Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 137 of 253
Found at i:43919274 original size:42 final size:42
Alignment explanation
Indices: 43919228--43919307 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
43919218 GCCATGGTCT
*
43919228 TACACGAAGTCTCATATCGAT-TCCATATCCCAGATATGGTTA
1 TACACGAAGTCTCATATAGATGT-CATATCCCAGATATGGTTA
43919270 TACACGAAGTCTCATATAGATGTCATATCCCAGATATG
1 TACACGAAGTCTCATATAGATGTCATATCCCAGATATG
43919308 ATCTTACACA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (42 bp):
TACACGAAGTCTCATATAGATGTCATATCCCAGATATGGTTA
Found at i:43919323 original size:42 final size:42
Alignment explanation
Indices: 43919225--43919316 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
43919215 CAAGCCATGG
* *
43919225 TCTTACACGAAGTCTCATATCGATTCCATATCCCAGATATGG
1 TCTTACACGAAGTCTCATATAGATTCCATATCCCAGATATGA
43919267 T-TATACACGAAGTCTCATATAGATGT-CATATCCCAGATATGA
1 TCT-TACACGAAGTCTCATATAGAT-TCCATATCCCAGATATGA
43919309 TCTTACAC
1 TCTTACAC
43919317 ATAGTCTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
41 1 0.02
42 42 0.93
43 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
TCTTACACGAAGTCTCATATAGATTCCATATCCCAGATATGA
Found at i:43932047 original size:16 final size:18
Alignment explanation
Indices: 43932026--43932063 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43932016 CAGTCTCTAG
*
43932026 CAGTTT-ACTGTAG-TTT
1 CAGTTTAACTATAGTTTT
43932042 CAGTTTAACTATAGTTTT
1 CAGTTTAACTATAGTTTT
43932060 CAGT
1 CAGT
43932064 ATATACTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (18 bp):
CAGTTTAACTATAGTTTT
Found at i:43932092 original size:27 final size:27
Alignment explanation
Indices: 43932060--43932113 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
43932050 CTATAGTTTT
*
43932060 CAGTATATACTAACTAAAGTATTTTCA
1 CAGTATATACTAACTAAAGTAGTTTCA
* *
43932087 CAGTATATACTACCTATAGTAGTTTCA
1 CAGTATATACTAACTAAAGTAGTTTCA
43932114 GAATAGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (27 bp):
CAGTATATACTAACTAAAGTAGTTTCA
Found at i:43935764 original size:87 final size:89
Alignment explanation
Indices: 43935663--43935891 Score: 297
Period size: 87 Copynumber: 2.6 Consensus size: 89
43935653 AAATGTATTG
* * * *
43935663 ATTTCAAGTGTAAAGGTGAAAAAGGAAAACTACCATCTGAACTCCAAATTAAGTA-AAGTTC-GA
1 ATTTCAAGTATAAAGGTGAAAAAGGAAAATTACCATTTGAACTCCAAATTAAGTACAAGTACAGA
43935726 ATTCAACT-AA-AAACAATAAAACTA
66 ATTCAACTGAACAAA-AAT-AAACTA
* *
43935750 ATTTCAAGTATAAAGGTGAAAAAGGAAAATTACCATTTGAATTTCAAATTAAGTACAAGTACAGA
1 ATTTCAAGTATAAAGGTGAAAAAGGAAAATTACCATTTGAACTCCAAATTAAGTACAAGTACAGA
* * * *
43935815 GTTCAATTGAACAAAAATATACTG
66 ATTCAACTGAACAAAAATAAACTA
* *
43935839 ATTTCAAGTATAAAGGTG-AAAAGGAAAATTACCATTTTAACTCTAAATTAAGT
1 ATTTCAAGTATAAAGGTGAAAAAGGAAAATTACCATTTGAACTCCAAATTAAGT
43935892 GGTCTGAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
87 50 0.40
88 36 0.29
89 30 0.24
90 5 0.04
91 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.27
Consensus pattern (89 bp):
ATTTCAAGTATAAAGGTGAAAAAGGAAAATTACCATTTGAACTCCAAATTAAGTACAAGTACAGA
ATTCAACTGAACAAAAATAAACTA
Found at i:43936661 original size:31 final size:30
Alignment explanation
Indices: 43936601--43936671 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
43936591 ATGGAAATAT
* *
43936601 AAAAAAAT-ATATAAATTTATTAAATATTA
1 AAAAAAATAATAAAAATATATTAAATATTA
43936630 AATAAAAATAATAAAAATATATTTAAA-ATTA
1 AA-AAAAATAATAAAAATATA-TTAAATATTA
43936661 AAAAAAATAAT
1 AAAAAAATAAT
43936672 GAATGGACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.05
30 15 0.41
31 15 0.41
32 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAAAATAATAAAAATATATTAAATATTA
Found at i:43937070 original size:13 final size:13
Alignment explanation
Indices: 43937054--43937090 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
43937044 GGCCTACCCA
43937054 ATATTAATTTTTT
1 ATATTAATTTTTT
43937067 ATATT-A-TTTTT
1 ATATTAATTTTTT
43937078 ATA-TAATTTTTT
1 ATATTAATTTTTT
43937090 A
1 A
43937091 ATATATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 7 0.32
13 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:43937094 original size:13 final size:12
Alignment explanation
Indices: 43937058--43937095 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
43937048 TACCCAATAT
43937058 TAATTTTTTATA
1 TAATTTTTTATA
*
43937070 TTA-TTTTTATA
1 TAATTTTTTATA
43937081 TAATTTTTTAATA
1 TAATTTTTT-ATA
43937094 TA
1 TA
43937096 TGTATAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:43937250 original size:30 final size:30
Alignment explanation
Indices: 43937214--43937272 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
43937204 CTTAACAAGC
43937214 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
*
43937244 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
43937273 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:43937330 original size:22 final size:22
Alignment explanation
Indices: 43937305--43937347 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43937295 TATCCGAATA
43937305 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
43937327 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
43937348 AACAGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:43938781 original size:24 final size:24
Alignment explanation
Indices: 43938754--43938802 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
43938744 TTCTATCACC
43938754 TTTAATGTAATCACCCTTCAATTG
1 TTTAATGTAATCACCCTTCAATTG
*
43938778 TTTAATGTGATCACCCTTCAATTG
1 TTTAATGTAATCACCCTTCAATTG
43938802 T
1 T
43938803 GTTGTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (24 bp):
TTTAATGTAATCACCCTTCAATTG
Found at i:43940337 original size:12 final size:12
Alignment explanation
Indices: 43940322--43940354 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
43940312 ATATATATAC
43940322 ACATGTCATGAT
1 ACATGTCATGAT
43940334 ACATGTCATGAT
1 ACATGTCATGAT
*
43940346 ACATATCAT
1 ACATGTCAT
43940355 TCTCTTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (12 bp):
ACATGTCATGAT
Found at i:43942369 original size:30 final size:30
Alignment explanation
Indices: 43942335--43942391 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
43942325 TAACTCAAAA
43942335 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
43942365 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
43942392 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:43944866 original size:48 final size:48
Alignment explanation
Indices: 43944784--43945171 Score: 408
Period size: 48 Copynumber: 8.0 Consensus size: 48
43944774 ATACTAGGGT
* * *
43944784 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA
*
43944832 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-TTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT-TA
* * *
43944880 TATGTGAGCCAGTGTAAGACCATGTTT-GGAGCATGGCATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGA-CATGGCATCGGCATTTA
* * * * **
43944928 TATGAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA
* * *
43944976 TATGTA-AGCTAGTGTAAGACCATGTTT-GGAGCATGGCGTTGGTATTTA
1 TATG-AGAGCTAGTGTAAGACCATGTTTGGGA-CATGGCATCGGCATTTA
* * **
43945024 TATGAGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA
* * * * **
43945072 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGGCACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCA--TTTA
* * *
43945122 TATGAGAACCAGTGTAAGACCATGTCTT-GGACATGGCATTGGCATCTTA
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGGACATGGCATCGGCAT-TTA
43945171 T
1 T
43945172 CCTTTTGTAT
Statistics
Matches: 281, Mismatches: 47, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
47 9 0.03
48 221 0.79
49 12 0.04
50 37 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA
Found at i:43944948 original size:96 final size:96
Alignment explanation
Indices: 43944784--43945160 Score: 522
Period size: 96 Copynumber: 3.9 Consensus size: 96
43944774 ATACTAGGGT
* *
43944784 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAACTAGTGTAA
*
43944849 GACCATGTTTGGGACATGGCATCGGCTTCGA
66 GACCATGTTTGGGACATGGCATCGGCCTCGA
*
43944880 TATGTGAGCCAGTGTAAGACCATGTTTGGAGCATGGCATCGACATTTATATGAGAACTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAACTAGTGTAA
* *
43944945 GACCATGTCTGGGACATGGCATCGACCTCGA
66 GACCATGTTTGGGACATGGCATCGGCCTCGA
* * * * * ** * *
43944976 TATGTAAGCTAGTGTAAGACCATGTTTGGAGCATGGCGTTGGTATTTATATGAGAGCTAATGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAACTAGTGTAA
43945041 GACCATGTTTGGGACATGGCATCGGCCTCGA
66 GACCATGTTTGGGACATGGCATCGGCCTCGA
* * * *** *
43945072 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGGCACCGATATATGAGAACCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCA-TCG-ACATTTATATGAGAACTAGTGT
43945137 AAGACCATGTCTT-GGACATGGCAT
64 AAGACCATGT-TTGGGACATGGCAT
43945161 TGGCATCTTA
Statistics
Matches: 249, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
96 210 0.84
97 2 0.01
98 35 0.14
99 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAACTAGTGTAA
GACCATGTTTGGGACATGGCATCGGCCTCGA
Found at i:43951149 original size:28 final size:28
Alignment explanation
Indices: 43951091--43951156 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
43951081 CCATGTTTTT
*
43951091 GGACACGGGCGTGTCTAGGCCGTGTGAG
1 GGACACGGGCGTGTCTAGGCCATGTGAG
* * * *
43951119 GGACACGGGTGTGTCTAGGCTATTTGGG
1 GGACACGGGCGTGTCTAGGCCATGTGAG
43951147 GGACACGGGC
1 GGACACGGGC
43951157 TAGGGACACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.15, C:0.20, G:0.45, T:0.20
Consensus pattern (28 bp):
GGACACGGGCGTGTCTAGGCCATGTGAG
Found at i:43957781 original size:18 final size:18
Alignment explanation
Indices: 43957758--43957794 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
43957748 CCTAAAGGAC
*
43957758 TAGCTATCATCTTTTTCA
1 TAGCTATCATATTTTTCA
43957776 TAGCTATCATATTTTTCA
1 TAGCTATCATATTTTTCA
43957794 T
1 T
43957795 TCTTTCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (18 bp):
TAGCTATCATATTTTTCA
Found at i:43958656 original size:48 final size:49
Alignment explanation
Indices: 43958573--43958954 Score: 372
Period size: 48 Copynumber: 7.9 Consensus size: 49
43958563 ATACTAGGGT
* * *
43958573 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTG-
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTGA
* * *
43958621 TATGAGAGCTATTGTAAGACCATGTTTGGGACATGGCGTCAGC-TTTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTGA
* *
43958669 TATGTGAGCCAGTGTAAGACCATGTTT-GGAGCATGGCATCGGCATTT-A
