Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 27 of 438
Found at i:6796691 original size:241 final size:241
Alignment explanation
Indices: 6796268--6796702 Score: 816
Period size: 241 Copynumber: 1.8 Consensus size: 241
6796258 ATGAATTAAT
* *
6796268 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
*
6796333 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGGATTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGATTGCCTTATATCGAG
*
6796398 TTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
6796463 AAAAAGACTTGAAAAAAGTTTTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTTTATCGAGCTCATTTACTATTGAATA
*
6796509 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTTTCCAACATT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
*
6796574 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGATTGCCTTATATCGAG
6796639 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
6796703 ACTATATTCA
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 188 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACATT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGATTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTTTATCGAGCTCATTTACTATTGAATA
Found at i:6796845 original size:9 final size:9
Alignment explanation
Indices: 6796822--6796949 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
6796812 ATTGATCATT
*
6796822 ACTTAAATA
1 ACTTACATA
*
6796831 AATTACATA
1 ACTTACATA
6796840 ACTTACATA
1 ACTTACATA
* *
6796849 ACTCATATA
1 ACTTACATA
*
6796858 GCTTACATA
1 ACTTACATA
*
6796867 ATTTACATAACA
1 ACTTACAT---A
6796879 ACTTACATA
1 ACTTACATA
*
6796888 ACTCACATA
1 ACTTACATA
6796897 ACTTACATA
1 ACTTACATA
*
6796906 ATTTACATA
1 ACTTACATA
*
6796915 ACTCACATA
1 ACTTACATA
*
6796924 ACGTACATAACA
1 ACTTACAT---A
6796936 ACTTACATA
1 ACTTACATA
6796945 ACTTA
1 ACTTA
6796950 ACTAATACAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 78 0.83
12 16 0.17
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:6796886 original size:39 final size:39
Alignment explanation
Indices: 6796839--6796916 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
6796829 TAAATTACAT
* *
6796839 AACTTACATAACTCATATAGCTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6796878 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
6796917 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:6796923 original size:57 final size:57
Alignment explanation
Indices: 6796835--6796947 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
6796825 TAAATAAATT
* * * **
6796835 ACATAACTTACATAACTCATATAGCTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
6796892 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
6796948 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:6802971 original size:43 final size:42
Alignment explanation
Indices: 6802940--6803167 Score: 276
Period size: 43 Copynumber: 5.2 Consensus size: 42
6802930 GCATTTGTAG
*
6802940 AAAAAGCGCCACTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 AAAAA-CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CC
* * * *
6802984 ACAAACGACGCTAAAAGCCTTGACCTTTTGCAGCGCTTTTCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCC
* * *
6803026 AACAAACGCTGCTAAAAGCCTTGATCTTTAGCGGCGTTTTTTTCC
1 AA-AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCG--CTTTTCC
* *
6803071 ACAAACGCCGCTAAAAGCCTTGACCTTTTGCGGCGCTTTTCC
1 AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCC
*
6803113 AACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCC
1 AA-AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCG--CTTTTCC
6803158 AATAAACGCC
1 AA-AAACGCC
6803168 ACAAATTTTT
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
42 10 0.06
43 91 0.58
44 34 0.22
45 22 0.14
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCC
Found at i:6803096 original size:87 final size:87
Alignment explanation
Indices: 6802946--6803167 Score: 356
Period size: 87 Copynumber: 2.6 Consensus size: 87
6802936 GTAGAAAAAG
* * * *
6802946 CGCCACTAAAAGCCTTGACCTTTAGCGGCG-CTTTTCCCACAAACGACGCTAAAAGCCTTGACCT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCACAAACGCCGCTAAAAGCCTTGACCT
6803010 TTTGCAGCGCTTTTCCAACAAA
66 TTTGCAGCGCTTTTCCAACAAA
* *
6803032 CGCTGCTAAAAGCCTTGATCTTTAGCGGCGTTTTTTTCCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCACAAACGCCGCTAAAAGCCTTGACCT
*
6803097 TTTGCGGCGCTTTTCCAACAAA
66 TTTGCAGCGCTTTTCCAACAAA
*
6803119 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCAATAAACGCC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCC-ACAAACGCC
6803168 ACAAATTTTT
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
86 27 0.22
87 89 0.72
88 8 0.06
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (87 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTTCCACAAACGCCGCTAAAAGCCTTGACCT
TTTGCAGCGCTTTTCCAACAAA
Found at i:6806087 original size:66 final size:66
Alignment explanation
Indices: 6806006--6806139 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
6805996 CTTACCCCAT
6806006 ACACTTAAATCTAGTTTTCTTTATGTTAATGGCAGAAATACTATGAGCATCAAACTCAGGAGTAG
1 ACACTTAAATCTAGTTTTCTTTATGTTAATGGCAGAAATACTATGAGCATCAAACTCAGGAGTAG
6806071 A
66 A
6806072 ACACTTAAATCTAGTTTTCTTTATGTTAATGGCAGAAATACTATGAGCATCAAACTCAGGAGTAG
1 ACACTTAAATCTAGTTTTCTTTATGTTAATGGCAGAAATACTATGAGCATCAAACTCAGGAGTAG
6806137 A
66 A
6806138 AC
1 AC
6806140 GAAAACACTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (66 bp):
ACACTTAAATCTAGTTTTCTTTATGTTAATGGCAGAAATACTATGAGCATCAAACTCAGGAGTAG
A
Found at i:6807881 original size:8 final size:8
Alignment explanation
Indices: 6807868--6807909 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
6807858 AAAAAGTGAT
6807868 ATTTTATA
1 ATTTTATA
6807876 ATTTTATA
1 ATTTTATA
6807884 ATTTTATA
1 ATTTTATA
*
6807892 A-TTTAAA
1 ATTTTATA
*
6807899 ATTTAATA
1 ATTTTATA
6807907 ATT
1 ATT
6807910 AATTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTATA
Found at i:6807901 original size:15 final size:15
Alignment explanation
Indices: 6807868--6807909 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
6807858 AAAAAGTGAT
*
6807868 ATTTTATAATTTTATA
1 ATTTTATAA-TTTAAA
6807884 ATTTTATAATTTAAA
1 ATTTTATAATTTAAA
*
6807899 ATTTAATAATT
1 ATTTTATAATT
6807910 AATTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTATAATTTAAA
Found at i:6807924 original size:20 final size:19
Alignment explanation
Indices: 6807901--6807957 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
6807891 AATTTAAAAT
6807901 TTAATAATTAATTAAATTTA
1 TTAATAATT-ATTAAATTTA
* *
6807921 TTAAAAAATTATTTAATTTA
1 TT-AATAATTATTAAATTTA
* * *
6807941 ATAATAAATATAAAATT
1 TTAATAATTATTAAATT
6807958 ATACACTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 11 0.38
20 12 0.41
21 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATAATTATTAAATTTA
Found at i:6807936 original size:21 final size:20
Alignment explanation
Indices: 6807906--6807949 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6807896 AAAATTTAAT
*
6807906 AATTAATTAAATTTATTAAAA
1 AATTAATT-AATTTAATAAAA
* *
6807927 AATTATTTAATTTAATAATA
1 AATTAATTAATTTAATAAAA
6807947 AAT
1 AAT
6807950 ATAAAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTAATTAATTTAATAAAA
Found at i:6816341 original size:18 final size:21
Alignment explanation
Indices: 6816300--6816348 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 21
6816290 TATTTTTATC
*
6816300 TAAATTTTCTAGTATTTTAGA
1 TAAATTTTCTAGTATTTTAAA
6816321 TAAATTTT-TA-TA-TTTAAA
1 TAAATTTTCTAGTATTTTAAA
6816339 TAAATATTTC
1 TAAAT-TTTC
6816349 AACCCATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.40
19 5 0.20
20 2 0.08
21 8 0.32
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
TAAATTTTCTAGTATTTTAAA
Found at i:6816522 original size:16 final size:17
Alignment explanation
Indices: 6816492--6816531 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6816482 TAAATATACG
*
6816492 AAAATATTTTATATTAA
1 AAAATATATTATATTAA
6816509 AAAATATATT-TATTAA
1 AAAATATATTATATTAA
*
6816525 AATATAT
1 AAAATAT
6816532 CATTGTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATATTATATTAA
Found at i:6818153 original size:19 final size:20
Alignment explanation
Indices: 6818129--6818167 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
6818119 TCTTATTTTT
6818129 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
6818148 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
6818168 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:6818185 original size:25 final size:23
Alignment explanation
Indices: 6818129--6818193 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
6818119 TCTTATTTTT
*
6818129 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
6818148 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
6818171 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
6818194 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:6818369 original size:16 final size:16
Alignment explanation
Indices: 6818362--6818400 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
6818352 CGGCCCGAAT
6818362 CCGGCCCGAACCCGGC
1 CCGGCCCGAACCCGGC
6818378 CCGGCCCGAACCCGGC
1 CCGGCCCGAACCCGGC
*
6818394 CTGGCCC
1 CCGGCCC
6818401 ATGCACACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.56, G:0.31, T:0.03
Consensus pattern (16 bp):
CCGGCCCGAACCCGGC
Found at i:6818394 original size:11 final size:11
Alignment explanation
Indices: 6818350--6818380 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6818340 TTTTTATGGG
6818350 CCCGGCCCGAA
1 CCCGGCCCGAA
*
6818361 TCCGGCCCGAA
1 CCCGGCCCGAA
6818372 CCCGGCCCG
1 CCCGGCCCG
6818381 GCCCGAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.55, G:0.29, T:0.03
Consensus pattern (11 bp):
CCCGGCCCGAA
Found at i:6819834 original size:41 final size:41
Alignment explanation
Indices: 6819775--6819859 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
