Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 172 of 290
Found at i:58995458 original size:42 final size:42
Alignment explanation
Indices: 58995399--58995485 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
58995389 AAATTGAAAG
58995399 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
1 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
58995441 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
1 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
58995483 TAT
1 TAT
58995486 ATTAATGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.41
Consensus pattern (42 bp):
TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
Found at i:59017940 original size:232 final size:232
Alignment explanation
Indices: 59017534--59017974 Score: 783
Period size: 232 Copynumber: 1.9 Consensus size: 232
59017524 ACATTCGAAA
* * *
59017534 TGGGATCCCATGGCAGTGTCCCAGCCTGTTTTCGACCCCGTGTAACCCTCTGACTTGGGTTACAC
1 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
* *
59017599 GGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTGTGCCA
66 AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
*
59017664 AGTCGTGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
131 AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
59017729 AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
196 AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
*
59017766 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACTCTCTGACTTGGGTCACAC
1 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
* * * *
59017831 AGCCAACCACGCCTGTGTGACTAGCCAGTGTTCCCTTCAAAATTGCCTCACACGCCTGTATGCCA
66 AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
59017896 AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
131 AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
59017961 AACCCATGTGCTAG
196 AACCCATGTGCTAG
59017975 GCCCTATGAC
Statistics
Matches: 198, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 198 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (232 bp):
TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
Found at i:59022420 original size:29 final size:29
Alignment explanation
Indices: 59022385--59022530 Score: 202
Period size: 29 Copynumber: 5.0 Consensus size: 29
59022375 GGAATATAAG
* * * *
59022385 GTGATTTGGGCCTAATGGGCCATATAAAG
1 GTGAATTGGGCCTGATGGGCCATATGAAT
* * *
59022414 GTGATTTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
* *
59022443 ATGAATTGGGCCTGATGGGGCATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
59022472 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
*
59022501 GTGAATTGGGCCTGATGGGCTATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
59022530 G
1 G
59022531 AGATGGGCCA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 106 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (29 bp):
GTGAATTGGGCCTGATGGGCCATATGAAT
Found at i:59034840 original size:13 final size:13
Alignment explanation
Indices: 59034822--59034846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59034812 ATGTGATATG
59034822 TGTGAAAATTTTT
1 TGTGAAAATTTTT
59034835 TGTGAAAATTTT
1 TGTGAAAATTTT
59034847 ATCGTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TGTGAAAATTTTT
Found at i:59035396 original size:28 final size:29
Alignment explanation
Indices: 59035365--59035421 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
59035355 AAAGTGATTT
* *
59035365 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATATAAATTGAGGGATTAAA
* *
59035393 TTGAGAAAAATATAAATTGAGGGGTTAAA
1 TTGACAAAAATATAAATTGAGGGATTAAA
59035422 GTGTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (29 bp):
TTGACAAAAATATAAATTGAGGGATTAAA
Found at i:59036019 original size:47 final size:47
Alignment explanation
Indices: 59035962--59036092 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
59035952 GTGTGAATAA
* *
59035962 TACCTTGATTTGGATACGGGCCATGATATAGGTACTTTGAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
* * * *
59036009 TACCTTGATTTGTCTACGGGCCATGATATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
* *
59036056 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACTT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTT
59036093 ATCGATTGAG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
Found at i:59048680 original size:45 final size:45
Alignment explanation
Indices: 59048550--59048682 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 45
59048540 ATGCTACCTC
* * * * * *
59048550 ATATCGATGCCACTGTCCCAGAAAGGGTCTTACAAG-AATCA-A-
1 ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
* * * * * *
59048592 ATA-CAATGCCGATGTCTCAGACATGGTCTTACATGTAACCACAT
1 ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
* *
59048636 ATATCCATGCCAATGTCCCAGACGTGGTCTTGCACGAAAACACAT
1 ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
59048681 AT
1 AT
59048683 CGAAAATCCT
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
41 25 0.35
42 7 0.10
43 1 0.01
44 3 0.04
45 35 0.49
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:59048851 original size:15 final size:14
Alignment explanation
Indices: 59048810--59048851 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
59048800 ATTCAACTAA
59048810 CACATATATAATTT
1 CACATATATAATTT
*
59048824 CACATATTTAATTT
1 CACATATATAATTT
*
59048838 CAGCATATAAAATT
1 CA-CATATATAATT
59048852 CATATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (14 bp):
CACATATATAATTT
Found at i:59050181 original size:24 final size:24
Alignment explanation
Indices: 59050115--59050228 Score: 94
Period size: 23 Copynumber: 4.8 Consensus size: 24
59050105 GGACTCACCA
* *
59050115 CAGCTCATATGAGCTTATTGATATAT
1 CAGCTCATATGAGCTTACT-AT-TTT
* * *
59050141 CAACTCGTAAGAGCTTACTATTTT
1 CAGCTCATATGAGCTTACTATTTT
* *
59050165 TAGCTCAT-TGGAGCTTACT-GTTT
1 CAGCTCATAT-GAGCTTACTATTTT
59050188 CAGCTCATATGAGCTTACTA--TT
1 CAGCTCATATGAGCTTACTATTTT
59050210 CAGCTCA-ATAGAGCTTACT
1 CAGCTCATAT-GAGCTTACT
59050229 GTTTAGCTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
21 2 0.03
22 18 0.25
23 19 0.26
24 17 0.23
25 2 0.03
26 15 0.21
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACTATTTT
Found at i:59050201 original size:23 final size:23
Alignment explanation
Indices: 59050115--59050286 Score: 113
Period size: 22 Copynumber: 7.3 Consensus size: 23
59050105 GGACTCACCA
*
59050115 CAGCTCATATGAGCTTATTGATATAT
1 CAGCTCATATGAGCTTACTG-T-T-T
* * * *
59050141 CAACTCGTAAGAGCTTACTATTTT
1 CAGCTCATATGAGCTTACT-GTTT
*
59050165 TAGCTCAT-TGGAGCTTACTGTTT
1 CAGCTCATAT-GAGCTTACTGTTT
*
59050188 CAGCTCATATGAGCTTACT-ATT
1 CAGCTCATATGAGCTTACTGTTT
59050210 CAGCTCA-ATAGAGCTTACTGTTT
1 CAGCTCATAT-GAGCTTACTGTTT
* *
59050233 -AGCTCGATA-GAGCTTGCCGTTT
1 CAGCTC-ATATGAGCTTACTGTTT
* *
59050255 GAGCTTAT-TAGAGCTTACTGTTCAT
1 CAGCTCATAT-GAGCTTACTGTT--T
59050280 CAGCTCA
1 CAGCTCA
59050287 AGAGCATATA
Statistics
Matches: 114, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
21 2 0.02
22 36 0.32
23 36 0.32
24 17 0.15
25 7 0.06
26 16 0.14
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (23 bp):
CAGCTCATATGAGCTTACTGTTT
Found at i:59050225 original size:45 final size:45
Alignment explanation
Indices: 59050150--59050276 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
59050140 TCAACTCGTA
* * *
59050150 AGAGCTTACTATTTTTAGCTCATTGGAGCTTACTGTTTCAGCTC-AT
1 AGAGCTTACTA-TTTCAGCTCAATAGAGCTTACTGTTT-AGCTCGAT
59050196 ATGAGCTTACTA-TTCAGCTCAATAGAGCTTACTGTTTAGCTCGAT
1 A-GAGCTTACTATTTCAGCTCAATAGAGCTTACTGTTTAGCTCGAT
* ** * * *
59050241 AGAGCTTGCCGTTTGAGCTTATTAGAGCTTACTGTT
1 AGAGCTTACTATTTCAGCTCAATAGAGCTTACTGTT
59050277 CATCAGCTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
44 12 0.17
45 46 0.67
46 1 0.01
47 10 0.14
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (45 bp):
AGAGCTTACTATTTCAGCTCAATAGAGCTTACTGTTTAGCTCGAT
Found at i:59051929 original size:92 final size:93
Alignment explanation
Indices: 59051829--59052074 Score: 363
Period size: 92 Copynumber: 2.7 Consensus size: 93
59051819 ATCAAATAGT
* *
59051829 GGTACGTAGCGTAGCTAACATACATGCGGTATAGTGCAATGCAGTAATCTGCTATACCA-ATACG
1 GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATACG
59051893 TTGCAGTAAAACTACCAATTCAGTCAAA
66 TTGCAGTAAAACTACCAATTCAGTCAAA
* * *
59051921 GGTACGTAGTGTTGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATA-CAGATAGG
1 GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATACG
* * *
59051985 TTGCAGTAAAACTGCCAGTTTAGTCAAA
66 TTGCAGTAAAACTACCAATTCAGTCAAA
* * * *
59052013 GGTACGTAGCGTACCTAACGTACATGCAGTACAGTGCAATGCGGTAATCCGCTATACC-GATA
1 GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATA
59052075 TTGGTAAAGT
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
91 2 0.01
92 135 0.98
93 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (93 bp):
GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATACG
TTGCAGTAAAACTACCAATTCAGTCAAA
Found at i:59053434 original size:22 final size:22
Alignment explanation
Indices: 59053406--59053452 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
59053396 AAACACACAG
59053406 TAAGTACAAAATTCTACATTTC
1 TAAGTACAAAATTCTACATTTC
59053428 TAAGTACAAAATTCTACATTTC
1 TAAGTACAAAATTCTACATTTC
59053450 TAA
1 TAA
59053453 CATTACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAGTACAAAATTCTACATTTC
Found at i:59056699 original size:41 final size:43
Alignment explanation
Indices: 59056627--59056722 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 43
59056617 ACACATATCG
* *
59056627 TACATGTAATCACATATCGATGCCATAGTCCCAGACAGGGTCT
1 TACATGTAATCAAATATCGATGCCATAGTCCCAAACAGGGTCT
* *
59056670 TACATG-AATCAAATA-CGATGTCGAT-GTCCCAAACATGGTCT
1 TACATGTAATCAAATATCGATG-CCATAGTCCCAAACAGGGTCT
*
59056711 TACACGTAATCA
1 TACATGTAATCA
59056723 CATGTTAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 24 0.52
42 16 0.35
43 6 0.13
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
TACATGTAATCAAATATCGATGCCATAGTCCCAAACAGGGTCT
Found at i:59058192 original size:92 final size:92
Alignment explanation
Indices: 59058011--59058184 Score: 276
Period size: 92 Copynumber: 1.9 Consensus size: 92
59058001 CAGCTATACC
* * * * *
59058011 GATAGGTTGCAGTAAAACTACCAGTTCAGTCAAAGGTACGTAGCGTAGCTAACGTACATGCGATA
1 GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGCGATA
*
59058076 CAGTGCAATGTGGTAATACACTATAGT
66 CAGTGCAATGCGGTAATACACTATAGT
* *
59058103 GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGTGGTA
1 GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGCGATA
59058168 CAGTGCAATGCGGTAAT
66 CAGTGCAATGCGGTAAT
59058185 CTGCTATACC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (92 bp):
GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGCGATA
CAGTGCAATGCGGTAATACACTATAGT
Found at i:59067838 original size:47 final size:48
Alignment explanation
Indices: 59067763--59068031 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 48
59067753 GTAAGGTGCT
* * *
59067763 GATGCCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * *
59067810 GATGCTATGTCCCAGACATGGTCGTACACTGACT-ATCATCTCGTAGCC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * * *
59067858 GATGCATGTCCCAAACAT-GTCTTACACTGGCTTA-CGTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * * * * *
59067904 AATGCATGCCCCAGACAT-GTCTTACACTAGC-CCTCGTCTC-AATGTC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GCC
* * **
59067950 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAAT-GTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAAGCC
* *
59067998 GATGCAAGTCCCAGACAT-GTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCA
59068032 CACACGACTG
Statistics
Matches: 178, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 76 0.43
47 70 0.39
48 29 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
Found at i:59067909 original size:46 final size:46
Alignment explanation
Indices: 59067763--59067983 Score: 171
Period size: 47 Copynumber: 4.7 Consensus size: 46
59067753 GTAAGGTGCT
* * * * ** * *
59067763 GATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTCAAGTC
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGAGCC
* * * *
59067810 GATGCTATGTCCCAGACATGGTCGTACACTGAC-TATCATCTCGTAGCC
1 GATGC-ATGTCCCAAACATGGTCTTACACTGGCTTA-CGTCTCG-AGCC
59067858 GATGCATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGA-GCC
* * * * * * *
59067904 AATGCATGCCCCAGACAT-GTCTTACACTAGCCCT-CGTCTCAATGTC
1 GATGCATGTCCCAAACATGGTCTTACACT-GGCTTACGTCTCGA-GCC
59067950 GATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCT
59067984 CTCATAATGT
Statistics
Matches: 141, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 59 0.42
47 63 0.45
48 18 0.13
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGAGCC
Found at i:59068012 original size:94 final size:92
Alignment explanation
Indices: 59067857--59068028 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 92
59067847 ATCTCGTAGC
* * *
59067857 CGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGGCCAATGCATGCCCCAGACAT
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCAAGCCCCAGACAT
59067922 GTCTTACACTAGCCCTCGTCTCAATGT
66 GTCTTACACTAGCCCTCGTCTCAATGT
* * *
59067949 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCAAGTCCCAG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCAAGCCCCAG
59068012 ACATGTCTTACACTAGC
62 ACATGTCTTACACTAGC
59068029 TCACACACGA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 49 0.70
95 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCAAGCCCCAGACAT
GTCTTACACTAGCCCTCGTCTCAATGT
Found at i:59070902 original size:14 final size:14
Alignment explanation
Indices: 59070883--59070911 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59070873 ATCATCGATG
59070883 CCGTAGGTTCAACT
1 CCGTAGGTTCAACT
59070897 CCGTAGGTTCAACT
1 CCGTAGGTTCAACT
59070911 C
1 C
59070912 TTTTTGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (14 bp):
CCGTAGGTTCAACT
Found at i:59075479 original size:47 final size:48
Alignment explanation
Indices: 59075406--59075630 Score: 205
Period size: 47 Copynumber: 4.8 Consensus size: 48
59075396 AGAGTAAGGT
* * *
59075406 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCGAA
* * * *
59075453 GTCGATGCCATGTCCCATACATGGTCTTACACTGACT-ATTATCTCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCA-TATCTCGAA
* ** *
59075501 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCGAA
* * * *
59075547 GCCGATG-CATGCCCCAGACAT-GTCTTACACTAGC-CCTCATCTC-AA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATCTCGAA
* * *
59075592 TACCGACGCCATATCCCAAACATGGTCTTACACTGGCTC
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
59075631 TCATAATGTG
Statistics
Matches: 143, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.41
47 63 0.44
48 19 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:59075544 original size:46 final size:47
Alignment explanation
Indices: 59075406--59075671 Score: 192
Period size: 47 Copynumber: 5.7 Consensus size: 47
59075396 AGAGTAAGGT
* * * * *
59075406 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGTA
* * * *
59075453 GTCGATGCCATGTCCCATACATGGTCTTACACTGAC-TATTATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGTA
* *
59075501 GCCGATG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCG-A
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTA
* * * *
59075546 GGCCGATG-CATGCCCCAGACATGTCTTACACTAGCCCT-CATCTCAATA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACT-GGCTTACATCTC-GTA
* * * * *
59075594 -CCGACGCCATATCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGTA
*
59075641 GCCGATG-CACGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
59075672 AGCTCACACA
Statistics
Matches: 175, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 67 0.38
47 79 0.45
48 27 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGTA
Found at i:59091329 original size:14 final size:16
Alignment explanation
Indices: 59091305--59091341 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
59091295 AATTTTCATG
*
59091305 CAAATACATAAAA-AA
1 CAAATAAATAAAATAA
59091320 -AAATAAATAAAATAA
1 CAAATAAATAAAATAA
59091335 CAAATAA
1 CAAATAA
59091342 TTTATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 11 0.58
15 2 0.11
16 6 0.32
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAATAAATAAAATAA
Found at i:59091776 original size:20 final size:19
Alignment explanation
Indices: 59091716--59091788 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
59091706 TACATAATAA
*
59091716 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
59091736 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
59091755 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
59091775 ATAATATATAATAA
1 ATAATA-ATAATAA
59091789 TTTTTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:59091852 original size:23 final size:26
Alignment explanation
Indices: 59091822--59091894 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
59091812 GATAGTAAAG
* *
59091822 ATAAATAATATATAAAGTATTTAATAA
1 ATAAATTATATA-AAAATATTTAATAA
59091849 ATAAATTATATAAAAATATTTAA-AA
1 ATAAATTATATAAAAATATTTAATAA
*
59091874 GGACTAAATTAAATAAAAATA
1 --A-TAAATTATATAAAAATA
59091895 AAGCTCTAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 2 0.05
26 10 0.25
27 12 0.30
28 16 0.40
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (26 bp):
ATAAATTATATAAAAATATTTAATAA
Found at i:59095263 original size:40 final size:40
Alignment explanation
Indices: 59095208--59095288 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
59095198 CTACTTGGGC
59095208 ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
1 ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
*
59095248 ATTATAACGTAATTAATTCAAAATATTTAATCATTCTAAA
1 ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
59095288 A
1 A
59095289 ATATTTTCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.38
Consensus pattern (40 bp):
ATTATAACGTAATTAATTCAAAATATTTAATCATACTAAA
Found at i:59100597 original size:29 final size:29
Alignment explanation
Indices: 59100555--59100614 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
59100545 AGACTGATAG
59100555 CAGGAATGAGGAGTATAAACTCCTCGAAC
1 CAGGAATGAGGAGTATAAACTCCTCGAAC
59100584 CAGGAATGAGGAGTATAAACTCCTCGAAC
1 CAGGAATGAGGAGTATAAACTCCTCGAAC
59100613 CA
1 CA
59100615 CCATGACCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (29 bp):
CAGGAATGAGGAGTATAAACTCCTCGAAC
Found at i:59102588 original size:51 final size:49
Alignment explanation
Indices: 59102467--59102661 Score: 264
Period size: 49 Copynumber: 3.9 Consensus size: 49
59102457 GCTATTGTGA
* * *
59102467 GGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
