATGCCG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.02
43 82 0.96
44 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (42 bp):
TCGAGCCTAGCAGGCTATAATTCGATGAAATAATATCGAGCC
Found at i:22551843 original size:16 final size:18
Alignment explanation
Indices: 22551812--22551844 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22551802 AACTCGTCAC
22551812 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
22551830 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
22551845 AATTCATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:22555553 original size:40 final size:40
Alignment explanation
Indices: 22555466--22556403 Score: 1688
Period size: 40 Copynumber: 23.5 Consensus size: 40
22555456 AAGCCAAGTA
* * * *
22555466 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
22555504 CCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
22555544 CCTTAGGGACTTATCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555584 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555624 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555664 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555704 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555744 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555784 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555824 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555864 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555904 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555944 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22555984 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556024 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556064 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556104 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556144 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556184 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556224 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22556264 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
22556304 CCTTCGGGACTTAGCCCGGATATAGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
22556344 CCTTCGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CAC-AAATG
22556385 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22556404 TTATCATCCA
Statistics
Matches: 875, Mismatches: 19, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
38 12 0.01
39 17 0.02
40 822 0.94
41 24 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:22563684 original size:49 final size:49
Alignment explanation
Indices: 22563619--22563725 Score: 171
Period size: 49 Copynumber: 2.2 Consensus size: 49
22563609 AATTCCATTC
* * *
22563619 CTACTATTTTTAGTGATTTTTCCCATTCACTTCACTGCTGCTATCAGCAT
1 CTACT-TTTTTAGTGATTTTTCACATTCACGTCACTACTGCTATCAGCAT
22563669 CTACTTTTTTAGTGATTTTTCACATTCACGTCACTACTGCTATCAGCAT
1 CTACTTTTTTAGTGATTTTTCACATTCACGTCACTACTGCTATCAGCAT
22563718 CTA-TTTTT
1 CTACTTTTT
22563726 AAGGTAGACT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 5 0.09
49 44 0.81
50 5 0.09
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.46
Consensus pattern (49 bp):
CTACTTTTTTAGTGATTTTTCACATTCACGTCACTACTGCTATCAGCAT
Found at i:22564611 original size:40 final size:40
Alignment explanation
Indices: 22564529--22565466 Score: 1715
Period size: 40 Copynumber: 23.5 Consensus size: 40
22564519 AAGCTAAGTA
* * * *
22564529 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
22564567 CCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564607 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564647 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564687 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564727 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564767 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564807 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564847 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564887 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564927 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22564967 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565007 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565047 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565087 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565127 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565167 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565207 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565247 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565287 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
22565327 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
22565367 CCTTCGGGACTTAGCCCGGATATAGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
22565407 CCTTCGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CAC-AAATG
22565448 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22565467 TTATCATCCA
Statistics
Matches: 881, Mismatches: 13, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
38 12 0.01
39 17 0.02
40 828 0.94
41 24 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:22573335 original size:49 final size:49
Alignment explanation
Indices: 22573278--22573375 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
22573268 AATTGAACTA
22573278 AGAAAGGGTGTTCGGTACACACCTGTTTCGCGACGACTGCTACTGAGAT
1 AGAAAGGGTGTTCGGTACACACCTGTTTCGCGACGACTGCTACTGAGAT
*
22573327 AGAAAGGGTGTTCGGTACACACCTGTTTCGTGACGACTGCTACTGAGAT
1 AGAAAGGGTGTTCGGTACACACCTGTTTCGCGACGACTGCTACTGAGAT
22573376 CCCTTTCGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (49 bp):
AGAAAGGGTGTTCGGTACACACCTGTTTCGCGACGACTGCTACTGAGAT
Found at i:22585549 original size:24 final size:23
Alignment explanation
Indices: 22585516--22585573 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
22585506 AGTTGAAAAG