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGA-CATGGCATCGGCATTTGA
* * * * * *
43958717 TATGATAGATAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTGA
* * * * *
43958765 TATGTA-ATCCAGTGTAAGACCATGTTTTGAACATGGCATCGACATTT-A
1 TATG-AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTGA
* * *
43958813 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTGA
* * * **
43958861 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-CCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTG--A
* * *
43958911 TATGAGAGCCAGTGCAAGACCATGTATT-GGACATGGTAT-GGCAT
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGGACATGGCATCGGCAT
43958955 CTTACCTTTT
Statistics
Matches: 274, Mismatches: 46, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
47 10 0.04
48 219 0.80
49 12 0.04
50 31 0.11
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (49 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTGA
Found at i:43958737 original size:96 final size:95
Alignment explanation
Indices: 43958573--43958946 Score: 514
Period size: 96 Copynumber: 3.9 Consensus size: 95
43958563 ATACTAGGGT
* *
43958573 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTGTATGAGAGCTATTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * * *
43958638 GACCATGTTTGGGACATGGCGTCAGCTTTGA
66 GACCATGTCTGGGACATGGCATC-GCCTCGA
* * *
43958669 TATGTGAGCCAGTGTAAGACCATGTTTGGAGCATGGCATCGGCATTTATATGATAGATAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
43958734 GACCATGTCTGGGACATGGCATCGACCTCGA
66 GACCATGTCTGGGACATGGCATCG-CCTCGA
* * * *
43958765 TATGTAATCCAGTGTAAGACCATGTTTTGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
43958830 GACCATGTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTGGGACATGGCATC-GCCTCGA
* * ** * *
43958861 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAGCCAGTGC
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGT
* *
43958926 AAGACCATGTATTGGACATGG
64 AAGACCATGTCTGGGACATGG
43958947 TATGGCATCT
Statistics
Matches: 246, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
95 1 0.00
96 210 0.85
97 1 0.00
98 34 0.14
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (95 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCGCCTCGA
Found at i:43966883 original size:50 final size:50
Alignment explanation
Indices: 43966762--43967205 Score: 356
Period size: 50 Copynumber: 8.8 Consensus size: 50
43966752 GTTCTGAGAA
* * * *
43966762 CACATGTGTAGTACTATGTGCAGGCTACTATGCGTTTCAGACAG-TT-TTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA--CGTGT-A-CCAGATTGTTAGGT
* * *
43966814 CACGTGTGTAGGATTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * *
43966864 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * * * * *
43966915 CACGTATGTAGTACTATGTGCAAGCTATTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
43966965 CACATGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * * *
43967015 TGCATGTGTAGTACTAAGTGCA-GCTACTATGCGTACC-CATTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGT
** * * * * *
43967065 CATGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** * *
43967115 CACGTGTATAGTACCAAGTATAGGCTACTACATGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
43967165 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
43967206 GAGCTTCGGT
Statistics
Matches: 303, Mismatches: 82, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
48 6 0.02
49 15 0.05
50 206 0.68
51 48 0.16
52 28 0.09
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:43967002 original size:101 final size:102
Alignment explanation
Indices: 43966762--43966994 Score: 306
Period size: 101 Copynumber: 2.3 Consensus size: 102
43966752 GTTCTGAGAA
* ** * * *
43966762 CACATGTGTAGTACTATGTGCAGGCTACTATGCGTTTCAGACAGTTTTTGGTCACGTGTGTAGGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTCGATCACGTATGTAGGA
* * *
43966827 TTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
66 CTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGT
* * * *
43966864 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAG-TTTCGATCACGTATGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTCGATCACGTATGTAGGA
* * *
43966928 CTATGTGCAAGCTATTACGTGTATCAGATGGTTAGGT
66 CTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGT
*
43966965 CACATGTGTAGTACTAAGTGCAGGTTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
43966995 CGTGTACCGG
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
101 75 0.66
102 38 0.34
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAGTTTTCGATCACGTATGTAGGA
CTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGT
Found at i:43967127 original size:150 final size:151
Alignment explanation
Indices: 43966812--43967202 Score: 561
Period size: 150 Copynumber: 2.6 Consensus size: 151
43966802 ACAGTTTTTG
* * *
43966812 GTCACGTGTGTAGGATTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
** *
43966877 CTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATCACGTATGTAGTACTATGTGCAAGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTATGTAGTACTAAGTGCAAGCTA
* * * *
43966942 TTACGTGTATCAGATGGTTAG
131 CTACATGTATCAGATGGATAA
* * * *
43966963 GTCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATTGATAGGTTGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
* * *
43967028 CTAAGTGCA-GCTACTATGCGTACCC-ATTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
66 CTAAGTGCAGGCTACTATGCGTACCCGA-TAACTTCGATCACGTATGTAGTACTAAGTGCAAGCT
43967091 ACTACATGTATCAGATGGATAA
130 ACTACATGTATCAGATGGATAA
* * ** *
43967113 GTCACGTGTATAGTACCAAGTATAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
43967178 CTAAGTGCAGGCTACTATGCGTACC
66 CTAAGTGCAGGCTACTATGCGTACC
43967203 AGAGAGCTTC
Statistics
Matches: 212, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
149 1 0.00
150 129 0.61
151 82 0.39
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTATGTAGTACTAAGTGCAAGCTA
CTACATGTATCAGATGGATAA
Found at i:43985873 original size:47 final size:47
Alignment explanation
Indices: 43985810--43985935 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
43985800 ATTGTGGGCT
* **
43985810 AGTGTAAGGCATGTCTGGGACATGCATCAGCCAT-GTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATCGAGATGAGAGCC
* ** *
43985856 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGAGATGAGTTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATCGAGATGAGAGCC
* *
43985904 AGTGTAAGACATGTCTCGGACATGCATTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC
43985936 TCAAGACGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
46 12 0.18
47 33 0.50
48 21 0.32
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATCGAGATGAGAGCC
Found at i:44001694 original size:42 final size:43
Alignment explanation
Indices: 44001637--44001725 Score: 137
Period size: 42 Copynumber: 2.1 Consensus size: 43
44001627 CACCGCCAAC
44001637 CACACGCCCATGTGTCTAGGCC-GTGTACCCTTCGAAAAGG-CA
1 CACACGCCCATGTGTCTA-GCCTGTGTACCCTTCGAAAAGGCCA
* *
44001679 CACACGTCTATGTGTCTAGCCTGTGTACCCTTCGAAAAGGCCA
1 CACACGCCCATGTGTCTAGCCTGTGTACCCTTCGAAAAGGCCA
44001722 CACA
1 CACA
44001726 TGCACACATG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 3 0.07
42 34 0.79
43 6 0.14
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (43 bp):
CACACGCCCATGTGTCTAGCCTGTGTACCCTTCGAAAAGGCCA
Found at i:44004873 original size:28 final size:27
Alignment explanation
Indices: 44004795--44004881 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
44004785 AGCATGGCTG
* *
44004795 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
* *
44004821 CCAGATACAGATATTGTGGCAGAGCCG
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
44004848 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
44004876 CCAGAA
1 CCAGAA
44004882 TGCTTCTACC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 4 0.08
27 29 0.56
28 19 0.37
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:44005046 original size:27 final size:26
Alignment explanation
Indices: 44004984--44005047 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
44004974 CAAAATTAAC
* *
44004984 CCTAGGGGTATAATGGTAATTTTGCA
1 CCTAGGGGTATAATAGTAATTTTACA
* *
44005010 CCTAGAGGTATAATAGTAATTTTTATA
1 CCTAGGGGTATAATAGTAA-TTTTACA
*
44005037 CTTAGGGGTAT
1 CCTAGGGGTAT
44005048 TTTAGTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
CCTAGGGGTATAATAGTAATTTTACA
Found at i:44005169 original size:19 final size:20
Alignment explanation
Indices: 44005145--44005183 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
44005135 ATTCGGCCCG
44005145 TTGGCCCATTAA-CCCAAAT
1 TTGGCCCATTAAGCCCAAAT
44005164 TTGGCCCATTAAGCCCAAAT
1 TTGGCCCATTAAGCCCAAAT
44005184 ATACCGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (20 bp):
TTGGCCCATTAAGCCCAAAT
Found at i:44006792 original size:3 final size:3
Alignment explanation
Indices: 44006784--44006816 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
44006774 ATACGAAATG
*
44006784 ATA ATA ATA ATA ATA ATA A-A ATA ATA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44006817 CATCCAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:44013404 original size:17 final size:17
Alignment explanation
Indices: 44013374--44013407 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44013364 AGAACCTAAT
44013374 CCTAAAACATAAAATAA
1 CCTAAAACATAAAATAA
44013391 CCTAAGAACA-AAAATAA
1 CCTAA-AACATAAAATAA
44013408 AATAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.18, G:0.03, T:0.15
Consensus pattern (17 bp):
CCTAAAACATAAAATAA
Found at i:44014519 original size:27 final size:27
Alignment explanation
Indices: 44014488--44014550 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
44014478 AATATATAAT
*
44014488 TATTATAAAATAGTTAAATTTTACTTAA
1 TATTATAAAAT-GTTAAATTATACTTAA
* *
44014516 -ATTATTAACATGTTTAATTATACTTAA
1 TATTA-TAAAATGTTAAATTATACTTAA
44014543 TATTATAA
1 TATTATAA
44014551 TAAATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (27 bp):
TATTATAAAATGTTAAATTATACTTAA
Found at i:44023422 original size:47 final size:47
Alignment explanation
Indices: 44023283--44023474 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
44023273 GAAATGATAG
*
44023283 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44023330 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44023377 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
44023424 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44023471 TAAG
1 TAAG
44023475 TCCCGAAGGG