59102516 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * *
59102566 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
59102616 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
59102662 GCTTCGGCTA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 81 0.64
50 4 0.03
51 41 0.33
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:59102647 original size:100 final size:100
Alignment explanation
Indices: 59102469--59102667 Score: 328
Period size: 100 Copynumber: 2.0 Consensus size: 100
59102459 TATTGTGAGG
59102469 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATTGGTCACATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATTGGTCACATGTGTAGTACT
* *
59102534 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
* * *
59102569 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAA-ATAATTGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTA-CAAGATAATTGGTCACATGTGTAGTAC
*
59102633 TAAGTGCAGGCTACTATGCATACCAGATAGCTTCG
65 TAAGTGCAGGCTACTATGCATACCAGATAACTTCG
59102668 GCTACAAGTG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 89 0.97
101 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACAAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
Found at i:59111068 original size:39 final size:40
Alignment explanation
Indices: 59110990--59111159 Score: 229
Period size: 40 Copynumber: 4.3 Consensus size: 40
59110980 TCTTCGGAAT
* * *
59110990 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
59111029 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
59111068 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * *
59111108 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
59111148 TTAGCCCGGATA
1 TTAGCCCGGATA
59111160 TCATTCAAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.32
40 79 0.68
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:59111116 original size:79 final size:80
Alignment explanation
Indices: 59110981--59111159 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 80
59110971 ACCCAAGTTT
* * * * *
59110981 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
*
59111044 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * * *
59111060 CTTC-GGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
*
59111124 CACTAGCACAATTGC
66 CACTAGCACAAATGC
59111139 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
59111160 TCATTCAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.06
79 61 0.72
80 19 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
CACTAGCACAAATGC
Found at i:59113910 original size:11 final size:11
Alignment explanation
Indices: 59113887--59113925 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
59113877 CACCTGCAAG
59113887 CATTAACAAACA
1 CATTAA-AAACA
59113899 CATTAAAAACA
1 CATTAAAAACA
*
59113910 CATTAAACACA
1 CATTAAAAACA
59113921 C-TTAA
1 CATTAA
59113926 CTCATTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 4 0.15
11 16 0.62
12 6 0.23
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (11 bp):
CATTAAAAACA
Found at i:59113919 original size:9 final size:9
Alignment explanation
Indices: 59113894--59113962 Score: 68
Period size: 9 Copynumber: 7.4 Consensus size: 9
59113884 AAGCATTAAC
59113894 AAACACATT
1 AAACACATT
59113903 AAAAACACATT
1 --AAACACATT
59113914 AAACACACTT
1 AAACACA-TT
*
59113924 -AACTCATT
1 AAACACATT
59113932 AAACACATT
1 AAACACATT
* *
59113941 AAATACTTT
1 AAACACATT
*
59113950 AAACACATG
1 AAACACATT
59113959 AAAC
1 AAAC
59113963 TTAATTAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
8 2 0.04
9 36 0.73
10 2 0.04
11 9 0.18
ACGTcount: A:0.54, C:0.22, G:0.01, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:59115391 original size:41 final size:41
Alignment explanation
Indices: 59115334--59115415 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
59115324 ATTCATCGAC
*
59115334 TTATTTCATCCTTAATATACAATCAAAACATGCCAAATCAT
1 TTATTTCATCCTTAATAAACAATCAAAACATGCCAAATCAT
59115375 TTATTTCATCCTTAATAAACAATCAAAACATGCCAAATCAT
1 TTATTTCATCCTTAATAAACAATCAAAACATGCCAAATCAT
59115416 GAGCCAAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (41 bp):
TTATTTCATCCTTAATAAACAATCAAAACATGCCAAATCAT
Found at i:59118183 original size:20 final size:20
Alignment explanation
Indices: 59118158--59118195 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59118148 GACTAAACCG
59118158 AGAACTTTAG-AAATTTTTAC
1 AGAAC-TTAGAAAATTTTTAC
59118178 AGAACTTAGAAAATTTTT
1 AGAACTTAGAAAATTTTT
59118196 GCTATAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AGAACTTAGAAAATTTTTAC
Found at i:59121329 original size:30 final size:30
Alignment explanation
Indices: 59121295--59121355 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59121285 TTCCCGAGCC
59121295 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
* * * *
59121325 TAGGGGCAAAATTGTACATTTTTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
59121355 T
1 T
59121356 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGTAAAAGTT
Found at i:59124395 original size:47 final size:47
Alignment explanation
Indices: 59124334--59124587 Score: 400
Period size: 47 Copynumber: 5.4 Consensus size: 47
59124324 CAGCCAAGAC
59124334 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
59124381 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
59124428 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59124475 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
59124522 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
59124569 AGTGCATAAATATGATAAG
1 AGTGTATATATGTGATAAG
59124588 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 191 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:59124762 original size:37 final size:37
Alignment explanation
Indices: 59124706--59124784 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
59124696 CCGAGCTCTA
* * *
59124706 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCAGGT
*
59124743 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
59124780 AAGAC
1 AAGAC
59124785 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:59132865 original size:13 final size:13
Alignment explanation
Indices: 59132847--59132888 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
59132837 AAAGTAGTTT
59132847 TAAAAAGATAAAAG
1 TAAAAA-ATAAAAG
59132861 TAAAAACATAAAAG
1 TAAAAA-ATAAAAG
*
59132875 TAATAAATAAAAG
1 TAAAAAATAAAAG
59132888 T
1 T
59132889 CTTTAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (13 bp):
TAAAAAATAAAAG
Found at i:59136661 original size:37 final size:37
Alignment explanation
Indices: 59136611--59136683 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
59136601 CGAGCTGTCT
**
59136611 TATCTGAGTTTCAAGCCCTTGGATCGATGCTTGTTAC
1 TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTAC
59136648 TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTA
1 TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTA
59136684 TTCTTAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (37 bp):
TATCTGAGTTTCAAGCCCTCAGATCGATGCTTGTTAC
Found at i:59140993 original size:25 final size:25
Alignment explanation
Indices: 59140945--59141002 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
59140935 CATTAGGGAT
*
59140945 TACCGATTCT-CAGCTCGTATGAGCT
1 TACCGATT-TACAGCTCGTATGAGCA
*
59140970 TATCGATTTACAGCTCGTGA-GAGCA
1 TACCGATTTACAGCTCGT-ATGAGCA
59140995 TACCGATT
1 TACCGATT
59141003 CATGGCTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (25 bp):
TACCGATTTACAGCTCGTATGAGCA
Found at i:59141443 original size:48 final size:48
Alignment explanation
Indices: 59141373--59141468 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
59141363 TCTGAAGAAA
59141373 TAGTTAGTTAAATTCTATGTTATATGAACTTACTAAGCTTAAATGTTT
1 TAGTTAGTTAAATTCTATGTTATATGAACTTACTAAGCTTAAATGTTT
59141421 TAGTTAGTTAAATAT-TATGTTATATGAACTTACTAAGCTTAAATGTTT
1 TAGTTAGTTAAAT-TCTATGTTATATGAACTTACTAAGCTTAAATGTTT
59141469 ACTCTGTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (48 bp):
TAGTTAGTTAAATTCTATGTTATATGAACTTACTAAGCTTAAATGTTT
Found at i:59145046 original size:9 final size:9
Alignment explanation
Indices: 59145034--59145059 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59145024 AACTGGGCCG
59145034 AAATGGGCT
1 AAATGGGCT
59145043 AAATGGGCT
1 AAATGGGCT
59145052 AAATGGGC
1 AAATGGGC
59145060 CCGATAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.19
Consensus pattern (9 bp):
AAATGGGCT
Found at i:59145184 original size:28 final size:29
Alignment explanation
Indices: 59145142--59145228 Score: 124
Period size: 28 Copynumber: 3.1 Consensus size: 29
59145132 CATGACTGTA
59145142 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * **
59145170 AATGTGATTTAGGCCTAATGGGCCACAAA
1 AATGTGATTTGGGCCTAATGGGCCATATG
59145199 AATGTGA-TTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
59145227 AA
1 AA
59145229 AGAGATTGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 37 0.74
29 13 0.26
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:59145235 original size:28 final size:28
Alignment explanation
Indices: 59145145--59145239 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
59145135 GACTGTAAAT
*
59145145 GTGATTTGGGCCTAAT-GGCCATATGAAT
1 GTGA-TTGGGCCTAATGGGCCATATGAAA
* * *
59145173 GTGATTTAGGCCTAATGGGCCACA-AAAA