6819765 GCAGTGATAT
* *
6819775 TCAAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTTTATTATA
1 TCAAGCTCTGTGCCTAGCAGGCTTCGTGCCGGTGTATTATA
* * * *
6819816 TCAAGCTTTGTGCTTAGCAGGCTTCGTGCTGGTGTGTTATA
1 TCAAGCTCTGTGCCTAGCAGGCTTCGTGCCGGTGTATTATA
6819857 TCA
1 TCA
6819860 GGATTTGAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (41 bp):
TCAAGCTCTGTGCCTAGCAGGCTTCGTGCCGGTGTATTATA
Found at i:6821169 original size:20 final size:21
Alignment explanation
Indices: 6821146--6821188 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6821136 ATAAATGTGT
*
6821146 ATTTTG-ATGTTTGATGATAG
1 ATTTTGAATGCTTGATGATAG
*
6821166 ATTTTGAATGCTTGTTGATAG
1 ATTTTGAATGCTTGATGATAG
6821187 AT
1 AT
6821189 AAACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGCTTGATGATAG
Found at i:6821847 original size:48 final size:48
Alignment explanation
Indices: 6821760--6821871 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 48
6821750 ATACATTGAG
* * * *
6821760 TTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCAAGTTATAC-TGAT
1 TTGGCTTTGGGCCATGATATTAGCACTTCGGATACAAGTTA-ACTTAAT
* * *
6821808 TTGGCTTTGGGCCATGATATTAGTACTTCGGATATAAGTTACCTTAAT
1 TTGGCTTTGGGCCATGATATTAGCACTTCGGATACAAGTTAACTTAAT
*
6821856 TTGGCTTTGAGCCATG
1 TTGGCTTTGGGCCATG
6821872 GTATAGGTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.02
48 54 0.98
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (48 bp):
TTGGCTTTGGGCCATGATATTAGCACTTCGGATACAAGTTAACTTAAT
Found at i:6825644 original size:32 final size:32
Alignment explanation
Indices: 6825598--6825673 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
6825588 TGCCAATCAT
*
6825598 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* *
6825630 TTCAATA-CCTAACAAATTCAAGACATAATAAT
1 TTCAATATCC-AACAAATTCAAAACATAATAAA
*
6825662 TTCAAAATCCAA
1 TTCAATATCCAA
6825674 TAAACTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 4 0.11
32 31 0.84
33 2 0.05
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:6825665 original size:16 final size:16
Alignment explanation
Indices: 6825620--6825666 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6825610 CAAGCTTAAA
*
6825620 ACATAATAAATTCAAT
1 ACATAATAAATTCAAG
* *
6825636 ACCTAACAAATTCAAG
1 ACATAATAAATTCAAG
*
6825652 ACATAATAATTTCAA
1 ACATAATAAATTCAA
6825667 AATCCAATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (16 bp):
ACATAATAAATTCAAG
Found at i:6833565 original size:50 final size:47
Alignment explanation
Indices: 6833493--6833586 Score: 134
Period size: 50 Copynumber: 1.9 Consensus size: 47
6833483 GACGCACGGG
* *
6833493 CTAGAGGCACAGGCATGTGTCCAAGCTGTGTGACTCACTGTTTGCCA
1 CTAGAGGCACAGGCATGTGTCCAAGCTGTATGACTCACGGTTTGCCA
*
6833540 CTAGAGAGCACATGGGCATGTGTCCAGGCTGTATGACTCACGGTTTG
1 CTAGAG-GCACA--GGCATGTGTCCAAGCTGTATGACTCACGGTTTG
6833587 TGATTTATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
47 6 0.15
48 5 0.12
50 30 0.73
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (47 bp):
CTAGAGGCACAGGCATGTGTCCAAGCTGTATGACTCACGGTTTGCCA
Found at i:6836823 original size:34 final size:34
Alignment explanation
Indices: 6836780--6836848 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
6836770 TAGTCATGAG
* * *
6836780 ATTCATGTAATAATTCATACTCAGAAATGTACAT
1 ATTCATGTAACAATTCATAATCACAAATGTACAT
6836814 ATTCATGTAACAATTCATAATCACAAATGTACAT
1 ATTCATGTAACAATTCATAATCACAAATGTACAT
6836848 A
1 A
6836849 GTTGTCAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (34 bp):
ATTCATGTAACAATTCATAATCACAAATGTACAT
Found at i:6839904 original size:42 final size:42
Alignment explanation
Indices: 6839787--6839906 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
6839777 GGGTTTAATA
* * * * * * *
6839787 CTTCGGTTTAGCCAATGATGCACTTATGTGCCAATATATTTT
1 CTTCGGTTCATCCAATGATGCACTTATATGCTAGTACATTTC
* *
6839829 CTTCGGTTCATCCGATGATGCATTTATATGCTAGTACATTTC
1 CTTCGGTTCATCCAATGATGCACTTATATGCTAGTACATTTC
*
6839871 CTTCGGTTCATCTAATGATTG-ACTTATGA-GCTAGTA
1 CTTCGGTTCATCCAATGA-TGCACTTAT-ATGCTAGTA
6839907 TAATTGATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 61 0.95
43 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (42 bp):
CTTCGGTTCATCCAATGATGCACTTATATGCTAGTACATTTC
Found at i:6841216 original size:26 final size:26
Alignment explanation
Indices: 6841178--6841287 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
6841168 TGATACAAAT
6841178 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
6841204 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6841230 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
6841256 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
6841282 TGATAA
1 TGATAA
6841288 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:6842765 original size:28 final size:26
Alignment explanation
Indices: 6842723--6842797 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
6842713 AAAAGTAGCT
* * *
6842723 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
6842751 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
6842777 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
6842798 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:6842942 original size:27 final size:27
Alignment explanation
Indices: 6842901--6843038 Score: 188
Period size: 27 Copynumber: 5.1 Consensus size: 27
6842891 GAGGAAGCGT
*
6842901 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
6842928 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
6842955 TCTGGTGGCTATGCCACGATTATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
6842982 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
6843009 TCTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
6843036 TCT
1 TCT
6843039 AGTGACTTCG
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 7 0.07
27 88 0.93
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:6842981 original size:54 final size:53
Alignment explanation
Indices: 6842899--6843038 Score: 235
Period size: 54 Copynumber: 2.6 Consensus size: 53
6842889 TGGAGGAAGC
6842899 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCT
*
6842953 GTTCTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCT
*
6843007 GTTCTGGTGGCTCTGCCACAATATCTGTATCT
1 GTTCTGGTGGCTATGCCACAATATCTG-ATCT
6843039 AGTGACTTCG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
GTTCTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:6858953 original size:55 final size:54
Alignment explanation
Indices: 6858835--6858945 Score: 172
Period size: 55 Copynumber: 2.1 Consensus size: 54
6858825 GTTGTATATA
6858835 TGGAGAATTGAGAATAGACCAAAGTGTCTTATCTGATAAAAGAAAAAACAAATTT
1 TGGAGAATTGAGAATAGACCAAAGTGTCTTATCTGAT-AAAGAAAAAACAAATTT
* *
6858890 TGGAGAATTGAGAATAGACCGAAGTGTCTTCATCTGAT-AA-ATAAAACAAATTT
1 TGGAGAATTGAGAATAGACCAAAGTGTCTT-ATCTGATAAAGAAAAAACAAATTT
6858943 TGG
1 TGG
6858946 TTGGAATTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
53 15 0.28
54 2 0.04
55 29 0.55
56 7 0.13
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (54 bp):
TGGAGAATTGAGAATAGACCAAAGTGTCTTATCTGATAAAGAAAAAACAAATTT
Found at i:6864070 original size:41 final size:42
Alignment explanation
Indices: 6864025--6864104 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
6864015 AAGATTTGTC
* *
6864025 ATTTCAGACTAT-AGAAAAAAATTAATTTTGAGATTGTAATT
1 ATTTCAGACTATAAAAAAAAAACTAATTTTGAGATTGTAATT
*
6864066 ATTTCAGATTATAAAAAAAAAACTAATTTTGAGATTGTA
1 ATTTCAGACTATAAAAAAAAAACTAATTTTGAGATTGTA
6864105 CTTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 11 0.31
42 24 0.69
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (42 bp):
ATTTCAGACTATAAAAAAAAAACTAATTTTGAGATTGTAATT
Found at i:6868453 original size:90 final size:90
Alignment explanation
Indices: 6868221--6868455 Score: 295
Period size: 88 Copynumber: 2.6 Consensus size: 90
6868211 ACGTGAGCTA
* * * * * * *
6868221 AGGCTCAACTCACCTCCCGCAATACGAGTTGGTTTTTTTG-AAA-CTTAATTTGAAAAGCAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAAGAACATT
6868284 TTGAAAATACCTCGACATGTGACCCG
66 TTGAAAATACCTCGACA-GTGACCCG
*
6868310 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAAGCATAAATTGAAAA-AACATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAAGAACATT
*
6868372 AATTGAAAATACCTC-AGC-GTGCCCCG
66 --TTGAAAATACCTCGA-CAGTGACCCG
*
6868398 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAA
6868456 TACCTCAGCG
Statistics
Matches: 128, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
87 6 0.05
88 45 0.35
89 40 0.31
90 37 0.29
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAAGAACATT
TTGAAAATACCTCGACAGTGACCCG
Found at i:6868497 original size:77 final size:72
Alignment explanation
Indices: 6868372--6868583 Score: 259
Period size: 77 Copynumber: 2.9 Consensus size: 72
6868362 AAAAAACATT
*
6868372 AATTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCTGTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6868436 TGAAAAGCAGA
65 TG--AAG-AGA
*
6868447 AATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACC-CTTCGCAATATGAGTTGATTTT
1 AATTGAAAATACCTCAGC-TGTGA-CCGAGGCTCAACTCACCTC-TCGCAATATGAGTTGATTTT
* *
6868511 TTTGATGATA
63 TTTGAAGAGA
* * * *
6868521 AATTAAAAATACCTCA-ATGTGACTTGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCTGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6868584 GAAAAATAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
71 1 0.01
72 39 0.32
73 1 0.01
74 17 0.14
75 20 0.16
76 1 0.01
77 43 0.35
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (72 bp):
AATTGAAAATACCTCAGCTGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAGAGA
Found at i:6868822 original size:75 final size:75
Alignment explanation
Indices: 6868733--6869398 Score: 910
Period size: 75 Copynumber: 9.0 Consensus size: 75
6868723 GCAATATTTG
*
6868733 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
6868798 GATTTTTTTA
66 GATTTTTTTA
* *