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:44025589 original size:29 final size:29
Alignment explanation
Indices: 44025554--44025635 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
44025544 GTTGTGAGAT
*
44025554 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGGG-TTGAAAGTACA
* *
44025583 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGGGTTGAAAGTACA
44025612 TGGCACTAAGTGTGCGTGGTTGAA
1 TGGCACTAAGTGTGCG-GGTTGAA
44025636 TTATTAAGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.11
29 36 0.78
30 5 0.11
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGGGTTGAAAGTACA
Found at i:44026080 original size:38 final size:40
Alignment explanation
Indices: 44025938--44026131 Score: 166
Period size: 40 Copynumber: 4.9 Consensus size: 40
44025928 TCGAATGATG
* ** *
44025938 TCCGGGCTAGGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
44025978 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
44026018 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
44026058 T-CGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
44026096 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
44026132 CGTGTATTCG
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 26 0.20
39 19 0.15
40 63 0.50
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:44026111 original size:78 final size:79
Alignment explanation
Indices: 44025984--44026131 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 79
44025974 CATATCCGGA
* * * *
44025984 CTAAGATCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 CTAAGATCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCT
44026049 AGTGATGTATCGGG
66 AGTGATGTATCGGG
* * *
44026063 CTAAG-TCCGAAGAGCATTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCATGC
1 CTAAGATCCGAAG-GCATTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGC
*
44026126 TGGTGA
65 TAGTGA
44026132 CGTGTATTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 42 0.70
79 18 0.30
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CTAAGATCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCT
AGTGATGTATCGGG
Found at i:44029665 original size:47 final size:47
Alignment explanation
Indices: 44029526--44029716 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
44029516 GAAATGATAG
*
44029526 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44029573 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44029620 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
44029667 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44029713 TAAG
1 TAAG
44029717 TCCCGAAGGG
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 37 0.28
47 94 0.72
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:44033224 original size:23 final size:23
Alignment explanation
Indices: 44033192--44033236 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
44033182 TTAAACATAC
* *
44033192 CAAATTGCATATAACCTCTTCTT
1 CAAATGGCATATAAACTCTTCTT
*
44033215 CAAATGGCATTTAAACTCTTCT
1 CAAATGGCATATAAACTCTTCT
44033237 AAACCAAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (23 bp):
CAAATGGCATATAAACTCTTCTT
Found at i:44038358 original size:42 final size:43
Alignment explanation
Indices: 44038257--44038383 Score: 152
Period size: 44 Copynumber: 2.9 Consensus size: 43
44038247 ATGTGTTTTT
*
44038257 GTGTAAGACCAC-GTCTAGGACGTTGGCATCG-ACTTATGATTTAC
1 GTGTAAGACC-CTGTCTAGGACATTGGCATCGTA-TT-TGATTTAC
* *
44038301 GTGTAAGACCATGTCTAGGACATTGGCATTGTATTTGATTT-C
1 GTGTAAGACCCTGTCTAGGACATTGGCATCGTATTTGATTTAC
* *
44038343 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGACCCTGTCTAGGACATTGGCATCG-TATTTGATT
44038384 ACATTTAAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 28 0.38
43 15 0.21
44 29 0.40
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTAGGACATTGGCATCGTATTTGATTTAC
Found at i:44038393 original size:43 final size:42
Alignment explanation
Indices: 44038258--44038396 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 42
44038248 TGTGTTTTTG
* *
44038258 TGTAAGACCACGTCTAGGAC-GTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCATGTCTAGGACAG-TGGCATCGTA-TT-TGA-TTACA
* * * *
44038302 TGTAAGACCATGTCTAGGACATTGGCATTGTATTTGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGATTACA
* *
44038344 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCG-TATTTGATTACA
*
44038387 TTTAAGACCA
1 TGTAAGACCA
44038397 CATCTGAGAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 30 0.38
43 21 0.26
44 28 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGATTACA
Found at i:44051525 original size:35 final size:35
Alignment explanation
Indices: 44051486--44051647 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 35
44051476 TAGGTATGTA
* *
44051486 CATATGTGATGATGTATTGAACTTGTATATTTGGC
1 CATATGTGATGATATATTGAACTTGTATATTCGGC
* * *
44051521 CATATGTGATGTTATATT-ACACTTGAATATTCGAC
1 CATATGTGATGATATATTGA-ACTTGTATATTCGGC
* * * * * * *
44051556 TACATGTGACGTTTTATTGAACTTGTATATTCAGT
1 CATATGTGATGATATATTGAACTTGTATATTCGGC
* *
44051591 CATATATGATGATATATTGTACTTGTATATTCGGC
1 CATATGTGATGATATATTGAACTTGTATATTCGGC
* *
44051626 CATATGTGATGGTATAATGAAC
1 CATATGTGATGATATATTGAAC
44051648 CATGTGTATT
Statistics
Matches: 99, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
34 1 0.01
35 97 0.98
36 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (35 bp):
CATATGTGATGATATATTGAACTTGTATATTCGGC
Found at i:44053976 original size:27 final size:27
Alignment explanation
Indices: 44053920--44054030 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
44053910 AGCGTGGCTG
** *
44053920 CCAGAACAGATA-TTGTAACAGAGTCC-
1 CCAGAACAGATATTTGTGGCATAG-CCA
*
44053946 CCAGATACAGATA-TTGTGGCAAAGCCA
1 CCAGA-ACAGATATTTGTGGCATAGCCA
* *
44053973 CCAGAGCAGATATTTGTGGCGTAGCCA
1 CCAGAACAGATATTTGTGGCATAGCCA
44054000 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCATAGCCA
44054028 CCA
1 CCA
44054031 AAACGCTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.18
27 36 0.49
28 24 0.33
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCATAGCCA
Found at i:44054019 original size:28 final size:28
Alignment explanation
Indices: 44053946--44054034 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 28
44053936 AACAGAGTCC
* *
44053946 CCAGATACAGATA-TTGTGGCAAAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
* *
44053973 CCAG-AGCAGATATTTGTGGCGTAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
44054000 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
44054028 CCA-AAAC
1 CCAGAAAC
44054035 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 6 0.11
27 24 0.44
28 24 0.44
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCATAGCCA
Found at i:44061589 original size:26 final size:26
Alignment explanation
Indices: 44061560--44061609 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
44061550 CAAAATTAAC
*
44061560 CCTAGGGGTATAATGGTCATTTTCCA
1 CCTAGGGGTATAATGGTAATTTTCCA
44061586 CCTAGGGGTATAATGGTAATTTTC
1 CCTAGGGGTATAATGGTAATTTTC
44061610 ATTCTTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTTCCA
Found at i:44062812 original size:28 final size:27
Alignment explanation
Indices: 44062780--44062832 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
44062770 ATGTCCAAAT
44062780 GCCGAAATTCCCCATACTAAATGACCGA
1 GCCGAAATTCCCCATACTAAA-GACCGA
* * *
44062808 GCCGAATTTGCCTATACTAAAGACC
1 GCCGAAATTCCCCATACTAAAGACC
44062833 CTTGGCCAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (27 bp):
GCCGAAATTCCCCATACTAAAGACCGA
Found at i:44064735 original size:27 final size:27
Alignment explanation
Indices: 44064704--44064881 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44064694 TAAATTGTAC
44064704 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44064731 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44064757 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44064785 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44064813 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44064840 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44064867 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44064882 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44064818 original size:82 final size:81
Alignment explanation
Indices: 44064705--44064860 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44064695 AAATTGTACA
* *
44064705 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44064769 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44064786 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44064851 TGCGAGTTGA
65 TGCGAATTGA
44064861 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44064872 original size:82 final size:81
Alignment explanation
Indices: 44064701--44064881 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44064691 GATTAAATTG
* *
44064701 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44064766 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44064782 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44064846 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44064864 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44064882 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44071920 original size:27 final size:27
Alignment explanation
Indices: 44071889--44072066 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44071879 TAAATTGTAC
44071889 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44071916 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44071942 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44071970 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
44071998 AGCACTAAGTGTGAGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44072025 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44072052 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44072067 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44072003 original size:82 final size:81
Alignment explanation
Indices: 44071890--44072045 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44071880 AAATTGTACA
* * *
44071890 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGAGAAATGAATACGTA-GCACTAAGTG
44071954 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44071971 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGAGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGAGAAATGAATACGTAGCACTAAGTG
*
44072036 TGCGAGTTGA
65 TGCGAATTGA