1 GTGA-TTGGGCCTAATGGGCCATATGAAA
59145201 TGTGATTGGGCCTAATGGGCCATATGAAA
1 -GTGATTGGGCCTAATGGGCCATATGAAA
*
59145230 GAGATTGGGC
1 GTGATTGGGC
59145240 TTAGTGGCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 43 0.77
29 13 0.23
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATGAAA
Found at i:59153243 original size:47 final size:46
Alignment explanation
Indices: 59153142--59153444 Score: 193
Period size: 47 Copynumber: 6.6 Consensus size: 46
59153132 TACGCGTGCT
* * * *
59153142 GATGCATGTGCCAGACATGTCTTACATTAGCACAACTCT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TATCTCTATGAGGCC
* * *
59153186 GATGCGTGTCCTAGACACGTCTTACACTAGCTATCTCTATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTAT-GAGGCC
* * *
59153233 GATGCATGTCCCATAAATGTCTTACACTGGCACTCATCTCTAT-A--CC
1 GATGCATGTCCCAGACATGTCTTACACTAG--CT-ATCTCTATGAGGCC
* * *
59153279 AATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-AT-TGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCTCTATG-A-GGCC
* * *
59153327 GATGCATGTCCTAGACATGTCTTACACTAGCCT-TCGTCT-GGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAG-CTATC-TCTATGAGGCC
* * * *
59153373 GATGCCATGCCCCAAACATGGTCTTACAGTGGC--TCTC-AT-AGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCTCTATGAGGCC
* *
59153417 AAAGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
59153445 GGCGCACAAA
Statistics
Matches: 202, Mismatches: 37, Indels: 42
0.72 0.13 0.15
Matches are distributed among these distances:
42 9 0.04
43 18 0.09
44 34 0.17
45 6 0.03
46 30 0.15
47 67 0.33
48 28 0.14
49 2 0.01
50 8 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTATGAGGCC
Found at i:59158354 original size:40 final size:40
Alignment explanation
Indices: 59158300--59158377 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
59158290 AAGAGCCATA
* *
59158300 TATATAGCCAAATCTATTTCGATTCGCACACTAAGTGCTT
1 TATATAGCCAAATCTATCTCGATACGCACACTAAGTGCTT
** *
59158340 TATATAGCTTAATCTATCTCGATACGCACATTAAGTGC
1 TATATAGCCAAATCTATCTCGATACGCACACTAAGTGC
59158378 CAAACATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (40 bp):
TATATAGCCAAATCTATCTCGATACGCACACTAAGTGCTT
Found at i:59162074 original size:21 final size:21
Alignment explanation
Indices: 59162050--59162091 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59162040 GATTGGGCTA
* *
59162050 GCTCTTTTGATGACAGAAGGT
1 GCTCTCTTGATGACAAAAGGT
59162071 GCTCTCTTGATGACAAAAGGT
1 GCTCTCTTGATGACAAAAGGT
59162092 CTACAATGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (21 bp):
GCTCTCTTGATGACAAAAGGT
Found at i:59184791 original size:27 final size:27
Alignment explanation
Indices: 59184753--59185021 Score: 330
Period size: 27 Copynumber: 10.0 Consensus size: 27
59184743 TGGGCCACGT
* *
59184753 ATGACCGAAATA-CCCTCATAGGGTAAA
1 ATGACTGAAATACCCCT-ATAAGGTAAA
* *
59184780 ATGACAT-AAATACCCCTTTAGGGTAAA
1 ATGAC-TGAAATACCCCTATAAGGTAAA
**
59184807 ATGACCAAAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
* *
59184834 ATGACCGAAATA-CCCTCATAGGGTAAA
1 ATGACTGAAATACCCCT-ATAAGGTAAA
59184861 ATGACTGAAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
59184888 ATGACTGAAATACCCCTATAGGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
59184915 ATGACTGAAATACCCCTTTAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
* * * * *
59184942 GTGCCT-AAATACCCTTATACGATAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
59184968 ATGACTGTAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
*
59184995 ATGACTGTAATACCCCTATAAGGTAAA
1 ATGACTGAAATACCCCTATAAGGTAAA
59185022 CTGTTGATTT
Statistics
Matches: 212, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.11
27 180 0.85
28 8 0.04
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
ATGACTGAAATACCCCTATAAGGTAAA
Found at i:59191611 original size:46 final size:46
Alignment explanation
Indices: 59191561--59191736 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59191551 TGGTTGAGCA
59191561 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59191607 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
59191652 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59191700 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59191737 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59191717 original size:93 final size:93
Alignment explanation
Indices: 59191558--59191728 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59191548 GGATGGTTGA
* * *
59191558 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
59191623 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
59191651 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
59191716 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59191729 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59198724 original size:51 final size:50
Alignment explanation
Indices: 59198659--59198755 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 50
59198649 GTAATTATGC
* *
59198659 AAAAGTTAGGGGCAAAAGTGTAATTTTTCCAAAGTTCGTATTAAATACTG
1 AAAAGTTAGGGGCAAAAGTGTAATTTTTCCAAAGTTAGTAATAAATACTG
59198709 AAAAGTTTAGGGGCAAAAGTGTAATTTTTCCAAAGTTAGTAATAAAT
1 AAAAG-TTAGGGGCAAAAGTGTAATTTTTCCAAAGTTAGTAATAAAT
59198756 GCTATTTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (50 bp):
AAAAGTTAGGGGCAAAAGTGTAATTTTTCCAAAGTTAGTAATAAATACTG
Found at i:59199021 original size:79 final size:79
Alignment explanation
Indices: 59198890--59199046 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 79
59198880 TTGGTACCAA
*
59198890 GGTAAGTTCATGTGTAAATGTAGTAACATAATTGTCATTTTAAGCAATTTAATGTTGTGTATATG
1 GGTAAGTTCATGTGTAAATGTAGTAACAAAATTGTCATTTTAAGCAATTTAATGTTGTGTATATG
59198955 ATATGTTGCTGATT
66 ATATGTTGCTGATT
*
59198969 GGTAAGTTCATGTGTAAATGTAGTAACAAAATTGTCATTTTAAGCAATTTAATGTTGTTTATATG
1 GGTAAGTTCATGTGTAAATGTAGTAACAAAATTGTCATTTTAAGCAATTTAATGTTGTGTATATG
59199034 ATATGTTGCTGAT
66 ATATGTTGCTGAT
59199047 CATTATCATG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (79 bp):
GGTAAGTTCATGTGTAAATGTAGTAACAAAATTGTCATTTTAAGCAATTTAATGTTGTGTATATG
ATATGTTGCTGATT
Found at i:59205778 original size:24 final size:24
Alignment explanation
Indices: 59205743--59205788 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
59205733 CCAACACCGT
59205743 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
*
59205767 TCTCCCTTATCAGCTCCTAAAT
1 TCTCCCTAATCAGCTCCTAAAT
59205789 TCTCCTGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.39, G:0.04, T:0.33
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:59213779 original size:24 final size:26
Alignment explanation
Indices: 59213736--59213785 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
59213726 CATTTATTAT
*
59213736 AACATACTTATGAAAGAAATGATTGA
1 AACATACTTATGAAAAAAATGATTGA
*
59213762 AACATAC-T-TGAAAAAAATGTTTGA
1 AACATACTTATGAAAAAAATGATTGA
59213786 GCAATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 1 0.05
26 7 0.32
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (26 bp):
AACATACTTATGAAAAAAATGATTGA
Found at i:59215162 original size:27 final size:27
Alignment explanation
Indices: 59215118--59215285 Score: 135
Period size: 27 Copynumber: 6.2 Consensus size: 27
59215108 AAAAATAGTC
* * * * *
59215118 ATTTTACCCTATAGGGGTATGTCGATC
1 ATTTTACACTACAAGGGTATTTCGATA
*
59215145 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
59215172 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *** * *
59215199 ATTTTATA-AATTGGGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
*
59215226 ATTTTACA-AATCAAGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGATA
* * *
59215253 ATTTTACA-AATCAAGGGCATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGATA
59215280 ATTTTA
1 ATTTTA
59215286 TAAATCGAGG
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:59215290 original size:27 final size:27
Alignment explanation
Indices: 59215158--59215683 Score: 496
Period size: 27 Copynumber: 19.7 Consensus size: 27
59215148 TTACACTACA
* *
59215158 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* * *
59215185 AGGGTATTTCGATAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
59215212 GGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
59215239 AGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
59215266 AGGGCATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
59215293 AGGATATTTCATTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
59215320 ATGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
59215347 AGGG--TTTCAATAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
59215372 -GAGGTATTTCGATAATTTTATAAATTG
1 AG-GGTATTTCGGTAATTTTACAAATCG
** **
59215399 AGGGTATTTTAGTAA-TTT-CAGAATTA
1 AGGGTATTTCGGTAATTTTACA-AATCG
59215425 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
**
59215452 -GGTGTATTTTAGTAATTTTACAAAT-G
1 AGG-GTATTTCGGTAATTTTACAAATCG
* *
59215478 TAGGGTGTTTCGGTAATTTCACAAATCG
1 -AGGGTATTTCGGTAATTTTACAAATCG
* * * *
59215506 GGGGTATTTTGGTAATTTTATAAGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
59215533 AGGGTATTTCGATAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
59215559 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
59215586 AGGGTATTTCATTAATTTCAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** *
59215612 AGGGTATCTCACTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