6868808 ACAAAAAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6868873 GA--TTTTTG
66 GATTTTTTTA
* * *
6868881 ACAAACAGA-AATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACCTCACGCAATATAAGT
1 ACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
6868945 TGATTTTTTTGA
65 TGATTTTTTT-A
* * * **
6868957 A-AGTAGAAT--TTGAAAATACCTCGGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 ACA-AACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
6869019 TGA--ATTTGA
65 TGATTTTTTTA
* * *
6869028 A-AAACAGA-AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 ACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6869091 TGATTTTTTTG
65 TGATTTTTTTA
*
6869102 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
6869167 GATTTTTTTA
66 GATTTTTTTA
*
6869177 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6869242 GA-TTTTTTG
66 GATTTTTTTA
* *
6869251 ACAAACAGTAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
6869316 GATTTTTTTGA
66 GATTTTTTT-A
* * * * ***
6869327 A-AGTAGAAT--TTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 ACA-AACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
6869389 TGATTTTTTT
65 TGATTTTTTT
6869399 GAAACAGAAA
Statistics
Matches: 525, Mismatches: 50, Indels: 33
0.86 0.08 0.05
Matches are distributed among these distances:
70 2 0.00
71 4 0.01
72 55 0.10
73 65 0.12
74 183 0.35
75 209 0.40
76 7 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (75 bp):
ACAAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTA
Found at i:6869148 original size:369 final size:358
Alignment explanation
Indices: 6868365--6869396 Score: 1399
Period size: 370 Copynumber: 2.8 Consensus size: 358
6868355 TAAATTGAAA
* *
6868365 AAACATTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
* * ** *
6868430 TTTTTTTGAA-AAGCAGA-AATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACC-CTT
66 TTTTTTT-AACAA-AAAATAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTT
*** ** * * * * **
6868492 CGCAATATGAGTTGATTTTT-TTGATGATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAAC
127 -GCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAAC
* * ** * * *
6868556 TCACCTCTCGCGATATGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTGACAATACCTC
191 TCACCTCTCGCAATATGAGTTGA-TTTT------T---TTGAAA-GTAGAATTTGAAAATACCTC
* **
6868621 AGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAA
245 AGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAA
6868686 AATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATTTGAC
310 AATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATTTGAC
6868735 AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
1 AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
6868800 TTTTTTTAACAAAAAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAA
66 TTTTTTTAACAAAAAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAA
* *
6868865 TATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCACC
131 TATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACC
* * *
6868930 TCACGCAATATAAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCCCTAAGGCT
196 TCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCAGCGTGCCCTAAGGCT
6868995 CAACTCACCTCTCGCAATATGAGTTGAA-TTTGAAAAACAGAAATTGAAAATATCTCAGCGTGTC
261 CAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATATCTCAGCGTGTC
6869059 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
326 CTGAGGCTCAACTCACCTCTCGC---A--A--T-A----TTTGAC
6869104 AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
1 AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
* * *
6869169 TTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAA
66 TTTTTTTAACAAAAAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAA
*
6869234 TATGAGTTGATTTTTTGACAAACAGTAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCAC
131 TATGAGTTGA-TTTTTGACAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCAC
* * *
6869299 CTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCAACGTGTCTTAAGGC
195 CTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCAGCGTGCCCTAAGGC
*
6869364 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
260 TCAACTCACCTCTCGCAATATGAGTTGAATTTT
6869397 TTGAAACAGA
Statistics
Matches: 598, Mismatches: 46, Indels: 35
0.88 0.07 0.05
Matches are distributed among these distances:
357 59 0.10
358 55 0.09
359 5 0.01
360 1 0.00
362 2 0.00
364 1 0.00
365 1 0.00
368 42 0.07
369 201 0.34
370 228 0.38
371 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (358 bp):
AAACAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA
TTTTTTTAACAAAAAATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAA
TATGAGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCAGCGTGCCCTAAGGCT
CAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATATCTCAGCGTGTC
CTGAGGCTCAACTCACCTCTCGCAATATTTGAC
Found at i:6882572 original size:22 final size:23
Alignment explanation
Indices: 6882525--6882573 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
6882515 TGTATTTCAT
6882525 GAAAA-TTCAAAAATATTATTTA
1 GAAAATTTCAAAAATATTATTTA
6882547 -AAAATTTCATAAAATA-T-TTTA
1 GAAAATTTCA-AAAATATTATTTA
6882568 GAAAAT
1 GAAAAT
6882574 CCACTCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
GAAAATTTCAAAAATATTATTTA
Found at i:6895781 original size:7 final size:7
Alignment explanation
Indices: 6895769--6895793 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6895759 TTGAAAAATC
6895769 AAATATT
1 AAATATT
6895776 AAATATT
1 AAATATT
6895783 AAATATT
1 AAATATT
6895790 AAAT
1 AAAT
6895794 TTTATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:6895803 original size:16 final size:15
Alignment explanation
Indices: 6895769--6895811 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
6895759 TTGAAAAATC
*
6895769 AAATATTAAA-TATT
1 AAATATTAAATTTTT
6895783 AAATATTAAATTTTAT
1 AAATATTAAATTTT-T
*
6895799 AAATATTGAATTT
1 AAATATTAAATTT
6895812 ATATTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATATTAAATTTTT
Found at i:6903238 original size:26 final size:26
Alignment explanation
Indices: 6903209--6903261 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6903199 TCAAACAAGC
6903209 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
6903235 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
6903261 A
1 A
6903262 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:6904781 original size:26 final size:26
Alignment explanation
Indices: 6904745--6904828 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6904735 CATGAAATTC
6904745 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6904771 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6904797 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6904823 TTATCA
1 TTATCA
6904829 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6905325 original size:30 final size:30
Alignment explanation
Indices: 6905290--6905352 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
6905280 AGATAACAAG
6905290 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
*
6905320 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
6905350 CAA
1 CAA
6905353 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAATAAAATTAA
Found at i:6909494 original size:31 final size:30
Alignment explanation
Indices: 6909459--6909547 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 30
6909449 AGTATAATAG
6909459 TACATGATGTTTAAATAATTTAATATAAAAA
1 TACAT-ATGTTTAAATAATTTAATATAAAAA
* * **
6909490 TACATAAGGTATAAATTAATTTATATATTTAAA
1 TACAT-ATGTTTAAA-TAATTTA-ATATAAAAA
*
6909523 T--ATATTTTTAAATAA-TTAATATAAA
1 TACATATGTTTAAATAATTTAATATAAA
6909548 CAAATGTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
27 5 0.11
28 3 0.07
29 3 0.07
30 6 0.13
31 14 0.30
32 7 0.15
33 8 0.17
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (30 bp):
TACATATGTTTAAATAATTTAATATAAAAA
Found at i:6912401 original size:15 final size:14
Alignment explanation
Indices: 6912381--6912410 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6912371 AAGACAACCC
6912381 TTTCTTTTTTTCTTT
1 TTTCTTTTTTT-TTT
6912396 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
6912410 T
1 T
6912411 GTATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:6915314 original size:57 final size:57
Alignment explanation
Indices: 6915224--6915391 Score: 309
Period size: 57 Copynumber: 2.9 Consensus size: 57
6915214 ATTTATTTAT
6915224 AAATTCTTGAATTACTTTAGCTGAATGACTTTTTTTTGTGAAGATGATGTCATGTAA
1 AAATTCTTGAATTACTTTAGCTGAATGACTTTTTTTTGTGAAGATGATGTCATGTAA
* *
6915281 AAATTCTTGAATTACTTTAGCTGAATGAATTTTTTTTATGAAGATGATGTCATGTAA
1 AAATTCTTGAATTACTTTAGCTGAATGACTTTTTTTTGTGAAGATGATGTCATGTAA
*
6915338 AAATTCTTGAATTACTTTAGCTGAATGACCTTTTTTTGTGAAGATGATGTCATG
1 AAATTCTTGAATTACTTTAGCTGAATGACTTTTTTTTGTGAAGATGATGTCATG
6915392 CAATCTAATA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 106 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (57 bp):
AAATTCTTGAATTACTTTAGCTGAATGACTTTTTTTTGTGAAGATGATGTCATGTAA
Found at i:6917597 original size:16 final size:17
Alignment explanation
Indices: 6917558--6917603 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
6917548 TTTTTACATT
*
6917558 TTTAA-TGAGTATTTAT
1 TTTAATTGAGTATTTAG
6917574 TGTTAATTGAGT-TTTAG
1 T-TTAATTGAGTATTTAG
6917591 TTTAATTG-GTATT
1 TTTAATTGAGTATT
6917604 AAGATTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 9 0.35
18 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (17 bp):
TTTAATTGAGTATTTAG
Found at i:6922814 original size:36 final size:36
Alignment explanation
Indices: 6922762--6922833 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
6922752 GGTTAGGAGA
6922762 GATTATGTGATGGTTTGATGAAGGTGGGCATCCAGG
1 GATTATGTGATGGTTTGATGAAGGTGGGCATCCAGG
*
6922798 GATTGTGTGATGGTTTGATGAAGGTGGGCATCCAGG
1 GATTATGTGATGGTTTGATGAAGGTGGGCATCCAGG
