Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 52 of 170
Found at i:15128127 original size:36 final size:34
Alignment explanation
Indices: 15128032--15128138 Score: 115
Period size: 35 Copynumber: 3.0 Consensus size: 34
15128022 GTTAATATTT
* * * *
15128032 TTTTTATTCTGATTCGCAAGTTAAGCATGCTATTC
1 TTTTGATTCTGATT-GCATGTTAAGCATGCCATTA
* * *
15128067 TTTTGATTTTGACTTACATATTAAGCATGCCATTA
1 TTTTGATTCTGA-TTGCATGTTAAGCATGCCATTA
15128102 TTTCTGATTCTGATTGGCATGTTAAGCATGCCATTA
1 TTT-TGATTCTGATT-GCATGTTAAGCATGCCATTA
15128138 T
1 T
15128139 GTTAAACTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
35 30 0.51
36 29 0.49
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (34 bp):
TTTTGATTCTGATTGCATGTTAAGCATGCCATTA
Found at i:15128883 original size:20 final size:20
Alignment explanation
Indices: 15128839--15128886 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
15128829 ATGGACTTTA
*
15128839 ATTTTGGACTTTGGTTTTGG
1 ATTTGGGACTTTGGTTTTGG
*
15128859 TTTTGGGACTTTGGATTTT-G
1 ATTTGGGACTTTGG-TTTTGG
15128879 ATTTGGGA
1 ATTTGGGA
15128887 ATTATTCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.12, C:0.04, G:0.31, T:0.52
Consensus pattern (20 bp):
ATTTGGGACTTTGGTTTTGG
Found at i:15140951 original size:17 final size:18
Alignment explanation
Indices: 15140919--15140953 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15140909 TATTATTCCT
15140919 AGGAAACAAAAAAGAAAA
1 AGGAAACAAAAAAGAAAA
*
15140937 AGGAAA-AAAAGAGAAAA
1 AGGAAACAAAAAAGAAAA
15140954 CTTACAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AGGAAACAAAAAAGAAAA
Found at i:15142252 original size:51 final size:51
Alignment explanation
Indices: 15142126--15142305 Score: 161
Period size: 51 Copynumber: 3.5 Consensus size: 51
15142116 GATGGTCAGG
* * * * * *
15142126 TGTGTGGTACTATGTGCAGGCTACTACGTGTTCCGGAAT-G--ATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGTAAT-GATCACA
* *
15142176 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT-TTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAAT-GATCACA
* * * * * * *
15142227 TGTGTAGTACTATGTGCAGACTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACA
*
15142278 TGTGTAGTACTATGTGTAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
15142306 TGAATCGAAC
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 4 0.04
50 31 0.29
51 70 0.66
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACA
Found at i:15142362 original size:45 final size:45
Alignment explanation
Indices: 15142311--15142403 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
15142301 CTATGTGAAT
* * *
15142311 CGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCAC
1 CGAACATCATTGATTAATAAGGTGGTTGCTATGGGCTGAATCCAC
15142356 CGAACATCATTGATTAATAAGGTGGTTGCTATGGGCTGAATCCAC
1 CGAACATCATTGATTAATAAGGTGGTTGCTATGGGCTGAATCCAC
15142401 CGA
1 CGA
15142404 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (45 bp):
CGAACATCATTGATTAATAAGGTGGTTGCTATGGGCTGAATCCAC
Found at i:15145328 original size:24 final size:22
Alignment explanation
Indices: 15145301--15145378 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 22
15145291 TACTCTCTCC
*
15145301 TAGGGTTATCGTTTTAAATATTTT
1 TAGGGTTA-GGTTTT-AATATTTT
* *
15145325 TAGGTTTAGGTTTTTAATATTCT
1 TAGGGTTAGG-TTTTAATATTTT
15145348 TAGGGTTTAGGGTTTTAATATTTT
1 TAGGG-TTA-GGTTTTAATATTTT
*
15145372 TATGGTT
1 TAGGGTT
15145379 TTTTGGCTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 14 0.31
24 29 0.64
25 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.21, T:0.55
Consensus pattern (22 bp):
TAGGGTTAGGTTTTAATATTTT
Found at i:15145337 original size:23 final size:24
Alignment explanation
Indices: 15145311--15145379 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
15145301 TAGGGTTATC
15145311 GTTTTAAATATTTTTA-GGTTTAGG
1 GTTTT-AATATTTTTAGGGTTTAGG
* *
15145335 TTTTTAATATTCTTAGGGTTTAGG
1 GTTTTAATATTTTTAGGGTTTAGG
*
15145359 GTTTTAATATTTTTATGGTTT
1 GTTTTAATATTTTTAGGGTTT
15145380 TTTGGCTTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.23
24 30 0.77
ACGTcount: A:0.22, C:0.01, G:0.19, T:0.58
Consensus pattern (24 bp):
GTTTTAATATTTTTAGGGTTTAGG
Found at i:15147970 original size:36 final size:36
Alignment explanation
Indices: 15147930--15148009 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
15147920 GATGCGACCG
*
15147930 AGGAAGAAAATCCTAATGAGCAAGAAGATGCAGTCA
1 AGGAAGAAAATCCTAATAAGCAAGAAGATGCAGTCA
** * *
15147966 AGGAAGATGATCCTAATAAGCAAGAAGATGCGGTCG
1 AGGAAGAAAATCCTAATAAGCAAGAAGATGCAGTCA
15148002 AGGAAGAA
1 AGGAAGAA
15148010 GATGCAAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.12, G:0.29, T:0.14
Consensus pattern (36 bp):
AGGAAGAAAATCCTAATAAGCAAGAAGATGCAGTCA
Found at i:15147972 original size:18 final size:18
Alignment explanation
Indices: 15147951--15148015 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
15147941 CCTAATGAGC
15147951 AAGAAGATGCAGTCAAGG
1 AAGAAGATGCAGTCAAGG
* * * *
15147969 AAGATGATCCTAAT-AAGC
1 AAGAAGATGC-AGTCAAGG
* *
15147987 AAGAAGATGCGGTCGAGG
1 AAGAAGATGCAGTCAAGG
15148005 AAGAAGATGCA
1 AAGAAGATGCA
15148016 AGTGAGGAAC
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
17 1 0.03
18 31 0.91
19 2 0.06
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.14
Consensus pattern (18 bp):
AAGAAGATGCAGTCAAGG
Found at i:15148022 original size:18 final size:18
Alignment explanation
Indices: 15147912--15148024 Score: 54
Period size: 18 Copynumber: 6.3 Consensus size: 18
15147902 GGTGCAGATT
* **
15147912 AGGAAGAAGATGCGACCG
1 AGGAAGAAGATGCAAGTG
* *
15147930 AGGAAGAAAATCCTAA-TG
1 AGGAAGAAGATGC-AAGTG
* *
15147948 AGCAAGAAGATGC-AGTCA
1 AGGAAGAAGATGCAAGT-G
* * *
15147966 AGGAAGATGATCCTAA-TA
1 AGGAAGAAGATGC-AAGTG
* *
15147984 AGCAAGAAGATGC-GGTCG
1 AGGAAGAAGATGCAAGT-G
15148002 AGGAAGAAGATGCAAGTG