59215639 GGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
59215666 ATGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
59215684 CTCTTTATTA
Statistics
Matches: 405, Mismatches: 80, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.00
25 22 0.05
26 68 0.17
27 306 0.76
28 8 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:59215644 original size:80 final size:78
Alignment explanation
Indices: 59215158--59215684 Score: 413
Period size: 80 Copynumber: 6.6 Consensus size: 78
59215148 TTACACTACA
* * * * ** *
59215158 AGGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTC-GATAATTTTATAAATTGGGGGTGTTT
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAG-TAATTTCA-CAA-TCAGGGTATTT
* *
59215221 CGGTAATTTTACAAATCA
62 C-ATAATTTTACAAATCG
* * * * * * *
59215239 AGGGTATTTCGATAATTTTACAAATCAAGGGCATTTCGGTAATTTTATAAATCGAGGATATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCA-CAATC-AGGGTATTTCA
59215304 TTAATTTTACAAATCG
64 -TAATTTTACAAATCG
* * * * *
59215320 ATGGTGTTTCAGTAATTTTACAAATCGAGGG--TTTCAATAATTTCACAAATCGGAGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCAG-GGTATTTC-
* *
59215383 ATAATTTTATAAATTG
63 ATAATTTTACAAATCG
** ** * * * *
59215399 AGGGTATTTTAGTAA-TTT-CAGAATTAAGGGTATTTCGGTAATTTTACAAATCGGGTGTATTTT
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCAGTAATTTCAC-AATCAGG-GTATTTC
59215462 AGTAATTTTACAAAT-G
63 A-TAATTTTACAAATCG
* * * ** * *
59215478 TAGGGTGTTTCGGTAATTTCACAAATCGGGGGTATTTTGGTAATTTTATAAGTCGAGGGTATTTC
1 -AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAA-TC-AGGGTATTTC
*
59215543 GATAATTTCAC-AATCG
63 -ATAATTTTACAAATCG
* *
59215559 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCATTAATTTCACAATCAAGGGTATCTCAC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATC-AGGGTATTTCA-
*
59215624 TAATTTTACAAATTG
64 TAATTTTACAAATCG
* *
59215639 GGGGTATTTCGGTAATTTTACAAATCGATGGTATTTCAGTAATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
59215685 TCTTTATTAT
Statistics
Matches: 366, Mismatches: 59, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
77 2 0.01
78 12 0.03
79 69 0.19
80 145 0.40
81 130 0.36
82 8 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (78 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCAGGGTATTTCATA
ATTTTACAAATCG
Found at i:59216036 original size:28 final size:28
Alignment explanation
Indices: 59216000--59216060 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
59215990 TGGCCCCTTT
* *
59216000 AGGCCCAATCTCATTCACATGGCGCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
59216028 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
59216056 AGGCC
1 AGGCC
59216061 GAACTACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:59219273 original size:47 final size:47
Alignment explanation
Indices: 59219210--59219597 Score: 632
Period size: 47 Copynumber: 8.3 Consensus size: 47
59219200 CCCTTCGGGA
* * *
59219210 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
59219257 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
59219304 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59219351 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
59219398 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59219445 CTTATCACATATATACATTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59219492 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
59219539 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59219586 CTTATCACATAT
1 CTTATCACATAT
59219598 TCTCATTATC
Statistics
Matches: 315, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 315 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:59224144 original size:49 final size:49
Alignment explanation
Indices: 59224062--59224219 Score: 275
Period size: 49 Copynumber: 3.2 Consensus size: 49
59224052 CTTACTTTGA
*
59224062 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
59224109 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCTGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
59224158 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
59224207 GAATGTGATAAGT
1 GAATGTGA-AAGT
59224220 CCCGAAGGGC
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
47 13 0.12
49 88 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:59224393 original size:37 final size:37
Alignment explanation
Indices: 59224337--59224415 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59224327 CCGAGCTCTG
* * *
59224337 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
59224374 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59224411 AAGAC
1 AAGAC
59224416 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59228661 original size:19 final size:19
Alignment explanation
Indices: 59228633--59228680 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
59228623 TTAGGGTTCG
* *
59228633 TTTTATAAAAACTACTTGT
1 TTTTAAAAAAACTACCTGT
59228652 TTTTAAAAAAAAACTACCTGT
1 TTTT--AAAAAAACTACCTGT
59228673 TTTTAAAA
1 TTTTAAAA
59228681 GATCACGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
21 17 0.68
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (19 bp):
TTTTAAAAAAACTACCTGT
Found at i:59228675 original size:20 final size:21
Alignment explanation
Indices: 59228639--59228680 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
59228629 TTCGTTTTAT
*
59228639 AAAAACTACTTGTTTTTAAAA
1 AAAAACTACCTGTTTTTAAAA
59228660 AAAAACTACCTGTTTTTAAAA
1 AAAAACTACCTGTTTTTAAAA
59228681 GATCACGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAACTACCTGTTTTTAAAA
Found at i:59235287 original size:12 final size:11
Alignment explanation
Indices: 59235258--59235288 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
59235248 GAAGTTGAGC
59235258 TGATTTTTGCT
1 TGATTTTTGCT
59235269 TGATTTTTGCT
1 TGATTTTTGCT
59235280 TGATTTTTG
1 TGATTTTTG
59235289 GTCAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.06, G:0.19, T:0.65
Consensus pattern (11 bp):
TGATTTTTGCT
Found at i:59237611 original size:20 final size:21
Alignment explanation
Indices: 59237569--59237611 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59237559 GCTTTCATGA
*
59237569 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
59237590 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
59237610 TT
1 TT
59237612 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:59240459 original size:22 final size:22
Alignment explanation
Indices: 59240434--59240486 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
59240424 CGACTCAACA
* * *
59240434 CCGTAAATAGGATGGCTCAATG
1 CCGTAAATAGGACGGCTAAAGG
59240456 CCGTAGAA-AGGACGGCTAAAGG
1 CCGTA-AATAGGACGGCTAAAGG
59240478 CCGTAAATA
1 CCGTAAATA
59240487 TCGCAGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (22 bp):
CCGTAAATAGGACGGCTAAAGG
Found at i:59243669 original size:27 final size:27
Alignment explanation
Indices: 59243618--59243670 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
59243608 ACAATTACAC
*
59243618 TTGGGCCTCAACCCTCATCAGAATCAA
1 TTGGGCCTCAACCCTCATCAAAATCAA
59243645 TTGGGCCT-AACCCATTC-TCAAAATCA
1 TTGGGCCTCAACCC--TCATCAAAATCA
59243671 GTAACAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 16 0.70
28 2 0.09
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (27 bp):
TTGGGCCTCAACCCTCATCAAAATCAA
Found at i:59243685 original size:60 final size:60
Alignment explanation
Indices: 59243618--59243733 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
59243608 ACAATTACAC
* * * *
59243618 TTGGGCCTCAACCC-TCATCAGAATCAATTGGGCCTAA-CCCATTCTCAAAATCAGTAACAG
1 TTGGGCCT-AACCCATCAACAGAATCAAGTGGGCCTAAGCCCAGT-ACAAAATCAGTAACAG
* * *
59243678 TTGGGCCTAGCCCATTAACAGAATCAGGTGGGCCTAAGCCCAGTACAAAATCAGTA
1 TTGGGCCTAACCCATCAACAGAATCAAGTGGGCCTAAGCCCAGTACAAAATCAGTA
59243734 TCAAATGCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.09
60 38 0.81
61 5 0.11
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (60 bp):
TTGGGCCTAACCCATCAACAGAATCAAGTGGGCCTAAGCCCAGTACAAAATCAGTAACAG
Found at i:59243729 original size:27 final size:27
Alignment explanation
Indices: 59243679--59243731 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59243669 CAGTAACAGT
* *
59243679 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAAAATCAGG
59243706 TGGGCCTAAGCCCAGT-ACAAAATCAG
1 TGGGCCT-AGCCCAGTAACAAAATCAG
59243732 TATCAAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAAAATCAGG
Found at i:59244186 original size:27 final size:27
Alignment explanation
Indices: 59244138--59244190 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
59244128 CACTCTACCA
* *
59244138 TACAAGGGTATTACGGTTATTTTACAC
1 TACAAGGGTATTACGATAATTTTACAC
**
59244165 TACAAGGGTATTTTGATAATTTTACA
1 TACAAGGGTATTACGATAATTTTACA
59244191 AACTGAGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAGGGTATTACGATAATTTTACAC
Found at i:59247994 original size:28 final size:28
Alignment explanation
Indices: 59247929--59248079 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
59247919 GAGATTGGCG
* * * *
59247929 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
59247958 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59247986 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59248014 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59248042 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59248069 CTGAGTGTGCG
