Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 92 of 344
Found at i:30712040 original size:24 final size:24
Alignment explanation
Indices: 30711991--30712040 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30711981 TTGTGCTATA
* *
30711991 TTATGTTGCATGTTTTGGAATGGC
1 TTATGTGGCATGTTTTGGAATAGC
30712015 TTATGTGGCATGTTTTGTG-ATAGC
1 TTATGTGGCATGTTTTG-GAATAGC
30712039 TT
1 TT
30712041 GAATATGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.16, C:0.08, G:0.28, T:0.48
Consensus pattern (24 bp):
TTATGTGGCATGTTTTGGAATAGC
Found at i:30718760 original size:19 final size:19
Alignment explanation
Indices: 30718736--30718773 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30718726 ATTTAATATT
30718736 TGTAAAAGATAATTTTTCA
1 TGTAAAAGATAATTTTTCA
30718755 TGTAAAAGATAATTTTTCA
1 TGTAAAAGATAATTTTTCA
30718774 CTTTGAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
TGTAAAAGATAATTTTTCA
Found at i:30718791 original size:22 final size:24
Alignment explanation
Indices: 30718763--30718817 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
30718753 CATGTAAAAG
30718763 ATAATTTTTCA-CTT-TGAGTAGC
1 ATAATTTTTCATCTTATGAGTAGC
*
30718785 ATAA-TTTTCATTTTTATGAGTAGC
1 ATAATTTTTCA-TCTTATGAGTAGC
30718809 ATAATTTTT
1 ATAATTTTT
30718818 GTTTTTAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 2 0.07
24 12 0.43
25 4 0.14
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (24 bp):
ATAATTTTTCATCTTATGAGTAGC
Found at i:30722321 original size:30 final size:30
Alignment explanation
Indices: 30722287--30722346 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30722277 ATTTAATACG
30722287 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
30722317 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30722347 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30729722 original size:49 final size:49
Alignment explanation
Indices: 30729666--30729884 Score: 333
Period size: 47 Copynumber: 4.6 Consensus size: 49
30729656 TATTTGAATA
30729666 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
30729715 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
30729764 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
30729811 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30729858 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
30729885 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
47 95 0.60
48 1 0.01
49 63 0.40
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30731662 original size:37 final size:37
Alignment explanation
Indices: 30731604--30731678 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
30731594 TGGGAAAAAT
* *
30731604 TTGGTGACCCGATTTCGTATGTTTATGGATGTTTAAG
1 TTGGTGACCCGATTTCATATGTTTATGAATGTTTAAG
*
30731641 TTGGTGACCC-AGTTTTATATGTTTATGAATGTTTAAG
1 TTGGTGACCCGA-TTTCATATGTTTATGAATGTTTAAG
30731678 T
1 T
30731679 CCGGTAACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.45
Consensus pattern (37 bp):
TTGGTGACCCGATTTCATATGTTTATGAATGTTTAAG
Found at i:30734943 original size:15 final size:15
Alignment explanation
Indices: 30734923--30734951 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30734913 TATGAACCTT
30734923 AACTATTATTCTAAA
1 AACTATTATTCTAAA
30734938 AACTATTATTCTAA
1 AACTATTATTCTAA
30734952 CATCGAGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (15 bp):
AACTATTATTCTAAA
Found at i:30739299 original size:74 final size:77
Alignment explanation
Indices: 30739217--30739392 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 77
30739207 TTTGAAAAAT
30739217 GTATCGATACTATGG-AAAGG-GT-ATTAAT-ACA-TTTGTTTTTTACTAAATTTTTTCAAACAT
1 GTATCGATACTA-GGCAAAGGTGTCA-TAATCACACTTTGTTTTTTACTAAATTTTTTCAAACAT
* * *
30739277 CGAAGCTTAAATTG
64 CAAAGCTCAAATTA
* * *
30739291 GTATCGATACCAGGCAAAGGTGTCGATAATCGACACCTTTTTTTTTTTGCTAAATTTTTTCAAAC
1 GTATCGATACTAGGCAAAGGTGTC-ATAATC-ACA-C-TTTGTTTTTTACTAAATTTTTTCAAAC
30739356 ATCAAAGCTCAAATTA
62 ATCAAAGCTCAAATTA
*
30739372 GTATCGATACTGGGCAAAGGT
1 GTATCGATACTAGGCAAAGGT
30739393 ATTGATACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
73 2 0.02
74 16 0.19
75 2 0.02
76 4 0.05
77 1 0.01
78 3 0.04
81 57 0.67
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (77 bp):
GTATCGATACTAGGCAAAGGTGTCATAATCACACTTTGTTTTTTACTAAATTTTTTCAAACATCA
AAGCTCAAATTA
Found at i:30750746 original size:19 final size:20
Alignment explanation
Indices: 30750722--30750778 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
30750712 TAATGGTGTT
30750722 TGATTAGTGGAATTATGT-C
1 TGATTAGTGGAATTATGTGC
* *
30750741 TGATTAGTGGAACTAGGTGC
1 TGATTAGTGGAATTATGTGC
*
30750761 -GATTAGTGGAATCATGTG
1 TGATTAGTGGAATTATGTG
30750779 TGCATATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.32, T:0.35
Consensus pattern (20 bp):
TGATTAGTGGAATTATGTGC
Found at i:30753017 original size:93 final size:93
Alignment explanation
Indices: 30752905--30753076 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
30752895 GCCCGTAAGT
*
30752905 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
30752969 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
30752998 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30753063 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
30753077 AAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:30753072 original size:46 final size:46
Alignment explanation
Indices: 30752900--30753072 Score: 215
Period size: 46 Copynumber: 3.7 Consensus size: 46
30752890 AACCCGCCCG
*
30752900 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCA
* * * *
30752946 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCATCCA
*** *
30752992 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCA
*
30753039 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
30753073 TGCCAAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.02
46 69 0.64
47 36 0.34
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCA
Found at i:30755270 original size:266 final size:266
Alignment explanation
Indices: 30754792--30755272 Score: 847
Period size: 266 Copynumber: 1.8 Consensus size: 266
30754782 TTGACGTTAA
* *
30754792 ATGATGATATGAAAGGATTGATGAGTTAAATGATATACTTATATATGAGAAATCTATTTATTTTA
1 ATGATGATATGAAAGGATTGATGAGTTAAATGATATACTTATATATCAGAAATCCATTTATTTTA
* *
30754857 TGGATGAATTTACCTATATCATGGATAAATACACTAACTCGTGAATTGATAATGTTGTTTAGGCT
66 TGGATGAATTTACCTATATCATGGATAAATACACTAAATCGTGAATTGATAATATTGTTTAGGCT
* *
30754922 TATGTTAAGTATTTGAAATGGAATAGAAAGTAAGTAAATGAAATGGTTCCTAATCTTATGAAAAG
131 TATGTTAAGTATTTGAAATGGAATAGAAAGTAAGTAAATGAAATGGTTCATAATCTTACGAAAAG
*
30754987 GTTGATGATTGCGTAATATGAAACGGGTAAAAAAGGGGAGTGAAACGGTAAGTTCATAATTAGGA
196 GTTGATGATTACGTAATATGAAACGGGTAAAAAAGGGGAGTGAAACGGTAAGTTCATAATTAGGA
30755052 TGTAAT
261 TGTAAT
* *
30755058 ATGATGATATGAAAGGATTGATGAGTTAAATGATGTACTTATATGTCAGAAATCCATTTATTTTA
1 ATGATGATATGAAAGGATTGATGAGTTAAATGATATACTTATATATCAGAAATCCATTTATTTTA
*
30755123 TGGATGAATTTACCTATATCATGGATAAATGCACTAAATCGTGAATTGATAATATTGTTTAGGCT
66 TGGATGAATTTACCTATATCATGGATAAATACACTAAATCGTGAATTGATAATATTGTTTAGGCT
*
30755188 TATGTTAAGTATTTGAAATGGAATGGAAAGTAAGTAAAT-AGAATGGTTCATAATCTTACGAAAA
131 TATGTTAAGTATTTGAAATGGAATAGAAAGTAAGTAAATGA-AATGGTTCATAATCTTACGAAAA
30755252 GGTTGATGATTACGTAATATG
195 GGTTGATGATTACGTAATATG
30755273 TCTTATAAAA
Statistics
Matches: 203, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
265 1 0.00
266 202 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (266 bp):
ATGATGATATGAAAGGATTGATGAGTTAAATGATATACTTATATATCAGAAATCCATTTATTTTA
TGGATGAATTTACCTATATCATGGATAAATACACTAAATCGTGAATTGATAATATTGTTTAGGCT
TATGTTAAGTATTTGAAATGGAATAGAAAGTAAGTAAATGAAATGGTTCATAATCTTACGAAAAG
GTTGATGATTACGTAATATGAAACGGGTAAAAAAGGGGAGTGAAACGGTAAGTTCATAATTAGGA
TGTAAT
Found at i:30765490 original size:27 final size:27
Alignment explanation
Indices: 30765452--30765505 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
30765442 ACCATAGATG
*
30765452 TCACATCTAATTCTGGAATCATGCCTT
1 TCACAACTAATTCTGGAATCATGCCTT
*
30765479 TCACAACTAATTTTGGAATCATGCCTT
1 TCACAACTAATTCTGGAATCATGCCTT
30765506 ACCCTCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (27 bp):
TCACAACTAATTCTGGAATCATGCCTT
Found at i:30770141 original size:42 final size:42
Alignment explanation
Indices: 30770080--30770275 Score: 167
Period size: 42 Copynumber: 4.5 Consensus size: 42
30770070 TGTCTTAGAC
* ** *
30770080 ATGGTCTTACATGGTATCTCACATCGATGCCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAT
* * * *
30770122 ATGGTCTTATACGAAATCTCATTTCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAT
* ** *
30770164 GTGGTCTTACACGAAATCTCATATTAATGCCATATCCTAGAT
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAT
* * ** *
30770206 ATGGTCTTACAAGATGACACATACTGATGCCGACGCCATATCCCAGAT
1 ATGGTCTTAC---ACGA-A-AT-CTCATATCGATGCCATATCCCAGAT
**
30770254 ATGGTCTTACACGGGATCTCAT
1 ATGGTCTTACACGAAATCTCAT
30770276 CAACCCAAAT
Statistics
Matches: 119, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
42 81 0.68
43 2 0.02
45 5 0.04
46 1 0.01
47 2 0.02
48 28 0.24
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAT
Found at i:30770577 original size:16 final size:15
Alignment explanation
Indices: 30770551--30770580 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30770541 ATAATAGAAA
30770551 ATCACTTATTTAATG
1 ATCACTTATTTAATG
30770566 ATCACATTATTTAAT
1 ATCAC-TTATTTAAT
30770581 AGCAGCCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
ATCACTTATTTAATG
Found at i:30773096 original size:33 final size:33
Alignment explanation
Indices: 30773051--30773117 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30773041 ACCCAGATGA
30773051 TAGTCAACTACCAACTCATAATCTTTTATCAAC
1 TAGTCAACTACCAACTCATAATCTTTTATCAAC
*
30773084 TAGTCAATTACCAACTCATAATCTTTTATCAAC
1 TAGTCAACTACCAACTCATAATCTTTTATCAAC
30773117 T
1 T
30773118 CTAGCCACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (33 bp):
TAGTCAACTACCAACTCATAATCTTTTATCAAC
Found at i:30773118 original size:18 final size:18
Alignment explanation
Indices: 30773062--30773118 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
30773052 AGTCAACTAC
30773062 CAACTCATAATCTTTTAT
1 CAACTCATAATCTTTTAT
* ** *
30773080 CAA--C-TAGTCAATTAC
1 CAACTCATAATCTTTTAT
30773095 CAACTCATAATCTTTTAT
1 CAACTCATAATCTTTTAT
30773113 CAACTC
1 CAACTC
30773119 TAGCCACCTC
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 10 0.36
16 1 0.04
17 1 0.04
18 16 0.57
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (18 bp):
CAACTCATAATCTTTTAT
Found at i:30775771 original size:18 final size:18
Alignment explanation
Indices: 30775748--30775784 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30775738 AAGTTAAATT
