Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 144 of 318
Found at i:44013794 original size:71 final size:71
Alignment explanation
Indices: 44013706--44013869 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44013696 GAGATGTATC
44013706 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44013771 AGGACA
66 AGGACA
44013777 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44013842 AGGACA
66 AGGACA
44013848 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44013870 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44021316 original size:41 final size:41
Alignment explanation
Indices: 44021271--44021388 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44021261 TGAAAGATAA
44021271 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44021312 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44021342 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44021383 ATGTAG
1 ATGTAG
44021389 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:44021327 original size:71 final size:71
Alignment explanation
Indices: 44021239--44021402 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44021229 GAGATGTATC
44021239 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44021304 AGGACA
66 AGGACA
44021310 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44021375 AGGACA
66 AGGACA
44021381 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44021403 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44024817 original size:40 final size:40
Alignment explanation
Indices: 44024772--44024901 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
44024762 TCGGAATAAA
44024772 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44024812 CCGGATAGAA-TGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
44024852 CCGGATGTAGCCACCG-GCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
44024892 CCGGATATAA
1 CCGGATATAA
44024902 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:44024916 original size:40 final size:39
Alignment explanation
Indices: 44024788--44024939 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 39
44024778 ATAACCATGT
* * *
44024788 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-C
* ** *
44024828 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACC
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCC
* *
44024867 GGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCC
* *
44024907 AGCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 -GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
44024940 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 86 0.93
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCC
Found at i:44024922 original size:80 final size:80
Alignment explanation
Indices: 44024788--44024937 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
44024778 ATAACCATGT
*
44024788 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
44024852 CCGGATGTAGCCACCG
65 CCGGATGTAGCCACCG
* * * * *
44024868 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
44024931 CCCGGAT
64 CCCGGAT
44024938 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACCG
Found at i:44027060 original size:26 final size:27
Alignment explanation
Indices: 44027031--44027090 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
44027021 CCACATATAT
*
44027031 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
44027057 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
44027084 ATATCTG
1 ATATCTG
44027091 GCAGCTCGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:44034366 original size:2 final size:2
Alignment explanation
Indices: 44034359--44034396 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44034349 GCTTCGCCAC
44034359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44034397 GTTCTGGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44034429 original size:27 final size:26
Alignment explanation
Indices: 44034391--44034450 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
44034381 ATATATATAT
* *
44034391 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44034417 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44034444 ATATCTG
1 ATATCTG
44034451 GTAGCTTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44035605 original size:34 final size:34
Alignment explanation
Indices: 44035536--44035605 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
44035526 GGTCATTTTG
* *
44035536 GGTAAGTTTGTGGTAAGTGCTTATTCTGGAGTTT
1 GGTAAGTTTGTGGTAAGTGATTATTCTGGAATTT
* * *
44035570 GGTAAGTTTTTGGTATGTGATTAAT-TGTGAATTT
1 GGTAAGTTTGTGGTAAGTGATTATTCTG-GAATTT
44035604 GG
1 GG
44035606 AAAGAATGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (34 bp):
GGTAAGTTTGTGGTAAGTGATTATTCTGGAATTT
Found at i:44041998 original size:43 final size:44
Alignment explanation
Indices: 44041933--44042054 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 44
44041923 AACTCGTACA
* * * *
44041933 ATGCCAATGTCCCAGACTTGGTCTTACATGT-AATCGCATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCGCAAATCG
*
44041976 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCGCAAATCG
* * *
44042020 ATGCCAAC-ATCCCAGACCTGGTCTTAAAC-TAAATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATC
44042055 ATATATCAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.49
44 33 0.48
45 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCGCAAATCG
Found at i:44042035 original size:44 final size:44
Alignment explanation
Indices: 44041933--44042054 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
44041923 AACTCGTACA
* * * *
44041933 ATGCCAATGTCCCAGACTTGGTCTTACATGT-AATCGCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCGCAAATCG
*
44041976 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCGCAAATCG
* * *
44042020 ATGCCAACATCCCAGACCTGGTCTTAAAC-TAAATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATC
44042055 ATATATCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.47
44 33 0.49
45 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCGCAAATCG
Found at i:44047889 original size:27 final size:28
Alignment explanation
Indices: 44047859--44047928 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
44047849 ATAGTGAATC
*
44047859 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
44047886 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
44047914 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44047929 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:44048000 original size:42 final size:42
Alignment explanation
Indices: 44047936--44048042 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
44047926 GCTGTACAAT
* *
44047936 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
44047978 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
44048020 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
44048043 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:44055117 original size:27 final size:28
Alignment explanation
Indices: 44055087--44055156 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
44055077 ATAGTGAATC
*
44055087 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
44055114 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
44055142 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44055157 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:44055228 original size:42 final size:42
Alignment explanation
Indices: 44055164--44055270 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
44055154 GCTGTACAAT
* *
44055164 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
44055206 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
44055248 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
44055271 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:44059268 original size:47 final size:47
Alignment explanation
Indices: 44059217--44059597 Score: 629
Period size: 47 Copynumber: 8.1 Consensus size: 47
44059207 ATTTAGGATT
*
44059217 CAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
44059264 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
44059311 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
44059358 CAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
44059405 CAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
44059452 CAATGTGATGAATGTGAACATGCATGTATGTGATAAGGCCGAATGGT
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
44059499 CAATGTGATGAATGTGAACATGCATATATGTGACAAGGCAGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* * * *
44059546 CAATGTGATGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGC
1 CAATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGC
*
44059593 TAATG
1 CAATG
44059598 CGAAATGTGT
Statistics
Matches: 315, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 312 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
Found at i:44059627 original size:46 final size:46
Alignment explanation
Indices: 44059571--44059707 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
44059561 GGAAGTGTAT
*
44059571 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
44059617 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * * *
44059663 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
44059708 TGTATATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:44064823 original size:24 final size:24
Alignment explanation
Indices: 44064772--44064960 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
44064762 GCTTTATCAT
*
44064772 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
