Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 65 of 175
Found at i:19359187 original size:62 final size:60
Alignment explanation
Indices: 19359110--19359232 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 60
19359100 GGAAAAGAAA
* *
19359110 ACCTTTCATCTGTTTTCTATTTTGTATTTGTTTCTCTTAATGTTTTTTTTTTCTTTTTTACC
1 ACCTTTCATATGTTTTCTATTTTATATTTGTTTCTCTTAATG--TTTTTTTTCTTTTTTACC
19359172 ACCTTTCATATGTTTTCTATTTTATATTTGTTTCTCTTAATGTTTTTTTTCTTTTTTACC
1 ACCTTTCATATGTTTTCTATTTTATATTTGTTTCTCTTAATGTTTTTTTTCTTTTTTACC
19359232 A
1 A
19359233 AATATCGGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 19 0.32
62 40 0.68
ACGTcount: A:0.14, C:0.15, G:0.06, T:0.65
Consensus pattern (60 bp):
ACCTTTCATATGTTTTCTATTTTATATTTGTTTCTCTTAATGTTTTTTTTCTTTTTTACC
Found at i:19361316 original size:19 final size:20
Alignment explanation
Indices: 19361292--19361331 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
19361282 AAATTTTAAG
19361292 TAAATAAT-TATT-AAAGTTT
1 TAAATAATAT-TTAAAAGTTT
19361311 TAAATAATATTTAAAAGTTT
1 TAAATAATATTTAAAAGTTT
19361331 T
1 T
19361332 TGATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAAATAATATTTAAAAGTTT
Found at i:19361346 original size:21 final size:21
Alignment explanation
Indices: 19361280--19361346 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 21
19361270 TATGTTTCAT
*
19361280 TAAAA-TTTTAAGTAAATAATTA
1 TAAAAGTTTTAAAT-AA-AATTA
* *
19361302 TTAAAGTTTTAAATAATATT-
1 TAAAAGTTTTAAATAAAATTA
**
19361322 TAAAAGTTTTTGATAAAATTA
1 TAAAAGTTTTAAATAAAATTA
19361343 TAAA
1 TAAA
19361347 TTTTAGTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 16 0.44
21 7 0.19
22 6 0.17
23 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (21 bp):
TAAAAGTTTTAAATAAAATTA
Found at i:19361378 original size:10 final size:10
Alignment explanation
Indices: 19361365--19361397 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
19361355 TTTTGTTTCC
19361365 TTTTTTATAT
1 TTTTTTATAT
19361375 TTTTTTAT-T
1 TTTTTTATAT
19361384 TTTTCTTATAT
1 TTTT-TTATAT
19361395 TTT
1 TTT
19361398 GATCCTGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.24
10 12 0.57
11 4 0.19
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:19362080 original size:23 final size:22
Alignment explanation
Indices: 19362023--19362083 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
19362013 TAACTTGTGT
*
19362023 ACCCTTGACACCCT-AAACCCTA
1 ACCCTTAAC-CCCTAAAACCCTA
*
19362045 AACCTATAA-CCCTAAAATCCCTA
1 ACCCT-TAACCCCTAAAA-CCCTA
19362068 ACCCTTAACCCCTAAA
1 ACCCTTAACCCCTAAA
19362084 CCTCAATCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.12
22 10 0.31
23 18 0.56
ACGTcount: A:0.38, C:0.41, G:0.02, T:0.20
Consensus pattern (22 bp):
ACCCTTAACCCCTAAAACCCTA
Found at i:19362423 original size:14 final size:15
Alignment explanation
Indices: 19362406--19362438 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19362396 CTTAAATCAG
19362406 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
19362420 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
19362435 AATC
1 AATC
19362439 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:19362902 original size:41 final size:41
Alignment explanation
Indices: 19362832--19363156 Score: 307
Period size: 41 Copynumber: 8.0 Consensus size: 41
19362822 TGCGCATTTT
** *
19362832 CAAAAACGCCGCTAAATCTCGGAGCATTAGCGGCGCTTTAC
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTAC
* * *
19362873 CAAAAACGCTGCTAAAGATCTGAGTATTAGCGGCGCTTTTC
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTAC
* * * * * **
19362914 TATAAACGCCGCTAAAGATTTGAGCA-TCGCGGCGATTTTG
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTAC
* * * * *
19362954 GAAAAACACCGATAAAGATCTGAGCTTTAGCAGCGCTTCTA-
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTT-TAC
* * * * **
19362995 CAGAAACGCCGCTAAATATCTTAGCATTACCGGCGCTTTTT
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTAC
* *
19363036 CAAAAACGCAGCTAAAGATCTGAGCATCAGCGGCGCTTCT-C
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTT-TAC
* *
19363077 AAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGATTTTA-
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCG-CTTTAC
* * * *
19363118 CAAAAACACCGCTAAAGATCTGGGAACTAGCGGCGCTTT
1 CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTT
19363157 TTTTTAAAAC
Statistics
Matches: 227, Mismatches: 51, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
40 35 0.15
41 188 0.83
42 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
CAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTAC
Found at i:19363537 original size:17 final size:17
Alignment explanation
Indices: 19363515--19363549 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19363505 TTTAACATTA
19363515 TTTTCTTATTTTAATTT
1 TTTTCTTATTTTAATTT
*
19363532 TTTTCTTATTTTGATTT
1 TTTTCTTATTTTAATTT
19363549 T
1 T
19363550 ATATCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTCTTATTTTAATTT
Found at i:19365573 original size:19 final size:19
Alignment explanation
Indices: 19365549--19365587 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19365539 AAGTCAATTA
19365549 ATAATT-TTAATTAAATATC
1 ATAATTATT-ATTAAATATC
*
19365568 ATAATTATTTTTAAATATC
1 ATAATTATTATTAAATATC
19365587 A
1 A
19365588 ATTCAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTATTATTAAATATC
Found at i:19365815 original size:22 final size:22
Alignment explanation
Indices: 19365787--19365829 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19365777 CAAAGATATC
19365787 TTTTCATTCTTTTCTCTCTCAA
1 TTTTCATTCTTTTCTCTCTCAA
* *
19365809 TTTTCATTTTTTTTTCTCTCA
1 TTTTCATTCTTTTCTCTCTCA
19365830 TTCTTTTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTCATTCTTTTCTCTCTCAA
Found at i:19365836 original size:24 final size:23
Alignment explanation
Indices: 19365784--19365836 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
19365774 ACACAAAGAT
19365784 ATCTTTTCATTCTTTTCTCTCTC
1 ATCTTTTCATTCTTTTCTCTCTC
* * *
19365807 A-ATTTTCATTTTTTTTTCTCTC
1 ATCTTTTCATTCTTTTCTCTCTC
19365829 ATTCTTTT
1 A-TCTTTT
19365837 GCTTTCTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.79
23 1 0.04
24 4 0.17
ACGTcount: A:0.11, C:0.23, G:0.00, T:0.66
Consensus pattern (23 bp):
ATCTTTTCATTCTTTTCTCTCTC
Found at i:19367175 original size:55 final size:55
Alignment explanation
Indices: 19367091--19367202 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
19367081 AAAATGAGTT
19367091 GATATTTTTGTTAGAAATAGTGTATTGAATAGAATTATTATTTTAGATTGAGAGC
1 GATATTTTTGTTAGAAATAGTGTATTGAATAGAATTATTATTTTAGATTGAGAGC
19367146 GATATTTTTGTTAGAAATAGTGTATTGAATAGAATTATTATTTTAGATTGAGAGC
1 GATATTTTTGTTAGAAATAGTGTATTGAATAGAATTATTATTTTAGATTGAGAGC
19367201 GA
1 GA
19367203 GTGAAAAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.43
Consensus pattern (55 bp):
GATATTTTTGTTAGAAATAGTGTATTGAATAGAATTATTATTTTAGATTGAGAGC
Found at i:19367344 original size:22 final size:22
Alignment explanation
Indices: 19367319--19367363 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19367309 TTTTTGGATG
19367319 AATGTAAATAGTTATTTATGTT
1 AATGTAAATAGTTATTTATGTT
19367341 AATGTAAATAGTTATTTATGTT
1 AATGTAAATAGTTATTTATGTT
19367363 A
1 A
19367364 TGGTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
AATGTAAATAGTTATTTATGTT
Found at i:19367693 original size:20 final size:20
Alignment explanation
Indices: 19367650--19367719 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
19367640 ATAGGATTTG
*
19367650 CACTTTGGTGCCTCTTTTTA
1 CACTTTGGTGCCTCTTTATA
* *
19367670 CACTTCGGTGCCTCTTTATG
1 CACTTTGGTGCCTCTTTATA
* *
19367690 CACTTTAGTGGCTCTTTATA
1 CACTTTGGTGCCTCTTTATA
*
19367710 CACTCTGGTG
1 CACTTTGGTG
19367720 TCCTTGTTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.43
Consensus pattern (20 bp):
CACTTTGGTGCCTCTTTATA
Found at i:19371952 original size:9 final size:9
Alignment explanation
Indices: 19371935--19371971 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19371925 TGAGTTTTCA
19371935 AATTCGAAT
1 AATTCGAAT
*
19371944 AACTCGAAT
1 AATTCGAAT
19371953 AATTCGAAT
1 AATTCGAAT
19371962 AATTCGAAT
1 AATTCGAAT
19371971 A
1 A
19371972 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19372364 original size:17 final size:16
Alignment explanation
Indices: 19372330--19372360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19372320 CCTATTTACT
*
19372330 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
19372346 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
19372361 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:19372676 original size:37 final size:39
Alignment explanation
Indices: 19372617--19372691 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 39
19372607 CAATTTCAAA
*
19372617 TTTTATTTTTAAAATAAATTTT-ATTAAAAAAT-CATAT
1 TTTTATATTTAAAATAAATTTTAATTAAAAAATACATAT
* ** *
19372654 TTTTATATTTAATATATTTTTTAATTATAAAATACATA
1 TTTTATATTTAAAATAAATTTTAATTAAAAAATACATA
19372692 GTGACAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 18 0.58
38 9 0.29
39 4 0.13
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (39 bp):
TTTTATATTTAAAATAAATTTTAATTAAAAAATACATAT
Found at i:19382532 original size:25 final size:26
Alignment explanation
Indices: 19382504--19382555 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
19382494 TCTCCACTTT
19382504 CTCTCGTC-TTTTCATTCCAAAATTC
1 CTCTCGTCTTTTTCATTCCAAAATTC
*
19382529 CTCTCTTCTTTTTCATTCCAAAATTC
1 CTCTCGTCTTTTTCATTCCAAAATTC
19382555 C
1 C
19382556 CTTACTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.19, C:0.33, G:0.02, T:0.46
Consensus pattern (26 bp):
CTCTCGTCTTTTTCATTCCAAAATTC
Found at i:19395602 original size:26 final size:26
Alignment explanation
Indices: 19395533--19395592 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
19395523 CGCAACATAA
19395533 CTGCCAGTTGTAATAATGCAGCAGAG
1 CTGCCAGTTGTAATAATGCAGCAGAG
* *
19395559 CTGCCAATTGTAATAATGCAGTAGAG
1 CTGCCAGTTGTAATAATGCAGCAGAG
19395585 CTGCCAGT
1 CTGCCAGT
19395593 AGTCAGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (26 bp):
CTGCCAGTTGTAATAATGCAGCAGAG
Found at i:19395775 original size:32 final size:33
Alignment explanation
Indices: 19395739--19395820 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 33
19395729 TGAAATGAAT
*
19395739 GGCACACAGCCATCGA-TAACGGTAATATGATC
1 GGCACAAAGCCATCGAGTAACGGTAATATGATC
* **
19395771 GGCACAAAGCCAT-TAGTAACGGTTCTATGATC
1 GGCACAAAGCCATCGAGTAACGGTAATATGATC
*
19395803 GGCATAAAGCCATC-AGTA
1 GGCACAAAGCCATCGAGTA
19395821 GCATTGCAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 1 0.02
32 42 0.98
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (33 bp):
GGCACAAAGCCATCGAGTAACGGTAATATGATC
Found at i:19396132 original size:27 final size:27
Alignment explanation
Indices: 19396068--19396298 Score: 232
Period size: 27 Copynumber: 8.6 Consensus size: 27
19396058 ACCAGGGCAA
* * **
19396068 TACAGTCATTTTATCCTATAAAGGTA-
1 TACAGTCATTTTACCCTACAGGGGTAT
* *
19396094 TACGGTCATTTTACCCTACAGGGGCAT
1 TACAGTCATTTTACCCTACAGGGGTAT
* *
19396121 TACAGTCATTTTACCCTAAAGGGGCAT
1 TACAGTCATTTTACCCTACAGGGGTAT
* *
19396148 TACAGTCATTTTACCCTACAAGGGCAT
1 TACAGTCATTTTACCCTACAGGGGTAT
* * * *
19396175 TAC-GATTATTTTACTCTAAAAGGGTAT
1 TACAG-TCATTTTACCCTACAGGGGTAT
* *
19396202 TACAGTCATTTTACCCTATAGGGGTAC
1 TACAGTCATTTTACCCTACAGGGGTAT
* ** *
