Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 147 of 187
Found at i:44352072 original size:20 final size:20
Alignment explanation
Indices: 44351931--44352073 Score: 58
Period size: 20 Copynumber: 7.0 Consensus size: 20
44351921 GTGCCCTTGT
*
44351931 TTGTACTTCGGTACCCCTGAA
1 TTGTACTTTGGTACCCCT-AA
* * ** * *
44351952 TTGCACATACGTGCCCCTAT
1 TTGTACTTTGGTACCCCTAA
*
44351972 TTGTACTTTGATACCCCTAAA
1 TTGTACTTTGGTACCCCT-AA
* * * *
44351993 TTGCAC-ATGAGTGCCCCT-T
1 TTGTACTTTG-GTACCCCTAA
*
44352012 TCTGTACTTTGGTACCCTTGAA
1 T-TGTACTTTGGTACCCCT-AA
* * * *
44352034 TTGCAC-ATGCGTGCTCCTAA
1 TTGTACTTTG-GTACCCCTAA
44352054 TTGTACTTTGGTACCCCTAA
1 TTGTACTTTGGTACCCCTAA
44352074 ATTAGACATA
Statistics
Matches: 82, Mismatches: 32, Indels: 17
0.63 0.24 0.13
Matches are distributed among these distances:
19 1 0.01
20 42 0.51
21 38 0.46
22 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTACTTTGGTACCCCTAA
Found at i:44352091 original size:82 final size:83
Alignment explanation
Indices: 44351863--44352092 Score: 306
Period size: 82 Copynumber: 2.8 Consensus size: 83
44351853 CTTAATTATT
* * * * *
44351863 CCCTGAATTGCACATATGTGCCCCTGATTGTACTTCGGTACCCTTGAATTGCACATACGTG-CCC
1 CCCTGAATTGCACATACGTGCCCCTAATTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCC
*
44351927 TTGTTTGTACTTCGGTAC
66 TTGTCTGTACTTCGGTAC
* *
44351945 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTAAATTGCACATGA-GTGCCC
1 CCCTGAATTGCACATACGTGCCCCTAATTGTACTTTGGTACCCCTAAATTGCACAT-ACGTGCCC
*
44352009 CTT-TCTGTACTTTGGTAC
65 CTTGTCTGTACTTCGGTAC
* * *
44352027 CCTTGAATTGCACATGCGTGCTCCTAATTGTACTTTGGTACCCCTAAATTAG-ACATACGTGCCC
1 CCCTGAATTGCACATACGTGCCCCTAATTGTACTTTGGTACCCCTAAATT-GCACATACGTGCCC
44352091 CT
65 CT
44352093 ATTTACACTC
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
81 1 0.01
82 122 0.94
83 7 0.05
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.33
Consensus pattern (83 bp):
CCCTGAATTGCACATACGTGCCCCTAATTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCC
TTGTCTGTACTTCGGTAC
Found at i:44360207 original size:25 final size:26
Alignment explanation
Indices: 44360177--44360232 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
44360167 TTTTCCATAG
44360177 TTTTAGGGTTAGGTTTTCT-TTTTAT
1 TTTTAGGGTTAGGTTTTCTCTTTTAT
* *
44360202 TTTTA-GTTTAGGTTTTCTCTTTTCT
1 TTTTAGGGTTAGGTTTTCTCTTTTAT
44360227 TTTTAG
1 TTTTAG
44360233 AGTAGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.11, C:0.07, G:0.16, T:0.66
Consensus pattern (26 bp):
TTTTAGGGTTAGGTTTTCTCTTTTAT
Found at i:44360212 original size:24 final size:25
Alignment explanation
Indices: 44360185--44360232 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
44360175 AGTTTTAGGG
44360185 TTAGGTTTTCT-TTTTATTTTTAGT
1 TTAGGTTTTCTCTTTTATTTTTAGT
*
44360209 TTAGGTTTTCTCTTTTCTTTTTAG
1 TTAGGTTTTCTCTTTTATTTTTAG
44360233 AGTAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.10, C:0.08, G:0.12, T:0.69
Consensus pattern (25 bp):
TTAGGTTTTCTCTTTTATTTTTAGT
Found at i:44360242 original size:25 final size:24
Alignment explanation
Indices: 44360190--44360242 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
44360180 TAGGGTTAGG
** *
44360190 TTTTCTTTTTATTTTTAGTTTAGG
1 TTTTCTTTTTATTTTTAGAGTAGA
*
44360214 TTTTCTCTTTTCTTTTTAGAGTAGA
1 TTTTCT-TTTTATTTTTAGAGTAGA
44360239 TTTT
1 TTTT
44360243 ATTCTTGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (24 bp):
TTTTCTTTTTATTTTTAGAGTAGA
Found at i:44364887 original size:29 final size:30
Alignment explanation
Indices: 44364826--44364881 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
44364816 TTAATGGAAG
* * *
44364826 AAAATAAATAAACCTGAATTTTTAAATTCA
1 AAAATAAAGAAACCTAAATTTTTAAAATCA
44364856 AAAATAAAGAAA-CTAAATTTTTAAAA
1 AAAATAAAGAAACCTAAATTTTTAAAA
44364882 ATAAAATTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (30 bp):
AAAATAAAGAAACCTAAATTTTTAAAATCA
Found at i:44370670 original size:21 final size:22
Alignment explanation
Indices: 44370644--44370690 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44370634 CTCTGCTCAA
*
44370644 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
44370665 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
44370687 ACTC
1 ACTC
44370691 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:44378187 original size:37 final size:37
Alignment explanation
Indices: 44378137--44378215 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44378127 TTATTACGAA
* *
44378137 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
44378174 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
44378211 GTCTT
1 GTCTT
44378216 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:44378394 original size:47 final size:47
Alignment explanation
Indices: 44378325--44378426 Score: 195
Period size: 47 Copynumber: 2.2 Consensus size: 47
44378315 ACACAAATGC
*
44378325 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
44378372 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
44378419 TATACACT
1 TATACACT
44378427 GTCTTGGCTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:44381038 original size:29 final size:32
Alignment explanation
Indices: 44380968--44381038 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 32
44380958 ATGTAATTGT
*
44380968 TATTT-TTTTTATTTTATGATTTTCATATGTA
1 TATTTATTTTTATTTTATGATTATCATATGTA
*
44380999 -A-TTATTATTATTTTAT-A-TAT-ATATGTA
1 TATTTATTTTTATTTTATGATTATCATATGTA
44381026 TATTTATTTTTAT
1 TATTTATTTTTAT
44381039 GTACGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 7 0.21
28 3 0.09
29 12 0.35
30 12 0.35
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (32 bp):
TATTTATTTTTATTTTATGATTATCATATGTA
Found at i:44381372 original size:26 final size:26
Alignment explanation
Indices: 44381339--44381416 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
44381329 GCATCTATTC
44381339 ACACATTCAACATAACGTTACACTAT
1 ACACATTCAACATAACGTTACACTAT
*
44381365 ACACATTCAACATAACTTTACACTAT
1 ACACATTCAACATAACGTTACACTAT
44381391 ACACATTCAACATAACGTTACACTAT
1 ACACATTCAACATAACGTTACACTAT
44381417 CTTTTTACTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.28
Consensus pattern (26 bp):
ACACATTCAACATAACGTTACACTAT
Found at i:44381444 original size:46 final size:46
Alignment explanation
Indices: 44381391--44381480 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
44381381 TTTACACTAT
44381391 ACACATTCAACATAACGTTACACTATCTTTTTACTCAATTTTAATC
1 ACACATTCAACATAACGTTACACTATCTTTTTACTCAATTTTAATC
44381437 ACACATTCAACATAACGTTACACTATCTTTTTACTCAATTTTAA
1 ACACATTCAACATAACGTTACACTATCTTTTTACTCAATTTTAA
44381481 AATAAAACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (46 bp):
ACACATTCAACATAACGTTACACTATCTTTTTACTCAATTTTAATC
Found at i:44381710 original size:83 final size:83
Alignment explanation
Indices: 44381571--44381739 Score: 329
Period size: 83 Copynumber: 2.0 Consensus size: 83
44381561 TTTTTTTTTT
*
44381571 GTAAAATCTAACAATCGAGGATTGCTCTTTAAATCAAATAAAATAAAACTTATCATCGGGAATTC
1 GTAAAATCTAACAATCGAGGATTGCTCTTTAAATCAAACAAAATAAAACTTATCATCGGGAATTC
44381636 AATATGTTGTGTCCTAAC
66 AATATGTTGTGTCCTAAC
44381654 GTAAAATCTAACAATCGAGGATTGCTCTTTAAATCAAACAAAATAAAACTTATCATCGGGAATTC
1 GTAAAATCTAACAATCGAGGATTGCTCTTTAAATCAAACAAAATAAAACTTATCATCGGGAATTC
44381719 AATATGTTGTGTCCTAAC
66 AATATGTTGTGTCCTAAC
44381737 GTA
1 GTA
44381740 TTGGATGTGA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (83 bp):
GTAAAATCTAACAATCGAGGATTGCTCTTTAAATCAAACAAAATAAAACTTATCATCGGGAATTC
AATATGTTGTGTCCTAAC
Found at i:44381973 original size:114 final size:114
Alignment explanation
Indices: 44381768--44381999 Score: 446
Period size: 114 Copynumber: 2.0 Consensus size: 114
44381758 TTTCTCGAGA
44381768 TAAAAATTTTTAAAGAAATAAAGGAAATATTGAATGTTTGAGATTTTAAGAAATTGTGCCCTAAC
1 TAAAAATTTTTAAAGAAATAAAGGAAATATTGAATGTTTGAGATTTTAAGAAATTGTGCCCTAAC
*
44381833 GTATTGGGTCGCGATTTCTTCATAAATTTTAAACAATTAGATATTTTCT
66 GTATTGGGCCGCGATTTCTTCATAAATTTTAAACAATTAGATATTTTCT
*
44381882 TAAAGATTTTTAAAGAAATAAAGGAAATATTGAATGTTTGAGATTTTAAGAAATTGTGCCCTAAC
1 TAAAAATTTTTAAAGAAATAAAGGAAATATTGAATGTTTGAGATTTTAAGAAATTGTGCCCTAAC
44381947 GTATTGGGCCGCGATTTCTTCATAAATTTTAAACAATTAGATATTTTCT
66 GTATTGGGCCGCGATTTCTTCATAAATTTTAAACAATTAGATATTTTCT
44381996 TAAA
1 TAAA
44382000 TTTTATTACA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (114 bp):
TAAAAATTTTTAAAGAAATAAAGGAAATATTGAATGTTTGAGATTTTAAGAAATTGTGCCCTAAC
GTATTGGGCCGCGATTTCTTCATAAATTTTAAACAATTAGATATTTTCT
Found at i:44393897 original size:84 final size:85
Alignment explanation
Indices: 44393756--44393911 Score: 205
Period size: 84 Copynumber: 1.8 Consensus size: 85
44393746 CCGATAATCC
*
44393756 TATCTCCCTGAAGTTGCAGTGGAACGGAATAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAACGGAATAAAAGCACAGATCTTATCTCTCTGAAGTTGCAGAG
44393821 A-GCAGATCGCATCTAGTCT
66 AGGCAGATCGCATCTAGTCT
* *
44393840 TATCTCTCTGAAGTTGCAGTGGAACAGG-CTAAGTAAGCA-AG-TCTTATC-CTCCTGAAGTTGC
1 TATCTCCCTGAAGTTGCAGTGGAAC-GGAATAA--AAGCACAGATCTTATCTCT-CTGAAGTTGC
*
44393901 AGTGAGGCAGA
62 AGAGAGGCAGA
44393912 CTAAAGATGA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
83 2 0.03
84 48 0.76
85 9 0.14
86 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAACGGAATAAAAGCACAGATCTTATCTCTCTGAAGTTGCAGAG
AGGCAGATCGCATCTAGTCT
Found at i:44393993 original size:44 final size:45
Alignment explanation
Indices: 44393894--44394649 Score: 235
Period size: 44 Copynumber: 17.4 Consensus size: 45
44393884 TATCCTCCTG
* * *
44393894 AAGTTGCAGT-GAGGCAGACTAAAGATGACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGA-GCAGATTAAAGATGACAAATCCTATCTCCCTA
* * *
44393939 AAGTTG-AGTGGAGCAGATTAAAGCTGA-TAATCCTATTTCCCTA
1 AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
* * * * *
44393982 AAGTTGCAGTGGAGC-GAATTAAA-ATCACAGATCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAG-ATTAAAGATGACAAATCCTATCTCCCTA
* * * * * *
44394026 AAGTTGCAG-AGAGCAGA-T--CGCAT--CTAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAG-ATGACAAATCCTATCTCCCTA
** * * * *
44394066 AAGTTGCAGTGGAGCAGGCT-AAG-TAAGCAAGTCTTATC-CTCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGA-CAAATCCTATCTC-CCTA
* * * * * *
44394110 AAGTTGCAGT-GAGGAAGACTGAAGATGGCAAATCTTATCTCCCTG
1 AAGTTGCAGTGGA-GCAGATTAAAGATGACAAATCCTATCTCCCTA
** * *
44394155 AAGTTGCAGTGGAGCAGATTAAAGCCGA-TAATCCTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
* * * * * *
44394199 AAGTTGC-GTGGAGCAAATTAAA-ATCACAGATCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
* * * * * * *
44394242 AAGTTGCAG-AGAACAGA-T--CGCAT--CTAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAG-ATGACAAATCCTATCTCCCTA
* * * * * * *