30775748 ACATGGGTAATAATCCTC
1 ACATGGGTAATAATCCTC
30775766 ACATGGGTAATAATCCTC
1 ACATGGGTAATAATCCTC
30775784 A
1 A
30775785 ATCTCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
ACATGGGTAATAATCCTC
Found at i:30786360 original size:39 final size:39
Alignment explanation
Indices: 30786327--30786413 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
30786317 CCGGCAATTA
*
30786327 GCCTGCTAGGTATAAACTTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
* **
30786366 GCCTGCTAGGTATAAACCTGAATTTATCACTAGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
30786405 GCCTGCTAG
1 GCCTGCTAG
30786414 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:30789633 original size:49 final size:50
Alignment explanation
Indices: 30789556--30789787 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 50
30789546 TACTAAGTGC
* * * *
30789556 AGTACTAAGTTCAGGCTACTACGTGTACCGGATTATT-GGTCGCATGTGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGT
* * * * * * *
30789605 AGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACATGTGT
* ** *
30789656 AGTACTAAGTGCA-GCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGT
* *
30789705 AGTACTAAGTCCAGGCTACTACGTGTACCAGATAATT-GGTCGCATGTGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGT
* * *
30789754 AGTACTAAGTGCAGACTACTATGCGTACCAGATA
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATA
30789788 GCTTTGGCTA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 94 0.62
50 37 0.24
51 21 0.14
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGT
Found at i:30789733 original size:100 final size:97
Alignment explanation
Indices: 30789556--30789786 Score: 264
Period size: 100 Copynumber: 2.3 Consensus size: 97
30789546 TACTAAGTGC
* * * * **
30789556 AGTACTAAGTTCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTGTAGGC
1 AGTACTAAGTGCA-GCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTCCAGGC
* * *
30789621 TACTATGCGTACCCGATAACTTCGATCACGTGTGT
65 TACTACGCGTACCAGATAA-TT-GATCACATGTGT
* * *
30789656 AGTACTAAGTGCAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTCCAGGC
1 AGTACTAAGTGCAGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGTCCAGGC
* * *
30789721 TACTACGTGTACCAGATAATTGGTCGCATGTGT
65 TACTACGCGTACCAGATAATTGATCACATGTGT
* *
30789754 AGTACTAAGTGCAGACTACTATGCGTACCAGAT
1 AGTACTAAGTGCAG-CTACTACGTGTACCAGAT
30789787 AGCTTTGGCT
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 23 0.21
99 36 0.32
100 52 0.47
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (97 bp):
AGTACTAAGTGCAGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTCCAGGCT
ACTACGCGTACCAGATAATTGATCACATGTGT
Found at i:30792851 original size:39 final size:40
Alignment explanation
Indices: 30792806--30792916 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
30792796 CGGGGTTTAG
* * *
30792806 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
30792845 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
30792885 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
30792917 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:30792876 original size:40 final size:41
Alignment explanation
Indices: 30792829--30793014 Score: 232
Period size: 41 Copynumber: 4.6 Consensus size: 41
30792819 CTCGCACAAG
* * * * *
30792829 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
30792869 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
30792909 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
30792950 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
30792991 GCCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
30793015 CATTCGAGTA
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
40 61 0.47
41 70 0.53
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:30792970 original size:81 final size:82
Alignment explanation
Indices: 30792829--30793012 Score: 214
Period size: 81 Copynumber: 2.3 Consensus size: 82
30792819 CTCGCACAAG
* * * * * *
30792829 GCCTTCGG-GTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGAG-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
*
30792892 TAGTCGC-TAGCACAAAT
65 TAGTCGCTTAGCACAAAA
* * * *
30792909 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTC-GGATCTTAGTCCGGATG
1 GCCTTCGGAGCTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGA-CTTAGCCCGGATA
30792973 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
*
30792991 GCCTTCGGGGCTTAGCCCGGAT
1 GCCTTCGGAGCTTAGCCCGGAT
30793013 ATCATTCGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 26 0.30
81 32 0.37
82 28 0.33
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (82 bp):
GCCTTCGGAGCTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:30797449 original size:38 final size:38
Alignment explanation
Indices: 30797407--30797482 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
30797397 CAAGAACTCC
30797407 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
30797445 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
30797483 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:30800853 original size:38 final size:38
Alignment explanation
Indices: 30800788--30800900 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
30800778 ATTTGATGTG
* *
30800788 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCACAGGCTTCGTGCTGGTAAAA
**
30800828 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAAA
* * * *
30800866 TATCAGGGATAAATCCCACAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTA
30800901 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 52 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAAAA
Found at i:30800952 original size:43 final size:43
Alignment explanation
Indices: 30800904--30801183 Score: 472
Period size: 43 Copynumber: 6.5 Consensus size: 43
30800894 GCTGGTATTA
30800904 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
** *
30800947 TATTCGGGCCTTCGTGCCTAGCAGGCTTTATGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
30800990 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
30801033 TATTCAGGCCTTCGTGTCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
30801076 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
30801119 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGT-ATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
30801161 TATTCGGGCCTTCGTGCCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCA
30801184 AGCGTAATAC
Statistics
Matches: 219, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
42 26 0.12
43 193 0.88
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:30805283 original size:40 final size:40
Alignment explanation
Indices: 30805183--30805354 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
30805173 GCTCCTCGTT
* * *
30805183 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
30805223 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
30805262 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
30805302 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
30805342 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30805355 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:30820614 original size:42 final size:43
Alignment explanation
Indices: 30820507--30820615 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 43
30820497 GAATCGCATC
* *
30820507 CATTATGAACTTAGACCACTCAACGAGCTCGGATGATCACATC
1 CATTATGAACTTAGACCACTCAACGAGCTCGGATGACCACATA
* * * * *
30820550 CATAATGAACTCAAACCTCTCAACGAGCTTGGATG-CCACATA
1 CATTATGAACTTAGACCACTCAACGAGCTCGGATGACCACATA
* * *
30820592 GATTACGAACTTGGACCACTCAAC
1 CATTATGAACTTAGACCACTCAAC
30820616 AAGTTCGAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 22 0.42
43 30 0.58
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
CATTATGAACTTAGACCACTCAACGAGCTCGGATGACCACATA
Found at i:30820643 original size:85 final size:85
Alignment explanation
Indices: 30820508--30820663 Score: 188
Period size: 85 Copynumber: 1.8 Consensus size: 85
30820498 AATCGCATCC
* * * *
30820508 ATTATGAACTTAGACCACTCAACGAGCTCGGATGATCACATCCATAATGAACTCAAACC-TCTCA
1 ATTACGAACTTAGACCACTCAACAAGCTCGAATGATCACATACATAATGAACTCAAACCGT-TCA
30820572 ACGAGCTTGGATGCCACATAG
65 ACGAGCTTGGATGCCACATAG
* * ** * * **
30820593 ATTACGAACTTGGACCACTCAACAAGTTCGAATTCTCACATATATCATGAACTCGGACCGTTCAA
1 ATTACGAACTTAGACCACTCAACAAGCTCGAATGATCACATACATAATGAACTCAAACCGTTCAA
30820658 CGAGCT
66 CGAGCT
30820664 CAGATTTCTA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
85 57 0.98
86 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (85 bp):
ATTACGAACTTAGACCACTCAACAAGCTCGAATGATCACATACATAATGAACTCAAACCGTTCAA
CGAGCTTGGATGCCACATAG
Found at i:30824514 original size:46 final size:46
Alignment explanation
Indices: 30824460--30824588 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
30824450 ATGGTTTTGC
*
30824460 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* * *
30824507 -TCTGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
30824552 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
30824589 GGGCGGGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.08
45 4 0.06
46 29 0.41
47 29 0.41
48 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:30831982 original size:46 final size:46
Alignment explanation
Indices: 30831932--30832091 Score: 164
Period size: 46 Copynumber: 3.5 Consensus size: 46
30831922 TGGTTGAGCA
*
30831932 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
* * * * *
30831978 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAA--A--CG
* *
30832025 TCCGAACTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
* * *
30832071 CCCGAGCTCATTGAGTTGAGT
1 TCCGAACTCGTTGAGTTGAGT
30832092 TTGAGTTCAC
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.07
45 3 0.03
46 47 0.51
47 28 0.30
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
Found at i:30833735 original size:48 final size:48
Alignment explanation
Indices: 30833697--30833885 Score: 270
Period size: 48 Copynumber: 3.9 Consensus size: 48
30833687 TACATAAATC
* ** *
30833697 CACATATCATTACCGATGCCATGTCTTAGACATGGTCTTACACTGGCG
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
* * * * *
30833745 CACATATCATCGCCGTTGCCATGTCCCAAACGTGGTCTTATACTGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
30833793 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
** *
30833841 CACATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACTG
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTG
30833886 AATCTCATTT
Statistics
Matches: 124, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 124 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
Found at i:30835897 original size:27 final size:28