19396229 TACGGTCATTTTACCCTGTAGAGGTAT
1 TACAGTCATTTTACCCTACAGGGGTAT
*
19396256 TACGGTCATTTTACCCTACAGGGGTAT
1 TACAGTCATTTTACCCTACAGGGGTAT
**
19396283 TATGGTCATTTTACCC
1 TACAGTCATTTTACCC
19396299 ATCAAGGTTA
Statistics
Matches: 175, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.12
27 153 0.87
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
TACAGTCATTTTACCCTACAGGGGTAT
Found at i:19396173 original size:54 final size:54
Alignment explanation
Indices: 19396046--19396298 Score: 259
Period size: 54 Copynumber: 4.7 Consensus size: 54
19396036 GGGAAAAAAT
* *
19396046 AGTCA-TTTACCC-ACCA-GGGCAATACAGTCATTTTATCCTATAA-AGGTA-TAC
1 AGTCATTTTACCCTA-CAGGGGCATTACAGTCATTTTACCCTA-AAGAGGTATTAC
* * *
19396097 GGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTAAAGGGGCATTAC
1 AGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTAAAGAGGTATTAC
* * *
19396151 AGTCATTTTACCCTACAAGGGCATTAC-GATTATTTTACTCTAAA-AGGGTATTAC
1 AGTCATTTTACCCTACAGGGGCATTACAG-TCATTTTACCCTAAAGA-GGTATTAC
* * * * **
19396205 AGTCATTTTACCCTATAGGGGTACTACGGTCATTTTACCCTGTAGAGGTATTAC
1 AGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTAAAGAGGTATTAC
* * **
19396259 GGTCATTTTACCCTACAGGGGTATTATGGTCATTTTACCC
1 AGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCC
19396299 ATCAAGGTTA
Statistics
Matches: 170, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
51 4 0.02
52 11 0.06
53 27 0.16
54 126 0.74
55 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (54 bp):
AGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTAAAGAGGTATTAC
Found at i:19396210 original size:81 final size:81
Alignment explanation
Indices: 19396062--19396298 Score: 280
Period size: 81 Copynumber: 2.9 Consensus size: 81
19396052 TTACCCACCA
* * * *
19396062 GGGCAATACAGTCATTTTATCCTATAAAGGTA-TACGGTCATTTTACCCTACAGGGGCATTACAG
1 GGGCAATACAGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGTATTACAG
19396126 TCATTTTACCCTAAAG
66 TCATTTTACCCTAAAG
* * * * * * *
19396142 GGGCATTACAGTCATTTTACCCTACAAGGGCATTACGATTATTTTACTCTAAAAGGGTATTACAG
1 GGGCAATACAGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGTATTACAG
*
19396207 TCATTTTACCCTATAG
66 TCATTTTACCCTAAAG
* * * ** **
19396223 GGGTACTACGGTCATTTTACCCT-GTAGAGGTATTACGGTCATTTTACCCTACAGGGGTATTATG
1 GGGCAATACAGTCATTTTACCCTACAAG-GGTATTACGGTCATTTTACCCTACAGGGGTATTACA
19396287 GTCATTTTACCC
65 GTCATTTTACCC
19396299 ATCAAGGTTA
Statistics
Matches: 130, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 29 0.22
81 101 0.78
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (81 bp):
GGGCAATACAGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGTATTACAG
TCATTTTACCCTAAAG
Found at i:19396321 original size:54 final size:54
Alignment explanation
Indices: 19396101--19396323 Score: 141
Period size: 54 Copynumber: 4.1 Consensus size: 54
19396091 GTATACGGTC
* * * ** * * *
19396101 ATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTAAAGGGGCATTAC-AGTC
1 ATTTTACCCTACAGGGGTACTACGGTCATTTTACCCTGCAGAGGTATTACGA-TA
* * * * * * * * *
19396155 ATTTTACCCTACAAGGGCATTACGATTATTTTACTCT-AAAAGGGTATTAC-AGTC
1 ATTTTACCCTACAGGGGTACTACGGTCATTTTACCCTGCAGA-GGTATTACGA-TA
* * * *
19396209 ATTTTACCCTATAGGGGTACTACGGTCATTTTACCCTGTAGAGGTATTACGGTC
1 ATTTTACCCTACAGGGGTACTACGGTCATTTTACCCTGCAGAGGTATTACGATA
* * **
19396263 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCAT-CA-AGGTTATTTTGATA
1 ATTTTACCCTACAGGGGTACTACGGTCATTTTACCC-TGCAGAGG-TATTACGATA
19396317 ATTTTAC
1 ATTTTAC
19396324 AACCTTTTCG
Statistics
Matches: 138, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 5 0.04
54 130 0.94
55 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
ATTTTACCCTACAGGGGTACTACGGTCATTTTACCCTGCAGAGGTATTACGATA
Found at i:19409003 original size:75 final size:75
Alignment explanation
Indices: 19408914--19409060 Score: 170
Period size: 75 Copynumber: 2.0 Consensus size: 75
19408904 ATTATGGGTT
* * * * * * * *
19408914 TTGTTTGTTAAATGCATCTTTATTTAATATTTTGCATTAGTACATTTACATCTTTTAA-AATGTG
1 TTGTTTATTAAATGCATCTTTAGTTAACACTTTACATTAATACATTCACATCCTTTAAGAAT-TG
19408978 CATTATGTTTC
65 CATTATGTTTC
* * * *
19408989 TTGTTTATTGAATGCGTCTTTAGTTAACACTTTACATTAATACATTCGCATCCTTTAAGACTTGC
1 TTGTTTATTAAATGCATCTTTAGTTAACACTTTACATTAATACATTCACATCCTTTAAGAATTGC
19409054 ATTATGT
66 ATTATGT
19409061 ATGTTTCATA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
75 57 0.97
76 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.48
Consensus pattern (75 bp):
TTGTTTATTAAATGCATCTTTAGTTAACACTTTACATTAATACATTCACATCCTTTAAGAATTGC
ATTATGTTTC
Found at i:19411417 original size:40 final size:40
Alignment explanation
Indices: 19411387--19411596 Score: 323
Period size: 40 Copynumber: 5.3 Consensus size: 40
19411377 GGACTAAGAT
* * *
19411387 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19411427 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19411467 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
19411507 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
19411547 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19411586 CCGAAGGCATT
1 CCGAAGGCATT
19411597 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:19411616 original size:79 final size:80
Alignment explanation
Indices: 19411387--19411631 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
19411377 GGACTAAGAT
* * * * * * ** * *
19411387 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
19411451 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
19411467 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
19411532 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
19411547 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
19411611 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
19411625 CCGAAGG
1 CCGAAGG
19411632 TACGTGATTT
Statistics
Matches: 145, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.32
80 84 0.58
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:19420906 original size:44 final size:44
Alignment explanation
Indices: 19420841--19420927 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
19420831 TTGATATCTC
* *
19420841 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
* * *
19420885 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGACGG
19420928 TTAAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
Found at i:19421311 original size:53 final size:53
Alignment explanation
Indices: 19421111--19421324 Score: 184
Period size: 54 Copynumber: 4.0 Consensus size: 53
19421101 TGACATTTGG
* * * *
19421111 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTA
1 TAAGACAAGGAT-CCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * *
19421165 TAAGGA-AAGGAAAT-CATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTA
1 TAA-GACAAGG--ATCCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTA
* * * *
19421220 TAAGACAAAGG-TCCAATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGAC-AAGGATCC-ATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
* * * * *
19421273 TAAGTCAAGGATTCCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGACAAGGA-TCCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
19421325 AAAAAGGAAA
Statistics
Matches: 133, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
52 4 0.03
53 38 0.29
54 46 0.35
55 39 0.29
56 6 0.05
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (53 bp):
TAAGACAAGGATCCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTA
Found at i:19421349 original size:108 final size:109
Alignment explanation
Indices: 19421126--19421338 Score: 254
Period size: 108 Copynumber: 2.0 Consensus size: 109
19421116 TAAGGATATC
* *
19421126 ATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGAAAGGAAATCATGTAAGACCA
1 ATGTAATACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGAAAGGAAATCACGTAAGACCA
* * * * *
19421191 TGTCAATACATGGCATTGATGAGTTACTATAAGACAAAGGTCCA
66 TGTCAAGACATGGCAATGATAAGTTACAAAAAGACAAAGGTCCA
* * * ** *
19421235 ATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGTCAAGG-ATTCCACGTAAGACC
1 ATGTAATACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGAAAGGAAAT-CACGTAAGACC
*
19421298 ATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGA-AAAGGT
65 ATGTCAAGACATGGCAATGATAAGTTACAAAAA-GACAAAGGT
19421339 TCCCGAGTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
107 12 0.14
108 43 0.49
109 33 0.38
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (109 bp):
ATGTAATACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGAAAGGAAATCACGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACAAAAAGACAAAGGTCCA
Found at i:19425621 original size:47 final size:46
Alignment explanation
Indices: 19425550--19425821 Score: 173
Period size: 47 Copynumber: 5.8 Consensus size: 46
19425540 TGGGTAAGGT
*
19425550 GCCGATGCCATGTCCTAGACATGGTCTTACACTAG-CTCATATCTCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGACTCATATCTCAA
* * * * **
19425597 GTCGATGCCATGTCCCAGACATGGTTTTACA-TTGACTACCAT-CCTGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGACT--CATATCTCAA
* ** * *
19425645 GCCGATGCATGTCCCAGACATGTCTTACACT-GACTTACGTCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGACTCATATC-TCAA
* * * * *
19425691 GCCAATGCATGTCCCAGACATGTCTTACACTAG-CCCTTGTGTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGACTCATATCTCAA
* * * * * *
19425736 TGCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGT--G
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-ACTCAT-ATCTCAA
19425785 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGACTCA
19425822 CACAAATGAC
Statistics
Matches: 179, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
44 5 0.03
45 3 0.02
46 63 0.35
47 74 0.41
48 25 0.14
49 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGACTCATATCTCAA
Found at i:19425699 original size:46 final size:46
Alignment explanation
Indices: 19425605--19425815 Score: 148
Period size: 46 Copynumber: 4.5 Consensus size: 46
19425595 AAGTCGATGC
* * *
19425605 CATGTCCCAGACATGGTTTTACATTGACTACCATCCTGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTACCATCCTGTAGCCAATG
* *
19425652 CATGTCCCAGACATGTCTTACACTGACTTA-CGTCTTG-AGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGAC-TACCATCCTGTA-GCCAATG
** **
19425698 CATGTCCCAGACATGTCTTACACT-AGC--CC-TTGTGTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTGA-CTACCATCCTGT--A-GCCAATG
* * ** * *
19425744 CCATGTCCCAGACATGGTCTTACATTGGCT-CTCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTAC-CATCCTGTAGCCAATG
19425792 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
19425816 AGCTCACACA
Statistics
Matches: 134, Mismatches: 17, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 2 0.01
46 62 0.46
47 44 0.33
48 16 0.12
49 1 0.01
50 1 0.01
51 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTACCATCCTGTAGCCAATG
Found at i:19425761 original size:140 final size:140
Alignment explanation
Indices: 19425558--19425815 Score: 378
Period size: 140 Copynumber: 1.8 Consensus size: 140
19425548 GTGCCGATGC
* * *
19425558 CATGTCCTAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTT
1 CATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
**
19425623 TTACATTGACTAC-CATCCTGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCT
66 TTACATTGACT-CTCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCT
19425687 TGAGGCCAATG