6922834 TTGTACTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.08, G:0.40, T:0.31
Consensus pattern (36 bp):
GATTATGTGATGGTTTGATGAAGGTGGGCATCCAGG
Found at i:6924406 original size:22 final size:22
Alignment explanation
Indices: 6924381--6924451 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
6924371 ATTTTATACT
6924381 ATTTTTTTTTGAATTTTTATGA
1 ATTTTTTTTTGAATTTTTATGA
**
6924403 ATTTTTTAAT-ATATTTTTATG-
1 ATTTTTTTTTGA-ATTTTTATGA
6924424 -TTTTTTTTTGAATATTTGTAT-A
1 ATTTTTTTTTGAAT-TTT-TATGA
6924446 ATTTTT
1 ATTTTT
6924452 ATATTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
20 9 0.23
21 5 0.13
22 20 0.51
23 5 0.13
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
ATTTTTTTTTGAATTTTTATGA
Found at i:6924430 original size:32 final size:31
Alignment explanation
Indices: 6924394--6924453 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
6924384 TTTTTTTGAA
*
6924394 TTTTTATGAAT-TTTTTAATATATTTTTATGTT
1 TTTTTATGAATATTTGT-ATA-ATTTTTATGTT
*
6924426 TTTTTTTGAATATTTGTATAATTTTTAT
1 TTTTTATGAATATTTGTATAATTTTTAT
6924454 ATTATTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.32
32 13 0.52
33 4 0.16
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (31 bp):
TTTTTATGAATATTTGTATAATTTTTATGTT
Found at i:6924451 original size:42 final size:43
Alignment explanation
Indices: 6924367--6924460 Score: 115
Period size: 42 Copynumber: 2.2 Consensus size: 43
6924357 AGCAATTTGC
6924367 ATATATTTTATACTATTTTTTTTTGAATTTTTATGAATTTTTT
1 ATATATTTTATACTATTTTTTTTTGAATTTTTATGAATTTTTT
*
6924410 AATATATTTT-TA-TGTTTTTTTTTGAATATTTGTAT-AA-TTTTT
1 -ATATATTTTATACTATTTTTTTTTGAAT-TTT-TATGAATTTTTT
6924452 ATATTATTT
1 ATA-TATTT
6924461 ACTTATATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
41 3 0.07
42 24 0.52
43 7 0.15
44 12 0.26
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.67
Consensus pattern (43 bp):
ATATATTTTATACTATTTTTTTTTGAATTTTTATGAATTTTTT
Found at i:6926086 original size:26 final size:26
Alignment explanation
Indices: 6926050--6926115 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
6926040 CCTATACATA
*
6926050 TTATTTATTTTGAAA-TATTTTATACG
1 TTATTTATTTT-AAATTATTATATACG
* *
6926076 TTATTTGTTTTAAATTATTATATATG
1 TTATTTATTTTAAATTATTATATACG
*
6926102 TATTTTTATTTTAA
1 T-TATTTATTTTAA
6926116 GTTTCTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 20 0.61
27 10 0.30
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (26 bp):
TTATTTATTTTAAATTATTATATACG
Found at i:6926207 original size:17 final size:17
Alignment explanation
Indices: 6926185--6926218 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6926175 TTAATCTCCC
*
6926185 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
6926202 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
6926219 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:6926289 original size:26 final size:26
Alignment explanation
Indices: 6926260--6926341 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 26
6926250 TCATGTGTAA
*
6926260 TATTTAATTTAAACTGTTTTATATGT
1 TATTTAATTTAAACTGTTTTATATAT
* * *
6926286 TATTTACTTT-AAGTTTTTTATATAT
1 TATTTAATTTAAACTGTTTTATATAT
* * * *
6926311 TATTTATTTTAAATTTTTTTTACATAT
1 TATTTAATTTAAA-CTGTTTTATATAT
6926338 TATT
1 TATT
6926342 ATTTTGAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
25 21 0.45
26 11 0.23
27 15 0.32
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TATTTAATTTAAACTGTTTTATATAT
Found at i:6926313 original size:25 final size:25
Alignment explanation
Indices: 6926260--6926329 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
6926250 TCATGTGTAA
* * *
6926260 TATTTAATTTAAACTGTTTTATATGT
1 TATTTACTTTAAA-TTTTTTATATAT
*
6926286 TATTTACTTTAAGTTTTTTATATAT
1 TATTTACTTTAAATTTTTTATATAT
*
6926311 TATTTATTTTAAATTTTTT
1 TATTTACTTTAAATTTTTT
6926330 TTACATATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
25 27 0.71
26 11 0.29
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (25 bp):
TATTTACTTTAAATTTTTTATATAT
Found at i:6926329 original size:27 final size:25
Alignment explanation
Indices: 6926276--6926388 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
6926266 ATTTAAACTG
* *
6926276 TTTTATATGTTATTTACTTTAAGTT
1 TTTTATATATTATTTATTTTAAGTT
*
6926301 TTTTATATATTATTTATTTTAAATTTT
1 TTTTATATATTATTTATTTT-AA-GTT
* * *
6926328 TTTTACATATTA-TTATTTTGAG-C
1 TTTTATATATTATTTATTTTAAGTT
* * *
6926351 CTCT-TA-A-TATTTATTTTAAATT
1 TTTTATATATTATTTATTTTAAGTT
6926373 TCTTTATATATTATTT
1 T-TTTATATATTATTT
6926389 TAAACTTGTC
Statistics
Matches: 65, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
20 2 0.03
21 9 0.14
22 1 0.02
23 4 0.06
24 2 0.03
25 20 0.31
26 14 0.22
27 13 0.20
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTATATATTATTTATTTTAAGTT
Found at i:6926376 original size:21 final size:22
Alignment explanation
Indices: 6926352--6926392 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6926342 ATTTTGAGCC
6926352 TCTTAATAT-TTATTTTAAATT
1 TCTTAATATATTATTTTAAATT
*
6926373 TCTTTATATATTATTTTAAA
1 TCTTAATATATTATTTTAAA
6926393 CTTGTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TCTTAATATATTATTTTAAATT
Found at i:6926408 original size:26 final size:23
Alignment explanation
Indices: 6926352--6926443 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 23
6926342 ATTTTGAGCC
*
6926352 TCTTAATAT-TTATTTTAAATT-
1 TCTTTATATATTATTTTAAATTG
6926373 TCTTTATATATTATTTTAAACTTG
1 TCTTTATATATTATTTTAAA-TTG
*
6926397 TCTTTACGTATATTTATTTAAAATTG
1 TCTTTA--TATA-TTATTTTAAATTG
*
6926423 TC-TTATACAACTTATTTTAAA
1 TCTTTATA-TA-TTATTTTAAA
6926444 CTCTCTTATT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
21 8 0.14
22 10 0.17
23 4 0.07
24 16 0.27
25 3 0.05
26 9 0.15
27 9 0.15
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (23 bp):
TCTTTATATATTATTTTAAATTG
Found at i:6932535 original size:43 final size:43
Alignment explanation
Indices: 6932483--6932639 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
6932473 TTCACAAGCT
*
6932483 TTAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTATAGATC
1 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATC
* * ** *** **
6932526 TTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGGCGAT-GGCC
1 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTTATAGATC
* *
6932569 TTTAAACCCCTAAGCAGTAGGGTAACAGGCTGATTTTACAGATC
1 -TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATC
* *
6932613 TTAACCCCCTAAGCAGTAGGGAAACAG
1 TTAAACCCCTAAGCAGTAGGGTAACAG
6932640 ATCGAAGACG
Statistics
Matches: 88, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
43 56 0.64
44 32 0.36
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (43 bp):
TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATC
Found at i:6932627 original size:87 final size:87
Alignment explanation
Indices: 6932481--6932646 Score: 296
Period size: 87 Copynumber: 1.9 Consensus size: 87
6932471 AATTCACAAG
* *
6932481 CTTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTATAGATCTTAACCCCCTAAGCAGTAGG
1 CTTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
*
6932546 GAAACAGATTGAAGGCGATGGC
66 GAAACAGATCGAAGGCGATGGC
*
6932568 CTTTAAACCCCTAAGCAGTAGGGTAACAGGCTGATTTTACAGATCTTAACCCCCTAAGCAGTAGG
1 CTTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
6932633 GAAACAGATCGAAG
66 GAAACAGATCGAAG
6932647 ACGGCGAATC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (87 bp):
CTTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGG
GAAACAGATCGAAGGCGATGGC
Found at i:6932934 original size:89 final size:89
Alignment explanation
Indices: 6932778--6932948 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 89
6932768 AGACGGTAGA
* * ** *
6932778 TCTTGTCTCCCTGAAGTTGCAGCAGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCGAAGACAGAAAATCTTATCTTCCTGAAGTTGC
6932843 AGT-GAAGCAGATTGAAGTCACTAG
66 AGTGGAA-CAGATTGAAGTCACTAG
** * *
6932867 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGAAAATCTTATTTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATC-GAAGACAGAAAATCTTATCTTCCTGAAGTTG
6932931 CAGTGGAACAGATTGAAG
65 CAGTGGAACAGATTGAAG
6932949 CTAAATTACA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.94
90 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCGAAGACAGAAAATCTTATCTTCCTGAAGTTGC
AGTGGAACAGATTGAAGTCACTAG
Found at i:6932982 original size:49 final size:47
Alignment explanation
Indices: 6932777--6933127 Score: 194
Period size: 45 Copynumber: 7.7 Consensus size: 47
6932767 AAGACGGTAG
* ** * * * * *
6932777 ATCTTGTCTCCCTGAAGTTGCAGCAGAGCAGATCGAATACA--GCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAATAAATTACAA
* * * * *
6932822 ATCTTGTCTTCCTGAAGTTGCAGT-GAAGCAGATTG---AAGTCACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAATAAATTACAA
* * * * * *
6932866 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-GA-AA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAATAAATTACAA
* * *
6932911 ATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAA--TAAATTACAA
* * * * *
6932960 ATCTTATCACTCTGAAGTTGCAGTAGAA-A-A--G-AT-CATCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAATAAATTACAA
* * * * *
6933001 ATCTTATCTCCCTGAAGTTGCAGCGGAGCAGACT-AA-AGATAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAATAAATTACAA
* * * *
6933046 ATCTTATCTCCCTAAAGTAGCAGTGGAACAGATTAAAGCTAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAA--TAAATTACAA
* * *
6933095 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGAT
6933128 CAAAACAAAC
Statistics
Matches: 231, Mismatches: 54, Indels: 38
0.72 0.17 0.12
Matches are distributed among these distances:
41 28 0.12
42 3 0.01
43 1 0.00
44 32 0.14
45 100 0.43
46 3 0.01
47 4 0.02
48 2 0.01
49 58 0.25
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (47 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAATAAATTACAA
Found at i:6933030 original size:135 final size:135
Alignment explanation