44072046 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGAGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44072057 original size:82 final size:81
Alignment explanation
Indices: 44071886--44072066 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
44071876 GATTAAATTG
* * *
44071886 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGAGAAATGAATACGATGCACTAA
44071951 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44071967 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGAGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGAGAAATGAATACGAT-GCACT
* **
44072031 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44072049 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44072067 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGAGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44076177 original size:19 final size:20
Alignment explanation
Indices: 44076153--44076190 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44076143 GGTACCACCA
44076153 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44076172 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44076191 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44076475 original size:46 final size:46
Alignment explanation
Indices: 44076409--44076529 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
44076399 CGCCCCTAAG
* * *
44076409 TGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
44076454 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
44076500 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
44076530 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 7 0.10
46 63 0.90
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:44076548 original size:46 final size:45
Alignment explanation
Indices: 44076407--44076548 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
44076397 CCCGCCCCTA
* ** *
44076407 AGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
44076451 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
44076497 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
44076544 AGTGA
1 AGTGA
44076549 CATGTCACTT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
45 8 0.10
46 69 0.83
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:44083675 original size:19 final size:20
Alignment explanation
Indices: 44083651--44083688 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44083641 GGTACCACCA
44083651 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44083670 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44083689 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44084076 original size:93 final size:92
Alignment explanation
Indices: 44083918--44084087 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
44083908 GCCCCTAAGT
*
44083918 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
44083983 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * * *
44084010 GAACTCGGACTCAACTCAACGTGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
44084075 CGAGTTCGGATGC
65 CGAGTTCGGATGC
44084088 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 26 0.36
93 46 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44084082 original size:46 final size:46
Alignment explanation
Indices: 44083913--44084084 Score: 199
Period size: 45 Copynumber: 3.7 Consensus size: 46
44083903 AACCCGCCCC
* * *
44083913 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
44083958 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
44084006 TCA-CGAACTCGGACTCAACTCAACGTGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
44084051 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44084085 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 15
0.78 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 33 0.31
46 28 0.27
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:44088852 original size:42 final size:42
Alignment explanation
Indices: 44088793--44088914 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
44088783 TAGGGTTAGT
44088793 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
* * ** *
44088835 TGAGATTTTGTGTAAGACCATAGCTGGGATAATTTCATCTATA
1 TGAGATTATGTGTAAGACCATATCTGGGAT-ATGGCATCGATA
**** *
44088878 TGAGATCCCATGTAAGACCATATCTTGGATATGGCAT
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCAT
44088915 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:44088893 original size:43 final size:43
Alignment explanation
Indices: 44088803--44088914 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
44088793 TGAGATTATG
****
44088803 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATAATGGCATCGATATGAGATCCCA
* ** *
44088845 TGTAAGACCATAGCTGGGATAATTTCATCTATATGAGATCCCA
1 TGTAAGACCATATCTGGGATAATGGCATCGATATGAGATCCCA
*
44088888 TGTAAGACCATATCTTGGAT-ATGGCAT
1 TGTAAGACCATATCTGGGATAATGGCAT
44088915 TGGTATGGTA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATAATGGCATCGATATGAGATCCCA
Found at i:44091186 original size:100 final size:100
Alignment explanation
Indices: 44091013--44091199 Score: 311
Period size: 100 Copynumber: 1.9 Consensus size: 100
44091003 TATTGTGAGG
**
44091013 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATTAGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGTCGCATGTGTAGTACT
44091078 AAGTGCAGGCTACTATACGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATACGTACCTGAAAACTGTGA
** * *
44091113 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGTCGCATGTGTAGTACT
*
44091178 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATACGTAC
44091200 TAGATAGCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATACGTACCTGAAAACTGTGA
Found at i:44091194 original size:49 final size:49
Alignment explanation
Indices: 44091018--44091205 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
44091008 TGAGGTCACG
* * ** *
44091018 TGTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAATTGGTCGCA
* * * * *
44091067 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAA-T-TGGTCGCA
** *
44091118 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAATTGGTCGCA
* *
44091167 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATA
44091206 GCTTCAGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAATTGGTCGCA
Found at i:44093156 original size:29 final size:29
Alignment explanation
Indices: 44093123--44093196 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
44093113 CGGGTTAGGG
* * *
44093123 ACATGGCCGTGTGACTACATGGCCTAACC
1 ACATGGGCGTGTGACCACATAGCCTAACC
* *
44093152 ACATGGGCTTGTGACCACATAGCCTACCC
1 ACATGGGCGTGTGACCACATAGCCTAACC
*
44093181 ACACGGGCGTGTGACC
1 ACATGGGCGTGTGACC
44093197 CCTGTTCTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (29 bp):
ACATGGGCGTGTGACCACATAGCCTAACC
Found at i:44105770 original size:40 final size:40
Alignment explanation
Indices: 44105700--44105797 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
44105690 AACCCAAGTA
* * * *
44105700 CCTTCGAGATTTAG-CCGGATCTAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
44105739 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
44105779 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44105798 TTATCATCCG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 13 0.25
40 40 0.75
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:44113240 original size:22 final size:22
Alignment explanation
Indices: 44113214--44113320 Score: 117
Period size: 24 Copynumber: 4.7 Consensus size: 22
44113204 ATAGCTCGTA
*
44113214 AGAGCTTACTGTTTAGCTCATT
1 AGAGCTTACTGTTTAGCTCAAT
* *
44113236 GGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTTAGCTCAAT
*
44113258 AGAGCTTACCGTTTTTAGCTCAAT
1 AGAGCTTA-C-TGTTTAGCTCAAT
*
44113282 AGAGCTTACCAT-TTTCAGCTTAAT
1 AGAGCTTA-C-TGTTT-AGCTCAAT
44113306 AGAGCTTACTGTTTA
1 AGAGCTTACTGTTTA
44113321 TCAACTTAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
22 28 0.38
23 8 0.11
24 37 0.51
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (22 bp):
AGAGCTTACTGTTTAGCTCAAT
Found at i:44113281 original size:24 final size:24
Alignment explanation
Indices: 44113214--44113342 Score: 113
Period size: 24 Copynumber: 5.5 Consensus size: 24
44113204 ATAGCTCGTA
* *
44113214 AGAGCTTACTG-TTT-AGCTCATT
1 AGAGCTTACCGTTTTCAGCTCAAT
* *
44113236 GGAGCTTA-C-TGTTCAGCTCAAT
1 AGAGCTTACCGTTTTCAGCTCAAT
*
44113258 AGAGCTTACCGTTTTTAGCTCAAT
1 AGAGCTTACCGTTTTCAGCTCAAT
* *
44113282 AGAGCTTACCATTTTCAGCTTAAT
1 AGAGCTTACCGTTTTCAGCTCAAT
* * * *
44113306 AGAGCTTACTGTTTATCAACTTAAGA
1 AGAGCTTACCGTTT-TCAGCTCAA-T
44113332 AGAGCTTACCG
1 AGAGCTTACCG
44113343 ACTATGTCTC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.02
22 21 0.24
23 1 0.01
24 44 0.51
25 8 0.09
26 10 0.12
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (24 bp):
AGAGCTTACCGTTTTCAGCTCAAT
Found at i:44113287 original size:46 final size:48
Alignment explanation
Indices: 44113225--44113319 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
44113215 GAGCTTACTG
* *
44113225 TTTAGCTCATTGGAGCTTA-C-TGTTCAGCTCAATAGAGCTTACCGTT
1 TTTAGCTCAATAGAGCTTACCATGTTCAGCTCAATAGAGCTTACCGTT
* * *
44113271 TTTAGCTCAATAGAGCTTACCATTTTCAGCTTAATAGAGCTTACTGTT
1 TTTAGCTCAATAGAGCTTACCATGTTCAGCTCAATAGAGCTTACCGTT
44113319 T
1 T
44113320 ATCAACTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 17 0.40
47 1 0.02
48 24 0.57
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (48 bp):
TTTAGCTCAATAGAGCTTACCATGTTCAGCTCAATAGAGCTTACCGTT
Found at i:44117123 original size:43 final size:43
Alignment explanation
Indices: 44117075--44117167 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
44117065 AGGATTTCCA
*
44117075 ATATGTGTTCTCGTGTAAGACCACGTCTAGGACATTAGCATCG
1 ATATGTGTTCTCGTGTAAGACCACGTCTAGGACAGTAGCATCG
** * * *
44117118 ATATGTGTTCTCGTGTAAGACCTTGTCTGGGATAGTGGCATCG
1 ATATGTGTTCTCGTGTAAGACCACGTCTAGGACAGTAGCATCG
44117161 ATATGTG
1 ATATGTG
44117168 ATTACATGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
ATATGTGTTCTCGTGTAAGACCACGTCTAGGACAGTAGCATCG
Found at i:44117200 original size:43 final size:43
Alignment explanation
Indices: 44117075--44117190 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
44117065 AGGATTTCCA
* * * * * * *
44117075 ATATGTGTTCTCGTGTAAGACCACGTCTAGGACATTAGCATCG
1 ATATGTGTTCACATGTAAGACCAAGTCTGGGATAGTGGCATCG
* * **
44117118 ATATGTGTTCTCGTGTAAGACCTTGTCTGGGATAGTGGCATCG
1 ATATGTGTTCACATGTAAGACCAAGTCTGGGATAGTGGCATCG
44117161 ATATGTGATT-ACATGTAAGACCAAGTCTGG
1 ATATGTG-TTCACATGTAAGACCAAGTCTGG