130 TGAGGCCAATG
* * *
19425698 CATGTCCCAGACAT-GTCTTACACTAGCCCTTGTGTCAA-TGCTGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGT-C-GATGCCATGTCCCAGACATGG
* *
19425761 TCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 TCTTACATTGACTCTCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACT
19425816 AGCTCACACA
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
138 1 0.01
139 22 0.21
140 82 0.78
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
TTACATTGACTCTCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTT
GAGGCCAATG
Found at i:19425805 original size:94 final size:92
Alignment explanation
Indices: 19425648--19425818 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 92
19425638 TCCTGTAGCC
* **
19425648 GATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTTGAGGCCAATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGACTTACATAATGAGGCCAATGCATGTCCCAGACATG
19425713 TCTTACACTAGCCCTTGTGTCAATGCT
66 TCTTACACTAGCCCTTGTGTCAATGCT
* * * *
19425740 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACT-TACATAATGAGGCCAATGCATGTCCCAGAC
19425804 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
19425819 TCACACAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 50 0.72
95 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTTACATAATGAGGCCAATGCATGTCCCAGACATG
TCTTACACTAGCCCTTGTGTCAATGCT
Found at i:19428534 original size:40 final size:41
Alignment explanation
Indices: 19428467--19428687 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 41
19428457 AACCCAAGTA
* *
19428467 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
19428506 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * *
19428546 ACTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
19428586 CCTTCGGGACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
19428626 CCTTCGGGACTTAGCCCAGATATAGTC--CTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
19428665 TCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
19428688 CATTCGAATA
Statistics
Matches: 167, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 47 0.28
40 117 0.70
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:19433215 original size:10 final size:10
Alignment explanation
Indices: 19433191--19433220 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
19433181 AAGGCCGTAA
19433191 TGACCGAAGAG
1 TGACCGAA-AG
19433202 TGACCGAAAG
1 TGACCGAAAG
19433212 TGACCGAAA
1 TGACCGAAA
19433221 AGTCAACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (10 bp):
TGACCGAAAG
Found at i:19433222 original size:11 final size:11
Alignment explanation
Indices: 19433191--19433223 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19433181 AAGGCCGTAA
*
19433191 TGACCGAAGAG
1 TGACCGAAAAG
19433202 TGACCG-AAAG
1 TGACCGAAAAG
19433212 TGACCGAAAAG
1 TGACCGAAAAG
19433223 T
1 T
19433224 CAACACTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.12
Consensus pattern (11 bp):
TGACCGAAAAG
Found at i:19433936 original size:21 final size:21
Alignment explanation
Indices: 19433910--19433962 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
19433900 ATATAACTGT
19433910 TCTGGTGGCCTAGCCACAATA
1 TCTGGTGGCCTAGCCACAATA
* * * *
19433931 TCTGGTGACTTCGTCACAATA
1 TCTGGTGGCCTAGCCACAATA
*
19433952 TCTGGTAGCCT
1 TCTGGTGGCCT
19433963 CGCTGCAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
TCTGGTGGCCTAGCCACAATA
Found at i:19438750 original size:10 final size:10
Alignment explanation
Indices: 19438735--19438764 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
19438725 AATAAAAATG
19438735 CATATTATAA
1 CATATTATAA
19438745 CATATTATAA
1 CATATTATAA
*
19438755 CATATAATAA
1 CATATTATAA
19438765 ATCATTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (10 bp):
CATATTATAA
Found at i:19440862 original size:46 final size:45
Alignment explanation
Indices: 19440804--19441025 Score: 211
Period size: 46 Copynumber: 4.8 Consensus size: 45
19440794 ATTCGTTTGT
*
19440804 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGATGA
19440850 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT--GATGA
* * *
19440898 GGGCTAGTGTAAGACATGTTTGGGACATGCATCGGCC-TTGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATGA
* * *
19440941 CGTAAGCCAGTTTAAGACATGTCTGGGACATGCATCGGCTACA-AGAGGA
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC--CATTGATGA
* *
19440990 TAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
19441026 ACTTGAGATA
Statistics
Matches: 149, Mismatches: 12, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 4 0.03
46 65 0.44
47 41 0.28
48 32 0.21
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATGA
Found at i:19441042 original size:47 final size:47
Alignment explanation
Indices: 19440803--19441074 Score: 195
Period size: 47 Copynumber: 5.8 Consensus size: 47
19440793 CATTCGTTTG
* * * *
19440803 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATTA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TA
*
19440847 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 T--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGAT-A
* * * * **
19440898 -GGGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTTGAGACG
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATA
* * * ** *
19440943 TAAGCCAGTTTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGAGGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGA-TA
*
19440990 T-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGATA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATA
* * ** *
19441036 TGAGCCAGAGTAAGGCTGTGTCTAGGACATGGCATCGAC
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
19441075 ACCTTACCCT
Statistics
Matches: 182, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 69 0.38
47 77 0.42
48 28 0.15
50 1 0.01
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATA
Found at i:19441042 original size:93 final size:94
Alignment explanation
Indices: 19440804--19441072 Score: 257
Period size: 94 Copynumber: 2.9 Consensus size: 94
19440794 ATTCGTTTGT
* *
19440804 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATG--A-GAGCCAGTGTAAGAC
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGG--AC-TTGA-GACATGAGCCAGTGTAAGAC
** *
19440865 CATGTCTGGGACATGGCATCGGCATTGAGATGA
62 CATGTCTGGGACATGGCATCGGCATCAAGAGGA
* * * * * *
19440898 GGGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGACGTAAGCCAGTTTAAGA-CATG
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGACTTGAGACATGAGCCAGTGTAAGACCATG
19440962 TCTGGGACAT-GCATCGGC-TACAAGAGGA
66 TCTGGGACATGGCATCGGCAT-CAAGAGGA
* * * * **
19440990 TAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGAGATATGAGCCAGAGTAAGGCTG
1 GAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGACTTGAGACATGAGCCAGTGTAAGACCA
*
19441054 TGTCTAGGACATGGCATCG
64 TGTCTGGGACATGGCATCG
19441073 ACACCTTACC
Statistics
Matches: 144, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
91 4 0.03
92 26 0.18
93 47 0.33
94 61 0.42
95 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGACTTGAGACATGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATCAAGAGGA
Found at i:19441065 original size:140 final size:141
Alignment explanation
Indices: 19440813--19441072 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 141
19440803 TGAGCTAGTG
** *
19440813 TAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTGGGACATGCATCGGCCACAAGAGGAGAGCCAGTGTAAGACCATGTCTGGGACA
* * * * *
19440878 TGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCTTGAGAC
66 TGGCATCGACATTGAGATGAGAGCCAGAGTAAGACATGTTTAGGACATGGCATCGGCCTTGAGAC
19440942 GTAAGCCAGTT
131 GTAAGCCAGTT
* * *
19440953 TAAGACATGTCTGGGACATGCATCGGCTACAAGAGGATAGCCAGTGTAAGACCATGTTTGGGACA
1 TAAGACATGTCTGGGACATGCATCGGCCACAAGAGGAGAGCCAGTGTAAGACCATGTCTGGGACA
*
19441018 TGGCATCGAC-TTGAGAT-ATGAGCCAGAGTAAGGC-TGTGTCTAGGACATGGCATCG
66 TGGCATCGACATTGAGATGA-GAGCCAGAGTAAGACATGT-T-TAGGACATGGCATCG
19441073 ACACCTTACC
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
138 4 0.04
139 19 0.18
140 75 0.72
141 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCGGCCACAAGAGGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGGCATCGACATTGAGATGAGAGCCAGAGTAAGACATGTTTAGGACATGGCATCGGCCTTGAGAC
GTAAGCCAGTT
Found at i:19457135 original size:50 final size:50
Alignment explanation
Indices: 19457042--19457179 Score: 141
Period size: 50 Copynumber: 2.8 Consensus size: 50
19457032 TTGAGGTTAC
** *
19457042 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAA
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAA
* * * * *
19457092 GAGAGGTCCCCTTTAAGACCATGTCTTGGACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAA
** ** * * *
19457142 GAGAACTTTCATGTAAGACCATATTTGGGATATGGCAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
19457180 TTTCAGTACA
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAA
Found at i:19465545 original size:40 final size:40
Alignment explanation
Indices: 19465322--19465531 Score: 323
Period size: 40 Copynumber: 5.3 Consensus size: 40
19465312 TCCTCGTTCA
* * * * *
19465322 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19465361 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19465401 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19465441 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19465481 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19465521 AAGGCCTTCGG
1 AATGCCTTCGG
19465532 ATCTTAGTCC
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 126 0.79
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19465568 original size:80 final size:80
Alignment explanation
Indices: 19465325--19465584 Score: 274
Period size: 80 Copynumber: 3.3 Consensus size: 80
19465315 TCGTTCAAAT
* * * * * * * *
19465325 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
19465389 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
19465404 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
19465469 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* **
19465484 GCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
19465548 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
19465564 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
19465585 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 34 0.21
80 120 0.75
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:19465568 original size:120 final size:118
Alignment explanation
Indices: 19465320--19465584 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 118
19465310 GCTCCTCGTT
* * *
19465320 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * *
19465385 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
19465439 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
* * ** * **
19465504 ATTTAATATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
19465560 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
19465585 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 35 0.29
120 82 0.67
121 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:19482074 original size:27 final size:27
Alignment explanation
Indices: 19482036--19482087 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
19482026 TAAATGTGAA
19482036 AGGGGTCGCTAAGTGCTGATTCCCCCG
1 AGGGGTCGCTAAGTGCTGATTCCCCCG
*
19482063 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTCGCTAAGTGCTGATTCCCC
19482088 TATTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.27, G:0.33, T:0.25
Consensus pattern (27 bp):
AGGGGTCGCTAAGTGCTGATTCCCCCG
Found at i:19482095 original size:102 final size:102
Alignment explanation
Indices: 19481857--19482263 Score: 656
Period size: 102 Copynumber: 4.0 Consensus size: 102
19481847 ATTGCATATA
* * *
19481857 AAGGGGTTGCTGTGTGCTGATTCCTCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
19481922 TTAAATGTGAAAGGGGGTTGCTAAATGCTGATTCCCCC
66 TTAAATGTGAAA-GGGGTTGCTAAGTGCTGATTCCCCC
19481960 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
19482025 TTAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
* ** * * *
19482062 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
19482127 TGAAATGTG-AAGGGGTTGCTAAGTGCTGATT-CCCC
66 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
* *
19482162 AAGGGGTTGTTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
19482227 TTAAATGTGAAAGGGGCTTGCTAAGTGCTGATTCCCC
66 TTAAATGTGAAAGGGG-TTGCTAAGTGCTGATTCCCC
19482264 TATTCATTGG
Statistics
Matches: 279, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
100 69 0.25
101 27 0.10
102 106 0.38
103 77 0.28
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:19482157 original size:176 final size:164
Alignment explanation
Indices: 19482037--19482399 Score: 428
Period size: 176 Copynumber: 2.2 Consensus size: 164
19482027 AAATGTGAAA
19482037 GGGGTCGCTAAGTGCTGATTCC-CC-CG-AGGGG-TTGCTAAGTGCTGATTCCCCTATTCATTGG
1 GGGGTCGCTAAGTGCTGATTCCACCTCGAAGGGGCTTGCTAAGTGCTGATTCCCCTATTCATTGG
*
19482098 TGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCA
66 TGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCA
* ** * *
19482163 AGGGGTTGTTGTGTGTTGATTCCCCGATTCATTG
131 AGGGGTTGCTAAGTGCTGATTCCCCGATTAATTG
* * *
19482197 GTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGCTTGCTAAGTGCTGATTCC
1 GGGGTCGCTAAGTGCTGATTCCACC----------T-CG-AAGGGGCTTGCTAAGTGCTGATTCC
19482262 CCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAAGGGGGTTGCTAAG
54 CCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAA-GGGGTTGCTAAG
** *
19482327 TGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTG
118 TGCTGATT-CCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTAATTG
* * * *
19482375 GTGGTTGCTAAGTGCGGAATCCACC
1 GGGGTCGCTAAGTGCTGATTCCACC
19482400 GATAACGGTT
Statistics
Matches: 177, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
160 20 0.11
161 2 0.01
173 1 0.01
175 5 0.03
176 69 0.39
177 20 0.11
178 60 0.34
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (164 bp):
GGGGTCGCTAAGTGCTGATTCCACCTCGAAGGGGCTTGCTAAGTGCTGATTCCCCTATTCATTGG
TGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCA
AGGGGTTGCTAAGTGCTGATTCCCCGATTAATTG
Found at i:19482228 original size:202 final size:206
Alignment explanation
Indices: 19481858--19482263 Score: 676
Period size: 202 Copynumber: 2.0 Consensus size: 206
19481848 TTGCATATAA
** * * *
19481858 AGGGGTTGCTGTGTGCTGATTCCTCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCATATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCACATCT
*
19481923 TAAATGTGAAAGGGGGTTGCTAAATGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGA
66 GAAATGTGAAAGGGGGTTGCTAAATGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGA
19481988 TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGG-TCGCTAAGTGC
131 TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGCTCGCTAAGTGC
19482052 TGATTCCCCCG
196 TGATTCCCCCG
* *
19482063 AGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCACATCT
* * *
19482128 GAAATGTG-AA-GGGGTTGCTAAGTGCTGATT-CCCCAAGGGGTTGTTGTGTGTTGATTCCCCGA
66 GAAATGTGAAAGGGGGTTGCTAAATGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGA
*
19482190 TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGCTTGCTAAGTGC
131 TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGCTCGCTAAGTGC
19482255 TGATTCCCC
196 TGATTCCCC
19482264 TATTCATTGG
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
202 83 0.44
203 38 0.20
204 2 0.01
205 65 0.35
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (206 bp):
AGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCACATCT
GAAATGTGAAAGGGGGTTGCTAAATGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGA
TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGCTCGCTAAGTGC
TGATTCCCCCG
Found at i:19482309 original size:76 final size:75
Alignment explanation
Indices: 19482179--19482338 Score: 266
Period size: 76 Copynumber: 2.1 Consensus size: 75
19482169 TGTTGTGTGT
* * *
19482179 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGC
1 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTG-AAGGGGC
19482244 TTGCTAAGTGC
65 TTGCTAAGTGC
* *
19482255 TGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAAGGGGGT
1 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAAGGGGCT
19482320 TGCTAAGTGC
66 TGCTAAGTGC
19482330 TGATTCCCC
1 TGATTCCCC
19482339 CAAGGGGTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 26 0.33
76 53 0.67
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (75 bp):
TGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATATGAAATGTGAAGGGGCT
TGCTAAGTGC
Found at i:19486217 original size:25 final size:25
Alignment explanation
Indices: 19486157--19486217 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
19486147 CTCCTAAATT
*
19486157 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
19486182 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
19486207 TTAATTAAATT
1 TTAATTAAATT
19486218 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:19504653 original size:49 final size:49
Alignment explanation
Indices: 19504576--19504693 Score: 218
Period size: 49 Copynumber: 2.4 Consensus size: 49
19504566 TCTTAGCCAA
19504576 TCGAGAACACACCTGGGCACCCAGTACCTAGCCTGTAGGCTAACATCCCT
1 TCGA-AACACACCTGGGCACCCAGTACCTAGCCTGTAGGCTAACATCCCT
*
19504626 TCGAAACACACGTGGGCACCCAGTACCTAGCCTGTAGGCTAACATCCCT
1 TCGAAACACACCTGGGCACCCAGTACCTAGCCTGTAGGCTAACATCCCT
19504675 TCGAAACACACCTGGGCAC
1 TCGAAACACACCTGGGCAC
19504694 TAAATGTCAT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 62 0.94
50 4 0.06
ACGTcount: A:0.27, C:0.36, G:0.20, T:0.17
Consensus pattern (49 bp):
TCGAAACACACCTGGGCACCCAGTACCTAGCCTGTAGGCTAACATCCCT
Found at i:19516370 original size:18 final size:18
Alignment explanation
Indices: 19516347--19516388 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19516337 GTTGTTGAGA
* *
19516347 AAGAAGTTGCTGCTATAG
1 AAGAAGTTGCTACTAAAG
*
19516365 AAGAAGTTGTTACTAAAG
1 AAGAAGTTGCTACTAAAG
19516383 AAGAAG
1 AAGAAG
19516389 AAGTTGCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (18 bp):
AAGAAGTTGCTACTAAAG
Found at i:19516579 original size:41 final size:41
Alignment explanation
Indices: 19516534--19516615 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
19516524 CCAGTGAGGA
19516534 GCAATGCAATTCATTGGAAATAGTGGTCTACACTGGACCAC
1 GCAATGCAATTCATTGGAAATAGTGGTCTACACTGGACCAC
19516575 GCAATGCAATTCATTGGAAATAGTGGTCTACACTGGACCAC
1 GCAATGCAATTCATTGGAAATAGTGGTCTACACTGGACCAC
19516616 TCTAGTTGGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (41 bp):
GCAATGCAATTCATTGGAAATAGTGGTCTACACTGGACCAC
Found at i:19527911 original size:40 final size:40
Alignment explanation
Indices: 19527874--19528099 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
19527864 GCTACTCGTT
* *
19527874 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
19527914 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19527954 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
19527994 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
19528034 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
19528075 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19528100 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19532127 original size:52 final size:52
Alignment explanation
Indices: 19532054--19532162 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
19532044 AAATTTATTA
*
19532054 GTGACAATTCAATAAAGCTGTCAATTTTCAATCTCAAAAGATTACTCAATTT
1 GTGACAATTCAATAAAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
* *
19532106 GTGACAATTCAA-ACAAGCTGTCAATTTTCAAGCTCAAAAGATTAGTTAATTT
1 GTGACAATTCAATA-AAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
19532158 GTGAC
1 GTGAC
19532163 TATTTGGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
51 1 0.02
52 52 0.98
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (52 bp):
GTGACAATTCAATAAAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
Found at i:19538867 original size:49 final size:49
Alignment explanation
Indices: 19538810--19538908 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
19538800 AACTTCAGCC
19538810 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
1 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
19538859 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
1 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
19538908 T
1 T
19538909 CCAAATTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (49 bp):
TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
Found at i:19545796 original size:10 final size:10
Alignment explanation
Indices: 19545781--19545805 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19545771 ATGCCAAAAG
19545781 AAGAACAACA
1 AAGAACAACA
19545791 AAGAACAACA
1 AAGAACAACA
19545801 AAGAA
1 AAGAA
19545806 TAATAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.16, G:0.12, T:0.00
Consensus pattern (10 bp):
AAGAACAACA
Found at i:19547111 original size:39 final size:39
Alignment explanation
Indices: 19547067--19547158 Score: 150
Period size: 38 Copynumber: 2.4 Consensus size: 39
19547057 TGTCCTAAAC
* *
19547067 TATGACATAATTAAAAACTCTTATTAAAGATGTTCAGAT
1 TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
*
19547106 TATGACATAATT-AAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
19547144 TATGACATAATTAAA
1 TATGACATAATTAAA
19547159 GACTTAAACT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 35 0.71
39 14 0.29
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (39 bp):
TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
Found at i:19553331 original size:46 final size:43
Alignment explanation
Indices: 19553279--19553367 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 43
19553269 ATAGAATTAC
**
19553279 AATGGAATAGAGTTGTAATCAATAATTCAGTTG-TTTGGTTGAATGA
1 AATGGAATAGAACTGTAAT-AAT-ATT-A-TTGATTTGGTTGAATGA
19553325 AATGGAATAGAACTGTAATAATATTATTGTATTTGGTTGAATG
1 AATGGAATAGAACTGTAATAATATTATTG-ATTTGGTTGAATG
19553368 GAATAGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 1 0.03
44 15 0.38
45 3 0.08
46 17 0.44
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38
Consensus pattern (43 bp):
AATGGAATAGAACTGTAATAATATTATTGATTTGGTTGAATGA
Found at i:19554672 original size:8 final size:8
Alignment explanation
Indices: 19554659--19554685 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
19554649 AGGTTGAACT
19554659 TTAAATAA
1 TTAAATAA
19554667 TTAAATAA
1 TTAAATAA
19554675 TTAAATAA
1 TTAAATAA
19554683 TTA
1 TTA
19554686 TTATAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:19558694 original size:34 final size:35
Alignment explanation
Indices: 19558650--19558716 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