Alignment explanation
Indices: 30835862--30835914 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
30835852 TTATTTAGAA
* *
30835862 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAATGTTAATCTGGGCCATAGCCCAT
*
30835889 ATCAATGTTAATTTGGGCCATAGCCC
1 ATCAATGTTAATCTGGGCCATAGCCC
30835915 CTTACAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (28 bp):
ATCAATGTTAATCTGGGCCATAGCCCAT
Found at i:30840208 original size:41 final size:41
Alignment explanation
Indices: 30840151--30840300 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
30840141 TCGGGGTTAA
30840151 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
30840192 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
30840233 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
30840273 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
30840301 TGAGTCAGCA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:30843121 original size:28 final size:27
Alignment explanation
Indices: 30843020--30843121 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
30843010 TCAGTGTTAA
* * *
30843020 CTGGGCCTTAGCCCATATCAATGTTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
30843048 CTGGGCCATAGCTCCTTA-CAGTATCAGAGTAT
1 CTGGGCC-TAGC-CCATATCAGTATC--A--AT
*
30843080 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
30843108 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
30843122 TATTACAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
27 6 0.10
28 23 0.40
29 4 0.07
30 2 0.03
31 4 0.07
32 13 0.22
33 6 0.10
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:30843141 original size:60 final size:59
Alignment explanation
Indices: 30843021--30843157 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
30843011 CAGTGTTAAC
* *
30843021 TGGGCCTTAGCCCATATCAATGTTAATCTGGGCCATAGCTCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCTCCTTACAG-ATCAGAGTATAT
* *
30843082 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGC-CCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCTCC--TTACAGA-TCAGAG-TATAT
* *
30843142 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
30843158 TATCACAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 6 0.09
60 49 0.74
61 11 0.17
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCTCCTTACAGATCAGAGTATAT
Found at i:30843204 original size:19 final size:20
Alignment explanation
Indices: 30843162--30843205 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
30843152 CCATATTATC
** *
30843162 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
30843182 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
30843201 ACAGT
1 ACAGT
30843206 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:30843524 original size:26 final size:26
Alignment explanation
Indices: 30843490--30843557 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
30843480 TCAGTCAAAA
* * *
30843490 TTAACCCTAGGGGTATAACGGTCATT
1 TTAAACCTAGGGGTAAAACGGTAATT
*
30843516 TTAAACCTAGGCGTAAAACGGTAATT
1 TTAAACCTAGGGGTAAAACGGTAATT
* *
30843542 TTCATACTTAGGGGTA
1 TT-AAACCTAGGGGTA
30843558 GTTTAATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (26 bp):
TTAAACCTAGGGGTAAAACGGTAATT
Found at i:30848708 original size:54 final size:54
Alignment explanation
Indices: 30848590--30848815 Score: 188
Period size: 54 Copynumber: 4.2 Consensus size: 54
30848580 TTAGTTTACC
* ** * **
30848590 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTC-AATTTGTA
* ***
30848643 AAATTATCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTA
* * ** * * *
30848697 AAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAA
1 AAATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCC-TCAATTTGT-A
* * * * *
30848753 AAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACCA-AAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTA
*
30848807 GAATTACCA
1 AAATTACCA
30848816 TTTTACCCTC
Statistics
Matches: 137, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
53 30 0.22
54 57 0.42
55 14 0.10
56 36 0.26
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTA
Found at i:30848729 original size:27 final size:27
Alignment explanation
Indices: 30848590--30848716 Score: 177
Period size: 27 Copynumber: 4.7 Consensus size: 27
30848580 TTAGTTTACC
30848590 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
30848617 AAATTA-CAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
30848643 AAATTATCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
30848670 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
30848697 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
30848717 ATTTACAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 29 0.33
27 54 0.62
28 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:30848736 original size:27 final size:27
Alignment explanation
Indices: 30848706--30848803 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
30848696 AAAATTACCA
*
30848706 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
30848733 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
30848762 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
* *
30848789 AAATGCCCTCGATTT
1 AAATACCCTTGATTT
30848804 GTAGAATTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
27 31 0.53
28 7 0.12
29 21 0.36
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:30848824 original size:27 final size:27
Alignment explanation
Indices: 30848794--30848991 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
30848784 TACTGAAATG
* *
30848794 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
30848821 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
*
30848848 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
30848875 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * **
30848902 CCCTTGAATTACAAAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
30848929 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
30848956 CCCT-TAGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
*
30848983 CCATCGATT
1 CCCTCGATT
30848992 GTGAAATTAC
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:30848840 original size:110 final size:110
Alignment explanation
Indices: 30848590--30848815 Score: 280
Period size: 110 Copynumber: 2.1 Consensus size: 110
30848580 TTAGTTTACC
* ** * * * *
30848590 AAATTACCAAAATACCCCTGGTTTGTAAAATTACA-AAATACCCCTG-GTTTGT-AAAATTATCA
1 AAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAAAATTATCA
***
30848652 AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
66 AAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTA
30848697 AAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAAAATTAT-A
1 AAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAAAATTATCA
* * * *
30848761 GAAATACCATTGGTTTACAAAATTACTGAAATGCCCTCGATTTGTA
66 -AAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTA
*
30848807 GAATTACCA
1 AAATTACCA
30848816 TTTTACCCTC
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
107 31 0.31
108 10 0.10
109 5 0.05
110 54 0.54
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (110 bp):
AAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAAAATTATCA
AAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTA
Found at i:30849026 original size:27 final size:27
Alignment explanation
Indices: 30848996--30849404 Score: 459
Period size: 27 Copynumber: 15.3 Consensus size: 27
30848986 TCGATTGTGA
* * *
30848996 AATTACTGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
30849023 AATTA-CAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
30849049 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
30849076 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30849103 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30849130 AATTACCAAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30849157 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30849184 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
30849211 AATTATTGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
30849238 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30849265 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30849292 AATCATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
30849319 AATTACCGAAATACCCCTGTAAAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
30849346 AATTA-CAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
30849372 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
30849398 AATTACC
1 AATTACC
30849405 ATTTTACCCC
Statistics
Matches: 327, Mismatches: 51, Indels: 9
0.84 0.13 0.02
Matches are distributed among these distances:
26 55 0.17
27 272 0.83
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:30849883 original size:22 final size:22
Alignment explanation
Indices: 30849831--30849895 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
30849821 TTAAAGCCTT
* *
30849831 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30849853 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
30849875 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
30849896 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30850084 original size:27 final size:27
Alignment explanation
Indices: 30850054--30850155 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
30850044 ATTCTGTTAA
* *
30850054 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
30850081 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
30850108 GTGGCTCTGCCATAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
30850135 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
30850156 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:30850330 original size:6 final size:6
Alignment explanation
Indices: 30850315--30850397 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
30850305 ATTCTGTTAC
* * * *
30850315 CTGATA CTGATT CTGATT TTGATT TTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
30850364 CTAATT CT-ATCAC CTAATT CTGATT CTGATT CTG
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTG
30850398 TCACCTAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 4 0.06
8 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:30850347 original size:31 final size:31
Alignment explanation
Indices: 30850292--30850394 Score: 134
Period size: 31 Copynumber: 3.3 Consensus size: 31
30850282 TTCCATTCAC
30850292 ATTCTGATTTTTAATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTAATTCTGTTACCTGATACTG
* *
30850324 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTAATTCTGTTACCTGATACTG
* * * * *
30850355 ATTCTGATTCTAATTCTATCACCTAATTCTG
1 ATTCTGATTTTAATTCTGTTACCTGATACTG
30850386 ATTCTGATT