1 AGGAAGAAGATGCAAGTG
15148020 AGGAA
1 AGGAA
15148025 CAAGGAACAG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
16 1 0.01
17 2 0.03
18 61 0.88
19 4 0.06
20 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.32, T:0.12
Consensus pattern (18 bp):
AGGAAGAAGATGCAAGTG
Found at i:15149799 original size:51 final size:50
Alignment explanation
Indices: 15149692--15149847 Score: 240
Period size: 51 Copynumber: 3.1 Consensus size: 50
15149682 GATCACTCAT
* * *
15149692 CACTTGTCCCTAATCAGATAAGTGTAGCTAAGTTACCACTTATCACTTGC
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGC
15149742 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGC
1 CACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGC
* * *
15149793 CACTTGTCACTGATCAGAAAAGTGTAGCTGAAGCTACTACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGC
15149844 CACT
1 CACT
15149848 GATCAGAAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 27 0.28
51 71 0.72
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (50 bp):
CACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGC
Found at i:15155588 original size:18 final size:18
Alignment explanation
Indices: 15155562--15155596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15155552 ACGATGTGCC
*
15155562 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
15155580 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
15155597 CTTGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:15169053 original size:22 final size:22
Alignment explanation
Indices: 15169026--15169095 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
15169016 AAATGTCTAA
15169026 GACCCTAGTTGAAAGATATTAT
1 GACCCTAGTTGAAAGATATTAT
* ** *
15169048 GGCCCTAACCTGAAA-ATATGTAA
1 GACCCT-AGTTGAAAGATAT-TAT
*
15169071 GACCATAGTTGAAAGATATTAT
1 GACCCTAGTTGAAAGATATTAT
15169093 GAC
1 GAC
15169096 ATTAAATTCA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (22 bp):
GACCCTAGTTGAAAGATATTAT
Found at i:15171538 original size:10 final size:10
Alignment explanation
Indices: 15171523--15171555 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
15171513 CTCAATTAAT
15171523 TTTTTTTCTC
1 TTTTTTTCTC
*
15171533 TTTTTTT-TA
1 TTTTTTTCTC
15171542 TTTTTTTCTC
1 TTTTTTTCTC
15171552 TTTT
1 TTTT
15171556 CATTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:15171565 original size:19 final size:20
Alignment explanation
Indices: 15171524--15171579 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
15171514 TCAATTAATT
* *
15171524 TTTTTTCTCTTTT-TTTTAT
1 TTTTTTCTCTTTTCATTTAG
15171543 TTTTTTCTCTTTTCATTT-G
1 TTTTTTCTCTTTTCATTTAG
15171562 TTTTTTCAT-TTTTCATTT
1 TTTTTTC-TCTTTTCATTT
15171580 TTCTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 29 0.88
20 4 0.12
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTCTCTTTTCATTTAG
Found at i:15178029 original size:11 final size:12
Alignment explanation
Indices: 15178006--15178034 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
15177996 TCAGTTTCGA
15178006 AGGAAAAATGGG
1 AGGAAAAATGGG
15178018 AGGAAAAA-GGG
1 AGGAAAAATGGG
15178029 AGGAAA
1 AGGAAA
15178035 CTTTCAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.41, T:0.03
Consensus pattern (12 bp):
AGGAAAAATGGG
Found at i:15180494 original size:24 final size:24
Alignment explanation
Indices: 15180443--15180502 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
15180433 AGAATTGGTG
* * **
15180443 GCTTCATCCACAACCTATATGATG
1 GCTTCGTCCACAACCTACATGACA
*
15180467 GCTTCGTCCACAACCTACATGGCA
1 GCTTCGTCCACAACCTACATGACA
*
15180491 GCTT-GTCTACAA
1 GCTTCGTCCACAA
15180503 ATATTGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (24 bp):
GCTTCGTCCACAACCTACATGACA
Found at i:15180892 original size:17 final size:17
Alignment explanation
Indices: 15180870--15180902 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15180860 TAGAATTGGG
15180870 TTGAGAATATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
15180887 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
15180903 TATAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:15186446 original size:6 final size:6
Alignment explanation
Indices: 15186435--15186460 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15186425 ATGTACAAAT
15186435 TCTCAC TCTCAC TCTCAC TCTCAC TC
1 TCTCAC TCTCAC TCTCAC TCTCAC TC
15186461 AGATAGCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (6 bp):
TCTCAC
Found at i:15189159 original size:45 final size:45
Alignment explanation
Indices: 15189095--15189221 Score: 177
Period size: 45 Copynumber: 2.8 Consensus size: 45
15189085 CCTGAAATGA
15189095 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCT-ATCAT-G
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGAT-ATAG
* *
15189139 TTGCCATAATGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAG
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAG
* * *
15189185 TGCCATTGTGTCTTTTAACTGTGGTCTTATTCATTTC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTC
15189222 AAGCCAATGA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 72 0.97
46 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAG
Found at i:15189176 original size:21 final size:21
Alignment explanation
Indices: 15189107--15189176 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
15189097 CCATAGTGTC
15189107 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
* * *
15189128 TTTCTA-TCATGTTGCCATAATGTC-
1 TTTCAACT-ATG--GTC-TTAT-TCA
15189152 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
15189173 TTTC
1 TTTC
15189177 TGGTATAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 3 0.08
21 15 0.42
22 2 0.06
23 2 0.06
24 11 0.31
25 3 0.08
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:15204591 original size:19 final size:16
Alignment explanation