19558640 CAGTAAAATG
*
19558650 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
19558684 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
19558717 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:19564607 original size:50 final size:50
Alignment explanation
Indices: 19564544--19564643 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
19564534 CGCTTAGAAT
*
19564544 ATCGTTAGATACGCAGGTAGTACATATGAGGTGTATTGAACTGTAAGTCC
1 ATCGGTAGATACGCAGGTAGTACATATGAGGTGTATTGAACTGTAAGTCC
19564594 ATCGGTAGATACGCAGGTAGTACATATGAGGTGTATTGAACTGTAAGTCC
1 ATCGGTAGATACGCAGGTAGTACATATGAGGTGTATTGAACTGTAAGTCC
19564644 TTCAATTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (50 bp):
ATCGGTAGATACGCAGGTAGTACATATGAGGTGTATTGAACTGTAAGTCC
Found at i:19564725 original size:25 final size:25
Alignment explanation
Indices: 19564697--19564768 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
19564687 AGCTTCATTG
19564697 AGCTGAAATACGGTAAGCTCATAA-A
1 AGCTGAAAT-CGGTAAGCTCATAACA
* *
19564722 AGCTGAGAATTGGTAAGCTC-TAACG
1 AGCTGA-AATCGGTAAGCTCATAACA
*
19564747 AGCTGAAATCGGTAAGATCATA
1 AGCTGAAATCGGTAAGCTCATA
19564769 CGAAATGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 14 0.35
25 23 0.57
26 3 0.08
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (25 bp):
AGCTGAAATCGGTAAGCTCATAACA
Found at i:19564771 original size:24 final size:24
Alignment explanation
Indices: 19564683--19564771 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 24
19564673 AACCATAATT
*
19564683 GGTAAGCTTCAT-TGAGCTGAAATAC
1 GGTAAGC-TCATACGAGCTGAAAT-C
** *
19564708 GGTAAGCTCATAAAAGCTGAGAATT
1 GGTAAGCTCATACGAGCTGA-AATC
19564733 GGTAAGCTC-TAACGAGCTGAAATC
1 GGTAAGCTCAT-ACGAGCTGAAATC
*
19564757 GGTAAGATCATACGA
1 GGTAAGCTCATACGA
19564772 AATGTGGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
24 20 0.38
25 30 0.57
26 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (24 bp):
GGTAAGCTCATACGAGCTGAAATC
Found at i:19570313 original size:85 final size:84
Alignment explanation
Indices: 19570201--19570358 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 84
19570191 TGTAACTTCA
*
19570201 ATCTACTCTGCTGTAACTCCATGGGGAT-GAGAT-TGGTATCTTCAACCTGCTCCACTGCAACTT
1 ATCTACTCTACTGTAACTCCATGGGGATAGAGATGTGGT-T-TT-AACCTGCTCCACTGCAACTT
*
19570264 TAGGGAGATAAGGCTTGATGCG
63 CAGGGAGATAAGGCTTGATGCG
* *
19570286 ATCTACTCTACTGTAACTCCATGGGGATAAGATATGTGGTTTTAATCTGCTCCACTGCAACTTCA
1 ATCTACTCTACTGTAACTCCATGGGGAT-AGAGATGTGGTTTTAACCTGCTCCACTGCAACTTCA
19570351 GGGAGATA
65 GGGAGATA
19570359 GGATTGGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
85 55 0.83
86 2 0.03
87 5 0.08
88 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (84 bp):
ATCTACTCTACTGTAACTCCATGGGGATAGAGATGTGGTTTTAACCTGCTCCACTGCAACTTCAG
GGAGATAAGGCTTGATGCG
Found at i:19570382 original size:44 final size:43
Alignment explanation
Indices: 19570331--19570576 Score: 164
Period size: 44 Copynumber: 5.7 Consensus size: 43
19570321 GTGGTTTTAA
*
19570331 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT-TTCTG
* * * * *
19570375 TCTGCTCCGCTGCATCTTCAGGGAGATAAGACTGG--ATGC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCTG
* * * * * **
19570415 ATCTACTCTACTGCAACTTTAGAGAGATAAGATTTGTGGTTTT-AA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-GTTTTTCTG
* * *
19570460 TCCGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTTTTTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TTTTTCTG
* * ** * * *
19570504 TCTGCTCCATTGCAATTTCAAAGAGATAAGACTGG---ATGTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCTG
* *
19570544 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
19570577 CTATGGTTTT
Statistics
Matches: 156, Mismatches: 37, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
40 4 0.03
41 54 0.35
42 3 0.02
43 8 0.05
44 86 0.55
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTTTCTG
Found at i:19570444 original size:129 final size:129
Alignment explanation
Indices: 19570247--19570628 Score: 507
Period size: 129 Copynumber: 3.0 Consensus size: 129
19570237 TATCTTCAAC
* * * * * * *
19570247 CTGCTCCACTGCAACTTTAGGGAGATAAGGCTTGATGCGATCTACTCTACTGTAACTCCATG-GG
1 CTGCTCCACTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCA-GAGA
*
19570311 GATAAGATATGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
65 GATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
* *
19570376 CTGCTCCGCTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTTAGAGAG
1 CTGCTCCACTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAG
* * * * *
19570441 ATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAAGATTGGTTTTTTTTGT
66 ATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
* ** * *
19570505 CTGCTCCATTGCAAT-TTCAAAGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
1 CTGCTCCACTGC-ATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGA
* * * * *
19570569 GATAAGATCTATGGTTTTAATCCACTCCACTTCAACTTCAGGGAGATAGAATTGGTTTCT
65 GATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT
19570629 GATTTGTTCT
Statistics
Matches: 221, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
128 1 0.00
129 218 0.99
130 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (129 bp):
CTGCTCCACTGCATCTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAG
ATAAGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGT
Found at i:19585136 original size:20 final size:19
Alignment explanation
Indices: 19585107--19585147 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
19585097 ATATATGTAT
19585107 ATATGGATAAGTTATGATAA
1 ATATGGATAAGTTA-GATAA
*
19585127 ATATGTATAAGTTAGATAA
1 ATATGGATAAGTTAGATAA
19585146 AT
1 AT
19585148 GCATGTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (19 bp):
ATATGGATAAGTTAGATAA
Found at i:19586078 original size:50 final size:50
Alignment explanation
Indices: 19586022--19586140 Score: 211
Period size: 50 Copynumber: 2.4 Consensus size: 50
19586012 CTTTGGGAGT
19586022 GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
1 GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
** *
19586072 GCATGTTATTTGTTAACCAGCCTGGTGATTTGAGTTTTGCCATTAGTAGG
1 GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
19586122 GCATGTTATTTGTTAACCA
1 GCATGTTATTTGTTAACCA
19586141 TAGAATAATG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (50 bp):
GCATGTTATTTGTTAACCAGCCTGGCAATTTAAGTTTTGCCATTAGTAGG
Found at i:19590836 original size:40 final size:39
Alignment explanation
Indices: 19590756--19590839 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
19590746 TCACGAATAC
* ** *
19590756 ATATATATACATACTTATATATATATATTTTATAATTTTT
1 ATATATATACATA-GTATATATATATATTACATAACTTTT
19590796 ATATATATACAT-GTATATATATATACTTACATAACCTTTT
1 ATATATATACATAGTATATATATATA-TTACATAA-CTTTT
19590836 ATAT
1 ATAT
19590840 TTAATAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 12 0.32
39 6 0.16
40 20 0.53
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.50
Consensus pattern (39 bp):
ATATATATACATAGTATATATATATATTACATAACTTTT
Found at i:19591143 original size:20 final size:20
Alignment explanation
Indices: 19591107--19591144 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19591097 TTGCTCATAT
*
19591107 TATTTTTATTCATATTATCG
1 TATTTTTATTCACATTATCG
19591127 TATTTATTATTC-CATTAT
1 TATTT-TTATTCACATTAT
19591145 GCATATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTTTTATTCACATTATCG
Found at i:19591464 original size:106 final size:107
Alignment explanation
Indices: 19591177--19591603 Score: 544
Period size: 107 Copynumber: 4.0 Consensus size: 107
19591167 AAAGGAAAAT
*
19591177 TTTTCAAAGTAAGGCAATATTTTACGTTTGTAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
19591242 TCGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATTAAA
66 TCGA-TTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
* * * *
19591285 ATTTC--A--AAGGCAATGTTTTACATTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
19591346 TTGATTTTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAA
66 TCGA---TTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
* * * *
19591391 TTTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTACCCTAATGTGCTGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* *
19591456 TCGATTTTTTTGTTTGACCAAATAGCCAAATCA-CCTTTTAAA
66 TCGATTTTTTCGTTCGACCAAATAGCCAAAT-ATCCTTTTAAA
* * * * * *
19591498 ATTTCAAAGTAAGACTATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGATGGGTT
1 TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* * *
19591562 TCGA-TTTCTCGTTCGACCAAATAGCCAAATATCATCTTAAA
66 TCGATTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
19591603 T
1 T
19591604 CTTAATCCAT
Statistics
Matches: 277, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
104 55 0.20
105 30 0.11
106 67 0.24
107 68 0.25
108 6 0.02
110 51 0.18
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (107 bp):
TTTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
TCGATTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
Found at i:19591519 original size:107 final size:107
Alignment explanation
Indices: 19591178--19591594 Score: 553
Period size: 106 Copynumber: 3.9 Consensus size: 107
19591168 AAGGAAAATT
*
19591178 TTTCAAAGTAAGGCAATATTTTACGTTTGTAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAA-GCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
19591243 CGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATTAAAA
65 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
19591286 TTTCAAAG---GCAATGTTTTACATTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTT
1 TTTCAAAGTAAGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
* *
19591348 GATTTTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAAT
66 GA--TTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
19591392 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTACCCTAATGTGCTGGGTTT
1 TTTCAAAGTAA-GCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
19591457 CGATTTTTTT-GTTTGACCAAATAGCCAAATCA-CCTTTTAAAA
65 CGATTTTTTTCGTTCGACCAAATAGCCAAAT-ATCCTTTTAAAA
* * * *
19591499 TTTCAAAGTAAGACTATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGATGGGTTT
1 TTTCAAAGTAAG-CAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
19591563 CGA--TTTCTCGTTCGACCAAATAGCCAAATATC
65 CGATTTTTTTCGTTCGACCAAATAGCCAAATATC
19591595 ATCTTAAATC
Statistics
Matches: 272, Mismatches: 27, Indels: 23
0.84 0.08 0.07
Matches are distributed among these distances:
104 56 0.21
105 20 0.07
106 71 0.26
107 61 0.22
108 16 0.06
110 48 0.18
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (107 bp):
TTTCAAAGTAAGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
GATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:19603215 original size:45 final size:45
Alignment explanation
Indices: 19603157--19603336 Score: 243
Period size: 45 Copynumber: 4.0 Consensus size: 45
19603147 ACAGATCAGT
** * * * *
19603157 GAAGATAGCAGATCTTACCTTCTTGTACTGACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* *
19603202 GAAGATAGCAGATCTTGTATTCCTATATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* *
19603247 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAATGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* * *
19603292 AAAGATAGCAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
19603337 AAAGCTAGGA