44394282 AAGTTGTAGTGGAGCAGACT-AAG-TAAGTAAGTCTTATC-CTCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGA-CAAATCCTATCTC-CCTA
*** * * * *
44394326 AAGTTGCAGT-GAGGCAGACCGAAGATGGCAAATCTTATCTTCCTG
1 AAGTTGCAGTGGA-GCAGATTAAAGATGACAAATCCTATCTCCCTA
* ** *
44394371 AAGTTACAGTGGAGCAGATTAAAGCCGAC-AATCCTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
* * * * * * *
44394415 AAGTTGCAGTGGAGCGGATTAAA-ATCATAGATCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
* * * * * *
44394459 AAGTTGCAG-AGAGCAGA-T--CGCAT--CTAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAG-ATGACAAATCCTATCTCCCTA
* * * * * * *
44394499 AAGTTACAATGGAGCAGACT-AAG-TAAGCAAGTCTTATC-CTCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGA-CAAATCCTATCTC-CCTA
* * * * * *
44394543 AAGTTACAGTTTG-GCAGACTGAAGATGACAAATCTTATCTCCCTG
1 AAGTTGCAG-TGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
** * *
44394588 AAGTTGCAGTGGAGCAGATTAAAGCCGA-TAATCCTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
* *
44394632 AAGGTGCAGTGGAACAGA
1 AAGTTGCAGTGGAGCAGA
44394650 CTAAGATAGC
Statistics
Matches: 550, Mismatches: 111, Indels: 101
0.72 0.15 0.13
Matches are distributed among these distances:
40 62 0.11
41 22 0.04
42 13 0.02
43 81 0.15
44 245 0.45
45 117 0.21
46 10 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGATTAAAGATGACAAATCCTATCTCCCTA
Found at i:44394122 original size:216 final size:217
Alignment explanation
Indices: 44393744--44394644 Score: 1520
Period size: 216 Copynumber: 4.2 Consensus size: 217
44393734 ACAAATCCGT
*
44393744 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAACGGAA-TAAAATCACAGATCTTATCTCTC
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAATCACAGATCTTATCTCTC
* * *
44393808 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAACAGGCTAAG
65 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG
*
44393873 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCT
130 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCT
44393938 GAAGTTG-AGTGGAGCAGATTAA
195 GAAGTTGCAGTGGAGCAGATTAA
* * *
44393960 AGCTGATAATCCTATTTCCCTAAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCT
*
44394025 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* *
44394090 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGAAGACTGAAGATGGCAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
44394155 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
*
44394177 AGCCGATAATCCTATCTCCCTGAAGTTGC-GTGGAGCAAATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCT
* *
44394241 GAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* * * *
44394306 AAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACCGAAGATGGCAAATCTTATCTTCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
*
44394371 AAGTTACAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
* * *
44394393 AGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCATAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCT
* *
44394458 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* **
44394523 AAGCAAGTCTTATCCTCCTGAAGTTACAGTTTGGCAGACTGAAGATGACAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
44394588 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
*
44394610 AGCCGATAATCCTATCTCCCTGAAGGTGCAGTGGA
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGA
44394645 ACAGACTAAG
Statistics
Matches: 643, Mismatches: 39, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
215 3 0.00
216 394 0.61
217 246 0.38
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTAA
Found at i:44394450 original size:133 final size:127
Alignment explanation
Indices: 44394272--44394516 Score: 289
Period size: 133 Copynumber: 1.9 Consensus size: 127
44394262 CATCTAGTCT
* *
44394272 TATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGTAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGTAAGTCTTATCTCT-CTGAAGTTGCAGA
* * *
44394336 GAGGCAGACCGAAGATGGCAAATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTAAAGCCGACA
64 GA-GCAGACCG--CAT--CAAATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCGACA
44394401 ATCC
124 ATCC
* *
44394405 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AA-TCATAGATCTTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGT-A-AG-TCTTATCTCTCTGAAGTTGCAG
* * *
44394468 AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTACAATGGAGCAGA
63 AGAGCAGACCGCATCAAATCTTATCTCCCTGAAGTTACAATGGAGCAGA
44394517 CTAAGTAAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
128 31 0.32
130 3 0.03
131 3 0.03
132 9 0.09
133 50 0.51
134 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGTAAGTCTTATCTCTCTGAAGTTGCAGAGA
GCAGACCGCATCAAATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCGACAATCC
Found at i:44394564 original size:433 final size:433
Alignment explanation
Indices: 44393744--44394646 Score: 1522
Period size: 433 Copynumber: 2.1 Consensus size: 433
44393734 ACAAATCCGT
*
44393744 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAACGGAATAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAACGAAATAAAATCACAGATCTTATCTCTCT
* * *
44393809 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAACAGGCTAAGT
66 GAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGT
*
44393874 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACCAAAGATGACAAATCTTATCTCCCTG
* * * *
44393939 AAGTTGAGTGGAGCAGATTAAAGCTGATAATCCTATTTCCCTAAAGTTGCAGTGGAGCGAATTAA
196 AAGTTCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAA
44394004 AATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAG
261 AATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAG
* * * *
44394069 TTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGAAGACTGAAG
326 TTACAATGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGAAG
*
44394134 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
391 ATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
*
44394177 AGCCGATAATCCTATCTCCCTGAAGTTGC-GTGGAGC-AAATTAAAATCACAGATCTTATCTCTC
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAACGAAA-TAAAATCACAGATCTTATCTCTC
* *
44394240 TGAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAG
65 TGAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAG
* * * *
44394305 TAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACCGAAGATGGCAAATCTTATCTTCCT
130 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACCAAAGATGACAAATCTTATCTCCCT
* *
44394370 GAAGTTACAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
195 GAAGTT-CAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATT
*
44394435 AAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGA
259 AAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGA
** *
44394500 AGTTACAATGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTTTGGCAGACTGA
324 AGTTACAATGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGA
44394565 AGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
389 AGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
*
44394610 AGCCGATAATCCTATCTCCCTGAAGGTGCAGTGGAAC
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAAC
44394647 AGACTAAGAT
Statistics
Matches: 438, Mismatches: 29, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
431 2 0.00
432 155 0.35
433 275 0.63
434 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (433 bp):
AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAACGAAATAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAACAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAGT
AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACCAAAGATGACAAATCTTATCTCCCTG
AAGTTCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAA
AATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAG
TTACAATGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGAAGACTGAAG
ATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
Found at i:44395988 original size:29 final size:32
Alignment explanation
Indices: 44395918--44395988 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 32
44395908 ATGTAATTGT
*
44395918 TATTT-TTTTTATTTTATGATTTTCATATGTA
1 TATTTATTTTTATTTTATGATTATCATATGTA
*
44395949 -A-TTATTATTATTTTAT-A-TAT-ATATGTA
1 TATTTATTTTTATTTTATGATTATCATATGTA
44395976 TATTTATTTTTAT
1 TATTTATTTTTAT
44395989 GTACGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
27 7 0.21
28 3 0.09
29 12 0.35
30 12 0.35
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (32 bp):
TATTTATTTTTATTTTATGATTATCATATGTA
Found at i:44399784 original size:22 final size:21
Alignment explanation
Indices: 44399724--44399785 Score: 52
Period size: 24 Copynumber: 2.7 Consensus size: 21
44399714 TGCGTTTGAA
44399724 TTTCACATATATATTTATATATTT
1 TTTCA-ATATATATTTATATA--T
* * *
44399748 TCTTCTACATGTATTTATATAT
1 T-TTCAATATATATTTATATAT
44399770 TTTCAATATTATATTT
1 TTTCAATA-TATATTT
44399786 TAGTAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
21 5 0.17
22 8 0.27
24 14 0.47
25 3 0.10
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTCAATATATATTTATATAT
Found at i:44401969 original size:110 final size:110
Alignment explanation
Indices: 44401782--44401980 Score: 285
Period size: 110 Copynumber: 1.8 Consensus size: 110
44401772 TGCCAAGCCG
* * *
44401782 TGTGACTCACTGTTGCTATTAGAGACCACACGGGCCAGAGACATGGGTATGTGGTAGGCCGTGTG
1 TGTGACTCACTGTTGCTATTAGAGACCACACGGGCCAGAGACACGGGTATGTGATAGGCCATGTG
* *
44401847 ACTCACTATTGCTATTAGAGACTGCACGAGCGTGTGTCTAGGCCA
66 ACACACTATTGCTATTAAAGACTGCACGAGCGTGTGTCTAGGCCA
** *
44401892 TGTGACTCACTGTTGCTATTAGAGACTGCA-GGGCCAGAGACACGGGTGTGT-ATCCAGGCCATG
1 TGTGACTCACTGTTGCTATTAGAGACCACACGGGCCAGAGACACGGGTATGTGAT--AGGCCATG
*
44401955 TGACACACTGTTGCTATTAAAGACTG
64 TGACACACTATTGCTATTAAAGACTG
44401981 TACGGGCCAG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
108 1 0.01
109 19 0.24
110 58 0.74
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (110 bp):
TGTGACTCACTGTTGCTATTAGAGACCACACGGGCCAGAGACACGGGTATGTGATAGGCCATGTG
ACACACTATTGCTATTAAAGACTGCACGAGCGTGTGTCTAGGCCA
Found at i:44402034 original size:62 final size:62
Alignment explanation
Indices: 44401878--44402090 Score: 302
Period size: 62 Copynumber: 3.5 Consensus size: 62
44401868 CTGCACGAGC
* *
44401878 GTGTGTCTAGGCCATGTGACTCACTGTTGCTATTAGAGACTGCA-GGGCCAGAGACACGGGT
1 GTGTGTCCAGGCCATGTGACTCACTGTTGCTATTAAAGACTGCACGGGCCAGAGACACGGGT
* * *
44401939 GTGTATCCAGGCCATGTGACACACTGTTGCTATTAAAGACTGTACGGGCCAGAGACACGGGT
1 GTGTGTCCAGGCCATGTGACTCACTGTTGCTATTAAAGACTGCACGGGCCAGAGACACGGGT
** * * * **
44402001 GTGTGTCCAGGCTGTGTAACTCATTGTTACTATTAAAGACCACACGGGCCAGAGACACGGGT
1 GTGTGTCCAGGCCATGTGACTCACTGTTGCTATTAAAGACTGCACGGGCCAGAGACACGGGT
*
44402063 GTGTGTCCAGGCTATGTGACTCACTGTT
1 GTGTGTCCAGGCCATGTGACTCACTGTT
44402091 TGCGATTTAG