22585516 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
22585540 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
22585562 TATATATAATAA
1 TATA-ATAATAA
22585574 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:22587456 original size:29 final size:31
Alignment explanation
Indices: 22587415--22587473 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22587405 TTTACGAGCC
*
22587415 TAGGGGTAAAAA-TGTAATTTTGACAAAATT
1 TAGGGGTAAAAATTATAATTTTGACAAAATT
*
22587445 TAGGGG-AAAAATTATAATTTTGCCAAAAT
1 TAGGGGTAAAAATTATAATTTTGACAAAAT
22587474 ATGATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (31 bp):
TAGGGGTAAAAATTATAATTTTGACAAAATT
Found at i:22598689 original size:29 final size:29
Alignment explanation
Indices: 22598634--22598704 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 29
22598624 CATTAAGCGC
* **
22598634 AATCATATTCATATGGCCCGTTTGGCCCA
1 AATCACATTCATATGGCCCGTCAGGCCCA
* *
22598663 AATCACATTTATATGGCCTGTCAGGCCC-
1 AATCACATTCATATGGCCCGTCAGGCCCA
* *
22598691 AGTCAAATTCATAT
1 AATCACATTCATAT
22598705 TCATGCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (29 bp):
AATCACATTCATATGGCCCGTCAGGCCCA
Found at i:22598939 original size:16 final size:16
Alignment explanation
Indices: 22598918--22598948 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22598908 CCAAACTTTA
22598918 GGCATTTCGACTTTTT
1 GGCATTTCGACTTTTT
*
22598934 GGCATTTCGGCTTTT
1 GGCATTTCGACTTTT
22598949 GCCGATACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (16 bp):
GGCATTTCGACTTTTT
Found at i:22602122 original size:40 final size:39
Alignment explanation
Indices: 22602024--22602286 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
22602014 TCCTCGTTCA
* * * *
22602024 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
22602063 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
22602102 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
22602142 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
22602182 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
22602222 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
22602263 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22602287 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:22602246 original size:120 final size:119
Alignment explanation
Indices: 22602024--22602286 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
22602014 TCCTCGTTCA
* * *
22602024 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
22602089 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
22602142 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
22602207 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
22602263 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22602287 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:22602295 original size:41 final size:41
Alignment explanation
Indices: 22602218--22602295 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22602208 TTTGTATCTC
* * *
22602218 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22602259 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22602296 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22610013 original size:39 final size:40
Alignment explanation
Indices: 22609970--22610139 Score: 243
Period size: 40 Copynumber: 4.3 Consensus size: 40
22609960 TCCTCGTTCA
* * * *
22609970 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
22610009 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
22610049 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
22610089 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
22610129 AAGGCCTTCGG
1 AATGCCTTCGG
22610140 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.29
40 86 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:22610068 original size:40 final size:39
Alignment explanation
Indices: 22609970--22610192 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
22609960 TCCTCGTTCA
* * * * *
22609970 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
22610009 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
22610048 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
22610088 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* ** * * * *
22610128 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
22610169 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22610193 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 38 0.23
40 116 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:22610201 original size:41 final size:41
Alignment explanation
Indices: 22610124--22610201 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22610114 TTAGTATCTC
* * *
22610124 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22610165 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22610202 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22612100 original size:43 final size:43
Alignment explanation
Indices: 22612052--22612186 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
22612042 CCGGACGTGA
* *
22612052 TCTTACATGTAATTCAATATTGATGCCTCTGTCCCAGACAGGG
1 TCTTACATGTAATTCAATATTGATGCCTATGTCCCAGACACGG
* * *
22612095 TCTTACACG-AAATCAGATA-TGATG-CTGATGTCCCAGACATGG
1 TCTTACATGTAATTCA-ATATTGATGCCT-ATGTCCCAGACACGG
* * *
22612137 TCTTATATGTAAATCTC-A-ATTGAGGCCTATGTCCCAGACACAG
1 TCTTACATGT-AAT-TCAATATTGATGCCTATGTCCCAGACACGG
22612180 TCTTACA
1 TCTTACA
22612187 CGATGTCTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.03
42 31 0.42
43 35 0.47
44 4 0.05
45 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTTACATGTAATTCAATATTGATGCCTATGTCCCAGACACGG
Found at i:22613226 original size:42 final size:43
Alignment explanation
Indices: 22613167--22613265 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 43
22613157 GATTTGTGTA
*
22613167 TAAGACCATGTCTGGGACA-TCGGCATCGTATATGAG-TT-CGTG
1 TAAGACCATGTCTGGGACAGT-GGCATCG-ATATGAGATTACATG