1 ATTCTGATT
30850395 CTGTCACCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
31 55 0.89
32 7 0.11
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTAATTCTGTTACCTGATACTG
Found at i:30850417 original size:27 final size:25
Alignment explanation
Indices: 30850355--30850421 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
30850345 CCTGATACTG
*
30850355 ATTCTGATTCTAATTCTATCACCTA
1 ATTCTGATTCTGATTCTATCACCTA
*
30850380 ATTCTGATTCTGATTCTGTCACCTAAA
1 ATTCTGATTCTGATTCTATCACCT--A
*
30850407 ATTTTGATTCTGATT
1 ATTCTGATTCTGATT
30850422 TTGATTCTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 22 0.59
27 15 0.41
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTA
Found at i:30859504 original size:33 final size:33
Alignment explanation
Indices: 30859467--30859533 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30859457 ATGAAAAATG
*
30859467 TGGGTTTTTGTAAGAGGGATTATGAATCGACTA
1 TGGGTTTTTATAAGAGGGATTATGAATCGACTA
30859500 TGGGTTTTTATAAGAGGGATTATGAATCGACTA
1 TGGGTTTTTATAAGAGGGATTATGAATCGACTA
30859533 T
1 T
30859534 ACTTGGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.37
Consensus pattern (33 bp):
TGGGTTTTTATAAGAGGGATTATGAATCGACTA
Found at i:30865503 original size:59 final size:59
Alignment explanation
Indices: 30865436--30865555 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
30865426 AATCGGTTTG
30865436 GTGGTGATAAAAATTACAAGGTGTAGTAGGCTTTGAAATGAGCACTACTTGGAGATCAT
1 GTGGTGATAAAAATTACAAGGTGTAGTAGGCTTTGAAATGAGCACTACTTGGAGATCAT
*
30865495 GTGGTGATAAAAATTACAAGGTGTAGTAGGTTTTGAAATGAGCACTACTTGGAGATCAT
1 GTGGTGATAAAAATTACAAGGTGTAGTAGGCTTTGAAATGAGCACTACTTGGAGATCAT
30865554 GT
1 GT
30865556 TCTTTGTCTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (59 bp):
GTGGTGATAAAAATTACAAGGTGTAGTAGGCTTTGAAATGAGCACTACTTGGAGATCAT
Found at i:30868413 original size:24 final size:26
Alignment explanation
Indices: 30868369--30868417 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
30868359 TGAGGTATGT
30868369 TTGTATGTTAAATAAGCTTTAATATAA
1 TTGTATGTTAAAT-AGCTTTAATATAA
30868396 TTGTAT-TTAAAT-GCTTTAATAT
1 TTGTATGTTAAATAGCTTTAATAT
30868418 TGCATGACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (26 bp):
TTGTATGTTAAATAGCTTTAATATAA
Found at i:30879321 original size:28 final size:28
Alignment explanation
Indices: 30879290--30879343 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
30879280 ATGTGATAGA
30879290 GTCACCAGAACAGATAATTTGTGGCAGG
1 GTCACCAGAACAGATAATTTGTGGCAGG
30879318 GTCACCAGAACAGATAATTTGTGGCA
1 GTCACCAGAACAGATAATTTGTGGCA
30879344 TAGCCACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (28 bp):
GTCACCAGAACAGATAATTTGTGGCAGG
Found at i:30879351 original size:28 final size:28
Alignment explanation
Indices: 30879287--30879353 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
30879277 AAAATGTGAT
*
30879287 AGAGTCACCAGAACAGATAATTTGTGGC
1 AGAGCCACCAGAACAGATAATTTGTGGC
* *
30879315 AGGGTCACCAGAACAGATAATTTGTGGC
1 AGAGCCACCAGAACAGATAATTTGTGGC
*
30879343 ATAGCCACCAG
1 AGAGCCACCAG
30879354 GACGCTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (28 bp):
AGAGCCACCAGAACAGATAATTTGTGGC
Found at i:30879506 original size:28 final size:28
Alignment explanation
Indices: 30879459--30879523 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
30879449 AAATTAACCC
*
30879459 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* * *
30879487 TAGGGGTATAATGGTAATTTTTCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
30879515 TAGGGGTAT
1 TAGGGGTAT
30879524 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:30887129 original size:40 final size:40
Alignment explanation
Indices: 30887067--30887184 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
30887057 TGGAAAAAAA
**
30887067 TATAACCGGGTTAAGTTACGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
30887107 TATGACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * * *
30887147 TATAATCGGGTTAAGTCCCAAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
30887185 GTTACATCCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:30888821 original size:48 final size:48
Alignment explanation
Indices: 30888700--30888822 Score: 210
Period size: 48 Copynumber: 2.6 Consensus size: 48
30888690 ATGCCATACA
* * *
30888700 CCAGATATGATCTTACATGGGATCAAATATCAATGCCAATGCCATCTC
1 CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATCTC
*
30888748 CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTC
1 CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATCTC
30888796 CCAGACATGGTCTTACATGGGATCACA
1 CCAGACATGGTCTTACATGGGATCACA
30888823 CATAACCCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATCTC
Found at i:30896109 original size:16 final size:16
Alignment explanation
Indices: 30896088--30896121 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30896078 CATTAATTAA
30896088 CCAAATGACTAAAATG
1 CCAAATGACTAAAATG
30896104 CCAAATGACTAAAATG
1 CCAAATGACTAAAATG
30896120 CC
1 CC
30896122 CTTCCTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (16 bp):
CCAAATGACTAAAATG
Found at i:30897324 original size:27 final size:27
Alignment explanation
Indices: 30897294--30897436 Score: 216
Period size: 27 Copynumber: 5.3 Consensus size: 27
30897284 TAATTTGATG
*
30897294 AAATGACTATTTTGCCCTTAAGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * *
30897321 AAATGTCTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
30897348 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
30897375 AAATGACTGTTTTG-CCTCTATGTGGTA
1 AAATGACTATTTTGCCCT-TATGTGGTA
*
30897402 AAATGACTATTTTGTCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
30897429 AAATGACT
1 AAATGACT
30897437 GAAATGCCCC
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 3 0.03
27 99 0.94
28 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:30897477 original size:81 final size:81
Alignment explanation
Indices: 30897294--30897479 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 81
30897284 TAATTTGATG
* * * * * *
30897294 AAATGACTATTTTGCCCTTAAGTGGTAAAATGTCTGTTTTGCCCCTATGTGGTAAAATGACTATT
1 AAATAACTATTTTGCCCCTATGTGGTAAAATGACTATTTTGCCCCTATGTGGTAAAATGACTATA
* * ** *
30897359 TTGCCCTTATGTGGTA
66 ATGCCCCTACATGCTA
* * * * *
30897375 AAATGACTGTTTTGCCTCTATGTGGTAAAATGACTATTTTGTCCTTATGTGGTAAAATGACTGA-
1 AAATAACTATTTTGCCCCTATGTGGTAAAATGACTATTTTGCCCCTATGTGGTAAAATGACT-AT
30897439 AATGCCCCTACATGCTA
65 AATGCCCCTACATGCTA
* *
30897456 AATTAACTATTTTTCCCCTATGTG
1 AAATAACTATTTTGCCCCTATGTG
30897480 AGGTATTTAT
Statistics
Matches: 85, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
81 84 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (81 bp):
AAATAACTATTTTGCCCCTATGTGGTAAAATGACTATTTTGCCCCTATGTGGTAAAATGACTATA
ATGCCCCTACATGCTA
Found at i:30897479 original size:54 final size:54
Alignment explanation
Indices: 30897294--30897437 Score: 252
Period size: 54 Copynumber: 2.7 Consensus size: 54
30897284 TAATTTGATG
* *
30897294 AAATGACTATTTTGCCCTTAAGTGGTAAAATGTCTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCCTATGTGGTA
*
30897348 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCTCTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCCTATGTGGTA
*
30897402 AAATGACTATTTTGTCCTTATGTGGTAAAATGACTG
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTG
30897438 AAATGCCCCT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (54 bp):
AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCCTATGTGGTA
Found at i:30897851 original size:18 final size:18
Alignment explanation
Indices: 30897828--30897870 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30897818 CACTGTTTAA
30897828 ACTGTTATTGCACTGATT
1 ACTGTTATTGCACTGATT
* *
30897846 ACTGTTATTGCTCTGTTT
1 ACTGTTATTGCACTGATT
*
30897864 ATTGTTA
1 ACTGTTA
30897871 CTGTAATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (18 bp):
ACTGTTATTGCACTGATT
Found at i:30903942 original size:6 final size:6
Alignment explanation
Indices: 30903924--30904011 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
30903914 AAGAAACATT
*
30903924 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
30903973 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
30904012 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:30903945 original size:18 final size:18
Alignment explanation
Indices: 30903924--30904011 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
30903914 AAGAAACATT
30903924 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
30903942 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
*
30903959 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
30903979 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
30903998 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
30904012 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.40
19 29 0.50
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:30903971 original size:31 final size:31
Alignment explanation
Indices: 30903933--30904011 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
30903923 TATCAGAACT
*
30903933 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
30903964 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
30903995 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
30904012 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:30904001 original size:25 final size:24
Alignment explanation
Indices: 30903938--30903984 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
30903928 GAACTAGAAT
30903938 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
30903963 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
30903985 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:30904271 original size:67 final size:69
Alignment explanation
Indices: 30904114--30904272 Score: 223
Period size: 72 Copynumber: 2.3 Consensus size: 69
30904104 CACCACAGAA
* *
30904114 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATATATGTGGTGAAG
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAG--A-ATATATGTGGCGAAG
*
30904179 CCATCAG
63 CCACCAG
* * *
30904186 ATTGCAGCGAGGCTGCCAGATATTGTGATGAAGTCACCAGA-ACAG-ATATATGTGGCGAGGCTA
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGAATATATGTGGCGAAGCCA
30904249 CCAG
66 CCAG
30904253 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
30904273 AAGCTTCCTC
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
67 38 0.47
71 4 0.05
72 39 0.48
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (69 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGAATATATGTGGCGAAGCCA
CCAG
Found at i:30904601 original size:81 final size:81
Alignment explanation
Indices: 30904489--30904755 Score: 365