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
61 39 0.29
62 94 0.71
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (62 bp):
GTGTGTCCAGGCCATGTGACTCACTGTTGCTATTAAAGACTGCACGGGCCAGAGACACGGGT
Found at i:44408607 original size:38 final size:38
Alignment explanation
Indices: 44408560--44408738 Score: 216
Period size: 38 Copynumber: 4.7 Consensus size: 38
44408550 CACCGACATG
* *
44408560 AAGCCTGCTAGGCATAGAGCCCAAATATCACCGGTACA
1 AAGCCTGCTAGGCATAGAGCCCGAATATCACCGGCACA
* * * * *
44408598 AAGCTTGCTAAGCATAGAGCCCGAATATAATCGACACA
1 AAGCCTGCTAGGCATAGAGCCCGAATATCACCGGCACA
* * *
44408636 AAGCCTGCTAGACACAGAGCCCGAATATCACCAGCACA
1 AAGCCTGCTAGGCATAGAGCCCGAATATCACCGGCACA
* * *
44408674 AAGTCTGCTAGGCATAAAGCCCGAATATCACTGGCACA
1 AAGCCTGCTAGGCATAGAGCCCGAATATCACCGGCACA
*
44408712 AAGCAC-GCTAGGCATAGAGCCCTAATA
1 AAGC-CTGCTAGGCATAGAGCCCGAATA
44408739 ACATTACATT
Statistics
Matches: 116, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
38 115 0.99
39 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (38 bp):
AAGCCTGCTAGGCATAGAGCCCGAATATCACCGGCACA
Found at i:44414202 original size:22 final size:22
Alignment explanation
Indices: 44414159--44414202 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44414149 ATCGGATCCA
* *
44414159 ACTCCACCTCCACCGATTCACG
1 ACTCCACATCCACCGATCCACG
44414181 ACTCCACATCCA-CGACTCCACG
1 ACTCCACATCCACCGA-TCCACG
44414203 GTGCTTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (22 bp):
ACTCCACATCCACCGATCCACG
Found at i:44414626 original size:3 final size:3
Alignment explanation
Indices: 44414618--44414643 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44414608 AATTTTGATT
44414618 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
44414644 TGGCTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44415303 original size:13 final size:13
Alignment explanation
Indices: 44415285--44415363 Score: 113
Period size: 13 Copynumber: 6.0 Consensus size: 13
44415275 TGAGTTCGGT
44415285 TATATTGTTTTAA
1 TATATTGTTTTAA
44415298 TATATTGTTTTAA
1 TATATTGTTTTAA
*
44415311 TATATTGTTATAA
1 TATATTGTTTTAA
* *
44415324 TATACTGTTGTAA
1 TATATTGTTTTAA
44415337 TTATATTGTTTTAA
1 -TATATTGTTTTAA
*
44415351 TATAATGTTTTAA
1 TATATTGTTTTAA
44415364 CTTTTAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
13 48 0.81
14 11 0.19
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (13 bp):
TATATTGTTTTAA
Found at i:44415419 original size:15 final size:15
Alignment explanation
Indices: 44415399--44415432 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44415389 AAATATACAT
* *
44415399 TTAATTTGTAACACG
1 TTAATTTCTAACACA
44415414 TTAATTTCTAACACA
1 TTAATTTCTAACACA
44415429 TTAA
1 TTAA
44415433 AAAAAACGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (15 bp):
TTAATTTCTAACACA
Found at i:44416603 original size:9 final size:9
Alignment explanation
Indices: 44416589--44416630 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
44416579 TTTGGTTAAA
44416589 AATTAACCG
1 AATTAACCG
44416598 AATTAACCG
1 AATTAACCG
* *
44416607 AATCACCCG
1 AATTAACCG
44416616 AATT-ACCAG
1 AATTAACC-G
44416625 AATTAA
1 AATTAA
44416631 ATCATTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 2 0.07
9 24 0.89
10 1 0.04
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:44416653 original size:17 final size:17
Alignment explanation
Indices: 44416633--44416698 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
44416623 AGAATTAAAT
44416633 CATTACATAATTAAAAA
1 CATTACATAATTAAAAA
** *
44416650 CATTACATAAGTCTTTGAAT
1 CATTACATAA---TTAAAAA
*
44416670 CACTACATAATTAAAAA
1 CATTACATAATTAAAAA
44416687 CATTACATAATT
1 CATTACATAATT
44416699 CTTGAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 25 0.66
20 13 0.34
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.33
Consensus pattern (17 bp):
CATTACATAATTAAAAA
Found at i:44416671 original size:37 final size:37
Alignment explanation
Indices: 44416630--44416701 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
44416620 ACCAGAATTA
*
44416630 AATCATTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
44416667 AATCACTACATAATTAAAAACATTACATAATTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
44416702 GAAATTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:44416880 original size:38 final size:39
Alignment explanation
Indices: 44416829--44416906 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 39
44416819 TACTTAGAGT
*
44416829 TAGACTTTAGTTTTATTTTTATT-GAGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAATTTTATTAG-GTTGGGTAATTGGG
44416867 TAGACTTTAGTTTTAATTTTATTAGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAATTTTATTAGGTTGGGTAATTGGG
44416906 T
1 T
44416907 TGGGTTGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
38 25 0.68
39 12 0.32
ACGTcount: A:0.22, C:0.03, G:0.24, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAATTTTATTAGGTTGGGTAATTGGG
Found at i:44417057 original size:18 final size:18
Alignment explanation
Indices: 44417036--44417094 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
44417026 CGACCGAAAA
44417036 AATTCGGTTAACCGACCG
1 AATTCGGTTAACCGACCG
*
44417054 AATTCGGTTAATCG---G
1 AATTCGGTTAACCGACCG
44417069 --TT-GGTTAACCGACCG
1 AATTCGGTTAACCGACCG
44417084 AATTCGGTTAA
1 AATTCGGTTAA
44417095 TCGGTCGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
12 8 0.24
13 2 0.06
15 2 0.06
17 2 0.06
18 19 0.58
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (18 bp):
AATTCGGTTAACCGACCG
Found at i:44417077 original size:30 final size:30
Alignment explanation
Indices: 44417039--44417108 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
44417029 CCGAAAAAAT
44417039 TCGGTTAACCGACCGAATTCGGTTAATCGG
1 TCGGTTAACCGACCGAATTCGGTTAATCGG
*
44417069 TTGGTTAACCGACCGAATTCGGTTAATCGG
1 TCGGTTAACCGACCGAATTCGGTTAATCGG
44417099 TCGGTTAACC
1 TCGGTTAACC
44417109 AAATTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (30 bp):
TCGGTTAACCGACCGAATTCGGTTAATCGG
Found at i:44422421 original size:23 final size:23
Alignment explanation
Indices: 44422395--44422516 Score: 158
Period size: 23 Copynumber: 5.3 Consensus size: 23
44422385 ATAAGTGCCA
*
44422395 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
44422418 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
44422441 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
44422464 CACTAATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
44422487 CACT-AAAGTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
44422510 CACTGAT
1 CACTGAT
44422517 CAATAACACT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.04
23 80 0.94
24 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:44422462 original size:46 final size:46
Alignment explanation
Indices: 44422395--44422516 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
44422385 ATAAGTGCCA
* * *
44422395 CACTGATATGTAGCCAAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
* *
44422441 CACTGAAATGTAGCCGAAGCTACCACTAATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
44422487 CACT-AAAGTGTAGCCGAAGCTACCACTGAT
1 CACTGAAA-TGTAGCCGAAGCTACCACTGAT
44422517 CAATAACACT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 3 0.04
46 66 0.96
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
Found at i:44422768 original size:18 final size:17
Alignment explanation
Indices: 44422742--44422780 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
44422732 ATTTTCCTTC
44422742 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
44422759 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
44422777 CACA
1 CACA
44422781 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:44424722 original size:11 final size:11
Alignment explanation
Indices: 44424708--44424750 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
44424698 AGTTAAATAT
44424708 TATTTTATTAA
1 TATTTTATTAA
44424719 TATTTTACTTAGA
1 TATTTTA-TTA-A
44424732 TA-TTTATTAA
1 TATTTTATTAA
44424742 TATTTTATT
1 TATTTTATT
44424751 TAGAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.10
11 16 0.55
12 7 0.24
13 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:44424737 original size:23 final size:23
Alignment explanation
Indices: 44424711--44424754 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44424701 TAAATATTAT
44424711 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
*
44424734 TTTATTAATATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
44424755 AAATGGTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:44426581 original size:25 final size:25
Alignment explanation
Indices: 44426546--44426604 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
44426536 TATATATTAA
44426546 ATATATATTTTATTTTTAATCAAAT
1 ATATATATTTTATTTTTAATCAAAT
*
44426571 ATATATTTTTTATTTTTAATCAAAT
1 ATATATATTTTATTTTTAATCAAAT
44426596 ATATATATT
1 ATATATATT
44426605 AAATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATATATTTTATTTTTAATCAAAT
Found at i:44430104 original size:2 final size:2
Alignment explanation
Indices: 44430099--44430123 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44430089 AGGTTTTTTA
44430099 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
44430124 AAAATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:44436406 original size:12 final size:11
Alignment explanation
Indices: 44436389--44436447 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
44436379 TTTAAATTTT
44436389 AAAAATTATTAA
1 AAAAATTA-TAA
44436401 AAAAATTAT--
1 AAAAATTATAA
44436410 AAAAATTATAA
1 AAAAATTATAA
*
44436421 ACAACATTTATAA
1 A-AA-AATTATAA
* *
44436434 AGAAATTTTAA
1 AAAAATTATAA
44436445 AAA
1 AAA
44436448 TTTTAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
9 9 0.24
11 10 0.26
12 11 0.29
13 8 0.21
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:44436407 original size:21 final size:21
Alignment explanation
Indices: 44436382--44436459 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
44436372 AAGCCCTTTT
44436382 AAATTTTAAAAATTATTAAAA
1 AAATTTTAAAAATTATTAAAA
*
44436403 AAATTATAAAAATTA-TAAACA
1 AAATTTTAAAAATTATTAAA-A
*
44436424 ACATTTATAAAGAAATT-TT--AA
1 AAATTT-T-AA-AAATTATTAAAA
44436445 AAATTTT-AAAATTAT
1 AAATTTTAAAAATTAT
44436460 ACATTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
17 5 0.11
18 2 0.04
20 5 0.11
21 25 0.53
22 2 0.04
23 2 0.04
24 6 0.13
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (21 bp):
AAATTTTAAAAATTATTAAAA
Found at i:44439307 original size:16 final size:15
Alignment explanation
Indices: 44439286--44439315 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44439276 AATAAAACTA
44439286 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
44439302 TATTATTTTATATT