Indices: 15204552--15204596 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 16
15204542 TAATTTTTTT
15204552 GTTTAATTAAATAATG
1 GTTTAATTAAATAATG
15204568 G-TTAATTAAATTAATTTG
1 GTTTAATTAAA-TAA--TG
15204586 GTTTAATTAAA
1 GTTTAATTAAA
15204597 AGTTAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.36
16 4 0.16
18 3 0.12
19 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (16 bp):
GTTTAATTAAATAATG
Found at i:15218063 original size:26 final size:26
Alignment explanation
Indices: 15218028--15218079 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15218018 AATGTGAAAG
*
15218028 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15218054 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15218080 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:15227852 original size:23 final size:22
Alignment explanation
Indices: 15227821--15229636 Score: 893
Period size: 23 Copynumber: 79.8 Consensus size: 22
15227811 TGTATATACC
15227821 AATTGGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
* *
15227844 AATTTGACAGCATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15227867 AATATGGACAGCATTATTCACCA
1 AAT-TGGACAGCATTATACACAA
* * *
15227890 AATTGGGCAGCATATATATAC-C
1 AATTGGACAGCAT-TATACACAA
* *
15227912 ATTTGGACAGTACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
* * *
15227935 AATTTGACAGCATGCATATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15227958 AATTGGACAACATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
* *
15227982 AATTGGACAGCATATATATACCA
1 AATTGGACAGCAT-TATACACAA
*
15228005 ATTTGGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
* * * *
15228028 AATTTGACAACATGTAAATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15228051 AATTGGACAACATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
*
15228075 AATTTGG-CAGC-TTATATGTAGC-A
1 AA-TTGGACAGCATTATA--CA-CAA
* *
15228098 ATTTGGACAACACTT-TACACAA
1 AATTGGACAGCA-TTATACACAA
*
15228120 AATTGGACAGCATGTATATACCAA
1 AATTGGACAGCAT-TATACA-CAA
*
15228144 AATTGGACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
* *
15228168 AATTGG--GGCATATATGA-GC-A
1 AATTGGACAGCAT-TAT-ACACAA
* *
15228188 ATTTGGACAGCACTATACACAA
1 AATTGGACAGCATTATACACAA
*
15228210 AATTGGACAGCATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
*
15228233 AATTGGACAGCATTTATTCACAA
1 AATTGGACAGCA-TTATACACAA
* **
15228256 AATTGGGCAGCATATATGTAGC--
1 AATTGGACAGCAT-TATACA-CAA
*
15228278 AATTTGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
*
15228301 AATTGGACAGC-TGTATATACAA
1 AATTGGACAGCAT-TATACACAA
* * *
15228323 AATAGGACAACATTATTCACCACA
1 AATTGGACAGCATTATACA-CA-A
** *
15228347 AATTGGGGAGCATTATATGTAGC-A
1 AATTGGACAGCATTATA--CA-CAA
* * *
15228371 ATTTGGACAGTACTTATACGCAA
1 AATTGGACAGCA-TTATACACAA
*
15228394 AA-TGTGACAGCATGTATATACAA
1 AATTG-GACAGCAT-TATACACAA
*
15228417 AATTGGACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
* * *
15228441 AATTGGGCAGCATATATATACCA
1 AATTGGACAGCAT-TATACACAA
*
15228464 ATTTGGACAGCATTATACACAA
1 AATTGGACAGCATTATACACAA
* * *
15228486 AATTTGACAACATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15228509 AATTGGACAACATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
**
15228533 AATTTGG-CAGCATATATGTAGC-A
1 AA-TTGGACAGCAT-TATACA-CAA
*
15228556 ATTTGGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
* * *
15228579 AATTGGGCAGCATATATATAC-C
1 AATTGGACAGCAT-TATACACAA
*
15228601 AATTGGACAGTACTTATACAC-A
1 AATTGGACAGCA-TTATACACAA
* *
15228623 AATTTGACAGCATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
15228646 AA-TGGACAGCATT-TATCACCAA
1 AATTGGACAGCATTATA-CA-CAA
** *
15228668 AATTGGGGAGCA-TATATTAC-A
1 AATTGGACAGCATTATA-CACAA
* *
15228689 ATTTGGACAGCACTTATATACAA
1 AATTGGACAGCA-TTATACACAA
* * *
15228712 AATTGAACAACATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15228735 AATTGGACAGCATTTATTCACCCA
1 AATTGGACAGCA-TTATACA-CAA
* * **
15228759 AA-TGGGCAGCATAATGTAGC--
1 AATTGGACAGCATTATACA-CAA
*
15228779 AATTTGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
*
15228802 AATTGGACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
* **
15228826 AATTGGGCAGCATATATGTAGC-A
1 AATTGGACAGCAT-TATACA-CAA
* *
15228849 ATTTGGACAGCATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
*
15228872 AATTGGACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
**
15228896 AATTGG-CAGCATATATGTAGC-A
1 AATTGGACAGCAT-TATACA-CAA
*
15228918 ATTTGGACAGCATTATAACACAA
1 AATTGGACAGCATTAT-ACACAA
15228941 AA-TGGACAGCATGTATA-ACAACA
1 AATTGGACAGCAT-TATACAC-A-A
*
15228964 AATCTGGACAGCATTTATTCACCAA
1 AAT-TGGACAGCA-TTATACA-CAA
* **
15228989 AA-TGGGCAGCATATATGTAGC-A
1 AATTGGACAGCAT-TATACA-CAA
*
15229011 ATTTGGACAGCAGTTATACACAA
1 AATTGGACAGCA-TTATACACAA
* *
15229034 AATTTGACAGCATGTATATAC-A
1 AATTGGACAGCAT-TATACACAA
*
15229056 AATTGGACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
* *
15229080 AATTGGGCAGCA-TATATAC-A
1 AATTGGACAGCATTATACACAA
* *
15229100 ATTTGGACAGTACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
* * *
15229123 AATTTGACAACATGTATATAC-A
1 AATTGGACAGCAT-TATACACAA
*
15229145 AATT-GACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
* **
15229168 ATTTGG-CAGCACATATATGTAGC-A
1 AATTGGACAG--CAT-TATACA-CAA
*
15229192 ATTTGGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
*
15229215 AATTGGACAGCATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15229238 AA-TGGACAGCATTTATTCAC-C
1 AATTGGACAGCA-TTATACACAA
* *
15229259 AATTGGGCATCATATAGTA-AGC-A
1 AATTGGACAGCAT-TA-TACA-CAA
*
15229282 ATTTGGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
**
15229305 AATTGGACAGCATGTATTTACAA
1 AATTGGACAGCAT-TATACACAA
15229328 AATTGGACAGCATT-TATCACCAA
1 AATTGGACAGCATTATA-CA-CAA
*
15229351 AATTGGGCAGCA-TATAC-C--
1 AATTGGACAGCATTATACACAA
* * *