Period size: 81 Copynumber: 3.3 Consensus size: 81
30904479 AACACCCTAG
* * * *
30904489 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAG
1 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAG
*
30904554 TAATTTTGTAAATTGA
66 TAATTTTGTAAATCGA
* * * * *
30904570 GGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAATAG
1 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAG
30904635 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
** * * *
30904651 AAGTAAAACAGTAATTCTGTAAATCGATGGTAAAAC-AGTAATTCTGTCAATCGAGGGTAAAATA
1 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAATA
*
30904715 GTAATTTTGTAAATCAA
65 GTAATTTTGTAAATCGA
*
30904732 GGGTAAAATAGTAATTCTATAAAT
1 GGGTAAAATAGTAATTCTGTAAAT
30904756 TAGGGGTACT
Statistics
Matches: 160, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 160 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (81 bp):
GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAG
TAATTTTGTAAATCGA
Found at i:30904763 original size:27 final size:27
Alignment explanation
Indices: 30904489--30904755 Score: 329
Period size: 27 Copynumber: 9.9 Consensus size: 27
30904479 AACACCCTAG
* * *
30904489 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
30904516 GGGTAAAA-CGATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTCTGTAAATCGA
* * *
30904543 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
30904570 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30904597 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30904624 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
** *
30904651 AAGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* * *
30904678 TGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCGA
* *
30904705 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTCTGTAAATCGA
*
30904732 GGGTAAAATAGTAATTCTATAAAT
1 GGGTAAAATAGTAATTCTGTAAAT
30904756 TAGGGGTACT
Statistics
Matches: 206, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 204 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTGTAAATCGA
Found at i:30904786 original size:81 final size:80
Alignment explanation
Indices: 30904489--30904790 Score: 308
Period size: 81 Copynumber: 3.7 Consensus size: 80
30904479 AACACCCTAG
* * * * * *
30904489 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTA-AATCGAGGGTAAAACA
1 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TACAATCGAGGGTAAAATA
**
30904553 GTAATTTTGTAAATTGA
64 GTAATTTTGTAAATCAA
* *
30904570 GGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAATGGTAATTCTATA-AATCGAGGATAAAATA
1 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TACAATCGAGGGTAAAATA
30904634 GTAATTTTGTAAATCGAA
64 GTAATTTTGTAAATC-AA
* * * **
30904652 -AGTAAAACAGTAATTCTGTAAATCGATGGTAAAACAGTAATTCTGT-CAATCGAGGGTAAAATA
1 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TACAATCGAGGGTAAAATA
30904715 GTAATTTTGTAAATCAA
64 GTAATTTTGTAAATCAA
* * ***
30904732 GGGTAAAATAGTAATTCTATAAAT-TAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATAGTAATTCTGTAAATCGA-GGGTAAAATGGTAATTTTACAA-TCGAGGGTA
30904791 TTTCAATAAT
Statistics
Matches: 186, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 7 0.04
81 177 0.95
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (80 bp):
GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTACAATCGAGGGTAAAATAGT
AATTTTGTAAATCAA
Found at i:30904789 original size:27 final size:26
Alignment explanation
Indices: 30904759--30905049 Score: 151
Period size: 27 Copynumber: 10.8 Consensus size: 26
30904749 TATAAATTAG
*
30904759 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTGGTAATTTTACAAATCGA
** ** *
30904786 GGGTATTTCAATAATTTTACAGGTCAA
1 GGGTATTT-GGTAATTTTACAAATCGA
* * * *
30904813 GGTTATTTCTGTAATTTCACAAATCAA
1 GGGTATTT-GGTAATTTTACAAATCGA
* ** * *
30904840 GTGTATTTTGGTAATTTTGTAAACCAA
1 GGGTA-TTTGGTAATTTTACAAATCGA
* * *
30904867 AGGTATTTTGCTAATTTTACAAGTCGA
1 GGGTA-TTTGGTAATTTTACAAATCGA
* * *
30904894 TGGTATTTCAGTAATTTCACAAATCTG-
1 GGGTATTT-GGTAATTTTACAAATC-GA
* *
30904921 GGGTATTTTGGTAATGTTACAAGTCGA
1 GGGTA-TTTGGTAATTTTACAAATCGA
* * *
30904948 GGGT-TTTAGTAATTTCACAAAT-TA
1 GGGTATTTGGTAATTTTACAAATCGA
* *
30904972 GGGGTATTTTGGTAATTTCACAAA-CTA
1 -GGGTA-TTTGGTAATTTTACAAATCGA
*
30904999 GGGGTATATTGGTAATTTTACAAA-CCA
1 -GGGTAT-TTGGTAATTTTACAAATCGA
*
30905026 GGGGTATTTTGGTAACTTTACAAA
1 -GGGTA-TTTGGTAATTTTACAAA
30905050 CCAGGGGTCT
Statistics
Matches: 208, Mismatches: 44, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
24 1 0.00
25 18 0.09
26 8 0.04
27 173 0.83
28 8 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTACAAATCGA
Found at i:30904801 original size:54 final size:53
Alignment explanation
Indices: 30904741--30905048 Score: 214
Period size: 54 Copynumber: 5.7 Consensus size: 53
30904731 AGGGTAAAAT
* *
30904741 AGTAATTCTATAAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTC
1 AGTAATT-TACAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
* ** * * * * * * * *
30904795 AATAATTTTACAGGTCAAGGTTATTTCT-GTAATTTCACAAATCAAGTGTATTTT
1 AGTAA-TTTACAAATTAGGGGTATTT-TGGTAATTTTACAAGTCGAGGGTATTTC
* ** ** ** * *
30904849 GGTAATTTTGTAAACCAAAGGTATTTTGCTAATTTTACAAGTCGATGGTATTTC
1 AGTAA-TTTACAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
*
30904903 AGTAATTTCACAAATCT-GGGGTATTTTGGTAATGTTACAAGTCGAGGGT-TTT-
1 AGTAATTT-ACAAAT-TAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
* * *
30904955 AGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAA-ACTAGGGGTATATT-
1 AGTAATTT-ACAAATTAGGGGTATTTTGGTAATTTTACAAGTCGA-GGGTAT-TTC
* ** *
30905009 GGTAATTTTACAAACCAGGGGTATTTTGGTAACTTTACAA
1 AGTAA-TTTACAAATTAGGGGTATTTTGGTAATTTTACAA
30905049 ACCAGGGGTC
Statistics
Matches: 196, Mismatches: 48, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
51 3 0.02
52 40 0.20
53 8 0.04
54 139 0.71
55 6 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGTAATTTACAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
Found at i:30904827 original size:81 final size:81
Alignment explanation
Indices: 30904752--30905021 Score: 244
Period size: 81 Copynumber: 3.4 Consensus size: 81
30904742 GTAATTCTAT
* *
30904752 AAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTC-AAGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAAGG-
*
30904816 TATTTCTGTAATTTCAC
65 TATTTCAGTAATTTCAC
* * * ** ** * * *** *
30904833 AAATCAAGTGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGCTAATTTTACAAGTCGATGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAAGGT
30904898 ATTTCAGTAATTTCAC
66 ATTTCAGTAATTTCAC
* * * * * *
30904914 AAATCT-GGGGTATTTTGGTAATGTTACAAGTCGAGGGT-TTT-AGTAATTTCACAAAT-TAGGG
1 AAAT-TAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGA-AG
**
30904975 GTATTTTGGTAATTTCAC
64 GTATTTCAGTAATTTCAC
* *
30904993 AAACTAGGGGTATATTGGTAATTTTACAA
1 AAATTAGGGGTATTTTGGTAATTTTACAA
30905022 ACCAGGGGTA
Statistics
Matches: 148, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
78 2 0.01
79 52 0.35
80 3 0.02
81 88 0.59
82 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
AAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAAGGT
ATTTCAGTAATTTCAC
Found at i:30905049 original size:54 final size:51
Alignment explanation
Indices: 30904903--30905070 Score: 185
Period size: 54 Copynumber: 3.2 Consensus size: 51
30904893 ATGGTATTTC
* * *
30904903 AGTAATTTCACAAATCTGGGGTATTTTGGTAATGTTAC-AAGTCGAGGGTTTT
1 AGTAATTTCACAAATCAGGGGTATTTTGGTAAT-TTACAAACTAG-GGGTTTT
*
30904955 AGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATATT
1 AGTAATTTCACAAATCAGGGGTATTTTGGTAATTT-ACAAACTAGGGGT-T-TT
* * * *
30905009 GGTAATTTTACAAACCAGGGGTATTTTGGTAACTTTACAAACCAGGGGTCTTTT
1 AGTAATTTCACAAATCAGGGGTATTTTGGTAA-TTTACAAACTAGGGG--TTTT
30905063 AGTAATTT
1 AGTAATTT
30905071 GGTAAAGTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
51 2 0.02
52 37 0.37
53 5 0.05
54 50 0.51
55 4 0.04
56 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (51 bp):
AGTAATTTCACAAATCAGGGGTATTTTGGTAATTTACAAACTAGGGGTTTT
Found at i:30905050 original size:27 final size:26
Alignment explanation
Indices: 30904823--30905070 Score: 153
Period size: 27 Copynumber: 9.3 Consensus size: 26
30904813 GGTTATTTCT
* * *
30904823 GTAATTTCACAAATCAAGTGTATTTTG
1 GTAATTT-ACAAACCAGGGGTATTTTG
** **
30904850 GTAATTTTGTAAACCAAAGGTATTTTG
1 GTAA-TTTACAAACCAGGGGTATTTTG
* ** * **
30904877 CTAATTTTACAAGTC-GATGGTATTTCA
1 GTAA-TTTACAAACCAG-GGGTATTTTG
* *
30904904 GTAATTTCACAAATCTGGGGTATTTTG
1 GTAATTT-ACAAACCAGGGGTATTTTG
** *
30904931 GTAATGTTACAAGTC-GAGGG--TTTTA
1 GTAAT-TTACAAACCAG-GGGTATTTTG
**
30904956 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTT-ACAAACCAGGGGTATTTTG
* *
30904983 GTAATTTCACAAACTAGGGGTATATTG
1 GTAATTT-ACAAACCAGGGGTATTTTG
30905010 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAA-TTTACAAACCAGGGGTATTTTG
* *
30905037 GTAACTTTACAAACCAGGGGTCTTTTA
1 GTAA-TTTACAAACCAGGGGTATTTTG
30905064 GTAATTT
1 GTAATTT
30905071 GGTAAAGTAA
Statistics
Matches: 179, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
24 2 0.01
25 17 0.09
26 8 0.04
27 143 0.80
28 9 0.05
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
GTAATTTACAAACCAGGGGTATTTTG
Found at i:30905068 original size:133 final size:133
Alignment explanation
Indices: 30904823--30905068 Score: 280
Period size: 133 Copynumber: 1.8 Consensus size: 133
30904813 GGTTATTTCT
* *** *
30904823 GTAATTTCACAAATCAAGTGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGCTAATTTTACA
1 GTAATTTCACAAATCAAGGGTATTTTGGTAATTTCACAAACCAAAGGTATATTGCTAATTTTACA
** * * * *
30904888 AGTCGATGGTATTTCAGTAATTTCACAAATCTGGGGTATTTTGGTAATGTTACAAGTCGAGGGTT
66 AACCGAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTAGTAATGTTACAAGTCGAGGGTT
30904953 TTA
131 TTA
* * * ** *
30904956 GTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATATTGGTAATTTTACA
1 GTAATTTCACAAATCAAGGGTATTTTGGTAATTTCACAAACCAAAGGTATATTGCTAATTTTACA
** *
30905021 AACC-AGGGGTATTTTGGTAACTTT-ACAAACCAGGGGTCTTTTAGTAAT
66 AACCGA-GGGTATTTCAGTAA-TTTCACAAACCAGGGGTATTTTAGTAAT
30905069 TTGGTAAAGT
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
132 1 0.01
133 87 0.96
134 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (133 bp):
GTAATTTCACAAATCAAGGGTATTTTGGTAATTTCACAAACCAAAGGTATATTGCTAATTTTACA
AACCGAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTAGTAATGTTACAAGTCGAGGGTT
TTA
Found at i:30907038 original size:6 final size:6
Alignment explanation
Indices: 30907020--30907076 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
30907010 AAGAAACATT
* *
30907020 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
30907069 ATCAGA AT
1 ATCAGA AT