1 TATTATTTTATATT
44439316 ATCTCAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:44439889 original size:21 final size:21
Alignment explanation
Indices: 44439849--44439919 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
44439839 TACCTTTTTT
44439849 TTCTTTTTTTTCCTTCCTTCCCTC
1 TTCTTTTTTTT-C-T-CTTCCCTC
44439873 TTCTTTTTTTTCTCTTCTCCT-
1 TTCTTTTTTTTCTCTTC-CCTC
* **
44439894 TTCCTTTTCTTTC-CTTCTTTC
1 TT-CTTTTTTTTCTCTTCCCTC
44439915 TTCTT
1 TTCTT
44439920 CTCTTTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 13 0.32
23 1 0.02
24 11 0.27
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCTTTTTTTTCTCTTCCCTC
Found at i:44439897 original size:36 final size:36
Alignment explanation
Indices: 44439842--44439971 Score: 110
Period size: 36 Copynumber: 3.6 Consensus size: 36
44439832 ATAAAATTAC
* **
44439842 CTTTTTTTTCT-TT-T-TTTTCCTTCCTTCCCTCTT
1 CTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTTCTT
44439875 CTTTTTTTTCTCTTCTCCTTTCCTT--TTCTTTCCTT
1 CTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTT-CTT
* * *
44439910 CTTTCTTCTTCTCTTTTCCTTTTCTTCTTCTTCTTTCTT
1 CTTT-TTTTTCTCTTCTCCTTTCCTTC--CTTCTTTCTT
*
44439949 -TCTTTTTTTCTCTTCTCTTTTCC
1 CT-TTTTTTTCTCTTCTCCTTTCC
44439972 CGTCACATCG
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
33 11 0.14
34 6 0.08
35 8 0.10
36 25 0.32
38 16 0.21
39 5 0.06
40 6 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (36 bp):
CTTTTTTTTCTCTTCTCCTTTCCTTCCTTCTTTCTT
Found at i:44439920 original size:31 final size:32
Alignment explanation
Indices: 44439881--44439948 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
44439871 TCTTCTTTTT
44439881 TTTC-TCTTCTCCTTTCCTTTTCTT-TCCTTC
1 TTTCTTCTTCTCCTTTCCTTTTCTTCTCCTTC
* *
44439911 TTTCTTCTTCTCTTTTCCTTTTCTTCTTCTTC
1 TTTCTTCTTCTCCTTTCCTTTTCTTCTCCTTC
44439943 TTTCTT
1 TTTCTT
44439949 TCTTTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 4 0.12
31 19 0.56
32 11 0.32
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (32 bp):
TTTCTTCTTCTCCTTTCCTTTTCTTCTCCTTC
Found at i:44439959 original size:19 final size:20
Alignment explanation
Indices: 44439901--44439968 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
44439891 CCTTTCCTTT
* *
44439901 TCTTTCCTTCTTTCTTCTTC
1 TCTTTCTTTTTTTCTTCTTC
*
44439921 TCTTTTCCTTTTCTTCTTCTTC
1 TC-TTT-CTTTTTTTCTTCTTC
44439943 TTTCTTTCTTTTTTTC-TCTTC
1 --TCTTTCTTTTTTTCTTCTTC
44439964 TCTTT
1 TCTTT
44439969 TCCCGTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 5 0.12
20 2 0.05
21 8 0.20
22 20 0.50
23 3 0.08
24 2 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTCTTTTTTTCTTCTTC
Found at i:44440047 original size:25 final size:26
Alignment explanation
Indices: 44440015--44440084 Score: 97
Period size: 25 Copynumber: 2.7 Consensus size: 26
44440005 TTTATTTTTT
*
44440015 TATATATTTTGGTAAATAAAAAATA-
1 TATATATTTTGGTAAATAAAAAAAAG
*
44440040 TATATATTTTGATAAATAAAAAAAAG
1 TATATATTTTGGTAAATAAAAAAAAG
44440066 TTATAATATTTTGGTAAAT
1 -TAT-ATATTTTGGTAAAT
44440085 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 23 0.59
27 3 0.08
28 13 0.33
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (26 bp):
TATATATTTTGGTAAATAAAAAAAAG
Found at i:44444807 original size:5 final size:5
Alignment explanation
Indices: 44444797--44444822 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44444787 TGAGCATTCG
44444797 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
44444823 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:44445851 original size:9 final size:9
Alignment explanation
Indices: 44445837--44445873 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44445827 TATAGTTTGG
44445837 TATTCGAAT
1 TATTCGAAT
44445846 TATTCGAAT
1 TATTCGAAT
*
44445855 TATTCGAGT
1 TATTCGAAT
44445864 TATTCGAAT
1 TATTCGAAT
44445873 T
1 T
44445874 TGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44445944 original size:9 final size:9
Alignment explanation
Indices: 44445927--44445957 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44445917 TCGAGTTGAT
44445927 TCGAATAAC
1 TCGAATAAC
*
44445936 TCGATTAAC
1 TCGAATAAC
44445945 TCGAATAAC
1 TCGAATAAC
44445954 TCGA
1 TCGA
44445958 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:44450713 original size:29 final size:27
Alignment explanation
Indices: 44450674--44450728 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
44450664 CAAAGGTTTT
44450674 AAAAAAATCATTTCACTCATTTTCTCA
1 AAAAAAATCATTTCACTCATTTTCTCA
* *
44450701 AAAAAAATGTCATTTCTCTCTTTTTCTC
1 AAAAAAA--TCATTTCACTCATTTTCTC
44450729 TCCCCTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
29 17 0.71
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAAAAATCATTTCACTCATTTTCTCA
Found at i:44452033 original size:50 final size:50
Alignment explanation
Indices: 44451979--44452187 Score: 183
Period size: 50 Copynumber: 4.2 Consensus size: 50
44451969 GATTTGATGT
* * *
44451979 TGTAGCTTTATCTTGCTCTACTGCATCTTTAGGGAGATGAGATTTGCTAC
1 TGTAGCTTCATCTTGCTCCACTACATCTTTAGGGAGATGAGATTTGCTAC
* * * * * **
44452029 TGTAGCTTC-TC-TCCATTCCA-TACAACTTTAGGGATAT-AGGAGTCGCTGT
1 TGTAGCTTCATCTTGC--TCCACTACATCTTTAGGGAGATGA-GATTTGCTAC
* * *
44452078 TGTAGCTTCATCTTGTTCCACTACATATTCAGGGAGATGAGATTTGCTAC
1 TGTAGCTTCATCTTGCTCCACTACATCTTTAGGGAGATGAGATTTGCTAC
* * * * * * *
44452128 TGTAACTTCATCTTGCTCCACTGCGTCTTAAGGGATATAAGTTTTGCTAC
1 TGTAGCTTCATCTTGCTCCACTACATCTTTAGGGAGATGAGATTTGCTAC
44452178 TGTAGCTTCA
1 TGTAGCTTCA
44452188 CTCCATCCTA
Statistics
Matches: 122, Mismatches: 30, Indels: 14
0.73 0.18 0.08
Matches are distributed among these distances:
48 3 0.02
49 35 0.29
50 82 0.67
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (50 bp):
TGTAGCTTCATCTTGCTCCACTACATCTTTAGGGAGATGAGATTTGCTAC
Found at i:44456245 original size:45 final size:42
Alignment explanation
Indices: 44456183--44456310 Score: 158
Period size: 45 Copynumber: 3.1 Consensus size: 42
44456173 AAGAAAAGAC
*
44456183 AAAGGAAGCAACGTGTGGAAGCAACCACATCTATGTCCAGACAAAA
1 AAAGGAAGCAACATGTGGAAGCAACCACATCTATGT----ACAAAA
44456229 AAA-GAAGCAACATGTGGAAGCAACCACATCTATGTACAAAA
1 AAAGGAAGCAACATGTGGAAGCAACCACATCTATGTACAAAA
* *
44456270 AAAGGAAGC-A-ATGTGAAAGCAACCACATC-A-GGACAAAA
1 AAAGGAAGCAACATGTGGAAGCAACCACATCTATGTACAAAA
44456308 AAA
1 AAA
44456311 TATCATCAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
38 10 0.13
39 1 0.01
40 18 0.23
41 10 0.13
42 5 0.06
45 31 0.40
46 3 0.04
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.12
Consensus pattern (42 bp):
AAAGGAAGCAACATGTGGAAGCAACCACATCTATGTACAAAA
Found at i:44456689 original size:16 final size:16
Alignment explanation
Indices: 44456668--44456699 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44456658 TTATTTCATC
44456668 TTGGTTTATTTTAAAA
1 TTGGTTTATTTTAAAA
44456684 TTGGTTTATTTTAAAA
1 TTGGTTTATTTTAAAA
44456700 CTCATATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
TTGGTTTATTTTAAAA
Found at i:44468802 original size:12 final size:12
Alignment explanation
Indices: 44468785--44468818 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
44468775 CGGCCTGCCC
44468785 ATATTAATTTTT
1 ATATTAATTTTT
*
44468797 ATATTATTTTTT
1 ATATTAATTTTT
44468809 ATA-TAATTTT
1 ATATTAATTTT
44468819 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:44469655 original size:33 final size:33
Alignment explanation
Indices: 44469615--44469690 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
44469605 AAATTAATTT
* *
44469615 ATATTTTATATATTATTCTATTAAATTATTTAA
1 ATATTTTATATATCATTATATTAAATTATTTAA
* *
44469648 ATATTTTATGTATCGTTATATTAAATTATTTAA
1 ATATTTTATATATCATTATATTAAATTATTTAA
*
44469681 ATATGTTATA
1 ATATTTTATA
44469691 AAATAAATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (33 bp):
ATATTTTATATATCATTATATTAAATTATTTAA
Found at i:44471846 original size:18 final size:20
Alignment explanation
Indices: 44471823--44471861 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
44471813 GGCCCATTAC
44471823 AGTAACA-ATAAT-CAGTAT
1 AGTAACAGATAATACAGTAT
*
44471841 AGTAACAGATTATACAGTAT
1 AGTAACAGATAATACAGTAT
44471861 A
1 A
44471862 CAGGTCCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AGTAACAGATAATACAGTAT
Found at i:44478335 original size:23 final size:26
Alignment explanation
Indices: 44478292--44478338 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
44478282 TTCAATTCAC
44478292 ATTCTATCAATCTCAATATATCATCA
1 ATTCTATCAATCTCAATATATCATCA
44478318 ATTC-ATCAAT-TC-ATATATCAT
1 ATTCTATCAATCTCAATATATCAT
44478339 GTTTCAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 6 0.29
26 4 0.19
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTCTATCAATCTCAATATATCATCA
Found at i:44480963 original size:29 final size:29
Alignment explanation
Indices: 44480758--44480992 Score: 160
Period size: 29 Copynumber: 8.2 Consensus size: 29
44480748 TTCAATTTCT
* *
44480758 GCCACGAAGGCATCC-TTTAACAGA-ATTT
1 GCCACAAAGGCATCCTTTTAACAGAGA-TA
*
44480786 G-CA-AGAAGGCATTCC-TTTAACAGAGATG
1 GCCACA-AAGGCA-TCCTTTTAACAGAGATA
*
44480814 GCCACTAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* *
44480843 GTCACAAAGGCATCATTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
44480872 GCCATAAAGGCATCCTTCTAACAGGGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* ** * * * * *
44480901 GCCACCAA-TAATTC-ATAAACAAAGATC
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
44480928 TCTACAAAGGCATCTTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
** * * * *
44480957 GCCACAAAAACATCCTGTTAATATAGATC
1 GCCACAAAGGCATCCTTTTAACAGAGATA
44480986 GCCACAA
1 GCCACAA
44480993 TGCTTCCTTT
Statistics
Matches: 156, Mismatches: 43, Indels: 15
0.73 0.20 0.07
Matches are distributed among these distances:
27 20 0.13
28 23 0.15
29 113 0.72
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (29 bp):
GCCACAAAGGCATCCTTTTAACAGAGATA
Found at i:44486677 original size:22 final size:23
Alignment explanation
Indices: 44486652--44486695 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
44486642 TAGCATGTTG
*
44486652 AATTTTAATTAGTTTT-ATAATA
1 AATTTTAATTAATTTTGATAATA
*
44486674 AATTTTGATTAATTTTGATAAT
1 AATTTTAATTAATTTTGATAAT
44486696 TTTAGATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (23 bp):
AATTTTAATTAATTTTGATAATA
Found at i:44490663 original size:20 final size:20
Alignment explanation
Indices: 44490638--44490677 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44490628 TACGTGTAGA
*
44490638 TAAATTTATTTTTCCTGCTG
1 TAAATTTATTTTCCCTGCTG
44490658 TAAATTTATTTTCCCTGCTG
1 TAAATTTATTTTCCCTGCTG
44490678 ACTTTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (20 bp):
TAAATTTATTTTCCCTGCTG
Found at i:44500660 original size:27 final size:27
Alignment explanation