15229369 AATTGGATA-TACT-TACACAA
1 AATTGGACAGCATTATACACAA
* *
15229389 AATT-GACAACATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
* *
15229411 AATTGAAAAGCATT-TATCACCAA
1 AATTGGACAGCATTATA-CA-CAA
**
15229434 AATTGG-CAGCATATATGTAGC-A
1 AATTGGACAGCAT-TATACA-CAA
* *
15229456 ATTTGGACAGCACTTATAACGCAA
1 AATTGGACAGCA-TTAT-ACACAA
*
15229480 AATTGGACAGCATGTATATACAA
1 AATTGGACAGCAT-TATACACAA
15229503 AATTGGACAGCATTTATTACACCAA
1 AATTGGACAGCA-TTA-TACA-CAA
** * *
15229528 AATTGGGTAGCATATGTA-GC--
1 AATTGGACAGCAT-TATACACAA
15229548 AATTGGACAGCACTTATACACAA
1 AATTGGACAGCA-TTATACACAA
**
15229571 AATTGGACAGGCATGTATTTACAA
1 AATTGGACA-GCAT-TATACACAA
*
15229595 AATTGGACAGCATTTATTCACCAA
1 AATTGGACAGCA-TTATACA-CAA
*
15229619 AATTGGGCAGCATATATA
1 AATTGGACAGCAT-TATA
15229637 TAAATTTTAG
Statistics
Matches: 1366, Mismatches: 268, Indels: 317
0.70 0.14 0.16
Matches are distributed among these distances:
17 4 0.00
18 9 0.01
19 3 0.00
20 40 0.03
21 53 0.04
22 314 0.23
23 631 0.46
24 251 0.18
25 55 0.04
26 5 0.00
27 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (22 bp):
AATTGGACAGCATTATACACAA
Found at i:15227901 original size:46 final size:45
Alignment explanation
Indices: 15227798--15229638 Score: 1273
Period size: 46 Copynumber: 40.5 Consensus size: 45
15227788 TATACATCAG
* * * *
15227798 AAATT-GAGCAGCTTGTATATACCAATTGGACAGCACTTATACACA
1 AAATTGGA-CAGCATGTATATACAAATTGGACAGCACTTATTCACC
*
15227843 AAATTTGACAGCATGTATATACAAAATATGGACAGCA-TTATTCACC
1 AAATTGGACAGCATGTATATAC-AAAT-TGGACAGCACTTATTCACC
* * * * * * *
15227889 AAATTGGGCAGCATATATATACCATTTGGACAGTACTTATACACA
1 AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * * *
15227934 AAATTTGACAGCATGCATATACAAAATTGGACAACATTTATTCACC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * *
15227980 AAAATTGGACAGCATATATATACCAATTTGGACAGCACTTATACACA
1 -AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* * * * *
15228027 AAATTTGACAACATGTAAATACAAAATTGGACAACATTTATTCACC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * * * * *
15228073 AAAATTTGG-CAGCTTATATGTAGCAATTTGGACAACACTT-TACACA
1 -AAA-TTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
*
15228119 AAATTGGACAGCATGTATATACCAAAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATGTATATA-C-AAATTGGACAGCACTTATTCACC
* * * *
15228166 AAAATTGG--GGCA--TATATGAGCAATTTGGACAGCAC-TATACACA
1 -AAATTGGACAGCATGTATAT-A-CAAATTGGACAGCACTTATTCACC
* *
15228209 AAATTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACA
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * * * *
15228255 AAATTGGGCAGCATATATGTAGC-AATTTGACAGCACTTATACACA
1 AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* *
15228300 AAATTGGACAGC-TGTATATACAAAATAGGACAACA-TTATTCACCAC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCA-C-C
** * *
15228346 AAATTGGGGAGCAT-TATATGTAGCAATTTGGACAGTACTTA-T-ACGC
1 AAATTGGACAGCATGTATA--TA-CAAATTGGACAGCACTTATTCAC-C
* *
15228392 AAAATGTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACC
1 AAATTG-GACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * * *
15228439 AAAATTGGGCAGCATATATATACCAATTTGGACAGCA-TTATACACA
1 -AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* * * *
15228485 AAATTTGACAACATGTATATACAAAATTGGACAACATTTATTCACC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * * *
15228531 AAAATTTGG-CAGCATATATGTAGCAATTTGGACAGCACTTATACACA
1 -AAA-TTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* * * * *
15228578 AAATTGGGCAGCATATATATACCAATTGGACAGTACTTATACA-C
1 AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * *
15228622 AAATTTGACAGCATGTATATACAAAATGGACAGCATTTA-TCACC
1 AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
** * * *
15228666 AAAATTGGGGAGCATATAT-TACAATTTGGACAGCACTTATAT-ACA
1 -AAATTGGACAGCATGTATATACAAATTGGACAGCACTTAT-TCACC
* * *
15228711 AAATTGAACAACATGTATATACAAAATTGGACAGCATTTATTCACCC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCA-CC
* * * * * *
15228758 AAA-TGGGCAGCAT-AATGTAGC-AATTTGACAGCACTTATACACA
1 AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* * *
15228801 AAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCA-TATATGT-AGC
1 AAATTGGACAGCATGTATAT-A-C-AAATTGGACAGCACT-TAT-TCACC
* *
15228848 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * *
15228894 AAAATTGG-CAGCATATATGTAGCAATTTGGACAGCA-TTA-TAACAC
1 -AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCAC-C
* * *
15228939 AAAATGGACAGCATGTATAACAACAAATCTGGACAGCATTTATTCACC
1 AAATTGGACAGCATGTAT-A-TACAAAT-TGGACAGCACTTATTCACC
* * * * * * * *
15228987 AAAATGGGCAGCATATATGTAGCAATTTGGACAGCAGTTATACACA
1 AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* *
15229033 AAATTTGACAGCATGTATATACAAATTGGACAGCATTTATTCACC
1 AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * * * *
15229078 AAAATTGGGCAGCA--TATATACAATTTGGACAGTACTTATACACA
1 -AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * *
15229122 AAATTTGACAACATGTATATACAAATT-GACAGCATTTATTCACC
1 AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * * * *
15229166 AAATTTGG-CAGCACATATATGTAGCAATTTGGACAGCACTTATACACA
1 AAA-TTGGACAG--CATGTATATA-CAAATTGGACAGCACTTATTCACC
* *
15229214 AAATTGGACAGCATGTATATACAAAATGGACAGCATTTATTCACC
1 AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * * * * *
15229259 -AATTGGGCATCATATAGTA-AGCAATTTGGACAGCACTTATACACA
1 AAATTGGACAGCATGTA-TATA-CAAATTGGACAGCACTTATTCACC
* *
15229304 AAATTGGACAGCATGTATTTACAAAATTGGACAGCATTTA-TCACC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * * *
15229349 AAAATTGG---GCA-GCATATACCAATTGGATA-TACTTA--CACA
1 -AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
* * * *
15229388 AAATT-GACAACATGTATATACAAAATTGAAAAGCATTTA-TCACC
1 AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATTCACC
* * * *
15229432 AAAATTGG-CAGCATATATGTAGCAATTTGGACAGCACTTA-TAACGC