30907077 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 35 0.83
7 2 0.05
8 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:30907243 original size:27 final size:27
Alignment explanation
Indices: 30907195--30907246 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
30907185 GCGAGGCTGC
*
30907195 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
30907222 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
30907247 ACATAGATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:30907612 original size:27 final size:27
Alignment explanation
Indices: 30907582--30907840 Score: 322
Period size: 27 Copynumber: 9.6 Consensus size: 27
30907572 AACACCCTAG
** *
30907582 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
30907609 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
30907636 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
30907663 GGGTAGAACAGTAATTTTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
30907690 GGGTAAAAC-GATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
* *
30907717 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
30907744 AGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
30907771 TGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
30907798 GGGTAAAATAGTAATTTTATAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
30907825 TGGTAAAATAGTAATT
1 GGGTAAAACAGTAATT
30907841 CTATAAATTA
Statistics
Matches: 202, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 200 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:30907694 original size:81 final size:81
Alignment explanation
Indices: 30907583--30907840 Score: 372
Period size: 81 Copynumber: 3.2 Consensus size: 81
30907573 ACACCCTAGG
** * *
30907583 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAACAGT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATAGT
* *
30907648 AATTTTGTAAATCGAG
66 AATTTTGTAAATCAAA
* * *
30907664 GGTAGAACAGTAATTTTGTCAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATAGT
30907729 AATTTTGTAAATCAAA
66 AATTTTGTAAATCAAA
* * * *
30907745 GGTAAAACAGTAATTCTGTAAATCGATGGTAAAACAGTAATTCTGTCAATCGAGGGTAAAATAGT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATAGT
* *
30907810 AATTTTATAAATCAAT
66 AATTTTGTAAATCAAA
*
30907826 GGTAAAATAGTAATT
1 GGTAAAACAGTAATT
30907841 CTATAAATTA
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 158 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATAGT
AATTTTGTAAATCAAA
Found at i:30907882 original size:27 final size:27
Alignment explanation
Indices: 30907852--30908163 Score: 181
Period size: 27 Copynumber: 11.6 Consensus size: 27
30907842 TATAAATTAG
*
30907852 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
*** *
30907879 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
* * *
30907906 GGGTATTTCT-GTAATTTCACAAAT-TA
1 GGGTATTT-TGGTAATTTTACAAGTCGA
** ** *
30907932 GAGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTACAAGTCGA
*
30907960 GGGTATTTTGGTAATTTTACGAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
* ** * * *
30907987 GGCTATTTCAGTAATTTCACAAATTTG-
1 GGGTATTTTGGTAATTTTAC-AAGTCGA
*
30908014 GGGTATTTTGGTAATGTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
** * * **
30908041 GGG--TTTCAGTAATTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAGTCGA
* * *
30908066 GGGTATTTTGGTAATTTCACAA-ACTA
1 GGGTATTTTGGTAATTTTACAAGTCGA
* *
30908092 GAGGTATTTTGGTAATTTTACAA-ACCA
1 G-GGTATTTTGGTAATTTTACAAGTCGA
* * * *
30908119 GGGGTATTTTTGTAACTTTACAA-ACCA
1 -GGGTATTTTGGTAATTTTACAAGTCGA
*
30908146 GGGGTATTTTAGTAATTT
1 -GGGTATTTTGGTAATTT
30908164 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 54, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
25 18 0.08
26 9 0.04
27 188 0.85
28 6 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAGTCGA
Found at i:30907894 original size:54 final size:53
Alignment explanation
Indices: 30907834--30908163 Score: 206
Period size: 54 Copynumber: 6.2 Consensus size: 53
30907824 ATGGTAAAAT
*
30907834 AGTAATTCTATAAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTC
1 AGTAATT-TATAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
* ** * * * * *
30907888 AATAATTT-TACAGGTCGAGGGTATTTCT-GTAATTTCACAAAT-TAGAGGTATTTT
1 AGTAATTTATA-AATTAG-GGGTATTT-TGGTAATTTTACAAGTCGAG-GGTATTTC
* * ** * * *
30907942 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACGAGTCGAGGCTATTTC
1 AGTAA-TTTATAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
* * *
30907996 AGTAATTTCACAAATTTGGGGTATTTTGGTAATGTTACAAGTCGAGGG--TTTC
1 AGTAATTT-ATAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
* * * * * *
30908048 AGTAATTTCACAAATTAAGGGTATTTTGGTAATTTCACAA-ACTAGAGGTATTTT
1 AGTAATTT-ATAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAG-GGTATTTC
* * ** * * * * *
30908102 GGTAATTTTACAAACCAGGGGTATTTTTGTAACTTTACAA-ACCAGGGGTATTTT
1 AGTAA-TTTATAAATTAGGGGTATTTTGGTAATTTTACAAGTCGA-GGGTATTTC
30908156 AGTAATTT
1 AGTAATTT
30908164 GGTAAACTAA
Statistics
Matches: 214, Mismatches: 48, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
51 3 0.01
52 44 0.21
53 13 0.06
54 141 0.66
55 11 0.05
56 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
AGTAATTTATAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTC
Found at i:30907920 original size:81 final size:81
Alignment explanation
Indices: 30907845--30908114 Score: 305
Period size: 81 Copynumber: 3.4 Consensus size: 81
30907835 GTAATTCTAT
* * *
30907845 AAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGT
1 AAATTAGAGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
30907910 ATTTCTGTAATTTCAC
66 ATTTCTGTAATTTCAC
** ** * ** *
30907926 AAATTAGAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC-GAGTCGAGGC
1 AAATTAGAGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAG-GTCGAGGG
*
30907990 TATTTCAGTAATTTCAC
65 TATTTCTGTAATTTCAC
* * * * ** **
30908007 AAATTTGGGGTATTTTGGTAATGTTACAAGTCGAGGG--TTTCAGTAATTTCACAAATTAAGGGT
1 AAATTAGAGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
30908070 ATTT-TGGTAATTTCAC
66 ATTTCT-GTAATTTCAC
*
30908086 AAACTAGAGGTATTTTGGTAATTTTACAA
1 AAATTAGAGGTATTTTGGTAATTTTACAA
30908115 ACCAGGGGTA
Statistics
Matches: 153, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
79 56 0.37
80 1 0.01
81 96 0.63
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AAATTAGAGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
ATTTCTGTAATTTCAC
Found at i:30908070 original size:52 final size:53
Alignment explanation
Indices: 30907958--30908080 Score: 185
Period size: 52 Copynumber: 2.3 Consensus size: 53
30907948 TTTGTAAACC
* *
30907958 AAGGGTATTTTGGTAATTTTACGAGTCGAGGCTATTTCAGTAATTTCACAAATT
1 AAGGGTATTTTGGTAATGTTACAAGTCGAGGC-ATTTCAGTAATTTCACAAATT
** *
30908012 TGGGGTATTTTGGTAATGTTACAAGTCGAGG-GTTTCAGTAATTTCACAAATT
1 AAGGGTATTTTGGTAATGTTACAAGTCGAGGCATTTCAGTAATTTCACAAATT
30908064 AAGGGTATTTTGGTAAT
1 AAGGGTATTTTGGTAAT
30908081 TTCACAAACT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 35 0.56
54 27 0.44
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (53 bp):
AAGGGTATTTTGGTAATGTTACAAGTCGAGGCATTTCAGTAATTTCACAAATT
Found at i:30908142 original size:133 final size:134
Alignment explanation
Indices: 30907879--30908161 Score: 315
Period size: 133 Copynumber: 2.1 Consensus size: 134
30907869 TACAAGTCGA
* * * * *
30907879 GGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCTGTAATTTCACAAATTAGAGGTATTTTGG
1 GGGTATTTTAGTAATGTTACAAGTCGAGGG-ATTTCAGTAATTTCACAAATTAGAGGTATTTTGG
*** * **
30907944 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACGAGTCGAGGCTATTTCAGTAATTTCACAA
65 TAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAGGCTATTTCAGTAATTTCACAA
***
30908009 ATTTG
130 ACCAG
*
30908014 GGGTATTTTGGTAATGTTACAAGTCGAGGG-TTTCAGTAATTTCACAAATTA-AGGGTATTTTGG
1 GGGTATTTTAGTAATGTTACAAGTCGAGGGATTTCAGTAATTTCACAAATTAGA-GGTATTTTGG
* * **
30908077 TAATTTCACAAA-CTAGAGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTTGTAACTTT-A
65 TAATTTCACAAACCAAG-GGTATTTTGGTAATTTTACAAACCGA-GGCTATTTCAGTAA-TTTCA
30908139 CAAACCAG
127 CAAACCAG
30908147 GGGTATTTTAGTAAT
1 GGGTATTTTAGTAAT
30908162 TTGGTAAACT
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
132 5 0.04
133 91 0.73
134 3 0.02
135 25 0.20
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (134 bp):
GGGTATTTTAGTAATGTTACAAGTCGAGGGATTTCAGTAATTTCACAAATTAGAGGTATTTTGGT
AATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAGGCTATTTCAGTAATTTCACAAA
CCAG
Found at i:30911815 original size:40 final size:40
Alignment explanation
Indices: 30911760--30911934 Score: 239
Period size: 40 Copynumber: 4.4 Consensus size: 40
30911750 GATGATAACT
* * *
30911760 GGGCTAAGTCCCGAAGGCATTTGTCCGAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
30911800 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
30911840 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
30911880 GGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
30911919 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
30911935 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.12
39 14 0.11
40 94 0.76
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:30921730 original size:35 final size:35
Alignment explanation
Indices: 30921691--30921761 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
30921681 TCAGTCTCAG
30921691 ATTCAGTACATTCTCTTACTCAACAGGTTCAGAAC
1 ATTCAGTACATTCTCTTACTCAACAGGTTCAGAAC
30921726 ATTCAGTACATTCTCTTACTCAACAGGTTCAGAAC
1 ATTCAGTACATTCTCTTACTCAACAGGTTCAGAAC
30921761 A
1 A
30921762 ATCTCTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATTCAGTACATTCTCTTACTCAACAGGTTCAGAAC
Found at i:30931964 original size:11 final size:11
Alignment explanation
Indices: 30931948--30931974 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30931938 TCAAGTATCA
30931948 TAAGTACATTT
1 TAAGTACATTT
30931959 TAAGTACATTT
1 TAAGTACATTT
30931970 TAAGT
1 TAAGT
30931975 GATGTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (11 bp):
TAAGTACATTT
Found at i:30932433 original size:48 final size:48
Alignment explanation
Indices: 30932201--30932433 Score: 203
Period size: 48 Copynumber: 5.0 Consensus size: 48
30932191 CACATAGTAA
* *
30932201 GATGCCAATGCCATATCCCAGACATGGTCTTACAT-AGGATCACAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGA-GATCACATATC
* * * * * *
30932249 GAAGCCGAT---A-G-CCCAG-CTAGGGTCTTACACGATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGA-GATCACATATC
* * * * *
30932292 GATGCCAATGCCATATCCTAGATATGGTCTTACATGAGATCAAATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
* * * * *
30932340 GACGCTAATGCCATGTCCCATACATGGTCTTACCTGAGATTACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