1 CTAAGTGTGCG
59248080 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:59256033 original size:27 final size:28
Alignment explanation
Indices: 59255896--59256072 Score: 268
Period size: 28 Copynumber: 6.4 Consensus size: 28
59255886 GAGATTGGCG
* * * *
59255896 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
59255925 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59255953 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59255981 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59256009 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59256036 CGAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59256063 CTGAGTGTGC
1 CTAAGTGTGC
59256073 AGACTTAATA
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 48 0.35
28 76 0.55
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:59259860 original size:48 final size:48
Alignment explanation
Indices: 59259713--59259860 Score: 125
Period size: 48 Copynumber: 3.2 Consensus size: 48
59259703 TTATGAGAGC
*
59259713 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCA--T-TGAGACGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATG-GA-G-GTGT
* * * * *
59259760 CTAGTGTAAGA-CATGTTTGTGACAT-GAATCGGCTACG-A--GATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGTATGGAGGTGT
*
59259805 CAATGTAAGACCATGTCTGGGACATGGCATTGGCACGTATGGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATGGAGGTGT
59259853 CAGTGTAA
1 CAGTGTAA
59259861 TTGGCATGGA
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
44 10 0.13
45 16 0.21
46 15 0.19
47 14 0.18
48 22 0.29
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATGGAGGTGT
Found at i:59259995 original size:47 final size:48
Alignment explanation
Indices: 59259878--59260009 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 48
59259868 GGATATGTGA
* * * *
59259878 GAGCTAGTGGAAGATCATGTCTGGGACATGGCGTCAGCCTTGATTTCGAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TTCGAT
* *
59259928 -AGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TGGAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTCGAT
*
59259974 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
59260010 GCATTATACC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 4 0.05
47 33 0.45
48 6 0.08
49 30 0.41
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTCGAT
Found at i:59271351 original size:22 final size:19
Alignment explanation
Indices: 59271323--59271365 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 19
59271313 GGGATTTATT
59271323 TGTGAAAATGTGTGATTAAATG
1 TGTGAAAA-GT-TGA-TAAATG
59271345 TGTGAAAAGTTGATAAATG
1 TGTGAAAAGTTGATAAATG
59271364 TG
1 TG
59271366 GGCTGCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 3 0.14
21 2 0.10
22 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (19 bp):
TGTGAAAAGTTGATAAATG
Found at i:59273283 original size:22 final size:20
Alignment explanation
Indices: 59273237--59273284 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
59273227 GTCTGTTGGC
*
59273237 CGTGTGTCGGGCCACACGGG
1 CGTGTGTCGGGCCACACAGG
59273257 CGTGTGTCGGGCCACACAGG
1 CGTGTGTCGGGCCACACAGG
*
59273277 CATGTGTC
1 CGTGTGTC
59273285 CCCTGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (20 bp):
CGTGTGTCGGGCCACACAGG
Found at i:59273854 original size:22 final size:23
Alignment explanation
Indices: 59273813--59273858 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
59273803 CATATAACGG
59273813 CCTGTTAAAAATATATGTAAGCT
1 CCTGTTAAAAATATATGTAAGCT
59273836 CCTGTTAAAAATATA-GTAAGCT
1 CCTGTTAAAAATATATGTAAGCT
59273858 C
1 C
59273859 AATTTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (23 bp):
CCTGTTAAAAATATATGTAAGCT
Found at i:59274403 original size:19 final size:16
Alignment explanation
Indices: 59274379--59274422 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 16
59274369 TTTATTAACT
59274379 TTTAATTAAACCAAATTAA
1 TTTAATTAAACC--ATT-A
59274398 TTTAATT-AACCATTA
1 TTTAATTAAACCATTA
59274413 TTTAATTAAA
1 TTTAATTAAA
59274423 GAAAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
18 4 0.17
19 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAATTAAACCATTA
Found at i:59283861 original size:44 final size:41
Alignment explanation
Indices: 59283758--59283877 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 41
59283748 TAATCAAATA
*
59283758 TCGATGCC-ACTGTCCTAGACATGGTCTTACACGAAATCAAG
1 TCGATGCCAAC-GTCCTAGACGTGGTCTTACACGAAATCAAG
* * *
59283799 TACGAAGCCAATGTCCTAGACGTGGTCTTAGACGTAAATCATAAG
1 T-CGATGCCAACGTCCTAGACGTGGTCTTACACG-AAATC--AAG
59283844 TCGATGCCAACGTCCTAGACGTGGTCTTACACGA
1 TCGATGCCAACGTCCTAGACGTGGTCTTACACGA
59283878 TAACACAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.39
43 7 0.10
44 29 0.43
45 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (41 bp):
TCGATGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAG
Found at i:59289173 original size:24 final size:24
Alignment explanation
Indices: 59289116--59289252 Score: 157
Period size: 24 Copynumber: 5.7 Consensus size: 24
59289106 CCATGTTTAC
* **
59289116 CCGCACACATAGTGCCTTAGTAAT
1 CCGCACACATAGTGCCATACAAAT
* * * * * *
59289140 TCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
59289164 CCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAAT
*
59289188 CCGCACACATAGTGCCGTACAAAT
1 CCGCACACATAGTGCCATACAAAT
* *
59289212 TCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
*
59289236 TCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
59289253 AAGTCATTTC
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
CCGCACACATAGTGCCATACAAAT
Found at i:59289213 original size:72 final size:72
Alignment explanation
Indices: 59289116--59289252 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
59289106 CCATGTTTAC
* ** * *
59289116 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59289181 TACAAAT
66 TACAAAT
* * *
59289188 CCGCACACATAGTGCCGTACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59289253 AAGTCATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:59290537 original size:44 final size:43
Alignment explanation
Indices: 59290473--59290560 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 43
59290463 GTGAACACAC
59290473 TCTCTCTCCTTCCCTTTTCTTCTTTTATTCATTCATTTCTTAT
1 TCTCTCTCCTTCCCTTTTCTTCTTTTATTCATTCATTTCTTAT
* *
59290516 TNCTCTCTCTTTCCCTTTTCTTCTTTTATTTATTCATTTCTTAT
1 T-CTCTCTCCTTCCCTTTTCTTCTTTTATTCATTCATTTCTTAT
59290560 T
1 T
59290561 AATTCATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.62
Consensus pattern (43 bp):
TCTCTCTCCTTCCCTTTTCTTCTTTTATTCATTCATTTCTTAT
Found at i:59290565 original size:15 final size:14
Alignment explanation
Indices: 59290539--59290574 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59290529 CCTTTTCTTC
*
59290539 TTTTATTTATTCAT
1 TTTTATTAATTCAT
59290553 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
59290568 TTTTATT
1 TTTTATT
59290575 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:59291904 original size:31 final size:31
Alignment explanation
Indices: 59291868--59291930 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
59291858 CCTTTTCATA
59291868 TTTCATATATT-ATAACACTGGGCCGAAGCCT
1 TTTCATAT-TTCATAACACTGGGCCGAAGCCT
**
59291899 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
59291930 T
1 T
59291931 CACTGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:59292172 original size:24 final size:26
Alignment explanation
Indices: 59292140--59292223 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 26
59292130 CTGGAGGCCT
* *
59292140 AGCCTTTTTTAATA-ACTGGGG-GAA
1 AGCCCTTTTTAATATACTGGGGCAAA
*
59292164 AGCCC-TTTTGATATACTGGGGCAAA
1 AGCCCTTTTTAATATACTGGGGCAAA
*** * *
59292189 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTTTAATATACTGGGGCAAA
59292214 AGCCCTTTTT
1 AGCCCTTTTT
59292224 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 7 0.14
24 11 0.22
25 17 0.35
26 14 0.29
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (26 bp):
AGCCCTTTTTAATATACTGGGGCAAA
Found at i:59292223 original size:26 final size:24
Alignment explanation
Indices: 59292153--59292222 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
59292143 CTTTTTTAAT
*
59292153 AACTGGGGGAAAGCCCTTTTGATA
1 AACTGGGGCAAAGCCCTTTTGATA
* *
59292177 TACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTT-GATA
*
59292203 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59292223 TGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.18
25 21 0.54
26 11 0.28
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTGATA
Found at i:59292295 original size:9 final size:9
Alignment explanation
Indices: 59292281--59292337 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
59292271 ACATCATGTG
59292281 CATATCATA
1 CATATCATA
*
59292290 CATATCATGTG
1 CATATCA--TA
59292301 CATATCATA
1 CATATCATA
*
59292310 CATATCATGTG
1 CATATCA--TA
59292321 CATATCATA
1 CATATCATA
59292330 CATATCAT
1 CATATCAT
59292338 GTATATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:59292298 original size:20 final size:20
Alignment explanation
Indices: 59292273--59292339 Score: 134
Period size: 20 Copynumber: 3.4 Consensus size: 20
59292263 TTATGAATAC
59292273 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59292293 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59292313 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59292333 ATCATGT