Indices: 6932867--6933154 Score: 443
Period size: 135 Copynumber: 2.1 Consensus size: 135
6932857 AAGTCACTAG
* * * * * *
6932867 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGA-AAATCTTATTTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGATA-ACAAATCTTATCTCCCTAAAGTAG
* *
6932931 CAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCACTCTGAAGTTGCAGTAGAAAAGATCAT
65 CAGTGGAACAGATTAAAGCTAAATTACAGATCTTATCACTCTGAAGTTGCAGTAGAAAAGATCAA
*
6932996 CACAAA
130 AACAAA
6933002 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTAGC
1 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTAGC
* **
6933067 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAA
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCACTCTGAAGTTGCAGTAGAAAAGATCAAA
6933132 ACAAA
131 ACAAA
*
6933137 CCTTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTT
6933155 ACAGTAGAGT
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
134 1 0.01
135 138 0.99
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (135 bp):
TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTAGC
AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCACTCTGAAGTTGCAGTAGAAAAGATCAAA
ACAAA
Found at i:6934775 original size:26 final size:26
Alignment explanation
Indices: 6934739--6934804 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
6934729 CCTATACATA
*
6934739 TTATTTATTTTGAAA-TATTTTATACG
1 TTATTTATTTT-AAATTATTATATACG
* *
6934765 TTATTTGTTTTAAATTATTATATATG
1 TTATTTATTTTAAATTATTATATACG
*
6934791 TATTTTTATTTTAA
1 T-TATTTATTTTAA
6934805 GTTTCTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 20 0.61
27 10 0.30
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (26 bp):
TTATTTATTTTAAATTATTATATACG
Found at i:6935009 original size:25 final size:25
Alignment explanation
Indices: 6934964--6935077 Score: 67
Period size: 25 Copynumber: 4.6 Consensus size: 25
6934954 ATTTAAACTG
* * *
6934964 TTTTATATGTTATTGACTTTAAGTT
1 TTTTATATATTATTTATTTTAAGTT
*
6934989 TTTTATATATTATTTATTTTAAATTTCT
1 TTTTATATATTATTTATTTT-AA-GT-T
* * *
6935017 TTTTACATATTA-TTATTTTGAG-C
1 TTTTATATATTATTTATTTTAAGTT
* * *
6935040 CTCT-TA-A-TATTTATTTTAAATT
1 TTTTATATATTATTTATTTTAAGTT
6935062 TCTTTATATATTATTT
1 T-TTTATATATTATTT
6935078 TAAACTTGTC
Statistics
Matches: 64, Mismatches: 16, Indels: 17
0.66 0.16 0.18
Matches are distributed among these distances:
20 2 0.03
21 9 0.14
22 1 0.02
23 4 0.06
24 2 0.03
25 18 0.28
26 8 0.12
27 8 0.12
28 12 0.19
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTATATATTATTTATTTTAAGTT
Found at i:6935065 original size:21 final size:22
Alignment explanation
Indices: 6935041--6935081 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6935031 ATTTTGAGCC
6935041 TCTTAATAT-TTATTTTAAATT
1 TCTTAATATATTATTTTAAATT
*
6935062 TCTTTATATATTATTTTAAA
1 TCTTAATATATTATTTTAAA
6935082 CTTGTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TCTTAATATATTATTTTAAATT
Found at i:6935097 original size:26 final size:23
Alignment explanation
Indices: 6935041--6935132 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 23
6935031 ATTTTGAGCC
*
6935041 TCTTAATAT-TTATTTTAAATT-
1 TCTTTATATATTATTTTAAATTG
6935062 TCTTTATATATTATTTTAAACTTG
1 TCTTTATATATTATTTTAAA-TTG
*
6935086 TCTTTACGTATATTTATTTAAAATTG
1 TCTTTA--TATA-TTATTTTAAATTG
*
6935112 TC-TTATACAACTTATTTTAAA
1 TCTTTATA-TA-TTATTTTAAA
6935133 CTCTCTTATT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
21 8 0.14
22 10 0.17
23 4 0.07
24 16 0.27
25 3 0.05
26 9 0.15
27 9 0.15
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (23 bp):
TCTTTATATATTATTTTAAATTG
Found at i:6938264 original size:30 final size:31
Alignment explanation
Indices: 6938229--6938293 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
6938219 TACCTTTTAT
* *
6938229 TTTTTTAAAA-ATTAATTAATCTCACTTAAAA
1 TTTTTGAAAATATTAATTAATCTCA-TAAAAA
* *
6938260 TTTTTGAAAATTTTTATTAATCTCATAAAAA
1 TTTTTGAAAATATTAATTAATCTCATAAAAA
6938291 TTT
1 TTT
6938294 CAATTAGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.49
Consensus pattern (31 bp):
TTTTTGAAAATATTAATTAATCTCATAAAAA
Found at i:6942155 original size:20 final size:20
Alignment explanation
Indices: 6942119--6942157 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6942109 TATATGTAAA
6942119 AATAATATAAATATAAATTC
1 AATAATATAAATATAAATTC
6942139 AATAGATATAAAT-TAAATT
1 AATA-ATATAAATATAAATT
6942158 AAATTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAATATAAATATAAATTC
Found at i:6942965 original size:23 final size:23
Alignment explanation
Indices: 6942946--6942993 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
6942936 AGTATAATGA
6942946 TAAATTTTAATATACGATAATAG
1 TAAATTTTAATATACGATAATAG
6942969 TAAATTTTAATATACGATAATAG
1 TAAATTTTAATATACGATAATAG
6942992 TA
1 TA
6942994 TGATGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (23 bp):
TAAATTTTAATATACGATAATAG
Found at i:6946107 original size:22 final size:23
Alignment explanation
Indices: 6946081--6946135 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
6946071 ATTCCTTTTC
*
6946081 TATTATTATTTATTATATTGT-A
1 TATTATTATTTATTAGATTGTCA
*
6946103 TATTATTA-TTATTAGATTTTCA
1 TATTATTATTTATTAGATTGTCA
*
6946125 TGTTATTATTT
1 TATTATTATTT
6946136 CTTTCTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.36
22 16 0.57
23 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TATTATTATTTATTAGATTGTCA
Found at i:6946275 original size:3 final size:3
Alignment explanation
Indices: 6946267--6946453 Score: 127
Period size: 3 Copynumber: 62.3 Consensus size: 3
6946257 TTTTTACTAC
* *
6946267 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
6946315 ATCT AAT A-T ATT ATT ATT ACCTT -TT ATT ATT ATT -TCT ACTGT ATT
1 AT-T ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT AT-T A-T-T ATT
* * * * * *
6946360 ATT ACT ATT ATT ATT ATT ATT -TT -TT CTT TTT ATT ACT GTT ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
6946405 ATT ATT TTT ATT -TT CACT ACT ATT ATT ATT ATC AAT ATT ATC ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6946450 ATT A
1 ATT A
6946454 CTATCGTTTT
Statistics
Matches: 147, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
2 13 0.09
3 125 0.85
4 4 0.03
5 5 0.03
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:6959329 original size:19 final size:20
Alignment explanation
Indices: 6959292--6959331 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6959282 ATATGTACGT
*
6959292 ATATATATTAAAGATATATAC
1 ATATATATT-AAGACATATAC
6959313 ATATATATT-AGACATATAC
1 ATATATATTAAGACATATAC
6959332 TACTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATATATTAAGACATATAC
Found at i:6959618 original size:29 final size:24
Alignment explanation
Indices: 6959560--6959624 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 24
6959550 ATATAGCAAT
*
6959560 AATATATACATAATATGGTATTAA
1 AATATATACATAATATAGTATTAA
6959584 AA-ATATACATATATAATAGTATTTAAGA
1 AATATATACATA-AT-ATAGTA-TT-A-A
6959612 AATATATACATAA
1 AATATATACATAA
6959625 GGTGATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 9 0.26
24 4 0.12
25 5 0.15
26 2 0.06
27 1 0.03
28 4 0.12
29 9 0.26
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (24 bp):
AATATATACATAATATAGTATTAA
Found at i:6959624 original size:25 final size:24
Alignment explanation
Indices: 6959560--6959640 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 24
6959550 ATATAGCAAT
6959560 AATATATACATAATATGGTATTAAA
1 AATATATACATAATA-GGTATTAAA
*
6959585 AATATACATATATAATA-GTATTTAAGA
1 AATAT--ATACATAATAGGTA-TTAA-A
6959612 AATATATACAT-A-AGGTGATATAAA
1 AATATATACATAATAGGT-AT-TAAA
6959636 AATAT
1 AATAT
6959641 GTCCACGGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
23 1 0.02
24 10 0.21
25 17 0.36
26 4 0.09
27 15 0.32
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (24 bp):
AATATATACATAATAGGTATTAAA
Found at i:6959705 original size:20 final size:19
Alignment explanation
Indices: 6959680--6959744 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
6959670 TAATAACATT
6959680 AAAATACATACATAATATAA
1 AAAATACATA-ATAATATAA
* *
6959700 AAAATATATAATATATATTA
1 AAAATACATAATA-ATATAA
* *
6959720 GAAAT-GATAATAATATATA
1 AAAATACATAATAATATA-A
6959739 AAAATA
1 AAAATA
6959745 ACTATTCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.11
19 14 0.39
20 18 0.50
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATACATAATAATATAA
Found at i:6959830 original size:23 final size:20
Alignment explanation
Indices: 6959804--6959869 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 20
6959794 GTTAGAAATG
6959804 TACAATAGTATTAGAAATATA
1 TACAATAGTATTA-AAATATA
*
6959825 CCTACAATAGTATAAAAGATATA
1 --TACAATAGTATTAAA-ATATA
6959848 TAACTAATAGTATTAAAATATA
1 T-AC-AATAGTATTAAAATATA
6959870 AACATAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 28 0.74
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (20 bp):
TACAATAGTATTAAAATATA
Found at i:6959889 original size:25 final size:25
Alignment explanation
Indices: 6959847--6959916 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
6959837 TAAAAGATAT
6959847 ATAACTAATAGTATTAAAATATAAAC
1 ATAA-TAATAGTATTAAAATATAAAC
* *
6959873 ATAATAATA-TATGTAAAATGTATAC
1 ATAATAATAGTAT-TAAAATATAAAC
6959898 ATAAT-ATAGT-TATAAAATA
1 ATAATAATAGTAT-TAAAATA
6959917 AAGAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
24 13 0.34
25 21 0.55
26 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATAATAGTATTAAAATATAAAC
Found at i:6961197 original size:17 final size:16
Alignment explanation
Indices: 6961170--6961211 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
6961160 TTGGTATTTA
*
6961170 GGTTATTGGGCTGATG
1 GGTTATTGGGCTAATG
6961186 GGTTAGTTGGGCTAATG
1 GGTTA-TTGGGCTAATG
6961203 GG-TATTGGG
1 GGTTATTGGG
6961212 TTTGCTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 12 0.50
ACGTcount: A:0.14, C:0.05, G:0.45, T:0.36
Consensus pattern (16 bp):