Indices: 44500332--44500658 Score: 374
Period size: 27 Copynumber: 12.1 Consensus size: 27
44500322 AGAGGTAAAT
*
44500332 AAATGACCAAATTA-CCCCAC-AGGATA
1 AAATGACCGAATTACCCCCACAAGG-TA
* * *
44500358 AAATCACCGAATTACCCTCACAAGATA
1 AAATGACCGAATTACCCCCACAAGGTA
*
44500385 AAATGACTGAATTACCCCCACAAGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
* *
44500412 AAAAGACCGAATTACCCCTAC-AGTGTA
1 AAATGACCGAATTACCCCCACAAG-GTA
44500439 AAATGACCGAATTACCCCCACAAGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
* *
44500466 AAATGACCGAATTACCCCTAGAAGG-A
1 AAATGACCGAATTACCCCCACAAGGTA
* * * *
44500492 AAAGTAACTGAATTACCCCCAGAGGGTA
1 AAA-TGACCGAATTACCCCCACAAGGTA
* *
44500520 AAATGACCGAATTATCCCCATAAGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
*
44500547 AAATGACTGAATTACCCCCACAAGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
** *
44500574 AAATGACTAAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
* *
44500601 AAATGACCGAATTACCCCTATAAGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
* * * *
44500628 AAATAATCGAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAAGGTA
44500655 AAAT
1 AAAT
44500659 AACTGTTATA
Statistics
Matches: 257, Mismatches: 38, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
26 18 0.07
27 231 0.90
28 8 0.03
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAAGGTA
Found at i:44502532 original size:11 final size:11
Alignment explanation
Indices: 44502516--44502596 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
44502506 CTATTGGCAG
44502516 TTGATGGTGGT
1 TTGATGGTGGT
*
44502527 TTGATGGT-GA
1 TTGATGGTGGT
* *
44502537 TCGAAGGTGGT
1 TTGATGGTGGT
*
44502548 TTAATGGTGGT
1 TTGATGGTGGT
**
44502559 TTGGCGGTGGCT
1 TTGATGGTGG-T
*
44502571 AGTGATGGTGGT
1 -TTGATGGTGGT
* *
44502583 TTGACGGTAGT
1 TTGATGGTGGT
44502594 TTG
1 TTG
44502597 GTGGCGACCT
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
10 7 0.14
11 35 0.69
12 2 0.04
13 7 0.14
ACGTcount: A:0.14, C:0.05, G:0.43, T:0.38
Consensus pattern (11 bp):
TTGATGGTGGT
Found at i:44509785 original size:13 final size:13
Alignment explanation
Indices: 44509764--44509827 Score: 101
Period size: 13 Copynumber: 4.9 Consensus size: 13
44509754 ACACTCAAAT
44509764 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
44509777 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
44509790 TTCTTAAAAGCAC
1 TTCTCAAAAGCAC
44509803 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
44509816 TTTTCAAAAGCA
1 TTCTCAAAAGCA
44509828 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:44511722 original size:251 final size:251
Alignment explanation
Indices: 44511279--44511785 Score: 969
Period size: 251 Copynumber: 2.0 Consensus size: 251
44511269 TCTTTTTTTC
*
44511279 ATTTTGTCACAAGATTTGTTAACATATTCCCCACCATATTGCTTTAATTTTTCCTCAATTAAATC
1 ATTTTGTAACAAGATTTGTTAACATATTCCCCACCATATTGCTTTAATTTTTCCTCAATTAAATC
44511344 AGCCCCAAATCTGAAATCTTGAACTCCAAGATCAATCTCAAACATTGCCAAGAAAGTGACATTGT
66 AGCCCCAAATCTGAAATCTTGAACTCCAAGATCAATCTCAAACATTGCCAAGAAAGTGACATTGT
44511409 CATTTCTCTCGACTAGCTTGTGTAAGGTCTCTTTTCTCTTCAATTTCTTGATTAATTTTGTCAAT
131 CATTTCTCTCGACTAGCTTGTGTAAGGTCTCTTTTCTCTTCAATTTCTTGATTAATTTTGTCAAT
*
44511474 TAAAAACCAAAATTTATAGATCTGGAATTTGGGGGATTTTAAACGATTTAAAAATT
196 TAAAAACCAAAATTTATAGATCTGGAATTTGGGGGATTTTAAACGATTAAAAAATT
*
44511530 ATTTTGTAACAAGATTTGTTAACATATTCCGCACCATATTGCTTTAATTTTTCCTCAATTAAATC
1 ATTTTGTAACAAGATTTGTTAACATATTCCCCACCATATTGCTTTAATTTTTCCTCAATTAAATC
*
44511595 AGCCCCAAATCTGAAATCTTGAACTCCAAGATCGATCTCAAACATTGCCAAGAAAGTGACATTGT
66 AGCCCCAAATCTGAAATCTTGAACTCCAAGATCAATCTCAAACATTGCCAAGAAAGTGACATTGT
44511660 CATTTCTCTCGACTAGCTTGTGTAAGGTCTCTTTTCTCTTCAATTTCTTGATTAATTTTGTCAAT
131 CATTTCTCTCGACTAGCTTGTGTAAGGTCTCTTTTCTCTTCAATTTCTTGATTAATTTTGTCAAT
*
44511725 TAAAAACCAAAATTTATAGATCTGGAATTTGGGGGATTTTAAATGATTAAAAAATT
196 TAAAAACCAAAATTTATAGATCTGGAATTTGGGGGATTTTAAACGATTAAAAAATT
44511781 ATTTT
1 ATTTT
44511786 TCCAAATTTT
Statistics
Matches: 251, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 251 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (251 bp):
ATTTTGTAACAAGATTTGTTAACATATTCCCCACCATATTGCTTTAATTTTTCCTCAATTAAATC
AGCCCCAAATCTGAAATCTTGAACTCCAAGATCAATCTCAAACATTGCCAAGAAAGTGACATTGT
CATTTCTCTCGACTAGCTTGTGTAAGGTCTCTTTTCTCTTCAATTTCTTGATTAATTTTGTCAAT
TAAAAACCAAAATTTATAGATCTGGAATTTGGGGGATTTTAAACGATTAAAAAATT
Found at i:44517630 original size:34 final size:34
Alignment explanation
Indices: 44517582--44517646 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
44517572 GATAATCTCG
* * *
44517582 GTTTGGGCCTAAGCCCTTTTCAGTATCAGTATCA
1 GTTTAGGCCTAAGCCCATTCCAGTATCAGTATCA
44517616 GTTTAGGCCTAAGCCCATTCCAGTATCAGTA
1 GTTTAGGCCTAAGCCCATTCCAGTATCAGTA
44517647 AGCATTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (34 bp):
GTTTAGGCCTAAGCCCATTCCAGTATCAGTATCA
Found at i:44517659 original size:34 final size:34
Alignment explanation
Indices: 44517586--44517664 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
44517576 ATCTCGGTTT
* * *
44517586 GGGCCTAAGCCCTTTTCAGTATCAGTATCAGTTTA
1 GGGCCTAAGCCCATTCCAGTATCAGTA-CAGATTA
44517621 -GGCCTAAGCCCATTCCAGTATCAGTA-AGCATTA
1 GGGCCTAAGCCCATTCCAGTATCAGTACAG-ATTA
*
44517654 GGGCCTTAGCC
1 GGGCCTAAGCC
44517665 TATCACAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 3 0.08
34 33 0.87
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (34 bp):
GGGCCTAAGCCCATTCCAGTATCAGTACAGATTA
Found at i:44517995 original size:23 final size:21
Alignment explanation
Indices: 44517969--44518011 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
44517959 GCATGCTCAA
44517969 CATACAAACATACATATCAATCT
1 CATACAAACAT--ATATCAATCT
* *
44517992 CATATAGACATATATCAATC
1 CATACAAACATATATCAATC
44518012 ATTCAATTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (21 bp):
CATACAAACATATATCAATCT
Found at i:44525193 original size:34 final size:34
Alignment explanation
Indices: 44525120--44525201 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
44525110 ATCTCAGTTT
* *
44525120 GGGCCTAAGCCCTTTTCAGTATCAGTATCAGATTA
1 GGGCCTAAGCCCATTCCAGTATCAGTA-CAGATTA
44525155 -GGCCTAAGCCCATTCCAGTATCAGTA-AGCATTA
1 GGGCCTAAGCCCATTCCAGTATCAGTACAG-ATTA
*
44525188 GGGCCTTAGCCCAT
1 GGGCCTAAGCCCAT
44525202 CACGGTACAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 2 0.05
33 4 0.10
34 36 0.86
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (34 bp):
GGGCCTAAGCCCATTCCAGTATCAGTACAGATTA
Found at i:44529620 original size:24 final size:24
Alignment explanation
Indices: 44529593--44529641 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
44529583 AAATCCATTT
44529593 AATGAATATGAATTCTTTATTAAC
1 AATGAATATGAATTCTTTATTAAC
*
44529617 AATGGATATGAATTCTTTATTAAC
1 AATGAATATGAATTCTTTATTAAC
44529641 A
1 A
44529642 TTTTTCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (24 bp):
AATGAATATGAATTCTTTATTAAC
Found at i:44534167 original size:26 final size:25
Alignment explanation
Indices: 44534099--44534171 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
44534089 TTCTCACCCC
* *
44534099 AATTTTACCCCAGTAAAATTTTGAT
1 AATTTTACCCCCGTAAAATTTTAAT
* *
44534124 AATTTTACCCGCGTTAAAGTTTTAACT
1 AATTTTACCCCCG-TAAAATTTTAA-T
44534151 -ATTTTACCCCCGATAAAATTT
1 AATTTTACCCCCG-TAAAATTT
44534172 CGAGGAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 11 0.28
26 27 0.69
27 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (25 bp):
AATTTTACCCCCGTAAAATTTTAAT
Found at i:44553716 original size:21 final size:22
Alignment explanation
Indices: 44553690--44553734 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
44553680 TATGTATTAC
44553690 ATTGAATGTGAATT-TTA-ATAG
1 ATTGAAT-TGAATTATTATATAG
*
44553711 ATTGAATTTAATTATTATATAG
1 ATTGAATTGAATTATTATATAG
44553733 AT
1 AT
44553735 CAAGAACCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (22 bp):
ATTGAATTGAATTATTATATAG
Found at i:44554198 original size:39 final size:39
Alignment explanation
Indices: 44554154--44554229 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
44554144 GTGCCTTTAT
* **
44554154 TTGCACTTTGGTGCCCCTAAATCACATTTGTGCCCCTTC
1 TTGCACTTTGGTGCCCCTAAAGCACATTCATGCCCCTTC
* *
44554193 TTGCACTTTGGTGTCCTTAAAGCACATTCATGCCCCT
1 TTGCACTTTGGTGCCCCTAAAGCACATTCATGCCCCT
44554230 GTAAGCACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.36
Consensus pattern (39 bp):
TTGCACTTTGGTGCCCCTAAAGCACATTCATGCCCCTTC
Found at i:44555188 original size:17 final size:18
Alignment explanation
Indices: 44555166--44555199 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44555156 GTGTGACCCC
*
44555166 TATTTT-CAAAATTTTCA
1 TATTTTCCAAAAATTTCA
44555183 TATTTTCCAAAAATTTC
1 TATTTTCCAAAAATTTC
44555200 TTGATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTTCCAAAAATTTCA
Found at i:44557392 original size:23 final size:24
Alignment explanation
Indices: 44557366--44557429 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
44557356 TAATGTTCAA
** *
44557366 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCATCGAACATTAAAC
44557389 GAACATGTTCA-CGAACATTAAAC
1 GAACATGTTCATCGAACATTAAAC
44557412 GAACATGTTCAT-GAACAT
1 GAACATGTTCATCGAACAT
44557430 ATGAACATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 3 0.08
23 33 0.92
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (24 bp):
GAACATGTTCATCGAACATTAAAC
Found at i:44557405 original size:12 final size:12
Alignment explanation
Indices: 44557388--44557429 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
44557378 TTAACTTAAT
44557388 CGAACATGTTCA
1 CGAACATGTTCA
**
44557400 CGAACAT-TAAA
1 CGAACATGTTCA
44557411 CGAACATGTTCA
1 CGAACATGTTCA
*
44557423 TGAACAT
1 CGAACAT
44557430 ATGAACATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:44557663 original size:24 final size:24
Alignment explanation
Indices: 44557636--44557683 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44557626 TCATTAATAA
*
44557636 ATAAACAAGTCAATAAACAAGCTT
1 ATAAACAAGCCAATAAACAAGCTT
* *
44557660 ATAAACGAGCCAATAAACGAGCTT
1 ATAAACAAGCCAATAAACAAGCTT
44557684 GTTCGTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (24 bp):
ATAAACAAGCCAATAAACAAGCTT
Found at i:44557681 original size:12 final size:12
Alignment explanation
Indices: 44557635--44557677 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
44557625 ATCATTAATA
*
44557635 AATAAACAAGTC
1 AATAAACAAGCC
*
44557647 AATAAACAAGCT
1 AATAAACAAGCC
* *
44557659 TATAAACGAGCC
1 AATAAACAAGCC
44557671 AATAAAC
1 AATAAAC
44557678 GAGCTTGTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.19, G:0.09, T:0.16
Consensus pattern (12 bp):
AATAAACAAGCC
Found at i:44564077 original size:81 final size:80
Alignment explanation
Indices: 44563989--44564141 Score: 252