1 ATCATGT
59292340 ATATCAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59292304 original size:11 final size:11
Alignment explanation
Indices: 59292273--59292328 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
59292263 TTATGAATAC
59292273 ATCATGTGCAT
1 ATCATGTGCAT
*
59292284 ATCA--TACAT
1 ATCATGTGCAT
59292293 ATCATGTGCAT
1 ATCATGTGCAT
*
59292304 ATCA--TACAT
1 ATCATGTGCAT
59292313 ATCATGTGCAT
1 ATCATGTGCAT
59292324 ATCAT
1 ATCAT
59292329 ACATATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:59292423 original size:24 final size:25
Alignment explanation
Indices: 59292391--59292450 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
59292381 GGGTATAATG
*
59292391 GTCATTTTTACCCAGGGGCAAAATA
1 GTCATTTTCACCCAGGGGCAAAATA
59292416 GTCATTTTCACCCAGGGGCAAAATA
1 GTCATTTTCACCCAGGGGCAAAATA
59292441 GTCATTTTCA
1 GTCATTTTCA
59292451 TATTATAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (25 bp):
GTCATTTTCACCCAGGGGCAAAATA
Found at i:59300012 original size:31 final size:31
Alignment explanation
Indices: 59299977--59300039 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
59299967 CCTTTTCATA
59299977 TTTCATATCTT-ATAACACTGGGCCGAAGCCT
1 TTTCATAT-TTCATAACACTGGGCCGAAGCCT
** *
59300008 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
59300039 T
1 T
59300040 CACTGTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:59300332 original size:26 final size:24
Alignment explanation
Indices: 59300249--59300331 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
59300239 CTGGAGGCCT
*
59300249 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
59300273 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* *
59300298 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
59300323 AGCCCTTTT
1 AGCCCTTTT
59300332 TGCACTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 7 0.13
24 13 0.25
25 21 0.40
26 12 0.23
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:59300404 original size:9 final size:9
Alignment explanation
Indices: 59300390--59300446 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
59300380 ACATCATGTG
59300390 CATATCATA
1 CATATCATA
*
59300399 CATATCATGTG
1 CATATCA--TA
*
59300410 CATATCGTA
1 CATATCATA
*
59300419 CATATCATGTG
1 CATATCA--TA
59300430 CATATCATA
1 CATATCATA
59300439 CATATCAT
1 CATATCAT
59300447 GTACATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:59300407 original size:20 final size:20
Alignment explanation
Indices: 59300382--59300448 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
59300372 TTATGAATAC
59300382 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59300402 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
59300422 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59300442 ATCATGT
1 ATCATGT
59300449 ACATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59300451 original size:11 final size:11
Alignment explanation
Indices: 59300382--59300452 Score: 73
Period size: 11 Copynumber: 7.0 Consensus size: 11
59300372 TTATGAATAC
*
59300382 ATCATGTGCAT
1 ATCATGTACAT
59300393 ATCA--TACAT
1 ATCATGTACAT
*
59300402 ATCATGTGCAT
1 ATCATGTACAT
59300413 ATC--GTACAT
1 ATCATGTACAT
*
59300422 ATCATGTGCAT
1 ATCATGTACAT
59300433 ATCA--TACAT
1 ATCATGTACAT
59300442 ATCATGTACAT
1 ATCATGTACAT
59300453 CAAAATCCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:59308318 original size:24 final size:24
Alignment explanation
Indices: 59308228--59308362 Score: 117
Period size: 24 Copynumber: 5.6 Consensus size: 24
59308218 ATGTTTACCT
* ** *
59308228 GCACACATAGTGCCTTAGTAATTC
1 GCACACATAGTGCCATACAAATCC
* * * * *
59308252 ACATACATATTGACATTCAAATCC
1 GCACACATAGTGCCATACAAATCC
*
59308276 GCATACATAGTGCCATACAAATCC
1 GCACACATAGTGCCATACAAATCC
* * **
59308300 GCACACATAGTTCCGTACAAATTT
1 GCACACATAGTGCCATACAAATCC
* * *
59308324 ACACACATAGTGCCATTCAAATTC
1 GCACACATAGTGCCATACAAATCC
59308348 GCACACATAGTGCCA
1 GCACACATAGTGCCA
59308363 AAGTCATTTC
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 87 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCCATACAAATCC
Found at i:59308332 original size:72 final size:72
Alignment explanation
Indices: 59308228--59308362 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
59308218 ATGTTTACCT
* ** * * *
59308228 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCATACATAGTGCCATA
1 GCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATA
59308293 CAAATCC
66 CAAATCC
* * * *
59308300 GCACACATAGTTCCGTACAAATTTACACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 GCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59308363 AAGTCATTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (72 bp):
GCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATA
CAAATCC
Found at i:59309632 original size:15 final size:14
Alignment explanation
Indices: 59309606--59309641 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59309596 CCTTTTCTTC
*
59309606 TTTTATTCATTCAT
1 TTTTATTAATTCAT
59309620 TTATTATTAATTCAT
1 TT-TTATTAATTCAT
59309635 TTTTATT
1 TTTTATT
59309642 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:59312766 original size:16 final size:16
Alignment explanation
Indices: 59312747--59312783 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
59312737 ACTTTTATCA
*
59312747 CTTTTATAATTTAGTC
1 CTTTTACAATTTAGTC
59312763 CTTTTACAATTTAGTC
1 CTTTTACAATTTAGTC
59312779 CTTTT
1 CTTTT
59312784 TTTCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (16 bp):
CTTTTACAATTTAGTC
Found at i:59313137 original size:21 final size:21
Alignment explanation
Indices: 59313113--59313158 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
59313103 AAACAAGGGC
*
59313113 ACACGCCCGTTTAGAAAGGCG
1 ACACGCCCGTGTAGAAAGGCG
* *
59313134 ACACGCCCGTGTGGAAGGGCG
1 ACACGCCCGTGTAGAAAGGCG
59313155 ACAC
1 ACAC
59313159 TATGACAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.33, T:0.11
Consensus pattern (21 bp):
ACACGCCCGTGTAGAAAGGCG
Found at i:59314921 original size:40 final size:40
Alignment explanation
Indices: 59314861--59315044 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
59314851 TATTCGAATG
*
59314861 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
59314901 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
59314941 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
59314981 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
59315021 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
59315045 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:59314994 original size:80 final size:80
Alignment explanation
Indices: 59314861--59315044 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
59314851 TATTCGAATG
* * *
59314861 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
59314925 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
59314941 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
59315006 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
59315021 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
59315045 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:59317719 original size:48 final size:48
Alignment explanation
Indices: 59317548--59317745 Score: 202
Period size: 48 Copynumber: 4.1 Consensus size: 48
59317538 GTAAGATATT
* * * * *
59317548 GATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAG--CTCACATATCGAG-GCC
* * * **
59317598 GATGCCATATTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGTT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * * *
59317646 GATGCCA-GTCCCAGACATGGTCTTACATTAGCTCTCTTATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
59317693 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
59317741 GATGC
1 GATGC
59317746 TATAATAGCC
Statistics
Matches: 119, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
47 35 0.29
48 55 0.46
49 1 0.01
50 28 0.24
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:59317724 original size:95 final size:97
Alignment explanation
Indices: 59317559--59317738 Score: 274
Period size: 95 Copynumber: 1.9 Consensus size: 97
59317549 ATGTCATGTT
* ** *
59317559 CCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCCATATTCCAAACATGGTCTTA
1 CCAGACATGGTCTTACACTAGCTCTCATATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
*
59317624 CACTAGCCCACATGTCGAGGTTGATGCCAGTC
66 CACTAGCCCACATATCGAGGTTGATGCCAGTC
* *
59317656 CCAGACATGGTCTTACATTAGCTCTC-T-TATCAATGCCGATGCCATGTTCCAAACATGGTCTTA
1 CCAGACATGGTCTTACACTAGCTCTCATATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
*
59317719 CACTAGCTCACATATCGAGG
66 CACTAGCCCACATATCGAGG
59317739 CCGATGCTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 50 0.67
96 1 0.01
97 24 0.32
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (97 bp):
CCAGACATGGTCTTACACTAGCTCTCATATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
CACTAGCCCACATATCGAGGTTGATGCCAGTC
Found at i:59319828 original size:50 final size:51
Alignment explanation
Indices: 59319747--59319875 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
59319737 GACTATGGCA
*
59319747 ACAAGTGATAAGTGATAGCTTCGGCTTCACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