1 -AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCAC-C
*
15229478 AAAATTGGACAGCATGTATATACAAAATTGGACAGCATTTATTACACC
1 -AAATTGGACAGCATGTATATAC-AAATTGGACAGCACTTATT-CACC
** * * *
15229526 AAAATTGGGTAGCA--TATGTAGC-AATTGGACAGCACTTATACACA
1 -AAATTGGACAGCATGTATATA-CAAATTGGACAGCACTTATTCACC
* *
15229570 AAATTGGACAGGCATGTATTTACAAAATTGGACAGCATTTATTCACC
1 AAATTGGACA-GCATGTATATAC-AAATTGGACAGCACTTATTCACC
* *
15229617 AAAATTGGGCAGCATATATATA
1 -AAATTGGACAGCATGTATATA
15229639 AATTTTAGAC
Statistics
Matches: 1399, Mismatches: 286, Indels: 220
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 5 0.00
39 3 0.00
40 6 0.00
41 15 0.01
42 20 0.01
43 38 0.03
44 211 0.15
45 336 0.24
46 389 0.28
47 262 0.19
48 104 0.07
49 9 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (45 bp):
AAATTGGACAGCATGTATATACAAATTGGACAGCACTTATTCACC
Found at i:15228510 original size:92 final size:93
Alignment explanation
Indices: 15227776--15229638 Score: 2164
Period size: 93 Copynumber: 20.5 Consensus size: 93
15227766 ACTACCCTGT
* * * * * *
15227776 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCTTGTATATACCAA-TTGGACAGCACTTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATA
*
15227839 CACAAAATTTGACAGCATGTATATACAAAA
64 CACAAAATTGGACAGCATGTATATACAAAA
* *
15227869 TATGGACAGCA-TTATTCACC-AAATTGGGCAGCATATATATA-CCATTTGGACAGTACTTATAC
1 T-TGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATAC
* *
15227931 ACAAAATTTGACAGCATGCATATACAAAA
65 ACAAAATTGGACAGCATGTATATACAAAA
* * *
15227960 TTGGACAACATTTATTCACCAAAATTGGACAGCATATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
* * *
15228025 CAAAATTTGACAACATGTAAATACAAAA
66 CAAAATTGGACAGCATGTATATACAAAA
* * * * *
15228053 TTGGACAACATTTATTCACCAAAATTTGGCAGCTTATATGTAGCAATTTGGACAACACTT-TACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
15228117 CAAAATTGGACAGCATGTATATACCAAAA
66 CAAAATTGGACAGCATGTATATA-CAAAA
*
15228146 TTGGACAGCATTTATTCACCAAAATTGGG--GCATATAT-GAGCAATTTGGACAGCAC-TATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
15228207 CAAAATTGGACAGCATGTATATACAAAA
66 CAAAATTGGACAGCATGTATATACAAAA
*
15228235 TTGGACAGCATTTATTCA-CAAAATTGGGCAGCATATATGTAGCAATTT-GACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
15228298 CAAAATTGGACAGC-TGTATATACAAAA
66 CAAAATTGGACAGCATGTATATACAAAA
* * * * *
15228325 TAGGACAACA-TTATTCACCACAAATTGGGGAGCATTATATGTAGCAATTTGGACAGTACTTATA
1 TTGGACAGCATTTATTCACCA-AAATTGGGCAGCA-TATATATAGCAATTTGGACAGCACTTATA
*
15228389 CGCAAAA-TGTGACAGCATGTATATACAAAA
64 CACAAAATTG-GACAGCATGTATATACAAAA
*
15228419 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCA-TTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
* *
15228483 CAAAATTTGACAACATGTATATACAAAA
66 CAAAATTGGACAGCATGTATATACAAAA
* * *
15228511 TTGGACAACATTTATTCACCAAAATTTGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
* * *
15228576 CAAAATTGGGCAGCATATATATAC-CAA
66 CAAAATTGGACAGCATGTATATACAAAA
* * * * * * ** *
15228603 TTGGACAGTACTTATACA-C-AAATTTGACAGCATGTATATA-CAAAATGGACAGCATTTAT-CA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
** * *
15228664 CCAAAATTGGGGAGCATATAT-TAC-AAT
66 -CAAAATTGGACAGCATGTATATACAAAA
* ** * * * * *
15228691 TTGGACAGCACTTATAT-A-CAAAATTGAACAACATGTATATA-CAAAATTGGACAGCATTTATT
1 TTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATATATATAGC-AATTTGGACAGCACTTATA
* * * *
15228753 CACCCAAA-TGGGCAGCAT-AATGTAGC--AA
64 CA-CAAAATTGGACAGCATGTATATA-CAAAA
* * * * * * * *
15228781 TTTGACAGCACTTATACA-CAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCA-TATAT
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATAT-AGC-AATTTGGACAGCACT-TAT
** *
15228843 GTAGC-AATTTGGACAGCATGTATATACAAAA
63 ACA-CAAAATTGGACAGCATGTATATACAAAA
*
15228874 TTGGACAGCATTTATTCACCAAAATT-GGCAGCATATATGTAGCAATTTGGACAGCA-TTATAAC
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTAT-AC
15228937 ACAAAA-TGGACAGCATGTATA-ACAACAAA
65 ACAAAATTGGACAGCATGTATATAC-A-AAA
* *
15228966 TCTGGACAGCATTTATTCACCAAAA-TGGGCAGCATATATGTAGCAATTTGGACAGCAGTTATAC
1 T-TGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATAC
*
15229030 ACAAAATTTGACAGCATGTATATAC-AAA
65 ACAAAATTGGACAGCATGTATATACAAAA
*
15229058 TTGGACAGCATTTATTCACCAAAATTGGGCAGC--ATATATA-CAATTTGGACAGTACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
* *
15229120 CAAAATTTGACAACATGTATATAC-AAA
66 CAAAATTGGACAGCATGTATATACAAAA
* *
15229147 TT-GACAGCATTTATTCACC-AAATTTGGCAGCACATATATGTAGCAATTTGGACAGCACTTATA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAG--CATATATATAGCAATTTGGACAGCACTTATA
15229210 CACAAAATTGGACAGCATGTATATACAAAA
64 CACAAAATTGGACAGCATGTATATACAAAA
*
15229240 -TGGACAGCATTTATTCACC--AATTGGGCATCATATAGTA-AGCAATTTGGACAGCACTTATAC
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA-TATAGCAATTTGGACAGCACTTATAC
*
15229301 ACAAAATTGGACAGCATGTATTTACAAAA
65 ACAAAATTGGACAGCATGTATATACAAAA
* * *
15229330 TTGGACAGCATTTA-TCACCAAAATTGGGCAGC----ATATACCAA-TTGGATA-TAC-T-TACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
*
15229386 CAAAATT-GACAACATGTATATACAAAA
66 CAAAATTGGACAGCATGTATATACAAAA
* * *
15229413 TTGAAAAGCATTTA-TCACCAAAATT-GGCAGCATATATGTAGCAATTTGGACAGCACTTATAAC
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTAT-AC
*
15229476 GCAAAATTGGACAGCATGTATATACAAAA
65 ACAAAATTGGACAGCATGTATATACAAAA
* *
15229505 TTGGACAGCATTTATTACACCAAAATTGGGTAGC--ATATGTAGCAA-TTGGACAGCACTTATAC
1 TTGGACAGCATTTATT-CACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATAC
*
15229567 ACAAAATTGGACAGGCATGTATTTACAAAA
65 ACAAAATTGGACA-GCATGTATATACAAAA
15229597 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATA
15229639 AATTTTAGAC
Statistics
Matches: 1559, Mismatches: 135, Indels: 152
0.84 0.07 0.08
Matches are distributed among these distances:
82 6 0.00
83 41 0.03
84 11 0.01
85 1 0.00