Period size: 81 Copynumber: 1.9 Consensus size: 80
44563979 AATTACACAA
*
44563989 AGATAAGGAGATGCGAAAGACAATAGATTTTATTATAAAAATAGATAGAGAAGTAAAGGAAAAAT
1 AGATAAGGAGATGCGAAAGACAATAGATTTTATTACAAAAA-AGATAGAGAAGTAAAGGAAAAAT
44564054 TTTTACAATTACTAGG
65 TTTTACAATTACTAGG
* * * *
44564070 AGATAAGGATATGCGGAAGACAATAGATTTTATTACAAAAAAGATAGAGATGTAAAGGAAAATTT
1 AGATAAGGAGATGCGAAAGACAATAGATTTTATTACAAAAAAGATAGAGAAGTAAAGGAAAAATT
44564135 TTTACAA
66 TTTACAA
44564142 AGAAACAATG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 29 0.43
81 38 0.57
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.26
Consensus pattern (80 bp):
AGATAAGGAGATGCGAAAGACAATAGATTTTATTACAAAAAAGATAGAGAAGTAAAGGAAAAATT
TTTACAATTACTAGG
Found at i:44564754 original size:13 final size:14
Alignment explanation
Indices: 44564736--44564767 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
44564726 TTTGTAACAC
44564736 TTGTCAA-TGTTTT
1 TTGTCAAGTGTTTT
44564749 TTGTCAAGTGTTTT
1 TTGTCAAGTGTTTT
44564763 TTGTC
1 TTGTC
44564768 TTCTTTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.59
Consensus pattern (14 bp):
TTGTCAAGTGTTTT
Found at i:44567638 original size:17 final size:17
Alignment explanation
Indices: 44567616--44567649 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44567606 AGCATGTAAG
44567616 GAATATGTTTTATATTC
1 GAATATGTTTTATATTC
44567633 GAATATGTTTTATATTC
1 GAATATGTTTTATATTC
44567650 TCTAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
GAATATGTTTTATATTC
Found at i:44568542 original size:6 final size:6
Alignment explanation
Indices: 44568525--44568568 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
44568515 TACCCTTTTC
**
44568525 TCCCCTT TCCCCT TCCCCT TCCCCT TCCATT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
44568569 GGGTTGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.02, C:0.59, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:44572928 original size:21 final size:21
Alignment explanation
Indices: 44572895--44572947 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
44572885 CGTTGTTTCT
** *
44572895 AATCTCATTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
44572916 AATCTCACCGCTACGGTAACT
1 AATCTCACCGCTACAGTAACC
44572937 AATCTCACCGC
1 AATCTCACCGC
44572948 CACCGCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:44573232 original size:20 final size:20
Alignment explanation
Indices: 44573207--44573247 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44573197 ATCTAACTAG
44573207 TTTATACCTTTTATAAGTGT
1 TTTATACCTTTTATAAGTGT
*
44573227 TTTATATCTTTTATAAGTGT
1 TTTATACCTTTTATAAGTGT
44573247 T
1 T
44573248 AGGACGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (20 bp):
TTTATACCTTTTATAAGTGT
Found at i:44575762 original size:87 final size:94
Alignment explanation
Indices: 44575666--44575858 Score: 231
Period size: 97 Copynumber: 2.1 Consensus size: 94
44575656 GCAAATATAC
* * *
44575666 TATAAAAATTTGGAGCTAAAAT-AA-AAAA-A-TATAATATTAAATT-AAATTAATAAAACA-TG
1 TATAGAAATTTGGAACAAAAATAAAGAAAACACTATAATATTAAATTGAAA-TAATAAAACATTG
* * *
44575725 AATTAA-TAT-ATAGTACTATTAAAAGTAA
65 AACTAATTATAATACTACTATTAAAACTAA
44575753 TATAGAAATTTGGAACAAAAATAAAAGAAAACACTATAATATTAAATTGAAATAATAAAACATTG
1 TATAGAAATTTGGAACAAAAAT-AAAGAAAACACTATAATATTAAATTGAAATAATAAAACATTG
44575818 AACTAATTTATACATACTACTATTAAAACTAA
65 AACTAA-TTATA-ATACTACTATTAAAACTAA
*
44575850 TTTAGAAAT
1 TATAGAAAT
44575859 CTAATATATA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
87 19 0.22
89 2 0.02
90 4 0.05
91 1 0.01
92 24 0.27
93 10 0.11
95 3 0.03
97 25 0.28
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (94 bp):
TATAGAAATTTGGAACAAAAATAAAGAAAACACTATAATATTAAATTGAAATAATAAAACATTGA
ACTAATTATAATACTACTATTAAAACTAA
Found at i:44584262 original size:24 final size:24
Alignment explanation
Indices: 44584225--44584273 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
44584215 GAAAAAATGT
44584225 AGGAAACAACTAAAACTAAGAATA
1 AGGAAACAACTAAAACTAAGAATA
** *
44584249 AGGAAACAGTTAAAACTAAGCATA
1 AGGAAACAACTAAAACTAAGAATA
44584273 A
1 A
44584274 TTAAAGATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.14
Consensus pattern (24 bp):
AGGAAACAACTAAAACTAAGAATA
Found at i:44584473 original size:22 final size:22
Alignment explanation
Indices: 44584437--44584500 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
44584427 GAGATTAAGG
* *
44584437 GAGT-AGAAAGAGAGAGTGAGT
1 GAGTGAGAGAGAGAGAGAGAGT
44584458 GAGTGAGAGAGAGAGAGAGAGT
1 GAGTGAGAGAGAGAGAGAGAGT
44584480 GAGTGAGAGAGAGAGAGAGAG
1 GAGTGAGAGAGAGAGAGAGAG
44584501 AGAGAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.42, C:0.00, G:0.48, T:0.09
Consensus pattern (22 bp):
GAGTGAGAGAGAGAGAGAGAGT
Found at i:44584478 original size:26 final size:26
Alignment explanation
Indices: 44584445--44584504 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
44584435 GGGAGTAGAA
*
44584445 AGAGAGAGTGAGTGAGTGAGAGAGAG
1 AGAGAGAGTGAGTGAGAGAGAGAGAG
44584471 AGAGAGAGTGAGTGAGAGAGAGAGAG
1 AGAGAGAGTGAGTGAGAGAGAGAGAG
44584497 AGAGAGAG
1 AGAGAGAG
44584505 AGAAAATCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (26 bp):
AGAGAGAGTGAGTGAGAGAGAGAGAG
Found at i:44584491 original size:4 final size:4
Alignment explanation
Indices: 44584445--44584507 Score: 81
Period size: 4 Copynumber: 15.8 Consensus size: 4
44584435 GGGAGTAGAA
* * * * *
44584445 AGAG AGAG TGAG TGAG TGAG AGAG AGAG AGAG AGTG AGTG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
44584493 AGAG AGAG AGAG AGA
1 AGAG AGAG AGAG AGA
44584508 AAATCCCGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.43, C:0.00, G:0.49, T:0.08
Consensus pattern (4 bp):
AGAG
Found at i:44584549 original size:2 final size:2
Alignment explanation
Indices: 44584542--44584578 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44584532 AGAATAGGAT
44584542 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
44584579 CACCCTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44595305 original size:20 final size:19
Alignment explanation
Indices: 44595263--44595311 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
44595253 TTAATACTTG
*
44595263 ATTTTATTTCACAATTCAC
1 ATTTCATTTCACAATTCAC
* *
44595282 ATTTCATTTCACCATTTCAT
1 ATTTCATTTCA-CAATTCAC
44595302 ATTTCATTTC
1 ATTTCATTTC
44595312 TCATCTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCATTTCACAATTCAC
Found at i:44606315 original size:27 final size:27
Alignment explanation
Indices: 44606279--44606423 Score: 141
Period size: 27 Copynumber: 5.4 Consensus size: 27
44606269 ATCCACTCGT
* *
44606279 ACAAGCTGTAATCTTTAAATTGATCAC
1 ACAAGCTGTAATATTTAGATTGATCAC
* * *
44606306 ACAAGTTGTAATATTCAGATTGCTCAC
1 ACAAGCTGTAATATTTAGATTGATCAC
*
44606333 ACAAGCTGTAATATTTATATT-ACTCAC
1 ACAAGCTGTAATATTTAGATTGA-TCAC
* * * *
44606360 ACAAGTTGTGATATTTAGATTGCTTAC
1 ACAAGCTGTAATATTTAGATTGATCAC
* * *
44606387 ACAAGCTGTGATATTTGGGTT-ACTCAC
1 ACAAGCTGTAATATTTAGATTGA-TCAC
44606414 ACAAGCTGTA
1 ACAAGCTGTA
44606424 GATTAGGGTT
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (27 bp):
ACAAGCTGTAATATTTAGATTGATCAC
Found at i:44606338 original size:54 final size:54
Alignment explanation
Indices: 44606279--44606423 Score: 184
Period size: 54 Copynumber: 2.7 Consensus size: 54
44606269 ATCCACTCGT
*
44606279 ACAAGCTGTAATCTTTAAATTGA-TCACACAAGTTGTAATATTCAGATTGCTCAC
1 ACAAGCTGTAATATTTAAATT-ACTCACACAAGTTGTAATATTCAGATTGCTCAC
* * * *
44606333 ACAAGCTGTAATATTTATATTACTCACACAAGTTGTGATATTTAGATTGCTTAC
1 ACAAGCTGTAATATTTAAATTACTCACACAAGTTGTAATATTCAGATTGCTCAC
* *** *
44606387 ACAAGCTGTGATATTTGGGTTACTCACACAAGCTGTA
1 ACAAGCTGTAATATTTAAATTACTCACACAAGTTGTA
44606424 GATTAGGGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 78 0.99
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (54 bp):
ACAAGCTGTAATATTTAAATTACTCACACAAGTTGTAATATTCAGATTGCTCAC
Found at i:44611349 original size:47 final size:47
Alignment explanation
Indices: 44611280--44611389 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
44611270 ACAGTAATGA
* *
44611280 AGATAAACTACCACTTAATAATATTATGGACAAGCCACCAATTTTGC
1 AGATAAACTGCCACTTAATAATATTATGGACAAGCCACCAATTGTGC
* * * *
44611327 AGATAAACTGCCACTTTATAATATTGTGGACAAGCCACCACTTGTGT
1 AGATAAACTGCCACTTAATAATATTATGGACAAGCCACCAATTGTGC
*
44611374 AGATAAACTGTCACTT
1 AGATAAACTGCCACTT
44611390 CGTCTTCCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (47 bp):
AGATAAACTGCCACTTAATAATATTATGGACAAGCCACCAATTGTGC
Found at i:44623586 original size:29 final size:29
Alignment explanation
Indices: 44623527--44623595 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
44623517 ATTAATTAAA
*
44623527 CTAAT-GAAATTAATTAATCTAAAATAAC
1 CTAATGGAATTTAATTAATCTAAAATAAC
* *
44623555 CTAATGGAATTTAATTAA-CTTAAGATATC
1 CTAATGGAATTTAATTAATC-TAAAATAAC
*
44623584 CTAATGAAATTT
1 CTAATGGAATTT
44623596 CCTATCCCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.17
29 29 0.83
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (29 bp):
CTAATGGAATTTAATTAATCTAAAATAAC
Found at i:44628752 original size:9 final size:8
Alignment explanation
Indices: 44628740--44628795 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 8
44628730 TTTTTTGAAT
44628740 TTTTACATA
1 TTTTA-ATA
*
44628749 TTTTAATT
1 TTTTAATA
44628757 TTTATAATA
1 TTT-TAATA
44628766 TTTTGAATAA
1 TTTT-AAT-A
44628776 TTTT-ATA
1 TTTTAATA
44628783 TTTTATATA
1 TTTTA-ATA
44628792 TTTT
1 TTTT
44628796 TTTATAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
7 5 0.12
8 8 0.20
9 22 0.55
10 5 0.12
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TTTTAATA
Found at i:44628768 original size:27 final size:26
Alignment explanation
Indices: 44628738--44628796 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
44628728 ATTTTTTTGA
44628738 ATTTTTACAT-ATTTTA-ATTTTTATAAT
1 ATTTTTA-ATAATTTTATA-TTTTAT-AT
*
44628765 ATTTTGAATAATTTTATATTTTATAT
1 ATTTTTAATAATTTTATATTTTATAT
44628791 ATTTTT
1 ATTTTT
44628797 TTATAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.32
27 18 0.64
28 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTTAATAATTTTATATTTTATAT
Found at i:44628796 original size:17 final size:17
Alignment explanation
Indices: 44628738--44628796 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
44628728 ATTTTTTTGA
44628738 ATTTTTACATATTTTAAT
1 ATTTTTA-ATATTTTAAT
44628756 -TTTTATAATATTTTGAAT
1 ATTTT-TAATATTTT-AAT
*
44628774 AATTTT-ATATTTTATAT
1 ATTTTTAATATTTTA-AT
44628791 ATTTTT
1 ATTTTT
44628797 TTATAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 1 0.03
17 25 0.71
18 6 0.17
19 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTTTTAATATTTTAAT
Found at i:44631442 original size:17 final size:17
Alignment explanation