59319798 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
59319848 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
59319876 CTGATCAATG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:59319891 original size:31 final size:31
Alignment explanation
Indices: 59319851--59319998 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
59319841 ACAAATGACA
*
59319851 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
59319882 AATGAAAAGTGGTAGCTTCTGC-ACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59319912 AGTGAAAAGTGGTAG-TTCCGGCTACCAGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
59319943 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59319974 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
59319999 AAGTGACAAG
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.02
30 24 0.24
31 74 0.73
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:59319923 original size:61 final size:62
Alignment explanation
Indices: 59319851--59319998 Score: 201
Period size: 61 Copynumber: 2.4 Consensus size: 62
59319841 ACAAATGACA
* * * * *
59319851 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAATGAAAAGTGGTAGCTTCTGC-ACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCAGATCAATGAAAAATGGTAGCTCCGGCTACATGATC
* *
59319912 AGTGAAAAGTGGTAG-TTCCGGCTACCAGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCAGATCAATGAAAAATGGTAGCTCCGGCTACATGATC
*
59319974 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
59319999 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 2 0.03
61 44 0.58
62 28 0.37
63 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCAGATCAATGAAAAATGGTAGCTCCGGCTACATGATC
Found at i:59320009 original size:7 final size:7
Alignment explanation
Indices: 59319997--59320032 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
59319987 AGCTTCGGCT
59319997 ACAAGTG
1 ACAAGTG
59320004 ACAAGTG
1 ACAAGTG
59320011 ACAAGTG
1 ACAAGTG
59320018 ACAAGTG
1 ACAAGTG
59320025 ACAAGTG
1 ACAAGTG
59320032 A
1 A
59320033 TTTCTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:59320106 original size:47 final size:47
Alignment explanation
Indices: 59320036--59320201 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 47
59320026 CAAGTGATTT
* * *
59320036 CTGTATAAGGCCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
59320083 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
59320130 C-GTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * *
59320172 -TGTGTAAGACCATATTTGGGCTATGGCATC
1 CTGTATAAGACCATATCTGGGATATGGCATC
59320202 ATTATGTGAA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 25 0.25
47 41 0.40
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:59320192 original size:42 final size:42
Alignment explanation
Indices: 59320131--59320244 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
59320121 TATGTGATTC
* *
59320131 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATATGAAGAT
* *
59320173 GTGTAAGACCATATTTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
**
59320215 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGTTGGGCTATGGCATCA
59320245 AGAAAACGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
Found at i:59324825 original size:28 final size:28
Alignment explanation
Indices: 59324785--59324840 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
59324775 CTGTCGAAAG
59324785 TAAGACCTAAAACTATTCACTCCTAAGA
1 TAAGACCTAAAACTATTCACTCCTAAGA
*
59324813 TAAGACCTAAAACTATTCACTTCTAAGA
1 TAAGACCTAAAACTATTCACTCCTAAGA
59324841 CACTATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (28 bp):
TAAGACCTAAAACTATTCACTCCTAAGA
Found at i:59328750 original size:13 final size:13
Alignment explanation
Indices: 59328732--59328756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59328722 AGGGGCACAT
59328732 GCCCGTGTGGCTA
1 GCCCGTGTGGCTA
59328745 GCCCGTGTGGCT
1 GCCCGTGTGGCT
59328757 CCCATGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.32, G:0.40, T:0.24
Consensus pattern (13 bp):
GCCCGTGTGGCTA
Found at i:59329867 original size:54 final size:52
Alignment explanation
Indices: 59329762--59329880 Score: 175
Period size: 54 Copynumber: 2.2 Consensus size: 52
59329752 ATATTTCGGA
* * *
59329762 TATGGTCTTACACGGGAGCATTTATCACTTTTCTCTGATGCCATAGCCCAGC
1 TATGGTCTTATACGGGAGCACTTATCACTTTTCTCCGATGCCATAGCCCAGC
* *
59329814 TATGGTCTTATACGGGAATCACTTATCACTTATTTTCCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGG-AGCACTTATCACTT-TTCTCCGATGCCATAGCCCAGC
59329868 TATGGTCTTATAC
1 TATGGTCTTATAC
59329881 AAATATCGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 15 0.25
53 12 0.20
54 33 0.55
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
TATGGTCTTATACGGGAGCACTTATCACTTTTCTCCGATGCCATAGCCCAGC
Found at i:59329893 original size:54 final size:53
Alignment explanation
Indices: 59329783--59329898 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 53
59329773 ACGGGAGCAT
* **
59329783 TTATCACTTTTCTCTGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCAC
1 TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCAC
* *
59329836 TTATCACTTATTTTCCGATGCCATAGCCCAGCTATGGTCTTATAC-AAATATCGC
1 TTATCACTT-TTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAA-ATCAC
59329890 TTATCACTT
1 TTATCACTT
59329899 GTTGCCATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
53 10 0.18
54 46 0.82
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (53 bp):
TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCAC
Found at i:59331872 original size:36 final size:38
Alignment explanation
Indices: 59331826--59331899 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
59331816 AACAGAATTC
59331826 ATAATATAAAT-TTA-AAATAAAATGATGTATATAATAA
1 ATAATATAAATATTATAAATAAAATG-TGTATATAATAA
* *
59331863 ATAA-ATAAATAATTATTAATGAAATGTGTATATAATA
1 ATAATATAAAT-ATTATAAATAAAATGTGTATATAATA
59331900 TGAGTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 6 0.19
37 4 0.12
38 14 0.44
39 8 0.25
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (38 bp):
ATAATATAAATATTATAAATAAAATGTGTATATAATAA
Found at i:59334082 original size:119 final size:119
Alignment explanation
Indices: 59333871--59334139 Score: 475
Period size: 119 Copynumber: 2.3 Consensus size: 119
59333861 NNNNNNNNNN
* *
59333871 GAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGTTATATTTGA
1 GAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATCTGA
*
59333936 GAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAA
66 GAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAA
* *
59333990 GAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGA
1 GAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATCTGA
**
59334055 GAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAA
66 GAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAA
59334109 GAATACCAAATCATCTTGGATCTGCTTCAGT
1 GAATACCAAATCATCTTGGATCTGCTTCAGT
59334140 CTGATTGTCT
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 143 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
GAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATCTGA
GAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAA
Found at i:59342665 original size:46 final size:45
Alignment explanation
Indices: 59342597--59342772 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
59342587 TGTAACCTGC
* * * *
59342597 CCATAAGTGAACTCAGAATCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTT-ACAT
*
59342643 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC--GTTACAT
* * * *
59342693 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-GTTACAT
*
59342736 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59342773 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 7 0.06
44 3 0.03
45 2 0.02
46 62 0.56
47 26 0.23
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTACAT
Found at i:59342737 original size:93 final size:93
Alignment explanation
Indices: 59342605--59342775 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
59342595 GCCCATAAGT
* * *
59342605 GAACTCAGAATCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGAATCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
59342670 CGAGCTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* * * *
59342698 GAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGAATCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
* *
59342763 CGAGTTCGGATGC
66 CGAGCTCAGATGC
59342776 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGAATCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:59345118 original size:15 final size:14
Alignment explanation
Indices: 59345092--59345127 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59345082 CCTTTTCTTC
*
59345092 TTTTATTTATTCAT
1 TTTTATTAATTCAT
59345106 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
59345121 TTTTATT
1 TTTTATT
59345128 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:59346457 original size:31 final size:31
Alignment explanation
Indices: 59346421--59346483 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
59346411 CCTTTTCATA
59346421 TTTCATATATT-ATAACACTGGGCCGAAGCCT
1 TTTCATAT-TTCATAACACTGGGCCGAAGCCT
**
59346452 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
59346483 T
1 T
59346484 CACTGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Done.