86 9 0.01
87 24 0.02
88 56 0.04
89 138 0.09
90 246 0.16
91 259 0.17
92 335 0.21
93 339 0.22
94 77 0.05
95 17 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (93 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATAGCAATTTGGACAGCACTTATACA
CAAAATTGGACAGCATGTATATACAAAA
Found at i:15230355 original size:28 final size:28
Alignment explanation
Indices: 15230323--15230476 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
15230313 TTTAATAAGT
* * *
15230323 TCGCACACTTAGTG-TTCAATAATCAAAC
1 TCGCACACTTAGTGCTT-TACAATTAAAC
* *
15230351 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
15230379 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
15230407 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
15230435 TTGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
15230463 TCGCACACTTAGTG
1 TCGCACACTTAGTG
15230477 TCGAAAGTCA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
28 113 0.98
29 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:15235583 original size:6 final size:6
Alignment explanation
Indices: 15235572--15235618 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
15235562 TAGATTTCCA
15235572 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
15235619 ATTCATTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:15239909 original size:15 final size:15
Alignment explanation
Indices: 15239884--15239921 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
15239874 TCTCACTTTT
15239884 TCAAT-ATCTCTCA-
1 TCAATCATCTCTCAC
15239897 TCACATCATCTCTCAC
1 TCA-ATCATCTCTCAC
15239913 TCAATCATC
1 TCAATCATC
15239922 ATTCTCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 2 0.09
15 14 0.64
16 3 0.14
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (15 bp):
TCAATCATCTCTCAC
Found at i:15263073 original size:199 final size:197
Alignment explanation
Indices: 15262713--15263090 Score: 423
Period size: 199 Copynumber: 1.9 Consensus size: 197
15262703 AGACATTAAG
*
15262713 AAAAGTCGAGGTACTAAATTATGTAAAAAATTAAAGTATAGAGATTAAATTTCAAAGATAAGCAT
1 AAAAGTCGAGGAACTAAATTATGTAAAAAATTAAAGTATAGAGATTAAATTTCAAAGATAAGCAT
* ** * * *
15262778 AGTATAGGAACCAAAATTGGAATTTGACCATTTTTATGTAATCTTAAAAAAGAAGTAAAAAGTTG
66 AATATAGGAACCAAAATTAAAATTTGACCATTTTGATATAATCTAAAAAAAGAAGTAAAAAGTTG
*** * *
15262843 TGTATTTAGACACTTGTATGTCAATATTTTAAAT-AGAATGAAGTATTTAGATTGATTATGATAT
131 TGTATTTAGACACTTGTACACCAACATTTT-AATCAGAATGAAATATTTAGATTGATTATGATAT
15262907 TAT
195 TAT
* * * **
15262910 AAAAGTCGAGGAA-TCAAATTATGTCAAAAATTAAAGTATAGTGATTAAAGTTT-ATATTTAAGC
1 AAAAGTCGAGGAACT-AAATTATGTAAAAAATTAAAGTATAGAGATTAAA-TTTCAAAGATAA--
**
15262973 GCATAATATAAGG-GTCAAAATTAAAATTTGACCATTGTTGA-ATAATCTAAAAAAA-AGAGT-A
62 GCATAATAT-AGGAACCAAAATTAAAATTTGACCATT-TTGATATAATCTAAAAAAAGA-AGTAA
15263034 AAAGATTGTGTATTT-GA-ACATGTGTACACCAACATTTTAATCAGAATGAAATATTTA
124 AAAG-TTGTGTATTTAGACAC-T-TGTACACCAACATTTTAATCAGAATGAAATATTTA
15263091 ATGTAATGCC
Statistics
Matches: 151, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
196 1 0.01
197 51 0.34
198 15 0.10
199 78 0.52
200 6 0.04
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (197 bp):
AAAAGTCGAGGAACTAAATTATGTAAAAAATTAAAGTATAGAGATTAAATTTCAAAGATAAGCAT
AATATAGGAACCAAAATTAAAATTTGACCATTTTGATATAATCTAAAAAAAGAAGTAAAAAGTTG
TGTATTTAGACACTTGTACACCAACATTTTAATCAGAATGAAATATTTAGATTGATTATGATATT
AT
Found at i:15267508 original size:12 final size:12
Alignment explanation
Indices: 15267491--15267515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15267481 ATTATAAAAT
15267491 ATTTAACATATA
1 ATTTAACATATA
15267503 ATTTAACATATA
1 ATTTAACATATA
15267515 A
1 A
15267516 AATTAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAACATATA
Found at i:15268154 original size:22 final size:22
Alignment explanation
Indices: 15268096--15268169 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
15268086 ATATTTTCAC
*
15268096 TGTTCATGCCAGAGAATATTTAC
1 TGTTCATGCCAGAGAAT-TTTAT
* ** *
15268119 TGTTCACGTTAGAGAATTTTGT
1 TGTTCATGCCAGAGAATTTTAT
15268141 TGTTCATGCCAGAGAATTTTAT
1 TGTTCATGCCAGAGAATTTTAT
15268163 TGTTCAT
1 TGTTCAT
15268170 TCGTCTTTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 28 0.67
23 14 0.33
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (22 bp):
TGTTCATGCCAGAGAATTTTAT
Found at i:15271676 original size:24 final size:23
Alignment explanation
Indices: 15271609--15271686 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 23
15271599 ATGGAGGAAG
*
15271609 TTGAGTAG-TTTATCTGCACC-G
1 TTGAGTAGTTTTATCTGCACCAT
*** *
15271630 TTGAGT-GTTTTATCCATAACAT
1 TTGAGTAGTTTTATCTGCACCAT
15271652 TTGAGTAGCTTTTATCTGCACCAT
1 TTGAGTAG-TTTTATCTGCACCAT
*
15271676 TTGAGTGGTTT
1 TTGAGTAGTTT
15271687 AACCACACCA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.02
21 14 0.33
22 6 0.14
23 4 0.09
24 18 0.42
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (23 bp):
TTGAGTAGTTTTATCTGCACCAT
Found at i:15272677 original size:31 final size:31
Alignment explanation
Indices: 15272584--15272679 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
15272574 GGCAAATTAC
*
15272584 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15272615 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
15272647 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15272678 AA
1 AA
15272680 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:15278230 original size:10 final size:10
Alignment explanation
Indices: 15278215--15278280 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
15278205 GGCAACTTTT
15278215 TTTTTTGCGC
1 TTTTTTGCGC
15278225 TTTTTT--GC
1 TTTTTTGCGC
**
15278233 -TTTTTGCTTT
1 TTTTTTGC-GC
15278243 TTTTTTGCGC
1 TTTTTTGCGC
* *
15278253 -TTTTTACTC
1 TTTTTTGCGC
15278262 TTTTTTTGCGC
1 -TTTTTTGCGC
15278273 TTTTTTGC
1 TTTTTTGC