GGTTATTGGGCTAATG
Found at i:6961956 original size:73 final size:73
Alignment explanation
Indices: 6961759--6961985 Score: 310
Period size: 73 Copynumber: 3.0 Consensus size: 73
6961749 ATAAATTGAA
* * *
6961759 AAATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTT
1 AAATATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6961824 GACTTTTTAAA
66 GA-TTTTT--G
* * *
6961835 AAAAATAGGAATTGACAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAATATA--AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
6961900 TTGATTTTTG
64 TTGATTTTTG
* * * *
6961910 AAATATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATT
1 AAATATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6961975 GATTTTTG
66 GATTTTTG
6961983 AAA
1 AAA
6961986 AACATAAATT
Statistics
Matches: 135, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
73 63 0.47
75 6 0.04
76 5 0.04
77 5 0.04
78 56 0.41
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (73 bp):
AAATATAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:6962064 original size:87 final size:87
Alignment explanation
Indices: 6961916--6962171 Score: 298
Period size: 89 Copynumber: 2.9 Consensus size: 87
6961906 TTTGAAATAT
* * * *
6961916 AAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTT
1 AAATTGAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
6961981 TGAAAAACATAAATTAAAAAAC-G
64 TGAAAAACAAAAATTAAAAAACAG
* * *
6962004 AAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 -AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
** ** *
6962069 TTGAAAAGTAAAAATTGGAAAGCAG
63 TTGAAAAACAAAAATTAAAAAACAG
* * *
6962094 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTTACCTCTCACAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
6962159 ACAAACAGAAATT
66 AAAAACAAAAATT
6962172 GAAATTACCT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
87 49 0.35
89 92 0.65
90 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (87 bp):
AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAAAAATTAAAAAACAG
Found at i:6962278 original size:76 final size:75
Alignment explanation
Indices: 6962086--6962320 Score: 361
Period size: 76 Copynumber: 3.2 Consensus size: 75
6962076 GTAAAAATTG
* * * *
6962086 GAAAGCAGAAATTGAAAA-TACCTCAGCGTGCCCTGAGGCTCAACTTACCTCTCACAATATGAGT
1 GAAAACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6962150 TGA--TTTTT
66 TGATTTTTTT
*
6962158 GACAAACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 GA-AAACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
6962222 TTGATTTTTTT
65 TTGATTTTTTT
* *
6962233 GAAAGACAGAAATTGAAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 GAAA-ACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
6962298 TTGATTTTTTT
65 TTGATTTTTTT
6962309 GAAAACAGAAAT
1 GAAAACAGAAAT
6962321 AAAAACATCA
Statistics
Matches: 149, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
72 5 0.03
73 56 0.38
74 2 0.01
75 25 0.17
76 61 0.41
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (75 bp):
GAAAACAGAAATTGAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTT
Found at i:6963204 original size:43 final size:43
Alignment explanation
Indices: 6963094--6963254 Score: 195
Period size: 43 Copynumber: 3.7 Consensus size: 43
6963084 TTATTAGAAT
* * *
6963094 GCCC-TTTCGGGTTTTCATCC-TAAT-CTTTTATGTTAATTAAGAC
1 GCCCTTTTCGGGTTTTCA-CCTTGATCCTTTT-TATT-ATCAAGAC
* *
6963137 GTCCTTTTCGGG-TTTCACCTTGATCCTTTTTATTATCAAGAT
1 GCCCTTTTCGGGTTTTCACCTTGATCCTTTTTATTATCAAGAC
6963179 GCCCTTTTCGGGTTTTCACCTTGATCCTTTTTATTATCAAGAC
1 GCCCTTTTCGGGTTTTCACCTTGATCCTTTTTATTATCAAGAC
**
6963222 GCCCTTTTTAGGTTTTCACCTTGATCCCTTTTT
1 GCCCTTTTCGGGTTTTCACCTTGAT-CCTTTTT
6963255 TTTTTAGGCA
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
42 19 0.18
43 66 0.63
44 19 0.18
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.47
Consensus pattern (43 bp):
GCCCTTTTCGGGTTTTCACCTTGATCCTTTTTATTATCAAGAC
Found at i:6974792 original size:21 final size:22
Alignment explanation
Indices: 6974738--6974800 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
6974728 TAGGAATGAA
*
6974738 AAATGTATACATAATA-ATACT
1 AAATATATACATAATATATACT
6974759 AAATATAGGTACATAATATATA-T
1 AAATATA--TACATAATATATACT
*
6974782 ATATATATACATAATATAT
1 AAATATATACATAATATAT
6974801 TTAAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 18 0.49
23 16 0.43
24 3 0.08
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (22 bp):
AAATATATACATAATATATACT
Found at i:6974936 original size:19 final size:20
Alignment explanation
Indices: 6974899--6974938 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6974889 ATATGTACGT
*
6974899 ATATATATTAAAGATATATAC
1 ATATATATT-AAGACATATAC
6974920 ATATATATT-AGACATATAC
1 ATATATATTAAGACATATAC
6974939 TACTACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATATATTAAGACATATAC
Found at i:6975119 original size:20 final size:21
Alignment explanation
Indices: 6975076--6975143 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 21
6975066 TATGAAAATA
*
6975076 ATACTATATAAAAAGTATATATAT
1 ATACTA-ATAATAA-TA-ATATAT
*
6975100 ATACTTATAATAA-AATATAT
1 ATACTAATAATAATAATATAT
* * *
6975120 GTACTAATATTAATAATAAAT
1 ATACTAATAATAATAATATAT
6975141 ATA
1 ATA
6975144 ATAGGAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 16 0.44
21 9 0.25
23 6 0.17
24 5 0.14
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (21 bp):
ATACTAATAATAATAATATAT
Found at i:6975165 original size:18 final size:18
Alignment explanation
Indices: 6975131--6975173 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6975121 TACTAATATT
* *
6975131 AATAATAAATATAATAGG
1 AATAATAAATAAAATAGC
6975149 AATAA-AAATAAATATAGC
1 AATAATAAATAAA-ATAGC
6975167 AATAATA
1 AATAATA
6975174 TATACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
AATAATAAATAAAATAGC
Found at i:6975215 original size:25 final size:25
Alignment explanation
Indices: 6975173--6975227 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
6975163 TAGCAATAAT
*
6975173 ATATACATAATATGGTA-TTAA-AA
1 ATATACATAATATAGTATTTAAGAA
6975196 ATATACATATATAATAGTATTTAAGAA
1 ATATACATA-AT-ATAGTATTTAAGAA
6975223 ATATA
1 ATATA
6975228 TACATAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 9 0.33
24 2 0.07
25 5 0.19
26 4 0.15
27 7 0.26
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (25 bp):
ATATACATAATATAGTATTTAAGAA
Found at i:6975228 original size:29 final size:24
Alignment explanation
Indices: 6975170--6975306 Score: 70
Period size: 24 Copynumber: 5.6 Consensus size: 24
6975160 ATATAGCAAT
*
6975170 AATATATACATAATATGGTATTAA
1 AATATATACATAATATAGTATTAA
6975194 AA-ATATACATATATAATAGTATTTAAGA
1 AATATATACATA-AT-ATAGTA-TT-A-A
** *
6975222 AATATATACATAAGGT-GATATAAA
1 AATATATACATAATATAG-TATTAA
* ** *
6975246 AATATGTACACGGA-ATAGTATAAGA
1 AATATATACA-TAATATAGTATTA-A
*
6975271 AATATATAC-TAATA-A-CATTAA
1 AATATATACATAATATAGTATTAA
*
6975292 AATACATACATAATA
1 AATATATACATAATA
6975307 CAAAAAATAT
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
21 9 0.10
22 8 0.09
23 11 0.13
24 21 0.24
25 17 0.20
26 4 0.05
27 4 0.05
28 4 0.05
29 9 0.10
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (24 bp):
AATATATACATAATATAGTATTAA
Found at i:6975234 original size:25 final size:23
Alignment explanation
Indices: 6975170--6975306 Score: 84
Period size: 25 Copynumber: 5.7 Consensus size: 23
6975160 ATATAGCAAT
6975170 AATATATACATAATATGGTATTAAA
1 AATATATACATAATA--GTATTAAA
*
6975195 AATATACATATATAATAGTATTTAAGA
1 AATAT--ATACATAATAGTA-TTAA-A
*
6975222 AATATATACATAA-GGTGATATAAA
1 AATATATACATAATAGT-AT-TAAA
* *
6975246 AATATGTACACGGAATAGTA-TAAGA
1 AATATATACA--TAATAGTATTAA-A
**
6975271 AATATATAC-TAATAACATT-AA
1 AATATATACATAATAGTATTAAA
*
6975292 AATACATACATAATA
1 AATATATACATAATA
6975307 CAAAAAATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
21 9 0.10
22 11 0.12
23 1 0.01
24 16 0.18
25 28 0.31
26 7 0.08
27 17 0.19
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (23 bp):
AATATATACATAATAGTATTAAA
Found at i:6975294 original size:21 final size:20
Alignment explanation
Indices: 6975270--6975319 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6975260 ATAGTATAAG
*
6975270 AAATATATAC-TAATAACATTA
1 AAATATATACATAAT-ACA-AA
*
6975291 AAATACATACATAATACAAA
1 AAATATATACATAATACAAA
6975311 AAATATATA
1 AAATATATA
6975320 ATATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATATACATAATACAAA
Found at i:6975440 original size:23 final size:20
Alignment explanation
Indices: 6975414--6975483 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 20
6975404 GTTAGAAATG
6975414 TACAATAGTATTAGAAATATA
1 TACAATAGTATTA-AAATATA
*
6975435 CCTACAATAGTATAAAAGATATA
1 --TACAATAGTATTAAA-ATATA
6975458 TAACTAATAGTATTAAAATATA
1 T-AC-AATAGTATTAAAATATA
6975480 TACA
1 TACA
6975484 TAATAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 10 0.24
23 28 0.67
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (20 bp):
TACAATAGTATTAAAATATA
Found at i:6975499 original size:25 final size:25
Alignment explanation
Indices: 6975417--6975526 Score: 92
Period size: 24 Copynumber: 4.6 Consensus size: 25
6975407 AGAAATGTAC
* * *
6975417 AATAGTATTAGAA-ATATACCT-AC
1 AATAGTATTAAAATATATACATAAT
*
6975440 AATAGTA-TAAAAGATAT--ATAACT
1 AATAGTATTAAAATATATACATAA-T
6975463 AATAGTATTAAAATATATACATAAT
1 AATAGTATTAAAATATATACATAAT
*
6975488 AATA-TATGTAAAATGTATACATAAT
1 AATAGTAT-TAAAATATATACATAAT
6975513 -ATAGT-TATAAAATA
1 AATAGTAT-TAAAATA
6975527 AAGAAAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
21 1 0.01
22 5 0.07
23 18 0.25
24 22 0.31
25 22 0.31
26 4 0.06
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
AATAGTATTAAAATATATACATAAT
Found at i:6976333 original size:8 final size:8
Alignment explanation
Indices: 6976320--6976349 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6976310 AAAGAAAATG
6976320 TATTTTTT