44117191 TATGTTGGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 60 0.97
44 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATGTGTTCACATGTAAGACCAAGTCTGGGATAGTGGCATCG
Found at i:44122461 original size:23 final size:23
Alignment explanation
Indices: 44122431--44122475 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
44122421 TCGGGGATTG
44122431 TCAGTGAAGTCTATCACACTATC
1 TCAGTGAAGTCTATCACACTATC
*
44122454 TCAGTGAAGTCTATCATACTAT
1 TCAGTGAAGTCTATCACACTAT
44122476 TATCTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (23 bp):
TCAGTGAAGTCTATCACACTATC
Found at i:44127162 original size:40 final size:40
Alignment explanation
Indices: 44127118--44127302 Score: 266
Period size: 40 Copynumber: 4.6 Consensus size: 40
44127108 GCTACTCGCT
* *
44127118 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* *
44127158 CAAATGCCTTCGGGACCTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
*
44127198 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* *
44127238 CAAATGCCTTCGGGACTTAGCTCGGA-ATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CA
*
44127278 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44127303 TTATCATCCG
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:44127240 original size:80 final size:79
Alignment explanation
Indices: 44127102--44127302 Score: 296
Period size: 80 Copynumber: 2.5 Consensus size: 79
44127092 GATTTAGCCA
* *
44127102 GATATAGCTACTCGCTCAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCT
1 GATATAG-TACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCT
44127167 TCGGGACCTAGCCCG
65 TCGGGACCTAGCCCG
* *
44127182 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
1 GATATAGT-ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCT
* *
44127247 TCGGGACTTAGCTCG
65 TCGGGACCTAGCCCG
*
44127262 GA-ATTAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGG
1 GATA-TAGT-ACTCGCACAAATGCCTTTGGGACTTAGCCCGG
44127303 TTATCATCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
79 2 0.02
80 108 0.98
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
GATATAGTACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTT
CGGGACCTAGCCCG
Found at i:44135567 original size:41 final size:40
Alignment explanation
Indices: 44135439--44135627 Score: 247
Period size: 40 Copynumber: 4.7 Consensus size: 40
44135429 GGATATAGCT
* * * *
44135439 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
*
44135478 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
44135518 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATGTAATA
* ** * *
44135559 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
44135599 ACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 ACT--CGCACAAATGCCTTCGGGACTTAGC
44135628 TCGGTTATCA
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 6 0.04
40 66 0.49
41 59 0.44
42 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:44135580 original size:81 final size:80
Alignment explanation
Indices: 44135439--44135627 Score: 247
Period size: 81 Copynumber: 2.4 Consensus size: 80
44135429 GGATATAGCT
* * *
44135439 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
* **
44135503 AGCCCGGATGTAATA
66 AGCCCAGAACTAATA
* *
44135518 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAATAACTCACACAAATGCCTTCGGGACT
* *
44135583 TAGCCCAGAACTAGTC
65 TAGCCCAGAACTAATA
44135599 ACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 ACT--CGCACAAATGCCTTCGGGACTTAGC
44135628 TCGGTTATCA
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 7 0.07
80 22 0.23
81 43 0.45
82 20 0.21
83 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
AGCCCAGAACTAATA
Found at i:44135687 original size:18 final size:19
Alignment explanation
Indices: 44135645--44135687 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
44135635 TCATCCAAAT
44135645 ATTCATGAACACATCAATA
1 ATTCATGAACACATCAATA
* *
44135664 AATCATG-ACACATCTATA
1 ATTCATGAACACATCAATA
*
44135682 TTTCAT
1 ATTCAT
44135688 TTTCATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTCATGAACACATCAATA
Found at i:44147411 original size:28 final size:28
Alignment explanation
Indices: 44147380--44147451 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
44147370 ACCGATCTCA
44147380 CACACATAGTGCTCGATTGA-AGAACTCG
1 CACACATAGTGCTCGATT-ACAGAACTCG
* * * *
44147408 CACACACAGTGCCTCAATTACTGATCTCG
1 CACACATAGTG-CTCGATTACAGAACTCG
44147437 CACACATAGTGCTCG
1 CACACATAGTGCTCG
44147452 GTTAAAGGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
CACACATAGTGCTCGATTACAGAACTCG
Found at i:44147856 original size:43 final size:43
Alignment explanation
Indices: 44147634--44147855 Score: 327
Period size: 43 Copynumber: 5.2 Consensus size: 43
44147624 CCTTGCTAGA
** *
44147634 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
44147677 ATCACTGGCACGAAGCCTGCTAGGAACGAAGGCCTGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* *
44147720 ATCACCGGCATGAAGCCTGCTAGGTACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
44147763 ATCACTGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * * *
44147806 ATCACCGACACAAAGCCCGCTAGGCACGAAGGCCCGACTACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
44147849 ATCACCG
1 ATCACCG
44147856 AGTTTCATGC
Statistics
Matches: 161, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 161 1.00
ACGTcount: A:0.32, C:0.33, G:0.23, T:0.12
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:44151166 original size:43 final size:43
Alignment explanation
Indices: 44151035--44151167 Score: 203
Period size: 43 Copynumber: 3.1 Consensus size: 43
44151025 TATATGTGAT
*
44151035 ATTGATATGTAATTATGTGTAAGACCATGTCTGGGACATTGGC
1 ATTGATATGTAATTATGTGTAAGACCAAGTCTGGGACATTGGC
** *
44151078 ATCAATATGTAATTATGTGTAAGACCAAGTCTGGGACCTTGGC
1 ATTGATATGTAATTATGTGTAAGACCAAGTCTGGGACATTGGC
* * *
44151121 ATTGATATGTAATAATGTGTAAGACCACGTCTGGGACGTTGGC
1 ATTGATATGTAATTATGTGTAAGACCAAGTCTGGGACATTGGC
44151164 ATTG
1 ATTG
44151168 TACGATATGT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
ATTGATATGTAATTATGTGTAAGACCAAGTCTGGGACATTGGC
Found at i:44153397 original size:22 final size:21
Alignment explanation
Indices: 44153349--44153448 Score: 74
Period size: 24 Copynumber: 4.4 Consensus size: 21
44153339 ATAGCTCGTA
* * *
44153349 AGAGCTTTTTGTTCATCTCATT
1 AGAGCTTATT-TTCAACTCAAT
*
44153371 GGAGCTTATTGTTCAACTCAAT
1 AGAGCTTATT-TTCAACTCAAT
*
44153393 AGAGCGTACCATTTTCAACTCAAT
1 AGAGC-T--TATTTTCAACTCAAT
*
44153417 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA---TTTTCAACTCAAT
44153441 AGAGCTTA
1 AGAGCTTA
44153449 CTATTTATCA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.02
22 22 0.34
23 2 0.03
24 36 0.56
25 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (21 bp):
AGAGCTTATTTTCAACTCAAT
Found at i:44153412 original size:24 final size:24
Alignment explanation
Indices: 44153382--44153463 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
44153372 GAGCTTATTG
*
44153382 TTCAACTCAATAGAGCGTACCATT
1 TTCAACTCAATAGAGCTTACCATT
*
44153406 TTCAACTCAATAGAGCTTACCGTT
1 TTCAACTCAATAGAGCTTACCATT
* *
44153430 TTCAGCTCAATAGAGCTTACTATT
1 TTCAACTCAATAGAGCTTACCATT
*
44153454 TATCAGCTCA
1 T-TCAACTCA
44153464 TGAAGAGCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
24 44 0.85
25 8 0.15
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (24 bp):
TTCAACTCAATAGAGCTTACCATT
Found at i:44153474 original size:26 final size:24
Alignment explanation
Indices: 44153377--44153476 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 24
44153367 CATTGGAGCT
* *
44153377 TATTGTTCAACTCAATAGAGCGTAC
1 TATT-TTCAGCTCAATAGAGCTTAC
* *
44153402 CATTTTCAACTCAATAGAGCTTAC
1 TATTTTCAGCTCAATAGAGCTTAC
**
44153426 CGTTTTCAGCTCAATAGAGCTTAC
1 TATTTTCAGCTCAATAGAGCTTAC
44153450 TATTTATCAGCTC-ATGAAGAGCTTAC
1 TATTT-TCAGCTCAAT--AGAGCTTAC
44153476 T
1 T
44153477 GACCATGTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
24 46 0.70
25 10 0.15
26 10 0.15
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (24 bp):
TATTTTCAGCTCAATAGAGCTTAC
Found at i:44154404 original size:30 final size:29
Alignment explanation
Indices: 44154368--44154435 Score: 111
Period size: 28 Copynumber: 2.3 Consensus size: 29
44154358 CCCTGTGTCT
44154368 CAGCTGTGTGCGATACATGGTCATTTTACA
1 CAGC-GTGTGCGATACATGGTCATTTTACA
44154398 CAGC-TGTGCGATACATGGTCATTTTACA
1 CAGCGTGTGCGATACATGGTCATTTTACA
44154426 CAGCCGTGTG
1 CAG-CGTGTG
44154436 TCCCCTAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
28 27 0.75
29 1 0.03
30 8 0.22
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (29 bp):
CAGCGTGTGCGATACATGGTCATTTTACA
Found at i:44154410 original size:28 final size:28
Alignment explanation
Indices: 44154374--44154429 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
44154364 GTCTCAGCTG
44154374 TGTGCGATACATGGTCATTTTACACAGC
1 TGTGCGATACATGGTCATTTTACACAGC
44154402 TGTGCGATACATGGTCATTTTACACAGC
1 TGTGCGATACATGGTCATTTTACACAGC
44154430 CGTGTGTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (28 bp):
TGTGCGATACATGGTCATTTTACACAGC
Found at i:44157426 original size:42 final size:44
Alignment explanation
Indices: 44157347--44157449 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 44
44157337 ATGGACTTAT
44157347 GATTTACGTGTAAGACCATATATGGGACATCGACATCG-TATTC
1 GATTTACGTGTAAGACCATATATGGGACATCGACATCGATATTC
* * * *
44157390 GATTT-CGTGTAAGACCCTATCTGGGATAGT-GGCATCGATATT-
1 GATTTACGTGTAAGACCATATATGGGACA-TCGACATCGATATTC
* * *
44157432 TAATTACATGTAAGACCA
1 GATTTACGTGTAAGACCA
44157450 CGTCTAGGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
42 29 0.59
43 20 0.41
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
GATTTACGTGTAAGACCATATATGGGACATCGACATCGATATTC
Found at i:44172730 original size:24 final size:24
Alignment explanation
Indices: 44172671--44172765 Score: 129
Period size: 24 Copynumber: 3.9 Consensus size: 24
44172661 AGACATGGTC
*
44172671 GGTAAGCTCT-TCATGAGCTGATAAAC
1 GGTAAGCTCTAT--TGAGCTGA-AAAT
* *
44172697 AGTAAGCTCTATTGAGTTGAAAAT
1 GGTAAGCTCTATTGAGCTGAAAAT
44172721 GGTAAGCTCTATTGAGCTGAAAAT
1 GGTAAGCTCTATTGAGCTGAAAAT
44172745 GGTAAGCTCTATTGAGCTGAA
1 GGTAAGCTCTATTGAGCTGAA
44172766 CAAGAACCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
24 46 0.73
25 7 0.11
26 9 0.14
27 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (24 bp):
GGTAAGCTCTATTGAGCTGAAAAT
Found at i:44173869 original size:27 final size:27
Alignment explanation