44064797 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44064821 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44064844 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44064867 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
44064891 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
44064915 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44064938 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44064961 GCACTTCCTC
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 68 0.44
24 76 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44064847 original size:23 final size:23
Alignment explanation
Indices: 44064793--44064959 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
44064783 CCTAGCCTCT
*
44064793 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44064816 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
44064840 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44064863 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
44064886 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
44064910 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
44064934 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44064957 TTT
1 TTT
44064960 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:44064961 original size:47 final size:47
Alignment explanation
Indices: 44064793--44064960 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
44064783 CCTAGCCTCT
*
44064793 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
44064840 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
44064886 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
44064934 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
44064961 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
46 23 0.20
47 70 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:44065032 original size:9 final size:9
Alignment explanation
Indices: 44065018--44065074 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
44065008 ATCTCATGTG
44065018 CATATCATA
1 CATATCATA
*
44065027 CATATCATGTG
1 CATATCA--TA
44065038 CATATCATA
1 CATATCATA
* *
44065047 CATGTCATGTG
1 CATATCA--TA
44065058 CATATCATA
1 CATATCATA
44065067 CATATCAT
1 CATATCAT
44065075 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44065034 original size:20 final size:20
Alignment explanation
Indices: 44065006--44065076 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
44064996 GCATTTATGA
*
44065006 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44065026 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
44065046 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44065066 ACATATCATGT
1 ACATATCATGT
44065077 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:44065041 original size:11 final size:11
Alignment explanation
Indices: 44065011--44065065 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
44065001 TATGAACATC
44065011 TCATGTGCATA
1 TCATGTGCATA
*
44065022 TCA--TACATA
1 TCATGTGCATA
44065031 TCATGTGCATA
1 TCATGTGCATA
* *
44065042 TCA--TACATG
1 TCATGTGCATA
44065051 TCATGTGCATA
1 TCATGTGCATA
44065062 TCAT
1 TCAT
44065066 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:44066979 original size:27 final size:27
Alignment explanation
Indices: 44066399--44066978 Score: 704
Period size: 27 Copynumber: 21.5 Consensus size: 27
44066389 GGGTATTTTA
* *
44066399 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066426 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066453 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44066480 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
44066507 GTAATGT-TGTAAATCGAGGGTAAAACG
1 GTAAT-TCTGTAAATCGAGGGTAAAACG
* * * *
44066534 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066561 GTAATTATGTAAAT-TAGGAGTAAAACG
1 GTAATTCTGTAAATCGAGG-GTAAAACG
** **
44066588 GTAATTCAATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066615 GTAATT-TTTAAAACTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
44066642 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
44066669 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066696 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066723 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44066750 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
44066777 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
44066804 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
44066831 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
44066858 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44066885 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
44066912 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44066939 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
44066966 GTAATTCTGTAAA
1 GTAATTCTGTAAA
44066979 CCGGGAGTAC
Statistics
Matches: 481, Mismatches: 61, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.02
27 458 0.95
28 12 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44068903 original size:29 final size:29
Alignment explanation
Indices: 44068871--44069000 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
44068861 ATAGTGAATC
*
44068871 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
44068900 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
* *
44068929 CGCACACTTAGTGCTATAGA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * *
44068957 CGCACACTTAGTGCTATACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
44068987 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44069001 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 49 0.54
30 17 0.19
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:44073068 original size:30 final size:31
Alignment explanation
Indices: 44073028--44073090 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
44073018 CCTTTTCATA
44073028 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
44073059 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
44073089 TT
1 TT
44073091 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:44073355 original size:23 final size:23
Alignment explanation
Indices: 44073301--44073464 Score: 253
Period size: 23 Copynumber: 7.1 Consensus size: 23
44073291 CCTAGCCTCT
*
44073301 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44073324 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
44073348 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44073371 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
44073393 TTTTGATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
44073416 TTTTGATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
44073439 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44073462 TTT
1 TTT
44073465 TGCACTTCCT
Statistics
Matches: 135, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
22 28 0.21
23 79 0.59
24 28 0.21
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:44073537 original size:9 final size:9
Alignment explanation
Indices: 44073523--44073579 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
44073513 ATCTCATGTG
44073523 CATATCATA
1 CATATCATA
*
44073532 CATATCATGTG
1 CATATCA--TA
44073543 CATATCATA
1 CATATCATA
* *
44073552 CATGTCATGTG
1 CATATCA--TA
44073563 CATATCATA
1 CATATCATA
44073572 CATATCAT
1 CATATCAT
44073580 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44073539 original size:20 final size:20
Alignment explanation
Indices: 44073511--44073581 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
44073501 GCATTTATGA
*
44073511 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44073531 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
44073551 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44073571 ACATATCATGT
1 ACATATCATGT
44073582 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:44073546 original size:11 final size:11
Alignment explanation
Indices: 44073516--44073570 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
44073506 TATGAACATC
44073516 TCATGTGCATA
1 TCATGTGCATA
*
44073527 TCA--TACATA
1 TCATGTGCATA
44073536 TCATGTGCATA
1 TCATGTGCATA
* *
44073547 TCA--TACATG
1 TCATGTGCATA
44073556 TCATGTGCATA
1 TCATGTGCATA
44073567 TCAT
1 TCAT
44073571 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:44075472 original size:27 final size:27
Alignment explanation
Indices: 44074896--44075471 Score: 729
Period size: 27 Copynumber: 21.5 Consensus size: 27
44074886 GGGTATTTTA
* *
44074896 GTAATTTTGT-AATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44074922 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44074949 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
44074976 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
44075003 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
44075030 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44075056 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
44075083 GTAATTC-ATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
44075109 GTAATTCTGTAAA-CTGAGGGTAAAAC-
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
44075135 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
44075162 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44075189 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44075216 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44075243 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
44075270 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
44075297 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
44075324 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
44075351 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44075378 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