Indices: 44631415--44631481 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
44631405 AACATTTAAG
44631415 CATAT-ATCACAATACT
1 CATATAATCACAATACT
44631431 CATATAATCAC-ATAACATT
1 CATATAATCACAAT-AC--T
*
44631450 CAAGCATATATCACAATACT
1 C-A-TATA-ATCACAATACT
44631470 CATATAATCACA
1 CATATAATCACA
44631482 TAACATTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
16 7 0.17
17 13 0.32
18 3 0.07
19 3 0.07
20 3 0.07
21 3 0.07
22 7 0.17
23 2 0.05
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (17 bp):
CATATAATCACAATACT
Found at i:44631455 original size:39 final size:39
Alignment explanation
Indices: 44631375--44631510 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
44631365 ATTCACTTTT
* * * * *
44631375 AAGCATCTATCACATTACACATAT--GCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
44631412 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
44631451 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
44631490 AATCATATGTCATAATACTCA
1 AAGCATATATCACAATACTCA
44631511 AAAACATGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 21 0.24
39 68 0.76
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:44636482 original size:41 final size:40
Alignment explanation
Indices: 44636373--44636482 Score: 100
Period size: 41 Copynumber: 2.8 Consensus size: 40
44636363 ATCGGATAAG
* *
44636373 TCGAAGTAATAAGTTGACACCCATTGTCTCA-TCAGCTAAA
1 TCGAAGTAATAA-TTGACACCCAATGTCTCATTCAACTAAA
* * * * * *
44636413 CCGAAGT-A-AATTGGCACCCAATGCCTCATTGAATTAAT
1 TCGAAGTAATAATTGACACCCAATGTCTCATTCAACTAAA
*
44636451 TCGAAGTAATAGATTGACACCCAGTGTCTCAT
1 TCGAAGTAATA-ATTGACACCCAATGTCTCAT
44636483 CGACTCGAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
37 15 0.28
38 13 0.24
39 2 0.04
40 7 0.13
41 17 0.31
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (40 bp):
TCGAAGTAATAATTGACACCCAATGTCTCATTCAACTAAA
Found at i:44637451 original size:5 final size:5
Alignment explanation
Indices: 44637443--44637558 Score: 150
Period size: 5 Copynumber: 23.6 Consensus size: 5
44637433 ATTTTATCAT
44637443 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* *
44637493 TATAA TATAA TATAA TATAA TAT-A TATAC T-TAA TA-AT TA-AGA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA-A TATAA
* *
44637540 TATTA TAATAT TATAA TAT
1 TATAA T-ATAA TATAA TAT
44637559 TTATTAACTT
Statistics
Matches: 98, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
4 11 0.11
5 83 0.85
6 4 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:44637779 original size:13 final size:13
Alignment explanation
Indices: 44637761--44637786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44637751 CACAGCTAGC
44637761 TTAATAAATATTT
1 TTAATAAATATTT
44637774 TTAATAAATATTT
1 TTAATAAATATTT
44637787 ACGAGTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATAAATATTT
Found at i:44639801 original size:22 final size:22
Alignment explanation
Indices: 44639738--44639854 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 22
44639728 TGCAATAATG
* * *
44639738 AACAGAGAGCAGTAAAGTACTA
1 AACAGAGAGCACTAACGTGCTA
* *
44639760 TACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTA-ACGTGCTA
*
44639782 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTAACGTGCTA
* *
44639804 GTAATCAGATAGCACCAACGTGCTAA
1 --AA-CAGAGAGCACTAACGTGCT-A
*
44639830 TAATCAGAGAGCACCAACGTGCTA
1 -AA-CAGAGAGCACTAACGTGCTA
44639854 A
1 A
44639855 TAATTAGAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.01
22 34 0.44
23 1 0.01
24 3 0.04
25 38 0.49
26 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTAACGTGCTA
Found at i:44639817 original size:25 final size:25
Alignment explanation
Indices: 44639784--44639868 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
44639774 ATGTGCTAAA
** *
44639784 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACCAACGTGCTAATAAT
*
44639809 CAGATAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
44639834 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
*
44639859 TAGAGAGCAC
1 CAGAGAGCAC
44639869 GCTAAAGTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (25 bp):
CAGAGAGCACCAACGTGCTAATAAT
Found at i:44640555 original size:5 final size:5
Alignment explanation
Indices: 44640545--44640606 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
44640535 NNNNNNNNNN
44640545 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
44640595 TAATA TAATA TA
1 TAATA TAATA TA
44640607 TAACTTAACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:44640650 original size:35 final size:33
Alignment explanation
Indices: 44640554--44640653 Score: 87
Period size: 35 Copynumber: 2.9 Consensus size: 33
44640544 NTAATATAAT
* *
44640554 ATAATATAATATAATATAATATAATATAA--TATAA
1 ATAATATAATATAATAT-ATA-ACT-TAACTTTTAA
44640588 TATAATATAATATAATATATAACTTAACTTTTAA
1 -ATAATATAATATAATATATAACTTAACTTTTAA
* **
44640622 ATAATATTATTATAATAATATATTTTAACTTT
1 ATAATA-TAATATAAT-ATATAACTTAACTTT
44640654 AGATTTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.05
33 8 0.14
34 15 0.27
35 30 0.54
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAATATAATATAATATATAACTTAACTTTTAA
Found at i:44644271 original size:20 final size:23
Alignment explanation
Indices: 44644231--44644287 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
44644221 TGCACTAATG
44644231 AACAGAGAGCACTAAAGTG-CTA
1 AACAGAGAGCACTAAAGTGCCTA
* *
44644253 TACAGAGAGCAC-AGA-TGCTCTA
1 AACAGAGAGCACTAAAGTGC-CTA
44644275 AACAGAGAGCACT
1 AACAGAGAGCACT
44644288 GACGTACTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 25 0.86
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (23 bp):
AACAGAGAGCACTAAAGTGCCTA
Found at i:44644311 original size:25 final size:25
Alignment explanation
Indices: 44644277--44644336 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
44644267 ATGCTCTAAA
** *
44644277 CAGAGAGCACTGACGTACTAGTAAT
1 CAGAGAGCACCAACGTACTAATAAT
*
44644302 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTACTAATAAT
44644327 CAGAGAGCAC
1 CAGAGAGCAC
44644337 GCTAAAGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (25 bp):
CAGAGAGCACCAACGTACTAATAAT
Found at i:44645308 original size:5 final size:5
Alignment explanation
Indices: 44645298--44645339 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
44645288 TTCTTTTATT
44645298 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
44645340 TAACTTAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:44645383 original size:35 final size:33
Alignment explanation
Indices: 44645322--44645386 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
44645312 ATAATATAAT
44645322 ATAATATAATATAATATATAACTTAACTTTTAA
1 ATAATATAATATAATATATAACTTAACTTTTAA
* **
44645355 ATAATATTATTATAATAATATATTTTAACTTT
1 ATAATA-TAATATAAT-ATATAACTTAACTTT
44645387 AGATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 8 0.30
35 13 0.48
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (33 bp):
ATAATATAATATAATATATAACTTAACTTTTAA
Found at i:44648140 original size:39 final size:38
Alignment explanation
Indices: 44648097--44648218 Score: 122
Period size: 39 Copynumber: 3.1 Consensus size: 38
44648087 TACCCAGTAC
44648097 CTCATCGGATAATTCGAAGTAATAAGTTGACACCAGTGT
1 CTCATCGGATAATTCGAAGTAATAA-TTGACACCAGTGT
* * ** *
44648136 CTCATCAGCTAAACCGAAGT-A-AATTGGCACCCAGTGT
1 CTCATCGGATAATTCGAAGTAATAATTGACA-CCAGTGT
* *
44648173 CTCATCGAATTAATTCTAAGTAATATATTGACACCTAGTGT
1 CTCATCGGA-TAATTCGAAGTAATA-ATTGACACC-AGTGT
44648214 CTCAT
1 CTCAT
44648219 TGACTCAAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
36 5 0.08
37 15 0.23
38 9 0.14
39 17 0.26
40 3 0.05
41 16 0.25
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (38 bp):
CTCATCGGATAATTCGAAGTAATAATTGACACCAGTGT
Found at i:44656868 original size:11 final size:10
Alignment explanation
Indices: 44656849--44656873 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44656839 GTAGAAAAGG
44656849 AAAAGAAAAA
1 AAAAGAAAAA
44656859 AAAAGAAAAA
1 AAAAGAAAAA
44656869 AAAAG
1 AAAAG
44656874 GAGGTAAAGA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:44659817 original size:427 final size:428
Alignment explanation
Indices: 44659053--44660827 Score: 1505
Period size: 427 Copynumber: 4.0 Consensus size: 428
44659043 ATTGGTTTTG
* * *
44659053 ATTTTATTTCAGAATTTTAATTCTGTAGTTTTACAAAATCAAAGGGAAATTTTCTTTTCTTTTCT
1 ATTTTATTTCAGAATTTTAATCCTGTAGTTTAACAAAATCAAAGGAAAATTTTCTTTTCTTTTCT
44659118 TTTTTGCCTAATTGTGGCTTGAAATTGGGAATTAAAAAAAAATTTATCAACGGTGAATTAAAAAG
66 TTTTTGCCTAATTGTGGCTTGAAATTGGGAATTAAAAAAAAATTTATCAACGGTGAATTAAAAAG
* *
44659183 ACAATATAAGAATGCATGTCTAGTATTGGTTCTTTGAAAGACTTGGTATTTAAGCGTGCCGAGTG
131 ACAATATAAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGTG
* *
44659248 CACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCTTTAGCAGACATAATTTATTTATATA
196 CACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATATA
**
44659313 AGGACATTTATATTAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTT
261 AGGACATTTATATTAAATTAAATAAAATCTAATTCGGGATTTATTCCCGCCGTTTAACAAGATTT
**
44659378 TATTCAATATTGATTTGTTTCTAAACGAAAACTTAATCAAATAATTTTGTTTCGGGATTTATT-C
326 TATTCAATATTGATTTGTTTCTAAACGAAAACTTAATCAAATAATTTTGTTTCAAGATTTATTCC
* *
44659442 CCGCCATTTAATAGAATTTATTTTGATTTAATTACATA
391 CCCCCATTTAACAGAATTTATTTTGATTTAATTACATA
* *
44659480 ATTTTATTTCATAA-TTTAATCCTGTCGTTTAACAAAATCAAAGGAAAATTTTCTTTTTCTTTTT
1 ATTTTATTTCAGAATTTTAATCCTGTAGTTTAACAAAATCAAAGGAAAATTTTC-TTTTC-TTTT
* * *
44659544 CTTTTTT-CCTAATTGTGGCTTGAAATTGTGAATTAAAAAGAAATTTATCAATGGTGAATTAAAA
64 CTTTTTTGCCTAATTGTGGCTTGAAATTGGGAATTAAAAAAAAATTTATCAACGGTGAATTAAAA
* * *
44659608 AGACAATATGAGAATGCATGTCTAGGATTGGTTCTTTGGAAGAATTGGTATTTAAGCGTGCTGAG
129 AGACAATATAAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAG
*
44659673 TGCACCACTTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATA
194 TGCACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATA
* *
44659738 TAAGGACATTTATCTTAAATTAAATAAAATCTAATTGGGGATTTATTCCCGCCGTTTAACAAGAT
259 TAAGGACATTTATATTAAATTAAATAAAATCTAATTCGGGATTTATTCCCGCCGTTTAACAAGAT
* * *
44659803 TTTATTCGATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATT
324 TTTATTCAATATTGATTTGTTTCTAAACGAAAACTTAATCAAATAATTTTGTTTCAAGATTTATT
44659868 CCCCCCCATTTAACAGAATTTATTTTGATTTAATTACATA
389 CCCCCCCATTTAACAGAATTTATTTTGATTTAATTACATA
* * * * * * *
44659908 A-TTTGTTTCGGGA-TTTAAACATGTCA-TTTAACAAAAT----TG---ATTTTGCTTTT-GTTT
1 ATTTTATTTCAGAATTTTAATCCTGT-AGTTTAACAAAATCAAAGGAAAATTTT-CTTTTCTTTT
*** * * * * ********* *
44659962 CAGAATTT---TAATTCTGCCGTTTAACAAAATCAAAGGGAAATTTTCTGTTTTTTTTTTTGCCT
64 C-TTTTTTGCCTAATTGTG--GCTT---GAAAT---TGGG-AA--TTAAAAAAAAATTTAT--C-
* * * * ** *
44660024 AATTGTGGCTTGAAATTTTGAATTAAAAAAGA-AATTTATCAATAGTGAAT-TAAAAAGACAATA