Indices: 44173839--44173933 Score: 124
Period size: 27 Copynumber: 3.5 Consensus size: 27
44173829 TATAGGCTAG
44173839 ATTACTGAAATA-CCCTCGTAGAGTAGA
1 ATTACTGAAATACCCCT-GTAGAGTAGA
*
44173866 ATTACTGAAATGCCCCTGTAG-GATAGA
1 ATTACTGAAATACCCCTGTAGAG-TAGA
*
44173893 ATTACTGAAATTCCCCTGTA-AGGTAGA
1 ATTACTGAAATACCCCTGTAGA-GTAGA
44173920 ATTACTGAAATACC
1 ATTACTGAAATACC
44173934 ATTGGTTTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.02
27 55 0.90
28 5 0.08
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGAGTAGA
Found at i:44173964 original size:26 final size:27
Alignment explanation
Indices: 44173919--44173986 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 27
44173909 TGTAAGGTAG
44173919 AATTACTGAAATACCATTGGTTTACAA
1 AATTACTGAAATACCATTGGTTTACAA
*
44173946 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACTGAAATACCATTGGTTTACAA
**
44173972 AATTACCAAAATACC
1 AATTACTGAAATACC
44173987 CTCAATTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCATTGGTTTACAA
Found at i:44174208 original size:27 final size:27
Alignment explanation
Indices: 44173919--44174212 Score: 173
Period size: 27 Copynumber: 10.9 Consensus size: 27
44173909 TGTAAGGTAG
* * * *
44173919 AATTACTGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
44173946 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* ** * *
44173972 AATTACCAAAATACCCTCAATTAGAAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
44173999 AATTACCAAAATACCCCT-AGTTTGCGA
1 AATTACCGAAATACCCTTGA-TTTGCAA
* ***
44174026 AATTACCTAAATACCCACAATTT-CTAA
1 AATTACCGAAATACCCTTGATTTGC-AA
** * * *
44174053 AATTACTAAAATACCCCTAATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
44174080 AATTATCGAAATAACCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
44174107 AATT-CCAGAAATACTCTTGATTTACAA
1 AATTACC-GAAATACCCTTGATTTGCAA
** * **
44174134 AATTACAAAAATACTCTTGACTTTTAAA
1 AATTACCGAAATACCCTTGA-TTTGCAA
* * *
44174162 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
44174189 AATTACCGAAATGCCCTTGGTTTG
1 AATTACCGAAATACCCTTGATTTG
44174213 TAGATTTACC
Statistics
Matches: 212, Mismatches: 47, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 26 0.12
27 163 0.77
28 23 0.11
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGCAA
Found at i:44174529 original size:41 final size:41
Alignment explanation
Indices: 44174472--44174592 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
44174462 GGAGGAAGAA
**
44174472 ATTGAGGATCGAATGGTTGCTTGACGATTGGGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCACCG
* * *
44174513 ATTGAGGATTGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCACCG
* * *
44174554 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
1 ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCAC
44174593 TGGTGGCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCACCG
Found at i:44174788 original size:22 final size:22
Alignment explanation
Indices: 44174736--44174800 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
44174726 TCCAATTATT
**
44174736 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44174758 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44174780 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44174801 ACGAATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44175429 original size:27 final size:27
Alignment explanation
Indices: 44175164--44175433 Score: 179
Period size: 27 Copynumber: 10.0 Consensus size: 27
44175154 GGCTGGTTTA
* * *
44175164 CAAAATTACTG-AATACCCTTGGTTTA
1 CAAAATTACCGAAATACCCTTGATTTG
* ** *
44175190 CAAAATTACCAAAATACCCTCAATTAG
1 CAAAATTACCGAAATACCCTTGATTTG
* * *
44175217 AAAAATTACCAAAATACCCCT-AGTTTG
1 CAAAATTACCGAAATACCCTTGA-TTTG
* * **
44175244 CGAAATTACCTAAATACCCTCAATTT-
1 CAAAATTACCGAAATACCCTTGATTTG
** * *
44175270 CTAAAATTACTAAAATACCCCTAATTTG
1 C-AAAATTACCGAAATACCCTTGATTTG
* * *
44175298 GAAAATTATCGAAATAACCTTGATTTG
1 CAAAATTACCGAAATACCCTTGATTTG
* * *
44175325 GAAAATT-CCAGAAATACTCTTGATTTA
1 CAAAATTACC-GAAATACCCTTGATTTG
* * *
44175352 CAAAATTACAGAAATACTCTTGACTTTT
1 CAAAATTACCGAAATACCCTTGA-TTTG
* * * *
44175380 AAAAATTACAGAAATACCATTGGTTTG
1 CAAAATTACCGAAATACCCTTGATTTG
* *
44175407 CAAAATTACCGAAATGCCCTTGGTTTG
1 CAAAATTACCGAAATACCCTTGATTTG
44175434 TAGATTTACC
Statistics
Matches: 192, Mismatches: 44, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
26 12 0.06
27 156 0.81
28 24 0.12
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
CAAAATTACCGAAATACCCTTGATTTG
Found at i:44175750 original size:41 final size:41
Alignment explanation
Indices: 44175693--44175813 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 41
44175683 GGAGGAAGAA
**
44175693 ATTGAGGATCGAATGGTTGCTTGACGATTGGGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCACCG
* *
44175734 ATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCACCG
* * *
44175775 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
1 ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCAC
44175814 TGGTGGCTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGGGGATCCACCG
Found at i:44176009 original size:22 final size:22
Alignment explanation
Indices: 44175957--44176021 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
44175947 TCCAATTATT
44175957 CTGATTATGGCTTTG-CACCAAC
1 CTGATTATGGCTTTGTC-CCAAC
*
44175979 CT-ACATATGGCTTTGTCCCAAC
1 CTGA-TTATGGCTTTGTCCCAAC
* *
44176001 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTCCCAA
44176022 ACTAATTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 33 0.92
23 2 0.06
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTCCCAAC
Found at i:44176443 original size:27 final size:28
Alignment explanation
Indices: 44176413--44176616 Score: 176
Period size: 27 Copynumber: 7.5 Consensus size: 28
44176403 TTGGTTTACA
* *
44176413 AAATTACCAAAATACCCTC-AATTAGCG
1 AAATTACCAAAATACCCTCTAATTTGTG
* *
44176440 AAATTACCAAAATA-CCTCTAGTTTGTA
1 AAATTACCAAAATACCCTCTAATTTGTG
** *
44176467 AAATTACCAAAATACCC-CTGGTTTGTT
1 AAATTACCAAAATACCCTCTAATTTGTG
*
44176494 AAATTACCAAAATACCCT-TGATTTGTG
1 AAATTACCAAAATACCCTCTAATTTGTG
* * * *
44176521 TAATTACCTAAGTACCCTC-AATTTGTA
1 AAATTACCAAAATACCCTCTAATTTGTG
*
44176548 AAATTACTAAAATACCC-CTAATTTG-G
1 AAATTACCAAAATACCCTCTAATTTGTG
* *
44176574 AAAATTACCGAAATACACT-TAATTTG-G
1 -AAATTACCAAAATACCCTCTAATTTGTG
44176601 AAAATTA-CAGAAATAC
1 -AAATTACCA-AAATAC
44176617 TCTTGAGTTA
Statistics
Matches: 147, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.04
27 139 0.95
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
AAATTACCAAAATACCCTCTAATTTGTG
Found at i:44176546 original size:81 final size:81
Alignment explanation
Indices: 44176412--44176616 Score: 227
Period size: 81 Copynumber: 2.5 Consensus size: 81
44176402 CTTGGTTTAC
* * *
44176412 AAAATTACCAAAATACCCTCAATTAGCGAAATTACCAAAATACCTCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTAATTTGCGAAATTACCAAAATACCTCTAATTTGTAAAATTACCAA
** *
44176477 AATACCCCTGGTTTGT
66 AATACCCCTAATTTGG
* * * * * * *
44176493 TAAATTACCAAAATACCCTTGATTTGTGTAATTACCTAAGTACC-CTCAATTTGTAAAATTACTA
1 AAAATTACCAAAATACCCTTAATTTGCGAAATTACCAAAATACCTCT-AATTTGTAAAATTACCA
44176557 AAATACCCCTAATTTGG
65 AAATACCCCTAATTTGG
* *
44176574 AAAATTACCGAAATACACTTAATTTG-GAAAATTA-CAGAAATAC
1 AAAATTACCAAAATACCCTTAATTTGCG-AAATTACCA-AAATAC
44176617 TCTTGAGTTA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
80 4 0.04
81 97 0.96
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTAATTTGCGAAATTACCAAAATACCTCTAATTTGTAAAATTACCAA
AATACCCCTAATTTGG
Found at i:44176631 original size:27 final size:27
Alignment explanation
Indices: 44176574--44176670 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
44176564 CCTAATTTGG
* * * **
44176574 AAAATTACCGAAATACACTTAATTTGG
1 AAAATTACAGAAATACACTTGACTTAC
* *
44176601 AAAATTACAGAAATACTCTTGAGTTAC
1 AAAATTACAGAAATACACTTGACTTAC
* * *
44176628 AAAATTATAGAAATACCCTTGACTTTC
1 AAAATTACAGAAATACACTTGACTTAC
44176655 AAAAATTACAGAAATA
1 -AAAATTACAGAAATA
44176671 ATATTGGTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 44 0.76
28 14 0.24
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACAGAAATACACTTGACTTAC
Found at i:44177024 original size:40 final size:41
Alignment explanation
Indices: 44176968--44177086 Score: 177
Period size: 40 Copynumber: 2.9 Consensus size: 41
44176958 GGAGGAAGAA
*
44176968 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44177009 -TTGAGGATCGTATGGTTGCTTCACGACCGTGGATCTACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* *
44177049 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44177087 TCGGTGGCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 36 0.52
41 33 0.48
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44177283 original size:22 final size:22
Alignment explanation
Indices: 44177231--44177295 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44177221 TCCAATTATT
* **
44177231 CTGATTATGGGTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44177253 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44177275 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44177296 ACGAATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44177709 original size:27 final size:27
Alignment explanation
Indices: 44177670--44177878 Score: 217
Period size: 27 Copynumber: 7.7 Consensus size: 27
44177660 AAAATTACTG
* **
44177670 AATACCCTTAATTTACAAAATTACCAA
1 AATACCCTCAATTTGTAAAATTACCAA
* *
44177697 AATACCCTCAATTAGCAAAATTACCAA
1 AATACCCTCAATTTGTAAAATTACCAA
*
44177724 AATA-CCTCTAGTTTGTAAAATTACCAA
1 AATACCCTC-AATTTGTAAAATTACCAA
**
44177751 AATTACCCT-GGTTTGTAAAATTACCAA
1 AA-TACCCTCAATTTGTAAAATTACCAA
** * *
44177778 AATACCCTTGATTTGTGAAATTACCTA
1 AATACCCTCAATTTGTAAAATTACCAA
*
44177805 AATACCCTCAATTTGTAAAATTACTAA
1 AATACCCTCAATTTGTAAAATTACCAA
*
44177832 AATACGCCT-AATTTGGAAAATTACCAA
1 AATAC-CCTCAATTTGTAAAATTACCAA
* * *
44177859 AATACACTTAATTTGGAAAA
1 AATACCCTCAATTTGTAAAA
44177879 ATATAGAAAT
Statistics
Matches: 158, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.08
27 138 0.87
28 5 0.03
29 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATACCCTCAATTTGTAAAATTACCAA
Found at i:44177888 original size:27 final size:27
Alignment explanation
Indices: 44177660--44177917 Score: 134
Period size: 27 Copynumber: 9.6 Consensus size: 27
44177650 GCTGGTTTAC
* * **
44177660 AAAATTACT-GAATACCCTTAATTTAC
1 AAAATTACTAAAATACACTTAATTTGG
* * * * *
44177686 AAAATTACCAAAATACCCTCAATTAGC