44075405 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44075432 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
44075459 GTAATTCTGTAAA
1 GTAATTCTGTAAA
44075472 CCGGGAGTAC
Statistics
Matches: 484, Mismatches: 53, Indels: 25
0.86 0.09 0.04
Matches are distributed among these distances:
26 78 0.16
27 404 0.83
28 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44082675 original size:11 final size:11
Alignment explanation
Indices: 44082644--44082689 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
44082634 ATGAATATAA
44082644 CATGTGCATAT
1 CATGTGCATAT
*
44082655 CA--TACATAT
1 CATGTGCATAT
44082664 CATGTGCATAT
1 CATGTGCATAT
*
44082675 CATGT-CAAAT
1 CATGTGCATAT
44082685 CATGT
1 CATGT
44082690 ATATCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:44084710 original size:20 final size:20
Alignment explanation
Indices: 44084667--44084713 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
44084657 TTGACCACAT
* *
44084667 TACTGGAAGTTTATCTCCAG
1 TACTGGTAGTTTATCTCCAA
* *
44084687 TACTGGTAGTTTATTTGCAA
1 TACTGGTAGTTTATCTCCAA
44084707 TACTGGT
1 TACTGGT
44084714 GGCTCGACCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (20 bp):
TACTGGTAGTTTATCTCCAA
Found at i:44084748 original size:20 final size:20
Alignment explanation
Indices: 44084723--44084766 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
44084713 TGGCTCGACC
44084723 ACATAATTGACAGTTTGTCT
1 ACATAATTGACAGTTTGTCT
44084743 ACATAATTGACAGTTTGTCT
1 ACATAATTGACAGTTTGTCT
44084763 ACAT
1 ACAT
44084767 TACTGGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
ACATAATTGACAGTTTGTCT
Found at i:44091080 original size:40 final size:40
Alignment explanation
Indices: 44090849--44091073 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
44090839 TCAAATGATG
* * * *
44090849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
44090889 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44090929 TCC-GATCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGT-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44090968 TCGGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
44091008 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44091049 -CCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
44091074 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44101830 original size:54 final size:54
Alignment explanation
Indices: 44101763--44101913 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
44101753 CTACCCTACA
* *
44101763 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
44101817 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
44101871 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
44101914 CTGTAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:44101862 original size:81 final size:81
Alignment explanation
Indices: 44101762--44101920 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
44101752 TCTACCCTAC
* * *
44101762 AGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTG
*
44101827 GTAATTTTGTAAACCA
66 GTAATTCTGTAAACCA
* * * * * *
44101843 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTG
1 AGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTG
44101908 GTAATTCTGTAAA
66 GTAATTCTGTAAA
44101921 TTGAAGGTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTG
GTAATTCTGTAAACCA
Found at i:44101920 original size:27 final size:27
Alignment explanation
Indices: 44101762--44101913 Score: 205
Period size: 27 Copynumber: 5.6 Consensus size: 27
44101752 TCTACCCTAC
* *
44101762 AGGGTATTTCGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44101789 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44101816 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
44101843 AGGGTATTTTAGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44101870 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
44101897 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
44101914 CTGTAAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:44101939 original size:81 final size:81
Alignment explanation
Indices: 44101771--44101940 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
44101761 CAGGGTATTT
* * *
44101771 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
44101836 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
44101852 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
44101917 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
44101933 CGGTAATT
1 CGGTAATT
44101941 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 69 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:44102170 original size:27 final size:27
Alignment explanation
Indices: 44101908--44102148 Score: 310
Period size: 27 Copynumber: 8.9 Consensus size: 27
44101898 GGGTATTTTG
* * *
44101908 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
44101935 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
44101962 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
44101989 GTAATTCTGTAAA-CTGAGGGGAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
44102016 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
44102043 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
44102070 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
**
44102097 GTAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
44102124 GTAATTCTGTAAATCGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA
44102149 TGGTAATTTT
Statistics
Matches: 189, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.02
27 182 0.96
28 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:44102170 original size:54 final size:54
Alignment explanation
Indices: 44101907--44102156 Score: 401
Period size: 54 Copynumber: 4.6 Consensus size: 54
44101897 AGGGTATTTT
* * **
44101907 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
44101961 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
44102015 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
44102069 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
44102123 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
44102157 TTACAAGTCG
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:44102170 original size:81 final size:81
Alignment explanation
Indices: 44101906--44102156 Score: 364
Period size: 81 Copynumber: 3.1 Consensus size: 81
44101896 AAGGGTATTT
* * * * *
44101906 TGGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
44101971 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * *
44101987 TAGTAATTCTGTAAA-CTGAGGGGAAAACAGTAATTCTGTAAA-TCGAGGATAAAATAGTAATTC
1 TGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAATGGTAATTC
44102050 TGTAAA-CTGAGGGTAAAA
64 TGTAAATC-GAGGGTAAAA
*
44102068 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
44102133 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
44102149 TGGTAATT
1 TGGTAATT
44102157 TTACAAGTCG
Statistics
Matches: 149, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
80 2 0.01
81 144 0.97
82 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:44105749 original size:53 final size:54
Alignment explanation
Indices: 44105618--44105767 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
44105608 CTACCCTACA
* *
44105618 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
44105672 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAA-CAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
44105725 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
44105768 CTGTAAATTG
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 43 0.48
54 47 0.52
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:44105774 original size:27 final size:27
Alignment explanation
Indices: 44105617--44105767 Score: 205
Period size: 27 Copynumber: 5.6 Consensus size: 27
44105607 TCTACCCTAC
* *
44105617 AGGGTATTTCGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44105644 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44105671 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44105698 AGGGTATTTTAGTAATTTTACAAA-CA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
44105724 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
44105751 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
44105768 CTGTAAATTG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 22 0.21
27 83 0.79
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:44105793 original size:80 final size:81
Alignment explanation
Indices: 44105626--44105794 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 81
44105616 CAGGGTATTT
* * *
44105626 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
44105691 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * *
44105707 TAGTAATTTTACAAAC-AGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
44105771 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
44105787 CGGTAATT
1 CGGTAATT
44105795 CTGTAAACTG
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
80 56 0.79
81 15 0.21
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:44105847 original size:81 final size:81
Alignment explanation
Indices: 44105760--44106010 Score: 371
Period size: 81 Copynumber: 3.1 Consensus size: 81
44105750 AAGGGTATTT
* * * *
44105760 TGGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
44105825 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * *
44105841 TAGTAATTCTGTAAACTGAGGGGAAAACAGTAATTCTGTAAA-TCGAGGATAAAATAGTAATTCT
1 TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAATGGTAATTCT
44105905 GTAAA-CTGAGGGTAAAA
65 GTAAATC-GAGGGTAAAA
* *