15278281 TTTTTTTTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 7 0.17
10 14 0.33
11 14 0.33
ACGTcount: A:0.02, C:0.17, G:0.14, T:0.68
Consensus pattern (10 bp):
TTTTTTGCGC
Found at i:15278248 original size:20 final size:20
Alignment explanation
Indices: 15278231--15278288 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
15278221 GCGCTTTTTT
15278231 GCTTTTTGCTTTTTTTTTGC
1 GCTTTTTGCTTTTTTTTTGC
* *
15278251 GCTTTTTACTCTTTTTTTGC
1 GCTTTTTGCTTTTTTTTTGC
15278271 GCTTTTTTGCTTTTTTTT
1 GC-TTTTTGCTTTTTTTT
15278289 GTTTTTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.02, C:0.16, G:0.12, T:0.71
Consensus pattern (20 bp):
GCTTTTTGCTTTTTTTTTGC
Found at i:15278265 original size:28 final size:28
Alignment explanation
Indices: 15278212--15278265 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
15278202 GTAGGCAACT
*
15278212 TTTTTTTTTGCGCTTTTTTGCTTTTTGC
1 TTTTTTTTTGCGCTTTTTTACTTTTTGC
15278240 TTTTTTTTTGCGC-TTTTTACTCTTTT
1 TTTTTTTTTGCGCTTTTTTACT-TTTT
15278266 TTTGCGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (28 bp):
TTTTTTTTTGCGCTTTTTTACTTTTTGC
Found at i:15278284 original size:48 final size:48
Alignment explanation
Indices: 15278214--15278316 Score: 147
Period size: 48 Copynumber: 2.1 Consensus size: 48
15278204 AGGCAACTTT
15278214 TTTTTTTGCGCTTTTTTGCTTTTTGCTT-TTTTTTTGC-GCTTTTTACTC
1 TTTTTTTGCGCTTTTTTGCTTTTT-CTTGTTTTTTTGCTG-TTTTTACTC
* * *
15278262 TTTTTTTGCGCTTTTTTGCTTTTTTTTGTTTTTTTGCTGTTTTTGCTG
1 TTTTTTTGCGCTTTTTTGCTTTTTCTTGTTTTTTTGCTGTTTTTACTC
15278310 TTTTTTT
1 TTTTTTT
15278317 TGCTTTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 2 0.04
48 47 0.94
49 1 0.02
ACGTcount: A:0.01, C:0.13, G:0.14, T:0.73
Consensus pattern (48 bp):
TTTTTTTGCGCTTTTTTGCTTTTTCTTGTTTTTTTGCTGTTTTTACTC
Found at i:15278289 original size:20 final size:20
Alignment explanation
Indices: 15278233--15278323 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 20
15278223 GCTTTTTTGC
15278233 TTTTTGCTTTTTTTTTGCGC-
1 TTTTTGC-TTTTTTTTGCGCT
*
15278253 TTTTTACTCTTTTTTTGCGCT
1 TTTTTGCT-TTTTTTTGCGCT
*
15278274 TTTTTGCTTTTTTTT--GTT
1 TTTTTGCTTTTTTTTGCGCT
* *
15278292 TTTTTGC-TGTTTTTGCTGTTT
1 TTTTTGCTTTTTTTTGC-G-CT
15278313 TTTTTGCTTTT
1 TTTTTGCTTTT
15278324 ATTTAAAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
17 6 0.10
18 9 0.15
19 1 0.02
20 25 0.42
21 16 0.27
22 2 0.03
ACGTcount: A:0.01, C:0.12, G:0.13, T:0.74
Consensus pattern (20 bp):
TTTTTGCTTTTTTTTGCGCT
Found at i:15278962 original size:31 final size:31
Alignment explanation
Indices: 15278869--15278964 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
15278859 GGCAAATTAC
*
15278869 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15278900 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
15278932 AAGAGTAATTGAATCCGAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
15278963 AA
1 AA
15278965 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:15285341 original size:18 final size:20
Alignment explanation
Indices: 15285318--15285356 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
15285308 GTCCCATTAG
15285318 AGTAACA-ATAAT-TAGTAT
1 AGTAACAGATAATATAGTAT
*
15285336 AGTAACAGATTATATAGTAT
1 AGTAACAGATAATATAGTAT
15285356 A
1 A
15285357 CAGGTCCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (20 bp):
AGTAACAGATAATATAGTAT
Found at i:15294752 original size:24 final size:22
Alignment explanation
Indices: 15294715--15294782 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 22
15294705 ATCTGTACTA
15294715 TTGAGTGGTTTATCCACACTGT
1 TTGAGTGGTTTATCCACACTGT
* ** *
15294737 TTGAGTAGCTTTTATCTTCATTGT
1 TTGAGT-G-GTTTATCCACACTGT
*
15294761 TTGAGTGGTTTAACCACACTGT
1 TTGAGTGGTTTATCCACACTGT
15294783 ACTGGCAGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
22 16 0.46
23 2 0.06
24 17 0.49
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (22 bp):
TTGAGTGGTTTATCCACACTGT
Found at i:15298585 original size:11 final size:11
Alignment explanation
Indices: 15298569--15298606 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15298559 TTGAACACTC
15298569 AGATTAGACCG
1 AGATTAGACCG
15298580 AGATTAGACC-
1 AGATTAGACCG
15298590 AGGATTAGACCG
1 A-GATTAGACCG
*
15298602 GGATT
1 AGATT
15298607 TATTGAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.04
11 23 0.96
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (11 bp):
AGATTAGACCG
Found at i:15298689 original size:17 final size:17
Alignment explanation
Indices: 15298667--15298700 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15298657 AAAAGGGTTG
15298667 CTAAGTGCAGATTCCCC
1 CTAAGTGCAGATTCCCC
**
15298684 CTAAGTGTTGATTCCCC
1 CTAAGTGCAGATTCCCC
15298701 AAATTATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (17 bp):
CTAAGTGCAGATTCCCC
Found at i:15301688 original size:15 final size:15
Alignment explanation
Indices: 15301668--15301719 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
15301658 ACTACAAAAA
15301668 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
15301683 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
15301702 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
15301717 ATT
1 ATT
15301720 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:15301830 original size:22 final size:22
Alignment explanation
Indices: 15301790--15301845 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
15301780 AATAAAATTG
*
15301790 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
15301810 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
15301832 TATTAATAATTTAT
1 AAATAATAAATTAT
15301846 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:15301898 original size:26 final size:26
Alignment explanation
Indices: 15301869--15301925 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
15301859 ATAAATAATT