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 118 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
Found at i:19603451 original size:85 final size:85
Alignment explanation
Indices: 19603359--19603800 Score: 421
Period size: 85 Copynumber: 5.2 Consensus size: 85
19603349 TCCTATCTTT
* * *
19603359 CTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* *
19603424 TCGCATCCAGTCTTATCTCC
66 TAGAATCCAGTCTTATCTCC
*
19603444 CTGAAGTTGCAGTGGAGCGGATCAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* *
19603509 TTGCATCCAGTCTTATCTCC
66 TAGAATCCAGTCTTATCTCC
* *** ** * * * *
19603529 CTGAAGTTACAGTGGAATAGA-CAAAAGAAACCA-ATCCTATCTCCCT-AGAGTTGCAGTGGAGT
1 CTGAAGTTGCAGTGGAGCGGATCAAAA-CCA-CAGATCTTATCTCTCTGA-AGTTGCAGTAGAGC
* * * *
19603591 GGATTAAAACCACAGATCTTATCTCT
63 AGA-TAGAATC-CAG-TCTTATCTCC
* * ** * *
19603617 CTGAAGTTGCAGTAGAGCAGATC-GCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT--AG-AG-
* * *
19603679 CAGA-AGAAACCAATCCTATCTCC
62 CAGATAGAATCCAGTCTTATCTCC
*
19603702 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCAGAAGTTGCAGTAGAGCAGA
1 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* * * *
19603767 TCGTATCTAGTCTTATCTCA
66 TAGAATCCAGTCTTATCTCC
19603787 CTGAAGTTGCAGTG
1 CTGAAGTTGCAGTG
19603801 TAGCAGACTG
Statistics
Matches: 287, Mismatches: 53, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
84 10 0.03
85 201 0.70
86 12 0.04
87 11 0.04
88 50 0.17
89 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (85 bp):
CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
TAGAATCCAGTCTTATCTCC
Found at i:19603492 original size:44 final size:43
Alignment explanation
Indices: 19603359--19603807 Score: 357
Period size: 44 Copynumber: 10.5 Consensus size: 43
19603349 TCCTATCTTT
* * * *
19603359 CTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* **
19603403 CTGAAGTTGCAGTAGAGCAGATC-GCATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
* * *
19603444 CTGAAGTTGCAGTGGAGCGGATCAAAACCGCAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* ***
19603488 CTGAAGTTGCAGTAGAGCAGAT-TGCATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
* ** * *
19603529 CTGAAGTTACAGTGGAATAGA-CAAAAGAAACCA-ATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATC--AA-AATCCAGATCTTATCTCC
** * * *
19603573 CT-AGAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
1 CTGA-AGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* **
19603617 CTGAAGTTGCAGTAGAGCAGATC-GCATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
* *
19603658 CTGAAGTTGCAGTGGAGCAGA-CAGAAGAAACCA-ATCCTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATC--AA-AATCCAGATCTTATCTCC
* * *
19603702 CTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATCAAAATC-CAGATCTTATCTCC
* * ** * *
19603746 CAGAAGTTGCAGTAGAGCAGATC-GTATCTAG-TCTTATCTCA
1 CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
*
19603787 CTGAAGTTGCAGTGTAGCAGA
1 CTGAAGTTGCAGTGGAGCAGA
19603808 CTGAAGATAG
Statistics
Matches: 320, Mismatches: 64, Indels: 45
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 112 0.35
42 19 0.06
43 21 0.07
44 165 0.52
45 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGATCAAAATCCAGATCTTATCTCC
Found at i:19603800 original size:214 final size:212
Alignment explanation
Indices: 19603347--19603762 Score: 536
Period size: 214 Copynumber: 1.9 Consensus size: 212
19603337 AAAGCTAGGA
** * *
19603347 AATCCTATCTTTCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
19603412 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCGCAG
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAACGCAG
* * *** * *
19603477 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTACAGT
131 ATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAACCCAGTCTTATCTCCCAGAAGTTACAGT
*
19603542 GGAATAGACAAAAGAAACC
196 -G-AGAGACAAAAGAAACC
* *
19603561 AATCCTATCTCCCT-AGAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCACTGA-AGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
19603625 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAAC
65 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC--AA-AAAC
* * *
19603689 -CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCAGAAG
127 GCAGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGAT-AAAACC-CAG-TCTTATCTCCCAGAAG
*
19603752 TTGCAGT-AGAG
189 TTACAGTGAGAG
19603763 CAGATCGTAT
Statistics
Matches: 176, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
213 2 0.01
214 142 0.81
215 6 0.03
216 6 0.03
217 20 0.11
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (212 bp):
AATCCTATCTCACTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAACGCAG
ATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAACCCAGTCTTATCTCCCAGAAGTTACAGT
GAGAGACAAAAGAAACC
Found at i:19603806 original size:129 final size:129
Alignment explanation
Indices: 19603437--19603814 Score: 614
Period size: 129 Copynumber: 2.9 Consensus size: 129
19603427 CATCCAGTCT
*
19603437 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCGCAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
* * ** *
19603502 GAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTACAGTGGAATAGACAAAAGAAACCAATCC
66 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* *
19603566 TATCTCCCT-AGAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
1 TATCTCCCTGA-AGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
19603630 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
65 AGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
*
19603695 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCAGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
* * * * *
19603760 GAGCAGATCGTATCTAGTCTTATCTCACTGAAGTTGCAGTGTAGCAGACTGAAGA
66 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGA
19603815 TAGCAAGTGT
Statistics
Matches: 231, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
128 1 0.00
129 229 0.99
130 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (129 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:19606119 original size:107 final size:108
Alignment explanation
Indices: 19605771--19606197 Score: 637
Period size: 108 Copynumber: 4.0 Consensus size: 108
19605761 AAGGAAAATT
* *
19605771 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTTGAGAAAACGTGTCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
19605836 CGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATTAAAA
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
19605879 TTTCAAAGTAAGGCAATGTTTTGCGCTTGGAAATTCGAGAAAACGTGCCCTAATGTACTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
19605944 CGATTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAAT
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * *
19605987 TTTCAAAGTAAGGTAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
19606052 CGATTTTTTT-GTTTGACCAAATAGCCAAATAACCTTTTAAAA
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * *
19606094 TTTCAAAGTAAGACTATATTTTGCGTTTGAAAATTCGAG-AAACATGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
19606158 CG--GTTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
19606198 TCTTAATCCA
Statistics
Matches: 289, Mismatches: 29, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
104 4 0.01
105 28 0.10
106 26 0.09
107 62 0.21
108 169 0.58
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (108 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:19610800 original size:20 final size:20
Alignment explanation
Indices: 19610775--19610812 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19610765 TTTCACCTAA
19610775 AGTATCAAAGAAAGTTGAGG
1 AGTATCAAAGAAAGTTGAGG
19610795 AGTATCAAAGAAAGTTGA
1 AGTATCAAAGAAAGTTGA
19610813 ATTTAGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.21
Consensus pattern (20 bp):
AGTATCAAAGAAAGTTGAGG
Found at i:19612777 original size:29 final size:29
Alignment explanation
Indices: 19612716--19612778 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
19612706 GTGCTCTCTG
* * *
19612716 TTCTAAATACGCACTTCGGTGCTATCCTG
1 TTCTAAATACACACTTCGGTGCTATACTA
*
19612745 TTCTAAATACACACTTCGGTGCTTTACTA
1 TTCTAAATACACACTTCGGTGCTATACTA
19612774 TTCTA
1 TTCTA
19612779 TATTTTCACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
TTCTAAATACACACTTCGGTGCTATACTA
Found at i:19614023 original size:12 final size:12
Alignment explanation
Indices: 19613998--19614036 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19613988 ACTCGCTTCT
* *
19613998 TTACTTACTCAC
1 TTACTTGCTTAC
*
19614010 TTACTTGTTTAC
1 TTACTTGCTTAC
19614022 TTACTTGCTTAC
1 TTACTTGCTTAC
19614034 TTA
1 TTA
19614037 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:19621395 original size:12 final size:12
Alignment explanation
Indices: 19621370--19621408 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19621360 ACTCGCTTCT
* *
19621370 TTACTTACTCAC
1 TTACTTGCTTAC
*
19621382 TTACTTGTTTAC
1 TTACTTGCTTAC
19621394 TTACTTGCTTAC
1 TTACTTGCTTAC
19621406 TTA
1 TTA
19621409 AATAACCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:19621732 original size:50 final size:50
Alignment explanation
Indices: 19621658--19621848 Score: 220
Period size: 50 Copynumber: 3.7 Consensus size: 50
19621648 TTTTGTACTA
* * **
19621658 CCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTG
* * * *
19621708 CCCATGCCATGTCCCAGAGATGGTCTTACAGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
19621758 CCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
*
19621814 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGATATGGTCTTACATGGGA
19621849 TCTCATTCCC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 80 0.68
53 2 0.02
56 35 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:19628653 original size:27 final size:27
Alignment explanation
Indices: 19628635--19628810 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
19628625 GGTATAATAA
*
19628635 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTTAG
*
19628662 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTTAG
* **
19628689 TCATTTTACCTTATGGGGAAATTTT-G
1 TCATTTTACCCTATGGGGGTATTTTAG
* *
19628715 TTCATTTTACCCTATGGGGTTATTTCAG
1 -TCATTTTACCCTATGGGGGTATTTTAG
* * * *
19628743 TCATTCTACCCTGTGAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTTAG
* **
19628770 TCATTTTACCTTATGATGGTATTTT-G
1 TCATTTTACCCTATGGGGGTATTTTAG
19628796 ATCATTTTACCCTAT
1 -TCATTTTACCCTAT
19628811 TTTGGGGTCT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 123 0.98
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTTAG
Found at i:19628794 original size:81 final size:81
Alignment explanation
Indices: 19628634--19628810 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 81
19628624 GGGTATAATA
** * *
19628634 ATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
19628699 TTATGGGGAAATTTTG
66 TTATGGGGAAATTTTG
* * *
19628715 TTCATTTTACCCTATGGGGTTATTTCAGTCATTCTACCCTGTGAGGGTATTTCAGTCATTTTACC
1 ATCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
* *
19628780 TTATGATGG-TATTTTG
66 TTATG-GGGAAATTTTG
19628796 ATCATTTTACCCTAT
1 ATCATTTTACCCTAT
19628811 TTTGGGGTCT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 83 0.98
82 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.45
Consensus pattern (81 bp):
ATCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCAGTCATTTTACC
TTATGGGGAAATTTTG
Found at i:19630931 original size:147 final size:148
Alignment explanation
Indices: 19630710--19631045 Score: 335
Period size: 146 Copynumber: 2.3 Consensus size: 148
19630700 AAGGACTTCG
* * * *
19630710 TTTGATCTTATATTTAGTGGCGCTTTACTTAAAATGCCGC--AACATTGTTCTAACATTTATAGA
1 TTTGAT-TTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAAATTGTTCTAACATTTATAGA
** * * ** * *
19630773 AACGCTACCGTTTT-TTAAATGTTATTAGTGGCGATTT-TTTTAAAACGCCACGGGTTTGAGGTA
65 AACGAGACCGTTTTGCT--ATATTATTAGTGGCG-TTTATTAAAAAACGCCACAGGTGTGAGGTA
**
19630836 AGTGTTGATGAAGTGACTGCGT
127 AGTGTTGATGAAACGACTGCGT
* * *
19630858 TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCACAAAAAATT-TT-TAACATTTATCGAT
1 TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAAATTGTTCTAACATTTATAGAA
* * * * * * **
19630921 ACGAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTAAAAAATGCCACATGTGTGCGTTATTTG
66 ACGAGACCGTTTTGCTATATTATTAGTGGCGTTTATTAAAAAACGCCACAGGTGTGAGGTAAGTG
19630986 TTGATGAAACGACTGCGT
131 TTGATGAAACGACTGCGT
* *
19631004 TTTGACTTATAGTTAGTGGCGC-TTATTTATAAACGCCGCAAA
1 TTTGATTTATAGTTAGTGGCGCTTTAATTA-AAACGCCGCAAA
19631046 TGGTTAATTT
Statistics
Matches: 155, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
145 9 0.06
146 81 0.52
147 51 0.33
148 9 0.06
149 5 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (148 bp):
TTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAAATTGTTCTAACATTTATAGAA
ACGAGACCGTTTTGCTATATTATTAGTGGCGTTTATTAAAAAACGCCACAGGTGTGAGGTAAGTG
TTGATGAAACGACTGCGT
Found at i:19631772 original size:10 final size:10
Alignment explanation
Indices: 19631746--19631776 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
19631736 TTGCAAAATA
19631746 ATTTTTTAAT
1 ATTTTTTAAT
19631756 ATCTTTTTAAT
1 AT-TTTTTAAT
19631767 ATTTTTTAAT
1 ATTTTTTAAT
19631777 TTAACTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:19633489 original size:13 final size:13
Alignment explanation
Indices: 19633461--19633512 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
19633451 ACTTACTACT
19633461 AATATATATA-TTA
1 AATATAT-TACTTA
*
19633474 AATTTATTACTTA
1 AATATATTACTTA
*
19633487 AATATGTTACTTA
1 AATATATTACTTA
*
19633500 AATACATTACTTA
1 AATATATTACTTA
19633513 CTAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:19633588 original size:63 final size:63
Alignment explanation
Indices: 19633484--19633602 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 63
19633474 AATTTATTAC
*
19633484 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATATGTAAAAT
*
19633547 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATAT
1 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATAT
19633603 TATATAATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (63 bp):
TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATATGTAAAAT
Found at i:19633645 original size:39 final size:38
Alignment explanation
Indices: 19633594--19633714 Score: 102
Period size: 39 Copynumber: 3.1 Consensus size: 38
19633584 TAAGTAAGTT
*
19633594 TACATATA-TTATATAA-TACATTACTTTTAACTTACATAA
1 TACATA-ACTTATA-AATTACATTA-TATTAACTTACATAA
***
19633633 TACATAACTTATAAATTTTTTTTATATTAACTTACATAA
1 TACATAACTTATAAA-TTACATTATATTAACTTACATAA
* *** **
19633672 TACATAACTTATAATTTTTTTTATACAAACTTACATAA
1 TACATAACTTATAAATTACATTATATTAACTTACATAA
19633710 TACAT
1 TACAT
19633715 TTAACTTACA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
38 29 0.40
39 39 0.54
40 4 0.06
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (38 bp):
TACATAACTTATAAATTACATTATATTAACTTACATAA
Found at i:19633703 original size:38 final size:39
Alignment explanation
Indices: 19633622--19633714 Score: 161
Period size: 38 Copynumber: 2.4 Consensus size: 39
19633612 CATTACTTTT
**
19633622 AACTTACATAATACATAACTTATAAATTTTTTTTATATT
1 AACTTACATAATACATAACTTATAAATTTTTTTTATACA
19633661 AACTTACATAATACATAACTTAT-AATTTTTTTTATACA
1 AACTTACATAATACATAACTTATAAATTTTTTTTATACA
19633699 AACTTACATAATACAT
1 AACTTACATAATACAT
19633715 TTAACTTACA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
38 29 0.56
39 23 0.44
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (39 bp):
AACTTACATAATACATAACTTATAAATTTTTTTTATACA
Found at i:19633730 original size:9 final size:9
Alignment explanation
Indices: 19633695--19634159 Score: 351
Period size: 9 Copynumber: 51.6 Consensus size: 9
19633685 ATTTTTTTTA
19633695 TACA-AACT
1 TACATAACT
19633703 TACATAA--
1 TACATAACT
19633710 TACATTTAACT
1 TACA--TAACT
19633721 TACATAACT
1 TACATAACT
19633730 TACATAACT
1 TACATAACT
*
19633739 TACACAACT
1 TACATAACT
19633748 TACATAACCT
1 TACATAA-CT
19633758 T-CATAA--
1 TACATAACT
19633764 TACATTTAACT
1 TACA--TAACT
19633775 TACATAACT
1 TACATAACT
19633784 TACATAACT
1 TACATAACT
19633793 TACATAA--
1 TACATAACT
* *
19633800 TGCAAAACT
1 TACATAACT
19633809 TACATAACAACT
1 TACAT---AACT
*
19633821 TACATAACA
1 TACATAACT
*
19633830 TACATTACT
1 TACATAACT
**
19633839 TTGATAACT
1 TACATAACT
19633848 TACATAACT
1 TACATAACT
19633857 TACATAA--
1 TACATAACT
* *
19633864 TGCAAAACT
1 TACATAACT
19633873 TACATAAC-
1 TACATAACT
* *
19633881 AAC-TTACT
1 TACATAACT
*
19633889 TACATAACA
1 TACATAACT
*
19633898 TACATTACT
1 TACATAACT
* * *
19633907 TAAATTATT
1 TACATAACT
19633916 TACATAA--
1 TACATAACT
19633923 TACATAACTT
1 TACATAAC-T
*
19633933 AGTACATAATT
1 --TACATAACT
19633944 TACATAA--
1 TACATAACT
19633951 TACATAACTT
1 TACATAAC-T
19633961 AGTACATAACT
1 --TACATAACT
*
19633972 TACATAATTTT
1 TACATAA--CT
*
19633983 TTC-TAAATTGCT
1 TACAT-AA---CT
*
19633995 TACATAAAT
1 TACATAACT
*
19634004 TATATAACT
1 TACATAACT
19634013 TACATAACT
1 TACATAACT
19634022 TACATTAA-T
1 TACA-TAACT
*
19634031 TAAATAACT
1 TACATAACT
19634040 TACATAACT
1 TACATAACT
19634049 TACATAACT
1 TACATAACT
*
19634058 TAAATAACT
1 TACATAACT
19634067 TACATAACT
1 TACATAACT
*
19634076 TACATATCT
1 TACATAACT
19634085 TACATAACT
1 TACATAACT
19634094 TACATAACT
1 TACATAACT
*
19634103 TACATAAAT
1 TACATAACT
19634112 TACATAACT
1 TACATAACT
19634121 TACATAACT
1 TACATAACT
19634130 TACATAA--
1 TACATAACT
19634137 TACATAACCT
1 TACATAA-CT
*
19634147 T-CCTAACT
1 TACATAACT
19634155 TACAT
1 TACAT
19634160 TATTGTTTAA
Statistics
Matches: 367, Mismatches: 49, Indels: 81
0.74 0.10 0.16
Matches are distributed among these distances:
6 1 0.00
7 40 0.11
8 14 0.04
9 258 0.70
10 8 0.02
11 15 0.04
12 30 0.08
13 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:19633822 original size:12 final size:12
Alignment explanation
Indices: 19633805--19633887 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 12
19633795 CATAATGCAA
19633805 AACTTACATAAC
1 AACTTACATAAC
19633817 AACTTACATAAC
1 AACTTACATAAC
* * *
19633829 ATACATTACTTTGAT
1 A-AC-TTAC-ATAAC
19633844 AACTTACAT---
1 AACTTACATAAC
19633853 AACTTACATAATGC
1 AACTTACATAA--C
19633867 AAAACTTACATAAC
1 --AACTTACATAAC
19633881 AACTTAC
1 AACTTAC
19633888 TTACATAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
9 9 0.16
12 21 0.37
13 6 0.11
14 7 0.12
15 3 0.05
16 11 0.19
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (12 bp):
AACTTACATAAC
Found at i:19633857 original size:64 final size:64
Alignment explanation
Indices: 19633716--19633929 Score: 244
Period size: 64 Copynumber: 3.3 Consensus size: 64
19633706 ATAATACATT
* *
19633716 TAACTTACATAACTTACATAACTTACACAACTTACATAAC--CTT-CAT-A-ATACATTTAACTT
1 TAACTTACATAACTTACATAA--TGCAAAACTTACATAACAACTTACATAACATACA-TT-ACTT
19633776 ACA
62 ACA
**
19633779 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTACA
19633843 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACTTACATAACATACATTACTT
1 TAACTTACATAACTTACATAATGCAAAACTTACATAAC-A---ACTTACATAACATACATTACTT
*
19633908 AAA
62 ACA
* *
19633911 TTATTTACATAA--TACATAA
1 TAACTTACATAACTTACATAA
19633930 CTTAGTACAT
Statistics
Matches: 134, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
61 15 0.11
63 24 0.18
64 46 0.34
65 4 0.03
66 12 0.09
68 33 0.25
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (64 bp):
TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTACA
Found at i:19633951 original size:28 final size:28
Alignment explanation
Indices: 19633913--19633979 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
19633903 TACTTAAATT
19633913 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
19633941 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
*
19633969 ACTTACATAAT
1 ATTTACATAAT
19633980 TTTTTCTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (28 bp):
ATTTACATAATACATAACTTAGTACATA
Found at i:19639743 original size:12 final size:12
Alignment explanation
Indices: 19639728--19639761 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
19639718 GGCCACAGTA
19639728 AGAGAAGCAGCG
1 AGAGAAGCAGCG
19639740 AGAGAAGCAGCG
1 AGAGAAGCAGCG
*
19639752 ATAGAAGCAG
1 AGAGAAGCAG
19639762 AGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.38, T:0.03
Consensus pattern (12 bp):
AGAGAAGCAGCG
Found at i:19640256 original size:42 final size:42
Alignment explanation
Indices: 19640197--19640481 Score: 281
Period size: 42 Copynumber: 6.7 Consensus size: 42
19640187 TTTGTAAAAT
* *
19640197 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCATTTTTGA-A
1 AAGCGCCGCTAAAGAACACGATCT-TTAGCGGCATTTTTTACA
* ** * * *
19640238 CAAGCGCCGCTATAGAACATTA-CTTTTAGCGGTATTTTCCTCCA
1 -AAGCGCCGCTAAAGAACACGATC-TTTAGCGGCATTTT-TTACA
* * *
19640282 AAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
* *
19640324 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCCT
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
* *
19640366 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CA
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
* * * * * *
19640407 TAAGCACCGCTAAAGAACATGATCTTTAGCAGCGTTTATTTCCT
1 -AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTT-TTTACA
* *
19640451 TAGCGCCGCTAAAGAACATGATCTTTAGCGG
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGG
19640482 TGTTTTTTCT
Statistics
Matches: 209, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.00
42 144 0.69
43 61 0.29
44 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTACA
Found at i:19640382 original size:127 final size:126
Alignment explanation
Indices: 19640197--19640490 Score: 344
Period size: 127 Copynumber: 2.3 Consensus size: 126
19640187 TTTGTAAAAT
* ** * *
19640197 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCATTTTTGAACAAGCGCCGCTATAGAACATTA-
1 AAGCGCCGCTAAAGAACACGATCT-TTAGCGGCATTTTT-TCCAAGCGCCGCTAAAGAACATGAT
* * ** *
19640260 CTTTTAGCGGTATTTTCCTCCA-AAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTT-TTTTC
64 C-TTTAGCGGCATTTT--TCCATAAGCACCGCTAAAGAACACGATCTTTAGCAGCGTTTATTTCC
19640323 A
126 A
19640324 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCC-AAGCGCCGCTAAAGAACATGATC
* * * *
19640389 TTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACATGATCTTTAGCAGCGTTTATTTCCT
65 TTTAGCGGCATTTTTCCATAAGCACCGCTAAAGAACACGATCTTTAGCAGCGTTTATTTCCA
* * **
19640451 TAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTC
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTC
19640491 TGTAAGCACC
Statistics
Matches: 144, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
125 3 0.02
126 33 0.23
127 105 0.73
128 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACACGATCTTTAGCGGCATTTTTTCCAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCATTTTTCCATAAGCACCGCTAAAGAACACGATCTTTAGCAGCGTTTATTTCCA