44105922 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
1 TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
44105987 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
44106003 TGGTAATT
1 TGGTAATT
44106011 TTACAAGTCG
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 145 0.97
82 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:44106024 original size:27 final size:27
Alignment explanation
Indices: 44105762--44106002 Score: 310
Period size: 27 Copynumber: 8.9 Consensus size: 27
44105752 GGGTATTTTG
* * *
44105762 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
44105789 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
44105816 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
44105843 GTAATTCTGTAAA-CTGAGGGGAAAACA
1 GTAATTCTGTAAATC-GAGGGTAAAACA
* *
44105870 GTAATTCTGTAAATCGAGGATAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
44105897 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
44105924 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
**
44105951 GTAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACA
44105978 GTAATTCTGTAAATCGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAA
44106003 TGGTAATTTT
Statistics
Matches: 189, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.02
27 182 0.96
28 4 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:44106024 original size:54 final size:54
Alignment explanation
Indices: 44105761--44106010 Score: 401
Period size: 54 Copynumber: 4.6 Consensus size: 54
44105751 AGGGTATTTT
* * **
44105761 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
44105815 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
44105869 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
44105923 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
44105977 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
44106011 TTACAAGTCG
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:44107226 original size:55 final size:54
Alignment explanation
Indices: 44107145--44107398 Score: 274
Period size: 55 Copynumber: 4.8 Consensus size: 54
44107135 TTAAGGTTTC
* * *
44107145 AGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGTTAAGGTTTCTAAGGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTATAAGGCA
* * *
44107200 AGGATACCATGTAAGACCATGTCAAGGCATGGC-ATTGATAAGTTACTATAAGGCAA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TATAAGGC-A
* * *
44107256 AGG-TCCCATGTAAGACCATGCCAAGACATGGC-ATTGGTGAGTTGATAAGGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTATAAGGCA
* * *
44107308 AGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTT-CAA---A
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTATAAGGCA
* * *
44107357 AGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
44107399 GTACCCATGT
Statistics
Matches: 175, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 39 0.22
52 6 0.03
53 44 0.25
54 8 0.05
55 74 0.42
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTATAAGGCA
Found at i:44107350 original size:108 final size:110
Alignment explanation
Indices: 44107151--44107351 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
44107141 TTTCAGGATA
* * **
44107151 CCATGTAAGACCATGCCAAGGCATGGCAATTGTTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTGATAAGGCAAGGATACCATGTAAGA
* *
44107216 CCATGTCAAGGCATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
44107261 CCATGTAAGACCATGCCAAGACATGGC-ATTGGTGA-GTTGATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTGATAAGGCAAGGATACCATGTAAGA
* *
44107324 CCATGTCGAGACATGGCAATGGTAAGTT
66 CCATGTCAAGACATGGCAATGATAAGTT
44107352 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 50 0.61
109 6 0.07
110 26 0.32
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTGATAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:44116112 original size:40 final size:40
Alignment explanation
Indices: 44116057--44116266 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44116047 AACATTGGAA
44116057 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
44116097 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
44116137 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
44116177 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
44116216 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
44116257 CTATATCCGG
1 ATATATCCGG
44116267 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:44119590 original size:30 final size:30
Alignment explanation
Indices: 44119556--44119614 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
44119546 CTTAACTCAG
44119556 ACTTTTGCAAAATTACAATTTTGCCCCTAA
1 ACTTTTGCAAAATTACAATTTTGCCCCTAA
* * * *
44119586 ACTTTTGCATATTTACACTTTTTCCCCTA
1 ACTTTTGCAAAATTACAATTTTGCCCCTA
44119615 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.42
Consensus pattern (30 bp):
ACTTTTGCAAAATTACAATTTTGCCCCTAA
Found at i:44123612 original size:28 final size:28
Alignment explanation
Indices: 44123543--44123643 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44123533 GACAAGATTG
* * * *
44123543 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44123573 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44123601 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44123630 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44123644 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44127423 original size:40 final size:39
Alignment explanation
Indices: 44127255--44127439 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 39
44127245 AGAAATTGAA
* *
44127255 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
44127295 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
44127335 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
44127375 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
44127415 TGATATCCGGG-TAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
44127440 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 16 0.13
40 95 0.80
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:44137112 original size:40 final size:40
Alignment explanation
Indices: 44137068--44137189 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
44137058 TCGAATTTAG
** *
44137068 CCGGATATAACCGCAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAAC
** *
44137108 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAAC
* * *
44137148 CCGGATATAATC-ACTAGCATAAATGCCTT-GGG-CTTAGC
1 CCGGATATAA-CAACAAGCACAAATGCCTTCGGGTCTTAAC
44137186 CCGG
1 CCGG
44137190 GTATCATTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 10 0.14
39 3 0.04
40 59 0.81
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACAAGCACAAATGCCTTCGGGTCTTAAC
Found at i:44145129 original size:40 final size:40
Alignment explanation
Indices: 44145064--44145271 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
44145054 TCTTCGGAAT
* ** *
44145064 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
44145103 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
44145143 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
44145183 TTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
44145223 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
44145263 TTAGCCCGG
1 TTAGCCCGG
44145272 GTATCATTCA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 148 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:44151489 original size:93 final size:93
Alignment explanation
Indices: 44151353--44151525 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
44151343 CACCCATAAG
* *
44151353 CGAACTCGGACTCAAATCAATGAGCTCGGGTGTTTCCATCCATAAGTGAACATAG-ACTCAACTC
1 CGAACTCGGACTCAAATCAACGAGCTCGGATGTTTCCATCCATAAGTGAAC-TAGAACTCAACTC
44151417 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* * *
44151446 CGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCGGACTCAAATCAACGAGCTCGGATGTTTC-CATCCATAAGTGAACTAGAACTCAACTC
44151510 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
44151526 CAAATATCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 5 0.07
93 68 0.93
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTCGGATGTTTCCATCCATAAGTGAACTAGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:44151514 original size:46 final size:47
Alignment explanation
Indices: 44151346--44151524 Score: 170
Period size: 46 Copynumber: 3.9 Consensus size: 47
44151336 TGTAACCCAC
* * * * *
44151346 CCATAAGCGAACTCGGACTCAAATCAATGAGCTCGGGTGTTTC-CAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
* * * * *
44151392 CCATAAGTGAACAT-AGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGCGAAC-TCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
* *
44151438 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
* *
44151485 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
44151525 CCAAATATCC
Statistics
Matches: 104, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 32 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:44156989 original size:2 final size:2
Alignment explanation
Indices: 44156984--44157020 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
44156974 TGAAAGTCGA
44156984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44157021 TTTGAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:44157602 original size:45 final size:45
Alignment explanation
Indices: 44157538--44157669 Score: 230
Period size: 45 Copynumber: 2.9 Consensus size: 45
44157528 ATCATACGAC
44157538 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
44157583 ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
44157628 ACTATTCGAG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