114 AA------C--G-----GTGAATT-AAAAAGACAA--TAT-AAGAATGCATGT--CTAG--GAT-
* * ** *
44660087 TGAGAATGCATGTTTAA-AATTGGTTATTTGAAAGACTTAGTATTTAAGCGTGCCGAGTGCACAA
157 TG-G--TTC-TTTGAAAGAATTGG-TATTT----------------AAGCGTGCCGAGTGCACCA
* *
44660151 CCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGGCATAATCTATTTATATAAGAAC
201 CCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATATAAGGAC
* *
44660216 ATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTC
266 ATTTATATTAAATTAAATAAAATCTAATTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTC
* * *
44660281 GATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTCCCCCCC
331 AATATTGATTTGTTTCTAAACGAAAACTTAATCAAATAATTTTGTTTCAAGATTTATTCCCCCCC
*
44660346 ATTTAATAGAATTTATTTTGATTTAATTACATA
396 ATTTAACAGAATTTATTTTGATTTAATTACATA
* *** ** ****** * *
44660379 ATTTTGTTTCAGAA-TTTAATCCTACCGTTTAACAAAAT-TGATTTTGTTTTTATTTTAGAATTT
1 ATTTTATTTCAGAATTTTAATCCTGTAGTTTAACAAAATCAAAGGAAAATTTTCTTTT---CTTT
* * ** *** * ** *******
44660442 TAATTCTGACGTTTAACAAAATCAAAGG---AAAATTTTCTGGGTTTTTTTTGTGCCTAATTGTG
63 T-CTT-T----TTT-GCCTAAT-TGTGGCTTGAAA---T-TGGG---AATTAAAAAAAAATT-T-
* * ** * *
44660504 GCTTGAAATTGTGAATTAAAAAGACAATATGAGAATGCATGTCTAGGATTGGTTCTTTGGAAGAA
111 --AT-CAACGGTGAATTAAAAAGACAATATAAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAA
44660569 TTGGTATTTAAGCGTGCCGAGTGCACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTT
173 TTGGTATTTAAGCGTGCCGAGTGCACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTT
* * * *
44660634 AGCAAATATAATCTATTTATATAAGGACATTTATCTTAAATTAAATAAAATCTATTTCGGGATTT
238 AGCAGACATAATCTATTTATATAAGGACATTTATATTAAATTAAATAAAATCTAATTCGGGATTT
* *
44660699 ATTCCCGCCGTTTAACAAGATTTTATTCGATATTGATTTGTTTCTAAACGAAGACTTAATCAAAT
303 ATTCCCGCCGTTTAACAAGATTTTATTCAATATTGATTTGTTTCTAAACGAAAACTTAATCAAAT
* * *** ** *
44660764 GATTCTGTTTTGGGATTTATT-CCTACCGTTTAACAGAATTTATTTTGATTTAATTACATA
368 AATTTTGTTTCAAGATTTATTCCCCCCCATTTAACAGAATTTATTTTGATTTAATTACATA
44660824 ATTT
1 ATTT
44660828 GTTTTGGGAT
Statistics
Matches: 1112, Mismatches: 138, Indels: 178
0.78 0.10 0.12
Matches are distributed among these distances:
417 7 0.01
418 4 0.00
419 6 0.01
420 9 0.01
421 1 0.00
422 4 0.00
423 1 0.00
425 2 0.00
426 37 0.03
427 343 0.31
428 55 0.05
430 1 0.00
431 2 0.00
439 1 0.00
444 8 0.01
445 46 0.04
446 200 0.18
447 6 0.01
448 2 0.00
450 2 0.00
451 2 0.00
452 1 0.00
454 8 0.01
455 9 0.01
462 9 0.01
463 8 0.01
465 1 0.00
466 2 0.00
467 2 0.00
469 2 0.00
470 6 0.01
471 244 0.22
472 35 0.03
473 8 0.01
475 1 0.00
477 4 0.00
478 4 0.00
481 3 0.00
483 4 0.00
484 8 0.01
485 1 0.00
486 6 0.01
488 2 0.00
489 1 0.00
490 3 0.00
491 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (428 bp):
ATTTTATTTCAGAATTTTAATCCTGTAGTTTAACAAAATCAAAGGAAAATTTTCTTTTCTTTTCT
TTTTTGCCTAATTGTGGCTTGAAATTGGGAATTAAAAAAAAATTTATCAACGGTGAATTAAAAAG
ACAATATAAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGTG
CACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATATA
AGGACATTTATATTAAATTAAATAAAATCTAATTCGGGATTTATTCCCGCCGTTTAACAAGATTT
TATTCAATATTGATTTGTTTCTAAACGAAAACTTAATCAAATAATTTTGTTTCAAGATTTATTCC
CCCCCATTTAACAGAATTTATTTTGATTTAATTACATA
Found at i:44660489 original size:471 final size:468
Alignment explanation
Indices: 44659480--44661064 Score: 2294
Period size: 471 Copynumber: 3.4 Consensus size: 468
44659470 TAATTACATA
* * * * *
44659480 ATTTTATTTCATAA-TTTAATCCTGTCGTTTAACAAAATCAAAGGAAAATTTTCTTTTTCTTTTT
1 ATTTTATTTCAGAATTTTAATTCTGCCGTTTAACAAAATCAAAGGAAAATTTTC----TGTGTTT
* *
44659544 CTTTTTTCCTAATTGTGGCTTGAAATTGTGAATTAAAAAGAAATTTATCAATGGTGAATTAAAAA
62 -TTTTTGCCTAATTGTGGCTTGAAATTTTGAATTAAAAAGAAA-TTATCAATGGTGAATTAAAAA
* *
44659609 GACAATATGAGAATGCATGTCTAGGATTGGTTCTTTGGAAGAATTGGTATTTAAGCGTGCTGAGT
125 GACAATATGAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGT
*
44659674 GCACCACTTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATAT
190 GCACCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATAT
* *
44659739 AAGGACATTTATCTTAAATTAAATAAAATCTAATTGGGGATTTATTCCCGCCGTTTAACAAGATT
255 AAGGACATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATT
44659804 TTATTCGATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTC
320 TTATTCGATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTC
*
44659869 CCCCCCATTTAACAGAATTTATTTTGATTTAATTACATAATTTGTTTCGGGATTTAAACATGTCA
385 CCCCCCATTTAACAGAATTTATTTTGATTTAATTACATAATTTGTTTCGGGATTTAATCATGTCA
44659934 TTTAACAAAATTGATTTTG
450 TTTAACAAAATTGATTTTG
* * * *
44659953 CTTTTGTTTCAGAATTTTAATTCTGCCGTTTAACAAAATCAAAGGGAAATTTTCTGTTTTTTTTT
1 ATTTTATTTCAGAATTTTAATTCTGCCGTTTAACAAAATCAAAGGAAAATTTTCTG-TGTTTTTT
*
44660018 TTGCCTAATTGTGGCTTGAAATTTTGAATTAAAAAAGAAATTTATCAATAGTGAATTAAAAAGAC
65 TTGCCTAATTGTGGCTTGAAATTTTGAATT-AAAAAGAAA-TTATCAATGGTGAATTAAAAAGAC
* ** * * *
44660083 AATATGAGAATGCATGTTTAAAATTGGTTATTTGAAAGACTTAGTATTTAAGCGTGCCGAGTGCA
128 AATATGAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGTGCA
* *
44660148 CAACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGGCATAATCTATTTATATAAG
193 CCACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATATAAG
*
44660213 AACATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTA
258 GACATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTA
44660278 TTCGATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTCCCC
323 TTCGATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTCCCC
* * * * ** *
44660343 CCCATTTAATAGAATTTATTTTGATTTAATTACATAATTTTGTTTCAGAATTTAATCCTACCGTT
388 CCCATTTAACAGAATTTATTTTGATTTAATTACATAA-TTTGTTTCGGGATTTAATCATGTCATT
44660408 TAACAAAATTGATTTTG
452 TAACAAAATTGATTTTG
* * * *
44660425 TTTTTATTTTAGAATTTTAATTCTGACGTTTAACAAAATCAAAGGAAAATTTTCTGGGTTTTTTT
1 ATTTTATTTCAGAATTTTAATTCTGCCGTTTAACAAAATCAAAGGAAAATTTTCTGTG-TTTTTT
44660490 TGTGCCTAATTGTGGC-------------TT-----G-AA--AT---T-GTGAATTAAAAAGACA
65 T-TGCCTAATTGTGGCTTGAAATTTTGAATTAAAAAGAAATTATCAATGGTGAATTAAAAAGACA
*
44660530 ATATGAGAATGCATGTCTAGGATTGGTTCTTTGGAAGAATTGGTATTTAAGCGTGCCGAGTGCAC
129 ATATGAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGTGCAC
* *
44660595 CACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAAATATAATCTATTTATATAAGG
194 CACCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATATAAGG
44660660 ACATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTAT
259 ACATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTAT
* * * *** **
44660725 TCGATATTGATTTGTTTCTAAACGAAGACTTAATCAAATGATTCTGTTTTGGGATTTATT-CCTA
324 TCGATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTCCCCC
* *
44660789 CCGTTTAACAGAATTTATTTTGATTTAATTACATAATTTGTTTTGGGATTTAATCATGTCATTTA
389 CCATTTAACAGAATTTATTTTGATTTAATTACATAATTTGTTTCGGGATTTAATCATGTCATTTA
44660854 ACAAAATTGATTTTG
454 ACAAAATTGATTTTG
* * *
44660869 ATTTTGTTTCAGAATTTTAATTCTGCCGTTTAACAAAACCAAAGGGAAATTTTC--TGTTTTTTT
1 ATTTTATTTCAGAATTTTAATTCTGCCGTTTAACAAAATCAAAGGAAAATTTTCTGTGTTTTTTT
*
44660932 TGCCTAATTGTGGCTTGAAATTTTGAATTAAAAA-AAATTATCAACGGTGAATTAAAAAGACAAT
66 TGCCTAATTGTGGCTTGAAATTTTGAATTAAAAAGAAATTATCAATGGTGAATTAAAAAGACAAT
* * * * * * *
44660996 ATTAGAATGCATGTCTAGGATTGATTCTTTAAAAGACTTGATATTTAAGCATGCTGAGTGCACCA
131 ATGAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGTGCACCA
44661061 CCTC
196 CCTC
44661065 TCTTTTAGTG
Statistics
Matches: 997, Mismatches: 84, Indels: 71
0.87 0.07 0.06
Matches are distributed among these distances:
440 14 0.01
441 7 0.01
442 1 0.00
444 85 0.09
445 36 0.04
446 253 0.25
447 1 0.00
450 2 0.00
453 4 0.00
454 1 0.00
458 2 0.00
460 4 0.00
464 79 0.08
470 32 0.03
471 320 0.32
472 95 0.10
473 25 0.03
474 36 0.04
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (468 bp):
ATTTTATTTCAGAATTTTAATTCTGCCGTTTAACAAAATCAAAGGAAAATTTTCTGTGTTTTTTT
TGCCTAATTGTGGCTTGAAATTTTGAATTAAAAAGAAATTATCAATGGTGAATTAAAAAGACAAT
ATGAGAATGCATGTCTAGGATTGGTTCTTTGAAAGAATTGGTATTTAAGCGTGCCGAGTGCACCA
CCTCATATTTCAGCCCAACACGAAATTATTTTTCCTTAGCAGACATAATCTATTTATATAAGGAC
ATTTATCTTAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTC
GATATTGATTTGTTTCTAAACGTAGACTTAATCAAATAATTTTGTTTCAAGATTTATTCCCCCCC
ATTTAACAGAATTTATTTTGATTTAATTACATAATTTGTTTCGGGATTTAATCATGTCATTTAAC
AAAATTGATTTTG
Found at i:44663634 original size:51 final size:51
Alignment explanation
Indices: 44663578--44663800 Score: 175
Period size: 51 Copynumber: 4.4 Consensus size: 51
44663568 GCATGAACTG
* * * *
44663578 TGTGTAGGCCACTATGTGAAAGTGAAAGTGTTGGTCACGTGTGTAGTACTA
1 TGTGCAGGCTACTATGTGAAACTGAAAGTGTTGGTCACATGTGTAGTACTA
* * * * * * *
44663629 TGTGTAGGCTACTACGTGTACCAG-AA-TGATAGGTCGCATGTGTAGTACTA
1 TGTGCAGGCTACTATGTGAAACTGAAAGTG-TTGGTCACATGTGTAGTACTA
* * * * * * *
44663679 TGTGCAGGCTACTATGCGTACCTGATAGCT-TCGATCACGTGTGTAGTACTA
1 TGTGCAGGCTACTATGTGAAACTGAAAG-TGTTGGTCACATGTGTAGTACTA
* * * * *
44663730 TGTGCAGGCTACTACGTGTATA-GGATAGTGATGGTCACATGTGTAGTACTA
1 TGTGCAGGCTACTATGTG-AAACTGAAAGTGTTGGTCACATGTGTAGTACTA
*
44663781 TGTGCAGACTACTATGTGAA
1 TGTGCAGGCTACTATGTGAA
44663801 CTGGTATCAT
Statistics
Matches: 135, Mismatches: 31, Indels: 13
0.75 0.17 0.07
Matches are distributed among these distances:
49 2 0.01
50 42 0.31
51 90 0.67
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTGCAGGCTACTATGTGAAACTGAAAGTGTTGGTCACATGTGTAGTACTA
Found at i:44663727 original size:101 final size:102
Alignment explanation
Indices: 44663612--44663796 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
44663602 AAAGTGTTGG
* *
44663612 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCA-GA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGGATAGTGAT-GGTCACATGTGTAG
*
44663674 TACTATGTGCAGGCTACTATGCGTACCTGATAGCTTCGA
64 TACTATGTGCAGACTACTATGCGTACCTGATAGCTTCGA
*
44663713 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATAGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGTGATGGTCACATGTGTAGTA
44663778 CTATGTGCAGACTACTATG
66 CTATGTGCAGACTACTATG
44663797 TGAACTGGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 1 0.01
101 38 0.49
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGACTACTATGCGTACCTGATAGCTTCGA
Found at i:44663747 original size:28 final size:28
Alignment explanation
Indices: 44663715--44663794 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
44663705 AGCTTCGATC
44663715 ACGTGTGTAGTACTATGTGCAGGCTACT
1 ACGTGTGTAGTACTATGTGCAGGCTACT
* *
44663743 ACGTGTATAGGA-TA-GTG-ATGG-T-C-
1 ACGTGTGTAGTACTATGTGCA-GGCTACT
* *
44663766 ACATGTGTAGTACTATGTGCAGACTACT
1 ACGTGTGTAGTACTATGTGCAGGCTACT
44663794 A
1 A
44663795 TGTGAACTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
23 9 0.23
24 3 0.08
25 6 0.15
26 7 0.18
27 3 0.08
28 11 0.28
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTATGTGCAGGCTACT
Done.