Found at i:19640489 original size:85 final size:84
Alignment explanation
Indices: 19640196--19640507 Score: 335
Period size: 85 Copynumber: 3.7 Consensus size: 84
19640186 GTTTGTAAAA
* ** * * * **
19640196 TAAGCGCCGCTAAAGAACACT-A-CTATTAGCGGCATTTTTGAACAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACACG
* * *
19640259 A-CTTTTAGCGGTATTTTCCTCC
64 ATC-TTTAGCAGCATTTT-TTCC
* * * *
19640281 AAAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTTTTTTCA-AAGCGCCGCTAAAGAACACGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCATAAGCACCGCTAAAGAACACGA
*
19640345 TCTTTAGCGGCATTTTTTCC
65 TCTTTAGCAGCATTTTTTCC
*
19640365 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACACGAT
*
19640430 CTTTAGCAGCGTTTATTTCC
66 CTTTAGCAGCATTT-TTTCC
* * * *
19640450 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTCTGTAAGCACCGCAAAAG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC-ATAAGCACCGCTAAAG
19640508 TTAGCGACGT
Statistics
Matches: 198, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
83 8 0.04
84 66 0.33
85 101 0.51
86 23 0.12
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCACCGCTAAAGAACACGAT
CTTTAGCAGCATTTTTTCC
Found at i:19649362 original size:41 final size:41
Alignment explanation
Indices: 19649232--19649344 Score: 208
Period size: 41 Copynumber: 2.8 Consensus size: 41
19649222 GACTTTAAGT
*
19649232 CTAGCAGGCTACGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
19649273 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
19649314 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCA
19649345 TGCTATAAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:19657131 original size:41 final size:41
Alignment explanation
Indices: 19656973--19657123 Score: 266
Period size: 41 Copynumber: 3.7 Consensus size: 41
19656963 TTTAAGTCTT
*
19656973 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTAGAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
*
19657014 GCAGGCTACGTGCCGATGATCTGAATCAGGTTATAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
* *
19657055 GCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACTTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
19657096 GCAGGCTACGTGCCGGTGATCTGAATCA
1 GCAGGCTACGTGCCGGTGATCTGAATCA
19657124 TGCTATAAGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (41 bp):
GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACCTA
Found at i:19657138 original size:41 final size:41
Alignment explanation
Indices: 19656973--19657160 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
19656963 TTTAAGTCTT
* *
19656973 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTAGAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
* *
19657014 GCAGGCTACGTGCCGATGATCTGAATCAGGTTATAAACCTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
*
19657055 GCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACTTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
* * **
19657096 GCAGGCTACGTGCCGGTGATCTGAATCATGCTATAAGTTTA
1 GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
* * *
19657137 GCAGGTTATGTGCCGTTGAATCTG
1 GCAGGCTACGTGCCGGTG-ATCTG
19657161 TTTAAATTAA
Statistics
Matches: 133, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 128 0.96
42 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
GCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAACTTA
Found at i:19659287 original size:27 final size:27
Alignment explanation
Indices: 19659257--19659317 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
19659247 CCTAAATCTG
19659257 AATGTAAAAACCTTATGGTTTCATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
19659284 AATGTAAAAACCTTATGGTTTCATTAA
1 AATGTAAAAACCTTATGGTTTCATTAA
19659311 AATGTAA
1 AATGTAA
19659318 CACCTACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (27 bp):
AATGTAAAAACCTTATGGTTTCATTAA
Found at i:19662836 original size:25 final size:26
Alignment explanation
Indices: 19662797--19662846 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
19662787 AAAATATATT
19662797 TTTTATTTTTT-AAAATCTAAAATTTC
1 TTTTATTTTTTAAAAATC-AAAATTTC
19662823 TTTT-TTTTTTAAAAATCAAAATTT
1 TTTTATTTTTTAAAAATCAAAATTT
19662847 TTCCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTATTTTTTAAAAATCAAAATTTC
Found at i:19662837 original size:26 final size:26
Alignment explanation
Indices: 19662796--19662846 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
19662786 AAAAATATAT
*
19662796 TTTTTATTTTTTAAAATCTAAAATTTC
1 TTTTTATTTTTAAAAATC-AAAATTTC
19662823 TTTTT-TTTTTAAAAATCAAAATTT
1 TTTTTATTTTTAAAAATCAAAATTT
19662847 TTCCAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTTTATTTTTAAAAATCAAAATTTC
Found at i:19662847 original size:18 final size:19
Alignment explanation
Indices: 19662826--19662874 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
19662816 AAATTTCTTT
19662826 TTTTTTTAAAAATCAA-AA
1 TTTTTTTAAAAATCAAGAA
** **
19662844 TTTTTCCAAAAATCAAGCC
1 TTTTTTTAAAAATCAAGAA
19662863 TTTTTTTAAAAA
1 TTTTTTTAAAAA
19662875 AAGAAACCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTTTTAAAAATCAAGAA
Found at i:19663260 original size:15 final size:14
Alignment explanation
Indices: 19663240--19663272 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
19663230 TGACAGGCTC
19663240 AAAAAAGAAAGAAGA
1 AAAAAAGAAA-AAGA
19663255 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
19663269 AAAA
1 AAAA
19663273 TAAAGGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:19667670 original size:51 final size:52
Alignment explanation
Indices: 19667471--19667695 Score: 214
Period size: 51 Copynumber: 4.4 Consensus size: 52
19667461 TTCGGTGGTT
*
19667471 TGCACATAGTACCT-CCCATGTGACCATT-GTCATCCGATACATGTAGTAGCC
1 TGCACATAGTA-CTACACATGTGACCATTAGTCATCCGATACATGTAGTAGCC
* * * * * * * *
19667522 TACACATAGTACTACACACGTGATCA--AG-CTTTCTGGTTCATGTAGTAGCT
1 TGCACATAGTACTACACATGTGACCATTAGTC-ATCCGATACATGTAGTAGCC
* * * **
19667572 TGCACATAGTACTACACACGTGACCA--AGGCCATCCGGTACACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTA-GTCATCCGATACATGTAGTAGCC
* *
19667623 TGCACATAGTACTACACATGTGACCATTATTTAT-CGATACATGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTAGTCATCCGATACATGTAGTAGCC
*
19667674 TGCACTTAGTACTACACATGTG
1 TGCACATAGTACTACACATGTG
19667696 TTCATAGGTA
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 43 0.30
51 94 0.66
52 3 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (52 bp):
TGCACATAGTACTACACATGTGACCATTAGTCATCCGATACATGTAGTAGCC
Found at i:19675027 original size:4 final size:4
Alignment explanation
Indices: 19675018--19675048 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
19675008 TTTTAATATT
*
19675018 ATTA ATTA ATTA ATTA ACTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
19675049 CACTGAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:19681500 original size:27 final size:27
Alignment explanation
Indices: 19681467--19681666 Score: 210
Period size: 27 Copynumber: 7.4 Consensus size: 27
19681457 CCCTAAAATA
* *
19681467 GGTAAAATGACAGAAATACCCTCACAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
19681494 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
* * *
19681521 GGTAGAATGACCAAAATA-GCTCCATAG
1 GGTAAAATGACCGAAATACCCT-CATAG
* *
19681548 AGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCTCATAG
*
19681575 GGTAAAATGATCGAAATACCC-CTATAG
1 GGTAAAATGACCGAAATACCCTC-ATAG
* ** *
19681602 GGTAGAATGATTGAAATACCC-CTATAA
1 GGTAAAATGACCGAAATACCCTC-ATAG
*
19681629 GGTAAAATGACCGAAATA-ACTCCATAG
1 GGTAAAATGACCGAAATACCCT-CATAG
19681656 GGTAAAATGAC
1 GGTAAAATGAC
19681667 TATTATACCC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 141 0.97
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCATAG
Found at i:19681603 original size:81 final size:81
Alignment explanation
Indices: 19681464--19681666 Score: 268
Period size: 81 Copynumber: 2.5 Consensus size: 81
19681454 ATACCCTAAA
* * *
19681464 ATAG-GTAAAATGACAGAAATACCCTCACAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
1 ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
*
19681528 TGACCAAAATAGCTCC-
66 TGACCAAAATA-CCCCT
* *
19681544 ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAGAA
1 ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
***
19681609 TGATTGAAATACCCCT
66 TGACCAAAATACCCCT
* *
19681625 ATA-AGGTAAAATGACCGAAATAACTCCATAGGGTAAAATGAC
1 ATAGA-GTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
19681667 TATTATACCC
Statistics
Matches: 108, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 8 0.07
81 100 0.93
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (81 bp):
ATAGAGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAA
TGACCAAAATACCCCT
Found at i:19681679 original size:54 final size:53
Alignment explanation
Indices: 19681466--19681666 Score: 240
Period size: 54 Copynumber: 3.7 Consensus size: 53
19681456 ACCCTAAAAT
* *
19681466 AGGTAAAATGACAGAAATACCCTCACAGGGTAAAATGACCGAAATACCCCCATA
1 AGGTAAAATGACCGAAATACCC-CATAGGGTAAAATGACCGAAATACCCCCATA
* * * * *
19681520 GGGTAGAATGACCAAAATAGCTCCATAGAGTAAAATGACCGAAATACCCCCATA
1 AGGTAAAATGACCGAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCCATA
* * * ** *
19681574 GGGTAAAATGATCGAAATACCCCTATAGGGTAGAATGATTGAAATACCCCTATA
1 AGGTAAAATGACCGAAATACCCC-ATAGGGTAAAATGACCGAAATACCCCCATA
*
19681628 AGGTAAAATGACCGAAATAACTCCATAGGGTAAAATGAC
1 AGGTAAAATGACCGAAAT-ACCCCATAGGGTAAAATGAC
19681667 TATTATACCC
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.02
54 114 0.93
55 6 0.05
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (53 bp):
AGGTAAAATGACCGAAATACCCCATAGGGTAAAATGACCGAAATACCCCCATA
Found at i:19684085 original size:16 final size:16
Alignment explanation
Indices: 19684066--19684111 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19684056 CGTCAGTCTA
19684066 CAAGCTCATTAGTTTG
1 CAAGCTCATTAGTTTG
**
19684082 CAAGCTTGTTAGTTGTG
1 CAAGCTCATTAGTT-TG
19684099 --AGCTCATTAGTTT
1 CAAGCTCATTAGTTT
19684112 ACCTTAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 10 0.40
16 12 0.48
17 2 0.08
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (16 bp):
CAAGCTCATTAGTTTG
Found at i:19688668 original size:20 final size:18
Alignment explanation
Indices: 19688643--19688679 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
19688633 ACCTAACACA
19688643 AATTAAATTTAAATCATATT
1 AATTAAA-TTAAA-CATATT
19688663 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
19688680 CAACATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:19689531 original size:10 final size:10
Alignment explanation
Indices: 19689518--19689542 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19689508 GAAATTGTCA
19689518 AAAATAAATC
1 AAAATAAATC
19689528 AAAATAAATC
1 AAAATAAATC
19689538 AAAAT
1 AAAAT
19689543 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:19689584 original size:27 final size:27
Alignment explanation
Indices: 19689554--19689608 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19689544 TATTATAAAA
*
19689554 TTAATTAAAATTCAA-TATTTTAATAAT
1 TTAAGTAAAATTCAATTATTTT-ATAAT
* *
19689581 TTAAGTACAATTTAATTATTTTATAAT
1 TTAAGTAAAATTCAATTATTTTATAAT
19689608 T
1 T
19689609 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAAGTAAAATTCAATTATTTTATAAT
Done.