1 AAAATTACTAAAATACACTTAATTTGG
* * *
44177713 AAAATTACCAAAATAC-CTCTAGTTTGT
1 AAAATTACTAAAATACACT-TAATTTGG
* * ** *
44177740 AAAATTACCAAAATTAC-CCTGGTTTGT
1 AAAATTACTAAAA-TACACTTAATTTGG
* * *
44177767 AAAATTACCAAAATACCCTTGATTTGTG
1 AAAATTACTAAAATACACTTAATTTG-G
* * *
44177795 -AAATTACCT-AAATACCCTCAATTTGT
1 AAAATTA-CTAAAATACACTTAATTTGG
* *
44177821 AAAATTACTAAAATACGCCTAATTTGG
1 AAAATTACTAAAATACACTTAATTTGG
*
44177848 AAAATTACCAAAATACACTTAATTTGG
1 AAAATTACTAAAATACACTTAATTTGG
* * * **
44177875 AAAAATA-TAGAAATACTCTTGATTTAC
1 AAAATTACTA-AAATACACTTAATTTGG
44177902 AAAATTA-TAGAAATAC
1 AAAATTACTA-AAATAC
44177918 CCTTGACTTT
Statistics
Matches: 191, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
26 16 0.08
27 170 0.89
28 5 0.03
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACACTTAATTTGG
Found at i:44177906 original size:54 final size:54
Alignment explanation
Indices: 44177670--44177976 Score: 151
Period size: 54 Copynumber: 5.7 Consensus size: 54
44177660 AAAATTACTG
* * * * * * * *
44177670 AATACCCTTAATTTACAAAATTACCAAAATACCCTCAATTAGCAAAATTACCA-A
1 AATACTCTTGATTTGCAAAATTACCAAAATACACTTAATTTGCAAAAATA-TAGA
* * * ** * * *
44177724 AATACCTCTAG-TTTGTAAAATTACCAAAATTAC-CCTGGTTTGTAAAATTACCA-A
1 AATA-CTCTTGATTTGCAAAATTACCAAAA-TACACTTAATTTGCAAAAATA-TAGA
* ** * * * * *
44177778 AATACCCTTGATTTGTGAAATTACCTAAATACCCTCAATTTGTAAAATTACTA-A
1 AATACTCTTGATTTGCAAAATTACCAAAATACACTTAATTTGCAAAAATA-TAGA
* * * * *
44177832 AATACGCCTAATTTGGAAAATTACCAAAATACACTTAATTTGGAAAAATATAGA
1 AATACTCTTGATTTGCAAAATTACCAAAATACACTTAATTTGCAAAAATATAGA
* * * * *
44177886 AATACTCTTGATTTACAAAATTA-TAGAAATACCCTTGACTTT-CAAAAATTTCAGA
1 AATACTCTTGATTTGCAAAATTACCA-AAATACACTT-AATTTGCAAAAATAT-AGA
* * * *
44177941 AATACTATTGGTTTGCAAAATTACCGAAATGCACTT
1 AATACTCTTGATTTGCAAAATTACCAAAATACACTT
44177977 GGTTTGTAGA
Statistics
Matches: 197, Mismatches: 47, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
53 10 0.05
54 146 0.74
55 41 0.21
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (54 bp):
AATACTCTTGATTTGCAAAATTACCAAAATACACTTAATTTGCAAAAATATAGA
Found at i:44177906 original size:81 final size:79
Alignment explanation
Indices: 44177655--44177920 Score: 218
Period size: 81 Copynumber: 3.3 Consensus size: 79
44177645 ACTGGGCTGG
* * * * *
44177655 TTTACAAAATTACT-GAATACCCTTAATTTACAAAATTACCAAAATACCCTCAATTAGCAAAATT
1 TTTACAAAATTACTAAAATACCC-TAATTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
44177719 ACCAAAATACCTCTAG-
65 A-CAAAATA-CTCTAGA
** * ** * *
44177735 TTTGTAAAATTACCAAAATTACCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTG-AAAT
1 TTTACAAAATTACTAAAA-TACCCTAATTTGCAAAATTACCAAAATACCCTTAATTTG-GAAAAT
* *
44177799 TACCTAAATACCCTCA-A
64 TA-CAAAATACTCT-AGA
** * * *
44177816 TTTGTAAAATTACTAAAATACGCCTAATTTGGAAAATTACCAAAATACACTTAATTTGGAAAAAT
1 TTTACAAAATTACTAAAATAC-CCTAATTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
* *
44177881 ATAGAAATACTCTTGA
65 ACA-AAATACTCTAGA
44177897 TTTACAAAATTA-TAGAAATACCCT
1 TTTACAAAATTACTA-AAATACCCT
44177921 TGACTTTCAA
Statistics
Matches: 149, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
80 23 0.15
81 121 0.81
82 5 0.03
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (79 bp):
TTTACAAAATTACTAAAATACCCTAATTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATTA
CAAAATACTCTAGA
Found at i:44177922 original size:27 final size:26
Alignment explanation
Indices: 44177875--44177963 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
44177865 CTTAATTTGG
*
44177875 AAAAATATAGAAATACTCTTGATTTAC
1 AAAATTATAGAAATACTCTTGATTT-C
*
44177902 AAAATTATAGAAATACCCTTGACTTTC
1 AAAATTATAGAAATACTCTTGA-TTTC
* *
44177929 AAAAATT-TCAGAAATACTATTGGTTTGC
1 -AAAATTAT-AGAAATACTCTTGATTT-C
44177957 AAAATTA
1 AAAATTA
44177964 CCGAAATGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 31 0.60
28 21 0.40
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (26 bp):
AAAATTATAGAAATACTCTTGATTTC
Found at i:44177942 original size:28 final size:25
Alignment explanation
Indices: 44177875--44177945 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 25
44177865 CTTAATTTGG
* *
44177875 AAAAATATAGAAATACTCTTGATTT
1 AAAAATTTAGAAATACCCTTGATTT
44177900 ACAAAATTATAGAAATACCCTTGACTTT
1 A-AAAATT-TAGAAATACCCTTGA-TTT
44177928 CAAAAATTTCAGAAATAC
1 -AAAAATTT-AGAAATAC
44177946 TATTGGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.13
27 15 0.38
28 17 0.44
29 1 0.03
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (25 bp):
AAAAATTTAGAAATACCCTTGATTT
Found at i:44177970 original size:55 final size:54
Alignment explanation
Indices: 44177842--44177976 Score: 137
Period size: 55 Copynumber: 2.5 Consensus size: 54
44177832 AATACGCCTA
* * * *
44177842 ATTTGGAAAATTACCAAAATACACTTAATTTGGAAAAATATAGAAATACTCTTG
1 ATTTGCAAAATTACCGAAATACACTTAATTTGCAAAAATATAGAAATACTATTG
* ** * * *
44177896 ATTTACAAAATTATAGAAATACCCTTGACTTT-CAAAAATTTCAGAAATACTATTG
1 ATTTGCAAAATTACCGAAATACACTT-AATTTGCAAAAATAT-AGAAATACTATTG
* *
44177951 GTTTGCAAAATTACCGAAATGCACTT
1 ATTTGCAAAATTACCGAAATACACTT
44177977 GGTTTGTAGA
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
54 27 0.43
55 36 0.57
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (54 bp):
ATTTGCAAAATTACCGAAATACACTTAATTTGCAAAAATATAGAAATACTATTG
Found at i:44178298 original size:40 final size:41
Alignment explanation
Indices: 44178242--44178356 Score: 187
Period size: 40 Copynumber: 2.8 Consensus size: 41
44178232 GGAGGAAGAA
*
44178242 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44178283 -TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* *
44178323 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGA
44178357 ACCATCGGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 38 0.55
41 31 0.45
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44178557 original size:22 final size:22
Alignment explanation
Indices: 44178505--44178569 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44178495 TCCAATTATT
* **
44178505 CTGATTATGGGTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44178527 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44178549 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44178570 ACGAATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44178971 original size:27 final size:28
Alignment explanation
Indices: 44178934--44179130 Score: 237
Period size: 27 Copynumber: 7.3 Consensus size: 28
44178924 GCTGGTTTAC
* *
44178934 AAAATTACCAAAATACCCTC-AATTAGC
1 AAAATTACCAAAATACCCTCTAATTTGT
*
44178961 AAAATTACCAAAATA-CCTCTAGTTTGT
1 AAAATTACCAAAATACCCTCTAATTTGT
*
44178988 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCTAATTTGT
*
44179015 AAAATTACCAAAATACCCT-TGATTTGT
1 AAAATTACCAAAATACCCTCTAATTTGT
* *
44179042 GAAATTACCTAAATACCCTC-AATTTGT
1 AAAATTACCAAAATACCCTCTAATTTGT
* *
44179069 AAAATTACTAAAATACCC-CTAATTTGG
1 AAAATTACCAAAATACCCTCTAATTTGT
** *
44179096 AAAATTACCAAAATACAGT-TAATTTGG
1 AAAATTACCAAAATACCCTCTAATTTGT
44179123 AAAATTAC
1 AAAATTAC
44179131 AGAAAAACTC
Statistics
Matches: 149, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
26 5 0.03
27 142 0.95
28 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (28 bp):
AAAATTACCAAAATACCCTCTAATTTGT
Found at i:44179147 original size:27 final size:27
Alignment explanation
Indices: 44178933--44179218 Score: 113
Period size: 27 Copynumber: 10.6 Consensus size: 27
44178923 GGCTGGTTTA
* ** *
44178933 CAAAATTACCA-AAATACCCTCAATTAG
1 CAAAATTA-CAGAAATACTCTTGATTTG
*
44178960 CAAAATTACCA-AAATACCTCTAG-TTTG
1 CAAAATTA-CAGAAATA-CTCTTGATTTG
* * *
44178987 TAAAATTACCA-AAATACCCCT-AGTTTG
1 CAAAATTA-CAGAAATACTCTTGA-TTTG
* *
44179014 TAAAATTACCA-AAATACCCTTGATTTG
1 CAAAATTA-CAGAAATACTCTTGATTTG
** ** * **
44179041 TGAAATTACCTAAATACCCTCAATTTG
1 CAAAATTACAGAAATACTCTTGATTTG
* * * *
44179068 TAAAATTACTA-AAATACCCCTAATTTG
1 CAAAATTAC-AGAAATACTCTTGATTTG
* ** *
44179095 GAAAATTACCA-AAATACAGTTAATTTG
1 CAAAATTA-CAGAAATACTCTTGATTTG
* * *
44179122 GAAAATTACAGAAAAACTCTTGATTTA
1 CAAAATTACAGAAATACTCTTGATTTG
* *
44179149 CAAAATTATAGAAATACCCTTGACTTT-
1 CAAAATTACAGAAATACTCTTGA-TTTG
* * *
44179176 CAAAAATTATAGAAATACTATTGGTTTG
1 C-AAAATTACAGAAATACTCTTGATTTG
*
44179204 CAAAATTACCGAAAT
1 CAAAATTACAGAAAT
44179219 TCCCTTGGTT
Statistics
Matches: 213, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.02
27 180 0.85
28 28 0.13
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (27 bp):
CAAAATTACAGAAATACTCTTGATTTG
Found at i:44179154 original size:54 final size:54
Alignment explanation
Indices: 44178933--44179156 Score: 211
Period size: 54 Copynumber: 4.1 Consensus size: 54
44178923 GGCTGGTTTA
* * * *
44178933 CAAAATTACCAAAATACCCTCAATTAGCAAAATTACCAAAATACCTCTAG-TTTG
1 CAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAAAACC-CTTGATTTG
* * *
44178987 TAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGATTTG
1 CAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAAAACCCTTGATTTG
** * * * * *
44179041 TGAAATTACCTAAATACCCTCAATTTGTAAAATTACTAAAATACCCCTAATTTG
1 CAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAAAACCCTTGATTTG
* ** * * * *
44179095 GAAAATTACCAAAATACAGTTAATTTGGAAAATTA-CAGAAAAACTCTTGATTTA
1 CAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA-AAAAACCCTTGATTTG
44179149 CAAAATTA
1 CAAAATTA
44179157 TAGAAATACC
Statistics
Matches: 141, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 5 0.04
54 135 0.96
55 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (54 bp):
CAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAAAACCCTTGATTTG
Found at i:44179154 original size:81 final size:81
Alignment explanation
Indices: 44178988--44179167 Score: 202
Period size: 81 Copynumber: 2.2 Consensus size: 81
44178978 TCTAGTTTGT
* * * * * **
44178988 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTACCTA
1 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGTGAAATTACAGA
* **
44179053 AATACCCTCAATTTGT
66 AAAACCCTCAATTTAC
*
44179069 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACAGTTAATTTG-GAAAATTACAG
1 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGTG-AAATTACAG
* **
44179133 AAAAACTCTTGATTTAC
65 AAAAACCCTCAATTTAC
44179150 AAAATTA-TAGAAATACCC
1 AAAATTACTA-AAATACCC
44179168 TTGACTTTCA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 3 0.04
81 80 0.96
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGTGAAATTACAGA
AAAACCCTCAATTTAC
Found at i:44179591 original size:41 final size:40