44157670 TATCATGCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
44 4 0.05
45 79 0.95
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:44165243 original size:45 final size:45
Alignment explanation
Indices: 44165179--44165310 Score: 212
Period size: 45 Copynumber: 2.9 Consensus size: 45
44165169 ATCGTACGAC
* *
44165179 ACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
44165224 ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
44165269 ACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
44165311 TATCATGCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 4 0.05
45 77 0.95
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:44168285 original size:29 final size:29
Alignment explanation
Indices: 44168220--44168292 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
44168210 GCATGAGTAT
* *
44168220 AATATGATTTGGGCCTAGCAGGCCATATG
1 AATATGAATTGGGCCTAGCAGGCCATACG
** **
44168249 AAGGTGAATTGGGCCTAGTGGGCCATACG
1 AATATGAATTGGGCCTAGCAGGCCATACG
*
44168278 AATATGAACTGGGCC
1 AATATGAATTGGGCC
44168293 AGATAGGCCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGCAGGCCATACG
Found at i:44170602 original size:16 final size:16
Alignment explanation
Indices: 44170581--44170635 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
44170571 GTTGTAACGC
*
44170581 CCCAAAAATCTTGAAA
1 CCCAAAAATCTCGAAA
44170597 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
*
44170613 CCCAAAAATCCCGAAA
1 CCCAAAAATCTCGAAA
*
44170629 TCCAAAA
1 CCCAAAA
44170636 CTTTTTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:44172155 original size:29 final size:29
Alignment explanation
Indices: 44172090--44172197 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 29
44172080 GCATGAGTAT
* *
44172090 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAATGGGCCATAAG
** * *
44172119 AAGGTGAATTGGGTCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAATGGGCCATAAG
* * **
44172148 AATATGAACTAGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTA-ATGGGCCATAAG
* *
44172177 AATAAG-ATTGGGCCTAGTGGG
1 AATATGAATTGGGCCTAATGGG
44172198 TTATATGCAT
Statistics
Matches: 59, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
28 11 0.19
29 48 0.81
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATAAG
Found at i:44174551 original size:16 final size:16
Alignment explanation
Indices: 44174532--44174562 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44174522 CTTCTTCACT
44174532 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
44174548 TACTTACTTACTTAA
1 TACTCACTTACTTAA
44174563 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:44174568 original size:20 final size:20
Alignment explanation
Indices: 44174529--44174568 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44174519 AAACTTCTTC
* *
44174529 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
44174549 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
44174569 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:44175007 original size:55 final size:52
Alignment explanation
Indices: 44174776--44175009 Score: 226
Period size: 55 Copynumber: 4.4 Consensus size: 52
44174766 CATAAATTTT
* * * *
44174776 CATGGTCTTACGTGGTATCCTT---TT-GAAACTTACTATTGCCATGTCTCGA
1 CATGGTCTTACAT-GTATCCTTGCCTTAGAAACTTACCAATGCCATGTCTTGA
* * * *
44174825 CATGGGCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGCCATTTCTTGG
1 CATGGTCTTACAT-GTATCCTTGCCTTA-GAAACTTACCAATGCCATGTCTTGA
* * *
44174878 CATGGTCTTACATGGAACCTTTGCCTTATAGAAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGTATCC-TTGCC-T-TAGAAACTTACCAATGCCATGTCTTGA
* *
44174933 CATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGG
1 CATGGTCTTACATG-TATCCTTGCCTTAGAAA-CTTACCAA-TGCCATGTCTTGA
44174988 CATGGTCTTACATTGTATCCTT
1 CATGGTCTTACA-TGTATCCTT
44175010 AAACCCTAAT
Statistics
Matches: 152, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
49 20 0.13
52 6 0.04
53 40 0.26
54 11 0.07
55 70 0.46
56 5 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (52 bp):
CATGGTCTTACATGTATCCTTGCCTTAGAAACTTACCAATGCCATGTCTTGA
Found at i:44175860 original size:41 final size:41
Alignment explanation
Indices: 44175803--44175885 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
44175793 CTTCCTCATG
44175803 TAAAACTCAGCCAAGGGGTTCAAGATGGACAAAAATTGGCT
1 TAAAACTCAGCCAAGGGGTTCAAGATGGACAAAAATTGGCT
*
44175844 TAAAACTCAGCCAAGGGGTTGAAGATGGACAAAAATTGGCT
1 TAAAACTCAGCCAAGGGGTTCAAGATGGACAAAAATTGGCT
44175885 T
1 T
44175886 TTAATTTTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (41 bp):
TAAAACTCAGCCAAGGGGTTCAAGATGGACAAAAATTGGCT
Found at i:44176218 original size:35 final size:35
Alignment explanation
Indices: 44176172--44176241 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
44176162 ATCATGCCAT
44176172 AGACCTTAAAATGATAATAAAATAAATTATTCTAC
1 AGACCTTAAAATGATAATAAAATAAATTATTCTAC
44176207 AGACCTTAAAATGATAATAAAATAAATTATTCTAC
1 AGACCTTAAAATGATAATAAAATAAATTATTCTAC
44176242 CTCGGATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (35 bp):
AGACCTTAAAATGATAATAAAATAAATTATTCTAC
Found at i:44180823 original size:40 final size:40
Alignment explanation
Indices: 44180714--44180901 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
44180704 TATTCGGATG
* *
44180714 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
44180754 A-ATTTCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44180793 TTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
44180833 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44180873 ATAACCGGACTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
44180902 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 33 0.25
40 101 0.75
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44180932 original size:119 final size:119
Alignment explanation
Indices: 44180714--44180934 Score: 279
Period size: 119 Copynumber: 1.9 Consensus size: 119
44180704 TATTCGGATG
* **
44180714 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGAGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGAGCTAAGCCCGAAGGCAT
* * ** * *
44180779 TTGTGCGAGTTACTTTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACCATATCCCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
44180833 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG-GACTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGAG-CTAAG-CCCGAAGG
*
44180896 CATTTGAGCAAG-TAGCCATA-CCCGGCTAAATTCCGAAGG
63 CATTTGAGCAAGTTA-CCATATCCCGGCTAAATCCCGAAGG
44180935 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 63 0.72
120 21 0.24
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGAGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACCATATCCCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44182104 original size:7 final size:7
Alignment explanation
Indices: 44182092--44182143 Score: 95
Period size: 7 Copynumber: 7.3 Consensus size: 7
44182082 GGGTAAACTG
44182092 AACCCTA
1 AACCCTA
44182099 AACCCTAA
1 AACCCT-A
44182107 AACCCTA
1 AACCCTA
44182114 AACCCTA
1 AACCCTA
44182121 AACCCTA
1 AACCCTA
44182128 AACCCTA
1 AACCCTA
44182135 AACCCTA
1 AACCCTA
44182142 AA
1 AA
44182144 TACCCTGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 37 0.84
8 7 0.16
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:44188722 original size:55 final size:54
Alignment explanation
Indices: 44188635--44188850 Score: 215
Period size: 55 Copynumber: 4.0 Consensus size: 54
44188625 ATTAGGGTTT
* *
44188635 AAGGATACCATATAAGACCATG-CGAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-GTTTCATAAGGC
* * *
44188690 AAGGATATCATGTAAGACAATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * * *
44188745 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
** * * ** *
44188798 GGGGATACCATGTAAGACCATGTCGAGACATCGCAACGGTAAGTTTCAAAAGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGG
44188851 ATACCACATA
Statistics
Matches: 132, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
52 2 0.02
53 42 0.32
54 18 0.14
55 65 0.49
56 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:44188841 original size:108 final size:110
Alignment explanation
Indices: 44188642--44188844 Score: 268
Period size: 108 Copynumber: 1.9 Consensus size: 110
44188632 TTTAAGGATA
* *
44188642 CCATATAAGACCATGCGAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* **
44188707 CAATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CAATGTCAAGACATCGCAACGATAAGTTTCTATAAGGCAAAGGTC
* * **
44188752 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCGGGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
44188814 ACCATGTCGAGACATCGCAACGGTAAGTTTC
65 ACAATGTCAAGACATCGCAACGATAAGTTTC
44188845 AAAAGGATAC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 25 0.31
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CAATGTCAAGACATCGCAACGATAAGTTTCTATAAGGCAAAGGTC
Found at i:44200702 original size:47 final size:46
Alignment explanation
Indices: 44200584--44200757 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
44200574 TAGGATATTT
*
44200584 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
44200631 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
44200676 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
44200724 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
44200758 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:44200753 original size:46 final size:46
Alignment explanation
Indices: 44200589--44200762 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44200579 TATTTGGCAT
* *
44200589 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