* *
30932388 GATGCCAATGCCATGTCCCAGACATGGTCTAACATGGGATCACATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATA
30932434 ACCCTAATGT
Statistics
Matches: 140, Mismatches: 36, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
42 1 0.01
43 28 0.20
44 2 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.76
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
Found at i:30942138 original size:48 final size:48
Alignment explanation
Indices: 30942067--30942361 Score: 500
Period size: 48 Copynumber: 6.1 Consensus size: 48
30942057 AAGATAAATA
*
30942067 TATATGTGCGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGT--GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
30942117 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30942165 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
** *
30942213 TATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
30942261 TATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
30942309 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30942357 TATAT
1 TATAT
30942362 ATTGTGGCCG
Statistics
Matches: 231, Mismatches: 14, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
48 224 0.97
50 7 0.03
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:30943732 original size:40 final size:41
Alignment explanation
Indices: 30943682--30943983 Score: 173
Period size: 41 Copynumber: 7.5 Consensus size: 41
30943672 CATGCAATGC
*
30943682 TACCGAAGTACAAATAGGGGCGTGTATGTGCAA-TCAGGGG
1 TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
* * * * *
30943722 TACCAAAGTACAAATAGGGGTGCGTACGTGTAATTCAGGTG
1 TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
* * * *
30943763 TACCAAAGTAGAAACAGGGGCATGTATGTGCAATTTAGGGG
1 TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
** * ** *** * *
30943804 TACTGAAGTACAAAAAACGGCACATATGTGTAATTTA-GGG
1 TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
** * * * *
30943844 TACTGATGTACAGAA-AGGGGCATGTATGTGCAATTTAGGAG
1 TACCAAAGTACA-AATAGGGGCGTGTATGTGCAATTCAGGGG
* * * *** * *
30943885 TACCGAAGTACAAAAAAGGGCACATAT-TGTAATTTA-GGG
1 TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
** * * * * *
30943924 TACTGATGTACAAAAAGGGGCATGTATGTGCAATTTAGGAG
1 TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
* *
30943965 TACCGAAGTACAAACAGGG
1 TACCAAAGTACAAATAGGG
30943984 ATACTGAAGT
Statistics
Matches: 208, Mismatches: 48, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
39 24 0.12
40 77 0.37
41 107 0.51
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (41 bp):
TACCAAAGTACAAATAGGGGCGTGTATGTGCAATTCAGGGG
Found at i:30943832 original size:41 final size:41
Alignment explanation
Indices: 30943787--30943978 Score: 219
Period size: 40 Copynumber: 4.8 Consensus size: 41
30943777 CAGGGGCATG
*
30943787 TATGTGCAATTTAGGGGTACTGAAGTACAAAAAACGGCACA
1 TATGTGCAATTTAGGGGTACTGAAGTACAAAAAAGGGCACA
* * * * **
30943828 TATGTGTAATTTA-GGGTACTGATGTACAGAAAGGGGCATG
1 TATGTGCAATTTAGGGGTACTGAAGTACAAAAAAGGGCACA
* *
30943868 TATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACA
1 TATGTGCAATTTAGGGGTACTGAAGTACAAAAAAGGGCACA
* * * **
30943909 TAT-TGTAATTTA-GGGTACTGATGTACAAAAAGGGGCATG
1 TATGTGCAATTTAGGGGTACTGAAGTACAAAAAAGGGCACA
* *
30943948 TATGTGCAATTTAGGAGTACCGAAGTACAAA
1 TATGTGCAATTTAGGGGTACTGAAGTACAAA
30943979 CAGGGATACT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 24 0.20
40 49 0.40
41 49 0.40
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (41 bp):
TATGTGCAATTTAGGGGTACTGAAGTACAAAAAAGGGCACA
Found at i:30943871 original size:81 final size:80
Alignment explanation
Indices: 30943778--30943978 Score: 357
Period size: 80 Copynumber: 2.5 Consensus size: 80
30943768 AAGTAGAAAC
* *
30943778 AGGGGCATGTATGTGCAATTTAGGGGTACTGAAGTACAAAAAACGGCACATATGTGTAATTTAGG
1 AGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAACGGCACATAT-TGTAATTTAGG
*
30943843 GTACTGATGTACAGAA
65 GTACTGATGTACAAAA
*
30943859 AGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACATATTGTAATTTAGGG
1 AGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAACGGCACATATTGTAATTTAGGG
30943924 TACTGATGTACAAAA
66 TACTGATGTACAAAA
30943939 AGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAA
1 AGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAA
30943979 CAGGGATACT
Statistics
Matches: 116, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 66 0.57
81 50 0.43
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (80 bp):
AGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAACGGCACATATTGTAATTTAGGG
TACTGATGTACAAAA
Found at i:30943949 original size:80 final size:80
Alignment explanation
Indices: 30943689--30943978 Score: 357
Period size: 81 Copynumber: 3.6 Consensus size: 80
30943679 TGCTACCGAA
* * * * * * * ** * *
30943689 GTACAAATAGGGGCGTGTATGTGCAA-TCAGGGGTACCAAAGTACAAATAGGGGTGCGTACGTGT
1 GTACAAAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACATA-TTGT
* ** *
30943753 AATTCAGGTGTACCAAA
65 AATTTAGG-GTACTGAT
* * * * *
30943770 GTAGAAACAGGGGCATGTATGTGCAATTTAGGGGTACTGAAGTACAAAAAACGGCACATATGTGT
1 GTACAAAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACATAT-TGT
30943835 AATTTAGGGTACTGAT
65 AATTTAGGGTACTGAT
*
30943851 GTACAGAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACATATTGTA
1 GTACAAAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACATATTGTA
30943916 ATTTAGGGTACTGAT
66 ATTTAGGGTACTGAT
30943931 GTACAAAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAA
1 GTACAAAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAA
30943979 CAGGGATACT
Statistics
Matches: 183, Mismatches: 24, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
80 66 0.36
81 83 0.45
82 34 0.19
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (80 bp):
GTACAAAAAGGGGCATGTATGTGCAATTTAGGAGTACCGAAGTACAAAAAAGGGCACATATTGTA
ATTTAGGGTACTGAT
Found at i:30947227 original size:57 final size:57
Alignment explanation
Indices: 30947126--30947261 Score: 181
Period size: 57 Copynumber: 2.4 Consensus size: 57
30947116 CTCCCTTTAA
*
30947126 ACAAAGGCTTCCTTTAACAGAGATAGCAACAAAGGCTCCCTTTTAACAAAGATTACC
1 ACAAAGGCTTCCTTTAACAGAGATAACAACAAAGGCTCCCTTTTAACAAAGATTACC
* *
30947183 ACAAAGGCTTCCATTTAACAGAGATAACCACAAAGGCT-TCTTTTAACAAAGA-TAGCC
1 ACAAAGGCTTCC-TTTAACAGAGATAACAACAAAGGCTCCCTTTTAACAAAGATTA-CC
* *
30947240 ATAGAGGCTT--TTTAACAGAGAT
1 ACAAAGGCTTCCTTTAACAGAGAT
30947262 CGCCACAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
54 12 0.17
56 2 0.03
57 35 0.49
58 23 0.32
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (57 bp):
ACAAAGGCTTCCTTTAACAGAGATAACAACAAAGGCTCCCTTTTAACAAAGATTACC
Found at i:30947261 original size:26 final size:28
Alignment explanation
Indices: 30947126--30947303 Score: 155
Period size: 29 Copynumber: 6.3 Consensus size: 28
30947116 CTCCCTTTAA
* *
30947126 ACAAAGGCTTCCTTTAACAGAGATAGCA
1 ACAAAGGCTTCTTTTAACAGAGATAGCC
* *
30947154 ACAAAGGCTCCCTTTTAACAAAGATTA-CC
1 ACAAAGGCT-TCTTTTAACAGAGA-TAGCC
* *
30947183 ACAAAGGCTTCCATTTAACAGAGATAACC
1 ACAAAGGCTT-CTTTTAACAGAGATAGCC
*
30947212 ACAAAGGCTTCTTTTAACAAAGATAGCC
1 ACAAAGGCTTCTTTTAACAGAGATAGCC
* * *
30947240 ATAGAGGC-T-TTTTAACAGAGATCGCC
1 ACAAAGGCTTCTTTTAACAGAGATAGCC
* * * * * *
30947266 ACAAAAGTTTCCATTTAATAAATATAGCC
1 ACAAAGGCTT-CTTTTAACAGAGATAGCC
30947295 ACAAAGGCT
1 ACAAAGGCT
30947304 AACTTAAATA
Statistics
Matches: 118, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
26 19 0.16
27 2 0.02
28 32 0.27
29 63 0.53
30 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (28 bp):
ACAAAGGCTTCTTTTAACAGAGATAGCC
Found at i:30947297 original size:83 final size:84
Alignment explanation
Indices: 30947126--30947303 Score: 205
Period size: 83 Copynumber: 2.1 Consensus size: 84
30947116 CTCCCTTTAA
* * *
30947126 ACAAAGGCTTCCTTTAACAGAGATAGCAACAAAGGCTCCCTTTTAACAAAGATTACCACAAAGGC
1 ACAAAGGCTTCCTTTAACAAAGATAGCAACAAAGGCT--CTTTTAACAAAGATCACCACAAAAGC
*
30947191 TTCCATTTAACAGAGATAACC
64 TTCCATTTAACAAAGATAACC
* * * * * * *
30947212 ACAAAGGCTTCTTTTAACAAAGATAGCCATAGAGGCT-TTTTAACAGAGATCGCCACAAAAGTTT
1 ACAAAGGCTTCCTTTAACAAAGATAGCAACAAAGGCTCTTTTAACAAAGATCACCACAAAAGCTT
* * *
30947276 CCATTTAATAAATATAGCC
66 CCATTTAACAAAGATAACC
30947295 ACAAAGGCT
1 ACAAAGGCT
30947304 AACTTAAATA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
83 46 0.59
86 32 0.41
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (84 bp):
ACAAAGGCTTCCTTTAACAAAGATAGCAACAAAGGCTCTTTTAACAAAGATCACCACAAAAGCTT
CCATTTAACAAAGATAACC
Found at i:30952179 original size:16 final size:16
Alignment explanation
Indices: 30952158--30952197 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
30952148 TCGGTAAATC
30952158 CTGAAATTCCAAAAAG
1 CTGAAATTCCAAAAAG
* *
30952174 CTGAAATGCCGAAAAG
1 CTGAAATTCCAAAAAG
*
30952190 CTAAAATT
1 CTGAAATT
30952198 TTGGCTACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (16 bp):
CTGAAATTCCAAAAAG
Found at i:30956487 original size:10 final size:10
Alignment explanation
Indices: 30956474--30956498 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30956464 GCACATATAA
30956474 TCACATTTAG
1 TCACATTTAG
30956484 TCACATTTAG
1 TCACATTTAG
30956494 TCACA
1 TCACA
30956499 GTGTATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (10 bp):
TCACATTTAG
Found at i:30956718 original size:5 final size:5
Alignment explanation
Indices: 30956708--30956734 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30956698 CAAAATTAAA
30956708 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
30956735 GATTGGCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:30959283 original size:44 final size:44
Alignment explanation
Indices: 30959155--30959307 Score: 122
Period size: 44 Copynumber: 3.6 Consensus size: 44
30959145 GAACGTCCTG
* * * *
30959155 GACATGGTCTTACATGT-AAT-TCAGTATCGATGCCTCTGACCCA
1 GACATGGTCTTACACGTAAATCTCA-AATCGATGCCTATGTCCCA
* * *
30959198 GATATGGTCTT--ACGTGAAA-C-CAGATACAATGCCTATGTCCCA
1 GACATGGTCTTACACGT-AAATCTCAAAT-CGATGCCTATGTCCCA
*
30959240 GACATGGTCTTACACGTAAATCTCAAATCGATGCCTGTGTCCCA
1 GACATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCA
* ** *
30959284 GATACAGTCTTACACG-ATATCTCA
1 GACATGGTCTTACACGTAAATCTCA
30959308 GATCAATGTC
Statistics
Matches: 88, Mismatches: 14, Indels: 16
0.75 0.12 0.14
Matches are distributed among these distances:
41 5 0.06
42 25 0.28
43 22 0.25
44 32 0.36
45 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
GACATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCA
Found at i:30961409 original size:25 final size:26
Alignment explanation
Indices: 30961371--30961443 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 26
30961361 TTGAATGATC
*
30961371 TCGACAATTAAATTGTAAATTATAA-