* *
22613209 TAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTACATG
1 TAAGACCATGTCTGGGACAGTGGCATCGATATGAGATTACATG
22613252 TAAGACCATGTCTG
1 TAAGACCATGTCTG
22613266 AGACGTTGGC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 6 0.12
42 27 0.54
43 17 0.34
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGTGGCATCGATATGAGATTACATG
Found at i:22613276 original size:43 final size:42
Alignment explanation
Indices: 22613106--22613277 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
22613096 CATAGGATTC
* * *
22613106 CGATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTAGCAT
1 CGATATGTGA-TTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * *
22613149 CGATTTGTGATTTGTGTATAAGACCATGTCTGGGACATCGGCAT
1 CGATATGTGATTCGTG--TAAGACCATGTCTGGGACGTTGGCAT
* *
22613193 CG-TATATGAGTTCGTGTAAGACCTTGTCTGGGACAG-TGGCAT
1 CGATATGTGA-TTCGTGTAAGACCATGTCTGGGAC-GTTGGCAT
* *
22613235 CGATATGTGATTACATGTAAGACCATGTCTGAGACGTTGGCAT
1 CGATATGTGATT-CGTGTAAGACCATGTCTGGGACGTTGGCAT
22613278 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
42 32 0.30
43 45 0.43
44 28 0.27
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (42 bp):
CGATATGTGATTCGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:22614073 original size:19 final size:19
Alignment explanation
Indices: 22614049--22614087 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22614039 GGTAAATTTG
22614049 ATATATGTA-GTTGATGAAT
1 ATATATGTAGGTT-ATGAAT
*
22614068 ATATATTTAGGTTATGAAT
1 ATATATGTAGGTTATGAAT
22614087 A
1 A
22614088 ATTAATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (19 bp):
ATATATGTAGGTTATGAAT
Found at i:22620505 original size:43 final size:43
Alignment explanation
Indices: 22620458--22620572 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
22620448 AACACATATT
* * * *
22620458 GATGCCACTGTCCCAGACAGGGTCTTACACGAAATC-GATTAAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-AC
22620501 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATAC
*
22620544 AATGCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACATGGTCTTACA
22620573 TGTAACCACA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 64 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATAC
Found at i:22625330 original size:44 final size:45
Alignment explanation
Indices: 22625252--22625337 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
22625242 CAAAACATGT
22625252 GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCAGAG
1 GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCAGAG
* * *
22625297 GTCACATATATCA-GAATTCAAACCACAAGTCAATAAGTTCA
1 GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCA
22625338 AATTACATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 25 0.66
45 13 0.34
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (45 bp):
GTCACATATATCACAAACTCAAACCACAACTCAATAAGTTCAGAG
Found at i:22629401 original size:27 final size:27
Alignment explanation
Indices: 22629363--22629419 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
22629353 TCGGCAATGA
22629363 CAAAGACAATTTAACAAACCTTAAATT
1 CAAAGACAATTTAACAAACCTTAAATT
22629390 CAAAGACAATTTAACAAACCTTAAATT
1 CAAAGACAATTTAACAAACCTTAAATT
22629417 CAA
1 CAA
22629420 CTTATAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.25
Consensus pattern (27 bp):
CAAAGACAATTTAACAAACCTTAAATT
Found at i:22632600 original size:39 final size:40
Alignment explanation
Indices: 22632557--22632724 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
22632547 CTCGTTCAAG
* * * *
22632557 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
22632596 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
22632636 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
22632676 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
22632716 TGCCTTCGG
1 TGCCTTCGG
22632725 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:22632708 original size:80 final size:80
Alignment explanation
Indices: 22632592--22632777 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
22632582 AGTAACTCAT
* * *
22632592 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
22632656 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
22632671 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
22632735 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
22632752 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
22632778 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:22632737 original size:40 final size:40
Alignment explanation
Indices: 22632594--22632777 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
22632584 TAACTCATAC
* *
22632594 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
22632634 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
22632674 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
22632714 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
22632755 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22632778 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:22655024 original size:37 final size:34
Alignment explanation
Indices: 22654974--22655045 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
22654964 AAGTGTGCCA
* *
22654974 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
22655011 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
22655045 T
1 T
22655046 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:22655182 original size:42 final size:42
Alignment explanation
Indices: 22655123--22655206 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
22655113 CCGAATATCA
22655123 CAAAAGCCAAAATCCCGAAGGTTCATATTGTCTGTGCCAAAT
1 CAAAAGCCAAAATCCCGAAGGTTCATATTGTCTGTGCCAAAT
22655165 CAAAAGCCAAAATCCCGAAGGTTCATATTGTCTGTGCCAAAT
1 CAAAAGCCAAAATCCCGAAGGTTCATATTGTCTGTGCCAAAT
22655207 GCTCCTAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
CAAAAGCCAAAATCCCGAAGGTTCATATTGTCTGTGCCAAAT
Done.