44200634 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44200679 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44200727 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44200763 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44203663 original size:15 final size:15
Alignment explanation
Indices: 44203643--44203711 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44203633 GTATCTTGGG
44203643 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44203658 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44203673 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44203688 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44203703 TTTCTTTAT
1 TTTCTTTAT
44203712 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44203712 original size:30 final size:30
Alignment explanation
Indices: 44203634--44203721 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44203624 CATAGTATCG
* * * *
44203634 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44203664 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44203694 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44203722 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44205739 original size:28 final size:28
Alignment explanation
Indices: 44205674--44205774 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44205664 ATAGTGAATC
*
44205674 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
44205703 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44205731 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
44205761 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44205775 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44209306 original size:46 final size:46
Alignment explanation
Indices: 44209256--44209431 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44209246 ATGGTTGGCA
44209256 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44209302 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44209347 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44209395 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44209432 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44209411 original size:93 final size:93
Alignment explanation
Indices: 44209252--44209423 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44209242 TAGGATGGTT
* *
44209252 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44209317 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44209345 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44209410 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44209424 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44213195 original size:40 final size:40
Alignment explanation
Indices: 44213150--44213316 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
44213140 CGGAATATAA
44213150 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44213190 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44213230 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44213270 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44213309 CCGGATAT
1 CCGGATAT
44213317 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44221197 original size:40 final size:40
Alignment explanation
Indices: 44221152--44221318 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
44221142 CGGAATATAA
44221152 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44221192 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44221232 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44221272 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44221311 CCGGATAT
1 CCGGATAT
44221319 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44230215 original size:27 final size:27
Alignment explanation
Indices: 44230180--44230281 Score: 123
Period size: 27 Copynumber: 3.7 Consensus size: 27
44230170 TACATCACAT
* *
44230180 AGGGAAAAACAGTCATCTTACCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
* *
44230207 AGGGCAAAATAGTCATTTTATCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
* * *
44230234 TAGGGCAAAACAATCATTTTACCACATC
1 -AGGGCAAAACAGTCATTTTACCATATA
*
44230262 AGGGCAAAACAGTCACTTTA
1 AGGGCAAAACAGTCATTTTA
44230282 TCAATTTGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 41 0.65
28 22 0.35
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCATATA
Found at i:44230245 original size:55 final size:55
Alignment explanation
Indices: 44230178--44230284 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
44230168 TATACATCAC
* * * *
44230178 ATAGGGAAAAACAGTCATCTTACCATATAAGGGCAAAATAGTCATTTTATCATAT
1 ATAGGGAAAAACAATCATCTTACCACATAAGGGCAAAACAGTCACTTTATCATAT
* * *
44230233 ATAGGGCAAAACAATCATTTTACCACATCAGGGCAAAACAGTCACTTTATCA
1 ATAGGGAAAAACAATCATCTTACCACATAAGGGCAAAACAGTCACTTTATCA
44230285 ATTTGGGGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (55 bp):
ATAGGGAAAAACAATCATCTTACCACATAAGGGCAAAACAGTCACTTTATCATAT
Found at i:44230422 original size:17 final size:17
Alignment explanation
Indices: 44230400--44230442 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
44230390 GGCCCATGTA
44230400 GGCCCACATGCCCGTGT
1 GGCCCACATGCCCGTGT
44230417 GGCCCACATGCCCGTGT
1 GGCCCACATGCCCGTGT
44230434 GGCCCACAT
1 GGCCCACAT
44230443 AACCTAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.42, G:0.28, T:0.16
Consensus pattern (17 bp):
GGCCCACATGCCCGTGT
Found at i:44238684 original size:40 final size:40
Alignment explanation
Indices: 44238639--44238823 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
44238629 ACTACTTGCT
*
44238639 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
44238679 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44238719 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
44238759 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
44238799 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44238824 TTATCATCCG
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44245984 original size:40 final size:40
Alignment explanation
Indices: 44245931--44246075 Score: 281
Period size: 40 Copynumber: 3.6 Consensus size: 40
44245921 ACTACTTGCT
*
44245931 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
44245971 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
44246011 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
44246051 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44246076 TTATCATCCG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44250697 original size:6 final size:6
Alignment explanation
Indices: 44250667--44250779 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
44250657 AAGAAACATT
* * *
44250667 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
44250716 ATCAGA ATCAG- GTGACAGA ATTAGA ATTAGA ATCAGT ATTAGGTA A-CAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
44250766 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
44250780 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 5 0.06
6 63 0.79
7 9 0.11
8 3 0.04
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:44250711 original size:31 final size:30
Alignment explanation
Indices: 44250676--44250779 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 30
44250666 TATCAGAACT
44250676 AGAATCAAAATGAGAATCAGAATCAGGTGAC
1 AGAATCAAAAT-AGAATCAGAATCAGGTGAC
44250707 AGAATC-----AGAATCAGAATCAGGTGAC
1 AGAATCAAAATAGAATCAGAATCAGGTGAC
* * * * *
44250732 AGAATTAGAATTAGAATCAGTATTAGGTAAC
1 AGAATCA-AAATAGAATCAGAATCAGGTGAC
44250763 AGAATCAAAATCAGAAT
1 AGAATCAAAAT-AGAAT
44250780 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
25 24 0.40
30 3 0.05
31 33 0.55
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (30 bp):
AGAATCAAAATAGAATCAGAATCAGGTGAC
Found at i:44250719 original size:25 final size:25
Alignment explanation
Indices: 44250688--44250751 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
44250678 AATCAAAATG
44250688 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
*
44250713 AGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGGTGACAGAATC
*
44250738 AGAATTAGAATCAG
1 AGAATCAGAATCAG
44250752 TATTAGGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGGTGACAGAATC
Found at i:44250976 original size:31 final size:32
Alignment explanation
Indices: 44250919--44250980 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
44250909 TCGAAGTCAT
* *
44250919 CAGATATAGATATTGTGGTTAGGCCACCAGAA
1 CAGATATAGATATTGTGGTGAAGCCACCAGAA
*
44250951 CAGATATATATA-TGTGGTGAAGCCACCAGA
1 CAGATATAGATATTGTGGTGAAGCCACCAGA
44250981 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (32 bp):
CAGATATAGATATTGTGGTGAAGCCACCAGAA
Found at i:44251352 original size:54 final size:54
Alignment explanation
Indices: 44251284--44251784 Score: 564
Period size: 54 Copynumber: 9.5 Consensus size: 54
44251274 AACACCCTAG
** * *
44251284 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
** * ** * *
44251338 GGGTAAAATTGTAATTTTGTAAATCGAGAGTAAAATAATAGTTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
* * * * *
44251392 GGGTAAAACAGTAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
*
44251446 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
* * * *
44251500 GAGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGA
* * *
44251554 GGGTAAAACAATAATTCTGT-AATCGAGGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
* * *
44251607 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGA
* *
44251661 GGGTAAAACAGTAATTCTGTAAATC---------A--ATAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
* *
44251704 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGA
* * *
44251758 GGGTAAAATAATAATTTTGTAATTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