1 TATTTTTT
6976328 TATTTTTT
1 TATTTTTT
*
6976336 TGTTTTTT
1 TATTTTTT
6976344 TATTTT
1 TATTTT
6976350 CCTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (8 bp):
TATTTTTT
Found at i:6976845 original size:16 final size:16
Alignment explanation
Indices: 6976813--6976853 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
6976803 TTGGTATTTA
6976813 GGTTATTGGGCTGATG
1 GGTTATTGGGCTGATG
6976829 GGTTAGTTGGGCT-ATG
1 GGTTA-TTGGGCTGATG
6976845 GG-TATTGGG
1 GGTTATTGGG
6976854 TTTGCTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.21
15 2 0.08
16 10 0.42
17 7 0.29
ACGTcount: A:0.12, C:0.05, G:0.46, T:0.37
Consensus pattern (16 bp):
GGTTATTGGGCTGATG
Found at i:6977007 original size:64 final size:64
Alignment explanation
Indices: 6976906--6977038 Score: 230
Period size: 64 Copynumber: 2.1 Consensus size: 64
6976896 GGCTTCTACA
* * *
6976906 ATAAGCATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGAC
1 ATAAGCATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
*
6976970 ATAAGCATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGTATCCTAATCATTTGAC
1 ATAAGCATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
6977034 ATAAG
1 ATAAG
6977039 GATAGATACA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (64 bp):
ATAAGCATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
Found at i:6977246 original size:87 final size:86
Alignment explanation
Indices: 6977096--6977356 Score: 335
Period size: 87 Copynumber: 3.0 Consensus size: 86
6977086 GAATTCACAA
* * * *
6977096 GCCTTAACCCCCTAAGCAGTAGGGTAATAGG-GTTAATTTACAGATCTTAACCCCCTAAATAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCG-GAATTTACAGATCTTAACCCCCTAAGTAGTA
*
6977160 GGAAAACAGATCAAAGGTGATGG
65 GG-AAACAGATCGAAGGTGATGG
* * * * * *
6977183 GCCTTAAACCCTTAAGCAGTAGGGGAACAGGCGGCATTTGCAGATTTTAACCCCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCGGAATTTACAGATCTTAACCCCCTAAGTAGTA-
6977248 GGAAACAGATCGAAGGTGATGG
65 GGAAACAGATCGAAGGTGATGG
* * *
6977270 GCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTATAGATCTTAACTCCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCGGAATTTACAGATCTTAACCCCCTAAGTAGTAG
* *
6977335 TGAAATAGATCGAAGATGATGG
66 -GAAACAGATCGAAGGTGATGG
6977357 ATCTTATCAC
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.01
87 146 0.97
88 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (86 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCGGAATTTACAGATCTTAACCCCCTAAGTAGTAG
GAAACAGATCGAAGGTGATGG
Found at i:6977291 original size:44 final size:43
Alignment explanation
Indices: 6977141--6977512 Score: 146
Period size: 44 Copynumber: 8.7 Consensus size: 43
6977131 ATTTACAGAT
* ** * * *
6977141 CTTAACCCCCTAAATAGTAGGAAAACAGATCAAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA-GTGATGGAC
* * * * * *
6977185 CTTAAACCCTTAAGCAGTAGGGGAACAG-GCGGCA-T-TTGCAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATC-GAAGTGATG--GAC
* * * *
6977228 TTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA-GTGATGGAC
* * * * *
6977272 CTTAAACCCCTAAGCAGTAGGGTAAA-AG-GCTGAATTTATAGAT
1 CTTAAACCCCTAAGCAGTAGGG-AAACAGATC-GAAGTGATGGAC
* * * *
6977315 CTT-AACTCCCTAAGTAGTAGTGAAATAGATCGAAGATGATGGAT
1 CTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAG-TGATGGAC
* * *
6977359 CTT-ATCACCCTAAGTAGTAGGGAAACAGATC-AA-AGAT-GAGC
1 CTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGTGATGGA-C
* * *
6977400 CTT-AACCCCTTAAGCAGTAGGGTAACAG-GCTGAAGACT-ATGGAT
1 CTTAAACCCC-TAAGCAGTAGGGAAACAGATC-GAAG--TGATGGAC
* ** * *
6977444 CTT-ATCACTTTAAGCAGTAGGGAAACAGATC-AA-AGATGGGC
1 CTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGTGATGGAC
* *
6977485 CTTAACCCCCTAAGCAGTAGGGTAACAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAG
6977513 GCTGAAGATT
Statistics
Matches: 242, Mismatches: 61, Indels: 53
0.68 0.17 0.15
Matches are distributed among these distances:
40 6 0.02
41 51 0.21
42 11 0.05
43 57 0.24
44 107 0.44
45 8 0.03
46 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGTGATGGAC
Found at i:6977512 original size:41 final size:42
Alignment explanation
Indices: 6977229--6977600 Score: 180
Period size: 44 Copynumber: 8.6 Consensus size: 42
6977219 TTTGCAGATT
* * *
6977229 TTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGCC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-AA-GAGATGGACC
* * * *** * *
6977273 TTAAACCCCTAAGCAGTAGGGTAAA-AGGCTGAATTTATAGATC
1 TTAACCCCCTAAGCAGTAGGG-AAACA-GATCAAGAGATGGACC
* * * * *
6977316 TTAACTCCCTAAGTAGTAGTGAAATAGATCGAAGATGATGGATC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-AAGA-GATGGACC
* * *
6977360 TTATCACCCTAAGTAGTAGGGAAACAGATCAA-AGAT-GAGCC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAGAGATGGA-CC
* * * * * *
6977401 TTAACCCCTTAAGCAGTAGGGTAACAGGCTGAAGACTATGGATC
1 TTAACCCCCTAAGCAGTAGGGAAACA-GATCAAGA-GATGGACC
* * ** *
6977445 TTATCACTTTAAGCAGTAGGGAAACAGATCAA-AGATGGGCC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAGAGATGGACC
* * * * * *
6977486 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTATAGATC
1 TTAACCCCCTAAGCAGTAGGGAAACA-GATCAAGA-GATGGACC
* * * * *
6977530 TTATCTCCCTAAGCAGGAGTGG-AGCAGATCGAAGACA-GTGAGCC
1 TTAACCCCCTAAGCAGTAG-GGAAACAGATC-AAGAGATG-GA-CC
* *
6977574 TTGACCCCCTAAGCAGTAGGGTAACAG
1 TTAACCCCCTAAGCAGTAGGGAAACAG
6977601 GCTGGAAATT
Statistics
Matches: 243, Mismatches: 67, Indels: 36
0.70 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 51 0.21
42 15 0.06
43 40 0.16
44 126 0.52
45 9 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGAAACAGATCAAGAGATGGACC
Found at i:6977564 original size:44 final size:44
Alignment explanation
Indices: 6977516--6977652 Score: 113
Period size: 44 Copynumber: 3.1 Consensus size: 44
6977506 GTAACAGGCT
*
6977516 GAAGATTATAGATCTTATCTCCCTAAGCAGGAGTGGAGCAGATC
1 GAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * * * *
6977560 GAAGA-CAGT-GAGCCTTGA-CCCCCTAAGCAGTAG-GGTAACAGGCTG
1 GAAGATTA-TAGA-TCTT-ATCTCCCTAAGCAGTAGTGG-AGCA-GATC
* *
6977605 GAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC
1 GAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
6977648 GAAGA
1 GAAGA
6977653 CAGTTAGCCT
Statistics
Matches: 68, Mismatches: 15, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
43 11 0.16
44 46 0.68
45 11 0.16
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (44 bp):
GAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:6977617 original size:88 final size:88
Alignment explanation
Indices: 6977356--6977730 Score: 439
Period size: 88 Copynumber: 4.4 Consensus size: 88
6977346 GAAGATGATG
* * * * *
6977356 GATCTTATCACCCTAAGTAGTAG-GGAAACAGATC-AA-AGA-TGAGCCTTAACCCCTTAAGCAG
1 GATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAG
* **
6977417 TAGGGTAACAGGCTGAAGACTATG
65 TAGGGTAACAGGCTGAAGATTACA
* ** * * *
6977441 GATCTTATCACTTTAAGCAGTAG-GGAAACAGATC-AA-AGA-TGGGCCTTAACCCCCTAAGCAG
1 GATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAG
*
6977502 TAGGGTAACAGGCTGAAGATTATA
65 TAGGGTAACAGGCTGAAGATTACA
* *
6977526 GATCTTATCTCCCTAAGCAGGAGTGGAGCAGATCGAAGACAGTGAGCCTTGACCCCCTAAGCAGT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGT
6977591 AGGGTAACAGGCTGGAA-ATTACA
66 AGGGTAACAGGCT-GAAGATTACA
* *
6977614 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTTAGCCTTAACCCCCTAAGCAGT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGT
6977679 AGGGTAACAGGCTG-A-ATTACA
66 AGGGTAACAGGCTGAAGATTACA
* * * *
6977700 GATCTTGTCTGCCTAAGCTGTAGTCGAGCAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAG
6977731 GTTGAAATCA
Statistics
Matches: 260, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
85 104 0.40
86 37 0.14
87 3 0.01
88 113 0.43
89 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (88 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGT
AGGGTAACAGGCTGAAGATTACA
Found at i:6977672 original size:44 final size:43
Alignment explanation
Indices: 6977536--6977680 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 43
6977526 GATCTTATCT
* *
6977536 CCCTAAGCAGGAGTGGAGCAGATCGAAGACAGTGAGCCTTGACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGT-AGCCTTAACC
* * * * * * *
6977580 CCCTAAGCAGTAG-GGTAACAGGCTGGAAATTACAG-A-TCTTATCT
1 CCCTAAGCAGTAGTGG-AGCA-GATCG-AA-GACAGTAGCCTTAACC
*
6977624 CCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTTAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-TAGCCTTAACC
6977668 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
6977681 GGTAACAGGC
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
41 4 0.05
42 2 0.03
43 6 0.08
44 52 0.68
45 6 0.08
46 2 0.03
47 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.19
Consensus pattern (43 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAGCCTTAACC
Found at i:6978081 original size:28 final size:28
Alignment explanation
Indices: 6978041--6978095 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6978031 TTGCAGTGGA
* *
6978041 GCAGTGGAGTAGATCGAAGCAACAAGAC
1 GCAGTGGACTAGAACGAAGCAACAAGAC
* *
6978069 GCAGTGGACTAGAACGAGGCTACAAGA
1 GCAGTGGACTAGAACGAAGCAACAAGA
6978096 AGAAGAGGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.33, T:0.11
Consensus pattern (28 bp):
GCAGTGGACTAGAACGAAGCAACAAGAC
Found at i:6979472 original size:26 final size:25
Alignment explanation
Indices: 6979432--6979511 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 25
6979422 ATTCCTTCTC
*
6979432 TATTATTATT-TATTAT-ATTGTATAT
1 TATTATTATTAGATTATCA-TGT-TAT
6979457 TATTATTATTAGATTATCATGTTAT
1 TATTATTATTAGATTATCATGTTAT
6979482 TATTTATTATTAGATTATCATGTTAT
1 TA-TTATTATTAGATTATCATGTTAT
6979508 TATT
1 TATT
6979512 TCTTTCTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
25 17 0.33
26 33 0.65
27 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (25 bp):
TATTATTATTAGATTATCATGTTAT
Found at i:6979525 original size:26 final size:26
Alignment explanation