Alignment explanation
Indices: 44179494--44179608 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
44179484 GAAGAAATTG
* *
44179494 AGGATCGAATGGTTGCTTGACGACCGTGGCTCCACCGTTG
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGTTA
*
44179534 AGGATC-ATATGGTTGCTTCACGACCGTGGATCCACCGATTA
1 AGGATCGA-ATGGTTGCTTGACGACCGTGGATCCACCG-TTA
*
44179575 AGGATCGCATGGTTGCTTGACGACCGTGGATCCA
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44179609 TCGGTGGCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 33 0.49
41 33 0.49
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (40 bp):
AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGTTA
Found at i:44179805 original size:22 final size:22
Alignment explanation
Indices: 44179753--44179816 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44179743 TCCAATTATT
**
44179753 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44179775 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44179797 CTGATTATGG-TGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44179817 ACGAATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.29
22 24 0.69
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44180503 original size:27 final size:27
Alignment explanation
Indices: 44180180--44180497 Score: 246
Period size: 27 Copynumber: 11.8 Consensus size: 27
44180170 GGCTGGTTTA
* *
44180180 CAAAATTACTG-AATACCCTTAATTTA
1 CAAAATTACCGAAATACCCTTAATTTG
* * *
44180206 CAAAATTACCAAAATACCCTCAATTAG
1 CAAAATTACCGAAATACCCTTAATTTG
* *
44180233 CAAAATTACCAAAATA-CCTCTAGTTTG
1 CAAAATTACCGAAATACCCT-TAATTTG
* * * *
44180260 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCGAAATACCCTTAATTTG
* * *
44180287 TAAAATTACCAAAATACCCTTGATTTG
1 CAAAATTACCGAAATACCCTTAATTTG
** * *
44180314 TGAAATTACCTAAATACCCTCAATTTG
1 CAAAATTACCGAAATACCCTTAATTTG
* ** *
44180341 TAAAATTACTAAAATACCCCTAATTTG
1 CAAAATTACCGAAATACCCTTAATTTG
* *
44180368 GAAAATTACCGAAATACACTTAATTTG
1 CAAAATTACCGAAATACCCTTAATTTG
* * * * *
44180395 GAAAATTACAGAAATACTCTTGATTTA
1 CAAAATTACCGAAATACCCTTAATTTG
** *
44180422 CAAAATTATAGAAATACCCTTGACTTT-
1 CAAAATTACCGAAATACCCTT-AATTTG
* ** **
44180449 CAAAAATTACAGAAATACTATTGGTTTG
1 C-AAAATTACCGAAATACCCTTAATTTG
*
44180477 CAAAATTACCGAAATGCCCTT
1 CAAAATTACCGAAATACCCTT
44180498 GGTTTGTAGA
Statistics
Matches: 241, Mismatches: 45, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
26 12 0.05
27 206 0.85
28 23 0.10
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
CAAAATTACCGAAATACCCTTAATTTG
Found at i:44180826 original size:40 final size:41
Alignment explanation
Indices: 44180763--44180881 Score: 159
Period size: 40 Copynumber: 2.9 Consensus size: 41
44180753 GGAGGAAGAA
* * * *
44180763 ATTGACGATCGAATGGTTTCTTGACCACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44180804 -TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44180844 ATTAAGGATCGCATGGTTGCTTCACGACCGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44180882 TCGGTGGCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 35 0.51
41 34 0.49
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44180864 original size:41 final size:40
Alignment explanation
Indices: 44180769--44180881 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 40
44180759 AGAAATTGAC
* * * *
44180769 GATCGAATGGTTTCTTGACCACCGTGGCTCCACCGTTGAG
1 GATCGAATGGTTGCTTGACGACCGTGGATCCACCGTTAAG
*
44180809 GATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTAAG
1 GATCGAATGGTTGCTTGACGACCGTGGATCCACCG-TTAAG
* *
44180850 GATCGCATGGTTGCTTCACGACCGTGGATCCA
1 GATCGAATGGTTGCTTGACGACCGTGGATCCA
44180882 TCGGTGGCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 31 0.48
41 34 0.52
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (40 bp):
GATCGAATGGTTGCTTGACGACCGTGGATCCACCGTTAAG
Found at i:44181511 original size:27 final size:27
Alignment explanation
Indices: 44181395--44181661 Score: 227
Period size: 27 Copynumber: 9.9 Consensus size: 27
44181385 AAAATTACTG
* **
44181395 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
44181422 AATACCTCTAG-TTTGTAAAATTACCAA
1 AATACC-CTTGATTTGTAAAATTACCAA
* *
44181449 AATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
44181476 AATACCCTTGATTTGTGAAATTACCTA
1 AATACCCTTGATTTGTAAAATTACCAA
** *
44181503 AATACCCTTGATTTGTGTAATTACC-T
1 AATACCCTTGATTTGTAAAATTACCAA
** *
44181529 AATACCCTCAATTTGTAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * *
44181556 AATACCCCTAATTTGGAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
44181583 AATACACTTAATTTGGAAAACTA-CAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
* ** *
44181610 AATACTCTTGATTTACAAAATTA-TAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
**
44181637 AATACCCTTGACTTTCAAAAATTAC
1 AATACCCTTGA-TTTGTAAAATTAC
44181662 AGAAATAATA
Statistics
Matches: 201, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.12
27 164 0.82
28 13 0.06
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:44181632 original size:107 final size:108
Alignment explanation
Indices: 44181395--44181632 Score: 284
Period size: 107 Copynumber: 2.2 Consensus size: 108
44181385 AAAATTACTG
* * **
44181395 AATACCCTTGGTTTACAAAATTACCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCCCTGG
1 AATACCCTTGATTTACAAAATTACCAAAATACCTCTAATTTGTAAAATTACCAAAATACCCCTAA
* * * * **
44181460 TTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTACCTA
66 TTTGGAAAATTACCAAAATACACTTAATTTGTGAAACTACAGA
**** * *
44181503 AATACCCTTGATTTGTGTAATTACC-TAATACC-CTCAATTTGTAAAATTACTAAAATACCCCTA
1 AATACCCTTGATTTACAAAATTACCAAAATACCTCT-AATTTGTAAAATTACCAAAATACCCCTA
44181566 ATTTGGAAAATTACCAAAATACACTTAATTTG-GAAAACTACAGA
65 ATTTGGAAAATTACCAAAATACACTTAATTTGTG-AAACTACAGA
*
44181610 AATACTCTTGATTTACAAAATTA
1 AATACCCTTGATTTACAAAATTA
44181633 TAGAAATACC
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
106 3 0.03
107 84 0.79
108 20 0.19
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (108 bp):
AATACCCTTGATTTACAAAATTACCAAAATACCTCTAATTTGTAAAATTACCAAAATACCCCTAA
TTTGGAAAATTACCAAAATACACTTAATTTGTGAAACTACAGA
Found at i:44182022 original size:40 final size:41
Alignment explanation
Indices: 44181966--44182084 Score: 186
Period size: 40 Copynumber: 2.9 Consensus size: 41
44181956 GGAGGAAGAA
*
44181966 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44182007 -TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44182047 ATTAAGGATCGCATGGTTGCTTGACAACCGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44182085 TCGGTGGCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 38 0.53
41 34 0.47
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44182281 original size:22 final size:22
Alignment explanation
Indices: 44182229--44182293 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
44182219 TCCAAATATT
* *
44182229 CTGATTATGCCTTTGCACCAAC
1 CTGATTATGGCTTTGTACCAAC
* *
44182251 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTACCAAC
* *
44182273 CTGATTATGGCTATGTCCCAA
1 CTGATTATGGCTTTGTACCAA
44182294 ACGAATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTACCAAC
Found at i:44182697 original size:26 final size:27
Alignment explanation
Indices: 44182650--44182978 Score: 134
Period size: 27 Copynumber: 12.2 Consensus size: 27
44182640 TGGAATGGGC
**
44182650 TGGTTTACAAAATTA-CTGAATACCCT
1 TGGTTTACAAAATTACCAAAATACCCT
44182676 TGGTTTACAAAA-TACCAAAATACCC-
1 TGGTTTACAAAATTACCAAAATACCCT
*** * *
44182701 TCAATTAGCAAAATTACCTAAATA-TCT
1 TGGTTTA-CAAAATTACCAAAATACCCT
* ** *
44182728 CTAGTTTGTAAAATTACCAAAATACCCC
1 -TGGTTTACAAAATTACCAAAATACCCT
**
44182756 TGGTTTGTAAAATTACCAAAATACCCT
1 TGGTTTACAAAATTACCAAAATACCCT
* *** *
44182783 TGATTTGTGAAATTACCTAAATACCCT
1 TGGTTTACAAAATTACCAAAATACCCT
*** ** * *
44182810 CAATTTGTAAAATTACTAAAATACCCC
1 TGGTTTACAAAATTACCAAAATACCCT
** ** *
44182837 TAATTTGGAAAATTACCAAAATACACT
1 TGGTTTACAAAATTACCAAAATACCCT
** ** *
44182864 TAATTTGGAAAATTA-CAGAAATACTCT
1 TGGTTTACAAAATTACCA-AAATACCCT
* *
44182891 TGATTTACAAAATTA-TAGAAATACCCT
1 TGGTTTACAAAATTACCA-AAATACCCT
* * **
44182918 TGACTTT-CAAAAATTA-CAGAAATTCTAT
1 TG-GTTTAC-AAAATTACCA-AAATACCCT
* * * *
44182946 TGGTTTGCCAAATTACCGAAATGCCCT
1 TGGTTTACAAAATTACCAAAATACCCT
44182973 TGGTTT
1 TGGTTT
44182979 GTAGATTTAC
Statistics
Matches: 244, Mismatches: 48, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
25 6 0.02
26 28 0.11
27 184 0.75
28 26 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TGGTTTACAAAATTACCAAAATACCCT
Found at i:44182740 original size:27 final size:26
Alignment explanation
Indices: 44182684--44182887 Score: 178
Period size: 27 Copynumber: 7.6 Consensus size: 26
44182674 CTTGGTTTAC
* * *
44182684 AAAA-TACCAAAATACCCTCAATTAGC
1 AAAATTACCAAAATACCCT-AGTTTGT
* *
44182710 AAAATTACCTAAATATCTCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
44182737 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
44182764 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
* * *
44182791 GAAATTACCTAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
* * *
44182818 AAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACCAAAATA-CCCTAGTTTGT
* * *
44182845 AAAATTACCAAAATACACTTAATTTGG
1 AAAATTACCAAAATAC-CCTAGTTTGT
44182872 AAAATTA-CAGAAATAC
1 AAAATTACCA-AAATAC
44182888 TCTTGATTTA
Statistics
Matches: 151, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.08
27 132 0.87
28 7 0.05
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:44182896 original size:27 final size:26
Alignment explanation
Indices: 44182732--44182940 Score: 159
Period size: 27 Copynumber: 7.7 Consensus size: 26
44182722 ATATCTCTAG
* * *
44182732 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTGGAAAATTA-CAAAATACCCTTGA
*
44182759 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTGGAAAATTA-CAAAATACCCTTGA
* **
44182786 TTTGTG-AAATTACCTAAATACCCTCAA
1 TTTG-GAAAATTA-CAAAATACCCTTGA
* * *
44182813 TTTGTAAAATTACTAAAATACCCCTAA
1 TTTGGAAAATTAC-AAAATACCCTTGA
* *
44182840 TTTGGAAAATTACCAAAATACACTTAA
1 TTTGGAAAATTA-CAAAATACCCTTGA
*
44182867 TTTGGAAAATTACAGAAATACTCTTGA
1 TTTGGAAAATTACA-AAATACCCTTGA
** *
44182894 TTTACAAAATTATAGAAATACCCTTGA
1 TTTGGAAAATTACA-AAATACCCTTGA
**
44182921 CTTTCAAAAATTACAGAAAT
1 -TTTGGAAAATTACA-AAAT
44182941 TCTATTGGTT
Statistics
Matches: 154, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 134 0.87
28 17 0.11
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (26 bp):
TTTGGAAAATTACAAAATACCCTTGA
Done.