44251785 TAGTACTTTA
Statistics
Matches: 386, Mismatches: 46, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
43 39 0.10
44 1 0.00
45 1 0.00
52 1 0.00
53 49 0.13
54 295 0.76
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
Found at i:44251629 original size:43 final size:43
Alignment explanation
Indices: 44251582--44251726 Score: 119
Period size: 43 Copynumber: 3.1 Consensus size: 43
44251572 GTAATCGAGG
* * *
44251582 GTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCT
1 GTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
*
44251625 GTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
1 GTAAAAC-A--GT---A-A-T--T-CTGTAAATCAAGGGTAAAACAGTAATTCT
* * * *
44251679 GTAAATCAATAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
1 GTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
44251722 GTAAA
1 GTAAA
44251727 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 22
0.74 0.06 0.19
Matches are distributed among these distances:
43 38 0.45
44 1 0.01
46 3 0.04
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 2 0.02
53 2 0.02
54 34 0.40
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (43 bp):
GTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
Found at i:44251687 original size:27 final size:27
Alignment explanation
Indices: 44251284--44251685 Score: 513
Period size: 27 Copynumber: 14.9 Consensus size: 27
44251274 AACACCCTAG
** * *
44251284 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251311 GGGTAAAAC-GATAATTCTATAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
** *
44251338 GGGTAAAATTGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * * * *
44251365 GAGTAAAATAATAGTTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
44251392 GGGTAAAACAGTAATTCTATCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
44251419 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251446 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251473 GGGTAAAAC-GATAATTTTGTAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
* * *
44251500 GAGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
44251527 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251554 GGGTAAAACAATAATTCTGT-AATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251580 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251607 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
44251634 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
44251661 GGGTAAAACAGTAATTCTGTAAATC
1 GGGTAAAACAGTAATTCTGTAAATC
44251686 AATAATTCTG
Statistics
Matches: 333, Mismatches: 37, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
26 25 0.08
27 306 0.92
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:44251691 original size:16 final size:16
Alignment explanation
Indices: 44251672--44251703 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44251662 GGTAAAACAG
44251672 TAATTCTGTAAATCAA
1 TAATTCTGTAAATCAA
44251688 TAATTCTGTAAATCAA
1 TAATTCTGTAAATCAA
44251704 GGGTAAAACG
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:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATTCTGTAAATCAA
Found at i:44251707 original size:97 final size:97
Alignment explanation
Indices: 44251591--44251779 Score: 297
Period size: 97 Copynumber: 1.9 Consensus size: 97
44251581 GGTAAAACGG
* *
44251591 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
*
44251656 ATCAAGGGTAAAACAGTAATTCTGTAAATCAA
66 ATCAAGGGTAAAACAATAATTCTGTAAATCAA
* * *
44251688 TAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAA
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
* * *
44251753 ATCGAGGGTAAAATAATAATTTTGTAA
66 ATCAAGGGTAAAACAATAATTCTGTAA
44251780 TTCGATAGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (97 bp):
TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAA
ATCAAGGGTAAAACAATAATTCTGTAAATCAA
Found at i:44251709 original size:27 final size:27
Alignment explanation
Indices: 44251681--44251784 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
44251671 GTAATTCTGT
*
44251681 AAATCAATAATTCTGTAAATCAAGGGTA
1 AAAT-AATAATTCTGTAAATCGAGGGTA
*** *
44251709 AAACGGTAATTTTGTAAATCGAGGGTA
1 AAATAATAATTCTGTAAATCGAGGGTA
*
44251736 AAATAGTAATTCTGTAAATCGAGGGTA
1 AAATAATAATTCTGTAAATCGAGGGTA
* *
44251763 AAATAATAATTTTGTAATTCGA
1 AAATAATAATTCTGTAAATCGA
44251785 TAGTACTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (27 bp):
AAATAATAATTCTGTAAATCGAGGGTA
Found at i:44251710 original size:81 final size:81
Alignment explanation
Indices: 44251303--44251765 Score: 449
Period size: 81 Copynumber: 5.9 Consensus size: 81
44251293 GGTAATTTTA
* ** *
44251303 TAAATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAATTGTAATTTTGTAAATCGAGA
1 TAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAG-
* * * **
44251367 GTAAAATAAT-AGTTTTG
64 GTAAAACAGTAAATCATG
* * * *
44251384 TAAATCGAGGGTAAAACAGTAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA-GG
**
44251449 TAAAACAGT-AATTTTG
65 TAAAACAGTAAATCATG
* * * *
44251465 TAAATCGAGGGTAAAAC-GATAATTTTGTAAATCGAGAGTAAAATAGTAATTTTGTAAATCGAGG
1 TAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA-G
* *
44251529 GTAAAACAGTAATTC-TA
64 GTAAAACAGTAAATCATG
* * *
44251546 TAAATTGAGGGTAAAACAATAATTCTGT-AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA-GG
* *
44251610 TAAAATAGTAATTC-TG
65 TAAAACAGTAAATCATG
*
44251626 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATC-----
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGT
*
44251686 ---A-A-TAATTC-TG
66 AAAACAGTAAATCATG
* * * *
44251696 TAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA-GG
44251761 TAAAA
65 TAAAA
44251766 TAATAATTTT
Statistics
Matches: 334, Mismatches: 33, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
70 63 0.19
71 1 0.00
72 1 0.00
79 1 0.00
80 73 0.22
81 191 0.57
82 4 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGT
AAAACAGTAAATCATG
Found at i:44251727 original size:43 final size:43
Alignment explanation
Indices: 44251636--44251728 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
44251626 TAAATCGAGG
* *
44251636 GTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
1 GTAAATCAATAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
* *
44251679 GTAAATCAATAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
1 GTAAATCAATAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
44251722 GTAAATC
1 GTAAATC
44251729 GAGGGTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (43 bp):
GTAAATCAATAATTCTGTAAATCAAGGGTAAAACAGTAATTCT
Found at i:44251754 original size:70 final size:70
Alignment explanation
Indices: 44251618--44251755 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 70
44251608 GGTAAAATAG
*
44251618 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAA
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAA
44251683 ATCAA
66 ATCAA
* * * *
44251688 TAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAA
1 TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAA
44251753 ATC
66 ATC
44251756 GAGGGTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.30
Consensus pattern (70 bp):
TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAA
ATCAA
Found at i:44251872 original size:27 final size:26
Alignment explanation
Indices: 44251795--44251884 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 26
44251785 TAGTACTTTA
**
44251795 ATAATTTTACATGTCGAAGGTATTTC-
1 ATAATTTTACAAATCG-AGGTATTTCG
* *
44251821 AGTAATTTTGCAAA-CTAAGGGTATTTCG
1 A-TAATTTTACAAATC-GA-GGTATTTCG
*
44251849 ATAATTTTACAAATCGAGGATATTTGG
1 ATAATTTTACAAATCGAGG-TATTTCG
*
44251876 GTAATTTTA
1 ATAATTTTA
44251885 TAAACCGGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
26 5 0.10
27 43 0.86
28 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
ATAATTTTACAAATCGAGGTATTTCG
Found at i:44251905 original size:27 final size:26
Alignment explanation
Indices: 44251875--44251935 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
44251865 AGGATATTTG
44251875 GGTAATTTTATAAACCGGGGGTACTTT
1 GGTAATTTTA-AAACCGGGGGTACTTT
* * *
44251902 GGTAATTTTACAACTGGGGGTATTTT
1 GGTAATTTTAAAACCGGGGGTACTTT
*
44251928 AGTAATTT
1 GGTAATTT
44251936 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (26 bp):
GGTAATTTTAAAACCGGGGGTACTTT
Found at i:44251932 original size:26 final size:26
Alignment explanation
Indices: 44251813--44251935 Score: 77
Period size: 27 Copynumber: 4.6 Consensus size: 26
44251803 ACATGTCGAA
* * *
44251813 GGTATTTCAGTAATTTTGCAAACTAAG
1 GGTATTTTAGTAATTTTAC-AACTGAG
* *
44251840 GGTA-TTTCGATAATTTTACAAATCGAG
1 GGTATTTTAG-TAATTTTACAACT-GAG
* ** * * *
44251867 GATATTTGGGTAATTTTATAAACCGGG
1 GGTATTTTAGTAATTTTA-CAACTGAG
* * *
44251894 GGTACTTTGGTAATTTTACAACTGGG
1 GGTATTTTAGTAATTTTACAACTGAG
44251920 GGTATTTTAGTAATTT
1 GGTATTTTAGTAATTT
44251936 GGTAAACTAA
Statistics
Matches: 73, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
26 26 0.36
27 42 0.58
28 5 0.07
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (26 bp):
GGTATTTTAGTAATTTTACAACTGAG
Found at i:44254470 original size:40 final size:40
Alignment explanation
Indices: 44254303--44254506 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
44254293 CGGGATTCAA
* * *
44254303 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
44254343 CCGGATTTGGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
44254384 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
44254424 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
44254464 CCGGATATAAC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
44254503 CCGG
1 CCGG
44254507 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.01