1 TCGACAATTGAATTGTAAATTATAAT
30961396 TCGACAATTGAATTGTAAATTATAAT
1 TCGACAATTGAATTGTAAATTATAAT
* *
30961422 TTG-CAATTGAATTATAAATTAT
1 TCGACAATTGAATTGTAAATTAT
30961444 GTAAGTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 42 0.95
26 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.40
Consensus pattern (26 bp):
TCGACAATTGAATTGTAAATTATAAT
Found at i:30963464 original size:23 final size:23
Alignment explanation
Indices: 30963421--30963465 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30963411 TATATAACAC
*
30963421 ATCATTCATTTATATACATTCAT
1 ATCATTCAGTTATATACATTCAT
*
30963444 ATCATTC-GTTATCATATATTCA
1 ATCATTCAGTTAT-ATACATTCA
30963466 CATATGATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (23 bp):
ATCATTCAGTTATATACATTCAT
Found at i:30963773 original size:44 final size:42
Alignment explanation
Indices: 30963628--30963784 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
30963618 AGCTTGTACA
* * *
30963628 ATGCCAATGTCCCAGACGTGGTCGTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA-ATCG
* * * * *
30963671 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATC-ATATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAAAT-CG
*
30963713 ATGCCAATGTGCCAGACATGGTCTTAGACAT-AAATCACAAATCG
1 ATGCCAATGTCCCAGACATGGTCTT--ACATGAAATCA-AAATCG
* *
30963757 ATGCCAATGTCTCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
30963785 CGATAACACA
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 26 0.28
43 34 0.37
44 27 0.29
45 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAAATCG
Found at i:30965637 original size:21 final size:21
Alignment explanation
Indices: 30965611--30965651 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30965601 TGGTTCGTAA
30965611 GCCCAT-TGGGCCCAATTTTTG
1 GCCCATCT-GGCCCAATTTTTG
*
30965632 GCCCATCTGGCCCATTTTTT
1 GCCCATCTGGCCCAATTTTT
30965652 CGAAGTACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.12, C:0.32, G:0.20, T:0.37
Consensus pattern (21 bp):
GCCCATCTGGCCCAATTTTTG
Found at i:30973742 original size:51 final size:52
Alignment explanation
Indices: 30973679--30973827 Score: 225
Period size: 51 Copynumber: 2.9 Consensus size: 52
30973669 AGGATGTTAC
* *
30973679 AGTGGTCC-TCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTCTTCACAA
1 AGTGG-CCTTCACATAGTACCACACTTGTAGACCAAAGCTATTTTATTCACAA
* *
30973730 AGTGGCCTTCACATAGTCCCACACTTGT-GTCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGACCAAAGCTATTTTATTCACAA
30973781 AGTGGCCTTCACATAGTACCACACTTG-AGACCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTAGACCAAAGCTATTTTATTC
30973828 CTAAGGTTCA
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
50 3 0.03
51 87 0.97
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (52 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGACCAAAGCTATTTTATTCACAA
Found at i:30973896 original size:24 final size:24
Alignment explanation
Indices: 30973864--30973934 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 24
30973854 CTTAGCACCA
*
30973864 TGCCATGGACTTGTTTCACTTAGG
1 TGCCATGGACTTATTTCACTTAGG
*
30973888 TGCCATGGACTTATTTCACTTAGCACAT
1 TGCCATGGACTTATTTCACTTAG----G
30973916 TGCCATGGACTTATTTCAC
1 TGCCATGGACTTATTTCAC
30973935 AGTTGAGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 22 0.54
28 19 0.46
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (24 bp):
TGCCATGGACTTATTTCACTTAGG
Found at i:30973920 original size:28 final size:27
Alignment explanation
Indices: 30973851--30973934 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
30973841 GGGAAATTTC
*
30973851 TCACTTAGCACCATGCCATGGACTTGTT
1 TCACTTAGCA-CATGCCATGGACTTATT
*
30973879 TCACTTAG---GTGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
30973903 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
30973931 TCAC
1 TCAC
30973935 AGTTGAGGGT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 22 0.45
28 27 0.55
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:30995956 original size:23 final size:23
Alignment explanation
Indices: 30995930--30996027 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
30995920 ATAAGTGCCA
30995930 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30995953 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
30995976 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30995998 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30996021 CACTGAT
1 CACTGAT
30996028 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:30995995 original size:45 final size:45
Alignment explanation
Indices: 30995937--30996025 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
30995927 CCACACTGAT
* *
30995937 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
30995982 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
30996026 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:31010068 original size:11 final size:11
Alignment explanation
Indices: 31010052--31010079 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
31010042 AGATGGACAC
31010052 TTATTTTCTCT
1 TTATTTTCTCT
31010063 TTATTTTCTCT
1 TTATTTTCTCT
31010074 TTATTT
1 TTATTT
31010080 GTTCGGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTTCTCT
Found at i:31023610 original size:20 final size:20
Alignment explanation
Indices: 31023566--31023610 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
31023556 TTTATAATTT
* *
31023566 TAAAAAAATATTAATTATTA
1 TAAAAAAATATTAAGTATGA
*
31023586 TAAAAAAGTATT-AGTATGA
1 TAAAAAAATATTAAGTATGA
31023605 TAAAAA
1 TAAAAA
31023611 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAAAAAATATTAAGTATGA
Found at i:31027530 original size:25 final size:25
Alignment explanation
Indices: 31027501--31027548 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
31027491 CATAAATGTA
*
31027501 GCTCTT-TATGAGGGTCCTGATATAG
1 GCTCTTCT-TGAGCGTCCTGATATAG
*
31027526 GCTCTTCTTGAGCTTCCTGATAT
1 GCTCTTCTTGAGCGTCCTGATAT
31027549 GACTCGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (25 bp):
GCTCTTCTTGAGCGTCCTGATATAG
Found at i:31031746 original size:37 final size:37
Alignment explanation
Indices: 31031686--31031761 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
31031676 TATTACGAAA
* * *
31031686 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
31031723 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
31031760 TC
1 TC
31031762 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:31031960 original size:47 final size:47
Alignment explanation
Indices: 31031882--31032427 Score: 860
Period size: 47 Copynumber: 11.6 Consensus size: 47
31031872 CCCTTCGGGA
* * * * * *
31031882 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
31031929 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
31031976 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31032023 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31032072 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31032119 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31032165 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
31032212 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31032259 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31032306 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
31032353 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31032400 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
31032428 ATGGGTTTAA
Statistics
Matches: 461, Mismatches: 33, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
46 46 0.10
47 356 0.77
49 59 0.13
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31035903 original size:40 final size:40
Alignment explanation
Indices: 31035859--31035974 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
31035849 GAATACATGT
* * *
31035859 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
31035899 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* **
31035939 CACTAGCACGAATGCTCTTCGGAATTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
31035975 TTAGTAACTC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:31035999 original size:40 final size:40
Alignment explanation
Indices: 31035875--31036136 Score: 225
Period size: 40 Copynumber: 6.5 Consensus size: 40
31035865 CATGATTGCT
* * * *
31035875 CTTCGGGACCTAGCCCGGATATAAC-AC-CAGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTC-GCACCAATGC
** * ** * *
31035914 TCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGAATGC
1 -CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
31035954 TCTTCGGAAT-TTAGCCCGGATTTAGT-AACTCGCACCAATGC
1 -CTTCGG-GTCTTAGCCCGGATATA-TCAACTCGCACCAATGC
*
31035995 CTTCGGGTCTTAGCCCGGATATATCAACTTGCA-CAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAA-TGC
* *
31036035 CTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
31036075 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGC-TCAATTGC
1 CTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACCAA-TGC
*
31036115 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
31036137 CATTCAAATG
Statistics
Matches: 187, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
39 7 0.04
40 161 0.86
41 19 0.10
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
Found at i:31036007 original size:80 final size:78
Alignment explanation
Indices: 31035885--31036136 Score: 251
Period size: 80 Copynumber: 3.2 Consensus size: 78
31035875 CTTCGGGACC
* * ** * **
31035885 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCAC
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATAAATCACTAGCAC
31035948 GAA-TGCTCTTCGGAATT
64 -AATTGC-CTTCGG-ATT
* * * *
31035965 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATC-ACTAGCAC
*
31036029 AATTGCCTTCGGGTCT
64 AATTGCCTTCGGAT-T
* *
31036045 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCTCA
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AATCACTAGCACA
*
31036110 ATTGCCTTCGGGACT
65 ATTGCCTTC-GGATT
31036125 TAGCCCGGATAT
1 TAGCCCGGATAT
31036137 CATTCAAATG
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
79 2 0.01
80 116 0.80
81 26 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (78 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCACTAGCACAA
TTGCCTTCGGATT
Found at i:31036465 original size:29 final size:29
Alignment explanation
Indices: 31036426--31036504 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
31036416 CTTAATAATC
*
31036426 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31036456 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31036485 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31036505 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.