Indices: 6979454--6979512 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
6979444 TTATATTGTA
6979454 TATTA-TTATTATTAGATTATCATGT
1 TATTATTTATTATTAGATTATCATGT
6979479 TATTATTTATTATTAGATTATCATGT
1 TATTATTTATTATTAGATTATCATGT
6979505 TATTATTT
1 TATTATTT
6979513 CTTTCTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (26 bp):
TATTATTTATTATTAGATTATCATGT
Found at i:6979655 original size:3 final size:3
Alignment explanation
Indices: 6979647--6979822 Score: 123
Period size: 3 Copynumber: 59.3 Consensus size: 3
6979637 TTTTTCCTAC
* *
6979647 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATCT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * *
6979693 A-T ATT ATT ATT ACCTT -TT ATT ATT ATT ACT ATT -GT ATT ATT ACT
1 ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
6979737 ATT ATT ATT A-T ATT -TT CATT TTT ATT ACT GTT ACT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
6979780 TTT ATT -TT CACT ACT ATT ATT ATT ATC AAT ATT ATC ATT ATT A
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6979823 CTATCGTTTT
Statistics
Matches: 135, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
2 13 0.10
3 115 0.85
4 5 0.04
5 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6979761 original size:29 final size:27
Alignment explanation
Indices: 6979651--6979805 Score: 99
Period size: 29 Copynumber: 5.7 Consensus size: 27
6979641 TCCTACATTA
* * *
6979651 TTATTATTATTATTATTATTATTATTA
1 TTATTACTATTATTATTATTTTTATTT
* *
6979678 TTATTACTATCTAATATATTATTATTACCTT
1 TTATTACTAT-T-AT-TATTATTTTTA-TTT
* *
6979709 TTA-T--TATTATTACTA-TTGTA---
1 TTATTACTATTATTATTATTTTTATTT
6979729 TTATTACTATTATTATTATATTTTCATTT
1 TTATTACTATTATTATTAT-TTTT-ATTT
*
6979758 TTATTACTGTTACTATATTATTTTTATTT
1 TTATTACTATTA-T-TATTATTTTTATTT
* *
6979787 TCACTACTATTATTATTAT
1 TTATTACTATTATTATTAT
6979806 CAATATTATC
Statistics
Matches: 101, Mismatches: 12, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
20 3 0.03
21 1 0.01
23 10 0.10
24 3 0.03
25 7 0.07
26 3 0.03
27 16 0.16
28 5 0.05
29 26 0.26
30 17 0.17
31 10 0.10
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATTACTATTATTATTATTTTTATTT
Found at i:6979798 original size:35 final size:35
Alignment explanation
Indices: 6979732--6979798 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
6979722 TATTGTATTA
* **
6979732 TTACTATTATTATTATATTTTCATTTTTATTACTG
1 TTACTATTATTATTATATTTTCACTACTATTACTG
*
6979767 TTACTA-TATTATTTTTATTTTCACTACTATTA
1 TTACTATTATTA-TTATATTTTCACTACTATTA
6979799 TTATTATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 5 0.19
35 22 0.81
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.61
Consensus pattern (35 bp):
TTACTATTATTATTATATTTTCACTACTATTACTG
Found at i:6983554 original size:22 final size:21
Alignment explanation
Indices: 6983529--6983570 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6983519 TCAATTCATC
* *
6983529 TTAATAATAATTTTGAAAATAT
1 TTAATAAAAATTAT-AAAATAT
6983551 TTAATAAAAATTATAAAATA
1 TTAATAAAAATTATAAAATA
6983571 CTAACGGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAATAAAAATTATAAAATAT
Found at i:6987223 original size:7 final size:6
Alignment explanation
Indices: 6987206--6987230 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6987196 CATTTGCTTT
6987206 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
6987231 TAAACTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:6990629 original size:5 final size:6
Alignment explanation
Indices: 6990612--6990637 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6990602 TGAAATTTAA
6990612 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
6990638 AGAATTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:6993068 original size:282 final size:281
Alignment explanation
Indices: 6992541--6993076 Score: 803
Period size: 282 Copynumber: 1.9 Consensus size: 281
6992531 AAGGTGTTCC
*
6992541 ACAGTTGCATCTGGTCTTGACAACACCCTCCATTACGCCCAAATTTGGCCTTAAGTAATGAAACA
1 ACAGTTGCATCTGGTCTTGACAACACCCTCCATTACCCCCAAATTTGGCCTTAAGTAATGAAACA
* *
6992606 GGTTTCTATAGTCTTTGTAATGATCGATGATTGGTTAGGAAGATGATTTCATCGATAGGCAAAAT
66 GGTTTCTATAGTCTTTGTAATGAGCGATGATTGGTTAGGAAGATAATTTCATCGATAGGCAAAAT
* * *
6992671 CTTTTTCTGGAAGATTAGTTCATTCCTAGCCAAATGACCAACATGCAAGCAGCTGTCCAACAACA
131 CTTTTTCTGGAAAATGAGTTCATTCCTAGCCAAATGACCAACAT-CAAGCAGCCGTCCAACAACA
* * * * * *
6992736 AAGCTACCATCTTCTTCTTCTTTTGTTACTTTCTTAAGAGTTACTGGCCTTACCCTGGTCTTGAC
195 AAGCCACCAGCTTCTTCTTCTTTTGTTACCTTCTTAACAGCTAATGGCCTTACCCTGGTCTTGAC
6992801 AACCAGAAAAAGGTGTTTCAGT
260 AACCAGAAAAAGGTGTTTCAGT
** * *
6992823 ACAGTTGCATCTGGTCTTTTCAACACCC-CTGATTACCCCCAAATTTGGCCTTATGTAATGAAAC
1 ACAGTTGCATCTGGTCTTGACAACACCCTC-CATTACCCCCAAATTTGGCCTTAAGTAATGAAAC
**
6992887 AGGTTTCTATCTTCTTTGTAATGAGCGATGATTGGTTAGGAAGATAATTTCATCGATAGGCAAAA
65 AGGTTTCTATAGTCTTTGTAATGAGCGATGATTGGTTAGGAAGATAATTTCATCGATAGGCAAAA
6992952 TCTTTTTCTGGAAAATGAGTTCATTCCTAGCCAACCATAATGACC-A-AT-AAGCAGCCGTCCAA
130 TCTTTTTCTGGAAAATGAGTTCATTCCTAG----CCA-AATGACCAACATCAAGCAGCCGTCCAA
*
6993014 CAACAAAGCCACCAGCTTCTTCTTCTTTTGTTGCCTTCTT-ACAGCTAATGGCCTTACCCTGGT
190 CAACAAAGCCACCAGCTTCTTCTTCTTTTGTTACCTTCTTAACAGCTAATGGCCTTACCCTGGT
6993077 TCATGAACTC
Statistics
Matches: 229, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
281 1 0.00
282 166 0.72
283 49 0.21
285 2 0.01
286 4 0.02
287 7 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (281 bp):
ACAGTTGCATCTGGTCTTGACAACACCCTCCATTACCCCCAAATTTGGCCTTAAGTAATGAAACA
GGTTTCTATAGTCTTTGTAATGAGCGATGATTGGTTAGGAAGATAATTTCATCGATAGGCAAAAT
CTTTTTCTGGAAAATGAGTTCATTCCTAGCCAAATGACCAACATCAAGCAGCCGTCCAACAACAA
AGCCACCAGCTTCTTCTTCTTTTGTTACCTTCTTAACAGCTAATGGCCTTACCCTGGTCTTGACA
ACCAGAAAAAGGTGTTTCAGT
Found at i:6993872 original size:12 final size:11
Alignment explanation
Indices: 6993853--6993883 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
6993843 TGTATAAAAC
6993853 TTATTTTATTA
1 TTATTTTATTA
6993864 TTAATTTTATTA
1 TT-ATTTTATTA
6993876 TTATTTTA
1 TTATTTTA
6993884 GAGGCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:6997140 original size:22 final size:22
Alignment explanation
Indices: 6997112--6997157 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6997102 TGACTTATAT
6997112 GATCGAAATAATTATAACAAAC
1 GATCGAAATAATTATAACAAAC
6997134 GATCGAAATAATTATAACAAAC
1 GATCGAAATAATTATAACAAAC
6997156 GA
1 GA
6997158 AAGTACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.22
Consensus pattern (22 bp):
GATCGAAATAATTATAACAAAC
Found at i:6998587 original size:16 final size:17
Alignment explanation
Indices: 6998566--6998599 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
6998556 TGTATGTCTA
6998566 ATTATTTTCAAAT-TTT
1 ATTATTTTCAAATATTT
6998582 ATTATTTTCAAATATTT
1 ATTATTTTCAAATATTT
6998599 A
1 A
6998600 ATAAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTTTCAAATATTT
Found at i:7000852 original size:8 final size:8
Alignment explanation
Indices: 7000839--7000881 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
7000829 TAATTATGAA
7000839 AAAAATTT
1 AAAAATTT
7000847 AAAAATTAT
1 AAAAATT-T
7000856 AAAAAATTTT
1 -AAAAA-TTT
7000866 AAAAATTT
1 AAAAATTT
*
7000874 TAAAATTT
1 AAAAATTT
7000882 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 6 0.19
11 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AAAAATTT
Found at i:7000887 original size:10 final size:9
Alignment explanation
Indices: 7000838--7000882 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
7000828 TTAATTATGA
*
7000838 AAAAAATTT
1 AAAAATTTT
*
7000847 AAAAATTATA
1 AAAAATT-TT
7000857 AAAAATTTT
1 AAAAATTTT
7000866 AAAAATTTT
1 AAAAATTTT
7000875 -AAAATTTT
1 AAAAATTTT
7000883 TTAAATAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.25
9 16 0.50
10 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:7000887 original size:19 final size:19
Alignment explanation
Indices: 7000830--7000878 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
7000820 ATTTTTCTTT
*
7000830 AATTATGAAAAAAATTTAAA
1 AATTAT-AAAAAATTTTAAA
7000850 AATTATAAAAAATTTTAAA
1 AATTATAAAAAATTTTAAA
*
7000869 AATTTTAAAA
1 AATTATAAAA
7000879 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AATTATAAAAAATTTTAAA
Found at i:7008706 original size:14 final size:14
Alignment explanation
Indices: 7008687--7008717 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7008677 ACATAGCTCT
7008687 ACACTTCCAGCCCG
1 ACACTTCCAGCCCG
*
7008701 ACACTTCCAGCCTG
1 ACACTTCCAGCCCG
7008715 ACA
1 ACA
7008718 ATTTAGTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.45, G:0.13, T:0.16
Consensus pattern (14 bp):
ACACTTCCAGCCCG
Found at i:7012967 original size:17 final size:18
Alignment explanation
Indices: 7012940--7012973 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7012930 TTTCACATAC
7012940 ATGTCTTATTTCTTTTAT
1 ATGTCTTATTTCTTTTAT
7012958 ATGT-TTATTTCTTTTA
1 ATGTCTTATTTCTTTTA
7012974 AAATTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (18 bp):
ATGTCTTATTTCTTTTAT
Found at i:7019534 original size:29 final size:29
Alignment explanation
Indices: 7019470--7019554 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
7019460 TCATATTTTC
* * * *
7019470 ATATTTTTCATATTTATGGAATTTAATCTTT
1 ATATTTTT-TTATTTA-AGAATTTAGTATTT
7019501 ATATTTTTATT-TTTAAGAATTTAGTATTT
1 ATATTTTT-TTATTTAAGAATTTAGTATTT
* *
7019530 CTATTTTTTTAATTTAAAAATTTAG
1 ATATTTTTTT-ATTTAAGAATTTAG
7019555 GTCAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.04
29 18 0.40
30 16 0.36
31 9 0.20
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (29 bp):
ATATTTTTTTATTTAAGAATTTAGTATTT
Found at i:7019653 original size:3 final size:3
Alignment explanation
Indices: 7019645--7019681 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7019635 TGGCATCTAG
7019645 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7019682 AAGAACATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.