39 26 0.18
40 81 0.56
41 36 0.25
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:44255753 original size:40 final size:40
Alignment explanation
Indices: 44255709--44255792 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
44255699 CATTAAACTT
44255709 ACCTTAATCTAGGTACAAGTATGGCCAAACCTCCTCCTAA
1 ACCTTAATCTAGGTACAAGTATGGCCAAACCTCCTCCTAA
44255749 ACCTTAATCTAGGTACAAGTATGGCCAAACCTCCTCCTAA
1 ACCTTAATCTAGGTACAAGTATGGCCAAACCTCCTCCTAA
44255789 ACCT
1 ACCT
44255793 CTTCCAAACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (40 bp):
ACCTTAATCTAGGTACAAGTATGGCCAAACCTCCTCCTAA
Found at i:44262625 original size:76 final size:79
Alignment explanation
Indices: 44262482--44262681 Score: 237
Period size: 76 Copynumber: 2.5 Consensus size: 79
44262472 CGGGATTCAA
* * * *** *
44262482 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAA-CACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATTG
44262547 CCTTCGGGTCTTAAC
65 CCTTCGGGTCTTAAC
*
44262562 CCGGAT-T-A-ACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TG
1 CCGGATATAACACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AATTG
*
44262623 CCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAAC
* * *
44262638 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATATAA-CACTAGCACAATTGCCTTCGGGTCTTAGCCCGG
44262682 GTATCATTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
76 62 0.61
77 3 0.03
78 2 0.02
79 1 0.01
80 34 0.33
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (79 bp):
CCGGATATAACACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATTGC
CTTCGGGTCTTAAC
Found at i:44262644 original size:40 final size:40
Alignment explanation
Indices: 44262482--44262681 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
44262472 CGGGATTCAA
* * *
44262482 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
44262522 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
44262562 CCGGAT-T---AACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
44262598 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
44262638 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
44262678 CCGG
1 CCGG
44262682 GTATCATTCA
Statistics
Matches: 141, Mismatches: 12, Indels: 14
0.84 0.07 0.08
Matches are distributed among these distances:
36 34 0.24
37 1 0.01
39 3 0.02
40 100 0.71
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:44265309 original size:6 final size:6
Alignment explanation
Indices: 44265279--44265325 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
44265269 AAGCAACATT
* *
44265279 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
44265326 GTGACAGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 33 0.94
7 1 0.03
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:44265341 original size:31 final size:31
Alignment explanation
Indices: 44265300--44265403 Score: 109
Period size: 31 Copynumber: 3.2 Consensus size: 31
44265290 AATCAAAATG
* * *
44265300 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATTAGAATTAGAATCAGAATTAGGTGAC
44265331 AGAATTAGAATTAGAATCAAAATTAGAATTAGGTGAC
1 AGAATTAGAATTAGAATC------AGAATTAGGTGAC
* *
44265368 AGAATTAGAATTAGAATCAGTATTAGGTAAC
1 AGAATTAGAATTAGAATCAGAATTAGGTGAC
44265399 AGAAT
1 AGAAT
44265404 CAATATCAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
31 32 0.52
37 30 0.48
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (31 bp):
AGAATTAGAATTAGAATCAGAATTAGGTGAC
Found at i:44265375 original size:19 final size:19
Alignment explanation
Indices: 44265311--44265381 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
44265301 GAATCAGAAT
* *
44265311 CAGAATCAGAATCAGGTGA
1 CAGAATTAGAATTAGGTGA
*
44265330 CAGAATTAGAATTA-G-AA
1 CAGAATTAGAATTAGGTGA
*
44265347 TCAAAATTAGAATTAGGTGA
1 -CAGAATTAGAATTAGGTGA
44265367 CAGAATTAGAATTAG
1 CAGAATTAGAATTAG
44265382 AATCAGTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.33
19 27 0.63
20 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.24
Consensus pattern (19 bp):
CAGAATTAGAATTAGGTGA
Found at i:44265393 original size:37 final size:37
Alignment explanation
Indices: 44265300--44265393 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
44265290 AATCAAAATG
* *
44265300 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATTAGAATCAGAATTAGAATCAGGTGACAGAATT
* *
44265337 AGAATTAGAATCAAAATTAGAATTAGGTGACAGAATT
1 AGAATTAGAATCAGAATTAGAATCAGGTGACAGAATT
*
44265374 AGAATTAGAATCAGTATTAG
1 AGAATTAGAATCAGAATTAG
44265394 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (37 bp):
AGAATTAGAATCAGAATTAGAATCAGGTGACAGAATT
Found at i:44265572 original size:27 final size:26
Alignment explanation
Indices: 44265534--44265592 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
44265524 GCGAGGCTGC
* *
44265534 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATACTGTGACGAAGCCACCAGA-A
* *
44265561 CAGATACTGTGACTAGGCCACCAGAA
1 CAGATACTGTGACGAAGCCACCAGAA
44265587 CAGATA
1 CAGATA
44265593 TATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CAGATACTGTGACGAAGCCACCAGAA
Found at i:44265684 original size:27 final size:26
Alignment explanation
Indices: 44265636--44265687 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
44265626 GCGAAGCTGC
*
44265636 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
44265662 CAGATATATGTGACG-AGACCACCAGA
1 CAGATAT-TGTGACGAAG-CCACCAGA
44265688 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:44265954 original size:27 final size:27
Alignment explanation
Indices: 44265924--44266332 Score: 534
Period size: 27 Copynumber: 15.2 Consensus size: 27
44265914 AACACCCTAG
* * *
44265924 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
44265951 GGGTAAAACAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
**
44265978 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
44266005 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
44266032 GGGTAAAA-CGATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
*
44266059 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
44266086 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
44266113 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* ** *
44266140 AGGTAAAACGGTAATTCAGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
44266167 GGGTAAAACAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
44266194 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
44266221 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
** *
44266248 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
44266275 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
44266302 GGGTAAAATAGTAATT-TGTAATTCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
44266328 TGGTA
1 GGGTA
44266333 CTTTGATAAT
Statistics
Matches: 337, Mismatches: 43, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.04
27 323 0.96
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTGTAAATCGA
Found at i:44266475 original size:26 final size:26
Alignment explanation
Indices: 44266339--44266478 Score: 86
Period size: 27 Copynumber: 5.2 Consensus size: 26
44266329 GGTACTTTGA
**
44266339 TAATTTTACATGTCGAGGGTATTTCAG
1 TAATTTTACAACT-GAGGGTATTTCAG
* *
44266366 TAATTTTGCAATCTAAGGGTATTTC-G
1 TAATTTTACAA-CTGAGGGTATTTCAG
* * * **
44266392 ATAATTTTATAAATCGAGGATATTTGGG
1 -TAATTTTACAACT-GAGGGTATTTCAG
* * * *
44266420 TAATTTTATAAACCGGGGGTACTTT-GG
1 TAATTTTA-CAACTGAGGGTA-TTTCAG
*
44266447 TAATTTTACAACTGGGGGTATTTCAG
1 TAATTTTACAACTGAGGGTATTTCAG
44266473 TAATTT
1 TAATTT
44266479 GGTAAACTAA
Statistics
Matches: 88, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
25 3 0.03
26 19 0.22
27 59 0.67
28 7 0.08
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
TAATTTTACAACTGAGGGTATTTCAG
Found at i:44293693 original size:20 final size:20
Alignment explanation
Indices: 44293668--44293708 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44293658 CCCTGAGATG
44293668 TTTGAGCTAACAATTTATTT
1 TTTGAGCTAACAATTTATTT
*
44293688 TTTGAGCTAACGATTTATTT
1 TTTGAGCTAACAATTTATTT
44293708 T
1 T
44293709 ATCTTTCTTT
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:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (20 bp):
TTTGAGCTAACAATTTATTT
Found at i:44296956 original size:47 final size:47
Alignment explanation
Indices: 44296887--44297056 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 47
44296877 TGTAATACCA
44296887 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT-TG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCAT-AAGTCTG
* * * * *
44296934 ATGCCATGTCCTAGACATGGTCTTACACTGACACCTCTATACGTGCTG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATAAGT-CTG
* *
44296982 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAATGTGGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATAA-GT--CTG
* *
44297030 ATG-AATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCTAGACATGGTCTTACACT
44297057 AGCGTACAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
46 16 0.15
47 52 0.49
48 39 0.36
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATAAGTCTG
Found at i:44301292 original size:71 final size:71
Alignment explanation
Indices: 44301217--44301380 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
44301207 GGGATGTATC
* *
44301217 CCATGTAGACAGGAGAGCTACGTGAGAGATAAATGTAGCTTGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44301282 AGGACA
66 AGGACA
44301288 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44301353 AGGACA
66 AGGACA
*
44301359 CCATGTAGATAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44301381 AGACAAATTG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Done.