15301869 AAATAT-ATATGTTT-AATAATATTAAA
1 AAATATAATAT-TTTAAAT-ATATTAAA
*
15301895 AAATATAATATTTTAAATATTTTAAA
1 AAATATAATATTTTAAATATATTAAA
15301921 AAATA
1 AAATA
15301926 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AAATATAATATTTTAAATATATTAAA
Found at i:15303061 original size:29 final size:28
Alignment explanation
Indices: 15303002--15303063 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
15302992 CAATTTCGCG
*
15303002 AAAAATGACCCATTCCGATAAATAATCA
1 AAAAATGACCCATTCCGATAAATAATAA
* * **
15303030 AAAAATCGGCCCATTTCGATAAATTTTAA
1 AAAAAT-GACCCATTCCGATAAATAATAA
15303059 AAAAA
1 AAAAA
15303064 CAGCTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (28 bp):
AAAAATGACCCATTCCGATAAATAATAA
Found at i:15306415 original size:24 final size:25
Alignment explanation
Indices: 15306386--15306445 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 25
15306376 ACTTAATACT
*
15306386 TTTAAAAATCCAA-ACTCATTAATA
1 TTTAAAAACCCAATACTCATTAATA
15306410 TTT-AAAACCCAATACTCATTAATA
1 TTTAAAAACCCAATACTCATTAATA
15306434 TTT-AAAACCCAA
1 TTTAAAAACCCAA
15306446 ATTGATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 8 0.24
24 26 0.76
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (25 bp):
TTTAAAAACCCAATACTCATTAATA
Found at i:15317473 original size:18 final size:16
Alignment explanation
Indices: 15317434--15317476 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
15317424 ATATTATTTT
*
15317434 TTAAAAATATAATACA
1 TTAAAAATATAAAACA
*
15317450 TAAAAAATACTAAAAACA
1 TTAAAAATA-T-AAAACA
15317468 TTAAAAATA
1 TTAAAAATA
15317477 AATGTTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 1 0.05
18 13 0.59
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (16 bp):
TTAAAAATATAAAACA
Found at i:15318707 original size:19 final size:19
Alignment explanation
Indices: 15318679--15318716 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15318669 TTGGCCATCA
*
15318679 TTGGGCCGTCTCTGACCAC
1 TTGGGCCGTCGCTGACCAC
*
15318698 TTGGGTCGTCGCTGACCAC
1 TTGGGCCGTCGCTGACCAC
15318717 CTCCGTCGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.34, G:0.29, T:0.26
Consensus pattern (19 bp):
TTGGGCCGTCGCTGACCAC
Found at i:15320345 original size:25 final size:24
Alignment explanation
Indices: 15320306--15320388 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 24
15320296 TCATGTACAA
15320306 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTAT-AATCG
* * *
15320331 GTATGCTTTCTCGAGCTATAGATTG
1 GTATGCTCTCACGAGCTATA-ATCG
*
15320356 GTATGCTCTCACGAGCTATAAATCA
1 GTATGCTCTCACGAGCTAT-AATCG
15320381 GTATGCTC
1 GTATGCTC
15320389 ACACAAGTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 2 0.04
25 45 0.94
26 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTATAATCG
Found at i:15333722 original size:23 final size:23
Alignment explanation
Indices: 15333696--15333837 Score: 194
Period size: 23 Copynumber: 6.2 Consensus size: 23
15333686 GTTATTGATT
*
15333696 AGTGGTAGCTACGTCTACATATC
1 AGTGGTAGCTACGGCTACATATC
* * *
15333719 AGTGGTAGCTTCAGCTACATTTC
1 AGTGGTAGCTACGGCTACATATC
*
15333742 AGTGGTAGCTATGGCTACATATC
1 AGTGGTAGCTACGGCTACATATC
* *
15333765 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTACGGCTACATATC
* *
15333788 AGTGGTAGCTATGGCTACGTATC
1 AGTGGTAGCTACGGCTACATATC
*
15333811 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTACGGCTACATATC
15333834 AGTG
1 AGTG
15333838 TGGCAGTTAT
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 101 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTACGGCTACATATC
Found at i:15333763 original size:46 final size:46
Alignment explanation
Indices: 15333696--15333837 Score: 239
Period size: 46 Copynumber: 3.1 Consensus size: 46
15333686 GTTATTGATT
* * *
15333696 AGTGGTAGCTACGTCTACATATCAGTGGTAGCTTCAGCTACATTTC
1 AGTGGTAGCTATGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
15333742 AGTGGTAGCTATGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTATGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
* *
15333788 AGTGGTAGCTATGGCTACGTATCAGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTATGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
15333834 AGTG
1 AGTG
15333838 TGGCAGTTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (46 bp):
AGTGGTAGCTATGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
Found at i:15338494 original size:19 final size:20
Alignment explanation
Indices: 15338454--15338490 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
15338444 AATATATTTT
15338454 TTTGTATATGGTGAATTATA
1 TTTGTATATGGTGAATTATA
15338474 TTTG-ATAT-GTGAATTAT
1 TTTGTATATGGTGAATTAT
15338491 TATTATTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTGTATATGGTGAATTATA
Found at i:15338756 original size:23 final size:23
Alignment explanation
Indices: 15338730--15338874 Score: 173
Period size: 23 Copynumber: 6.3 Consensus size: 23
15338720 AGTGTTATTG
15338730 ATCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
** *
15338753 ATCAGTGGTAGCTTTGACTAAAT
1 ATCAGTGGTAGCTACGACTACAT
*
15338776 TTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
* ** *
15338799 ATTAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTACGACTACAT
* * *
15338822 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGACTACAT
* *
15338845 ATCAATGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
15338868 ATCAGTG
1 ATCAGTG
15338875 TGGCACTTAC
Statistics
Matches: 99, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 99 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGACTACAT
Found at i:15338798 original size:46 final size:46
Alignment explanation
Indices: 15338731--15338874 Score: 216
Period size: 46 Copynumber: 3.1 Consensus size: 46
15338721 GTGTTATTGA
*
15338731 TCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGACTAAATT
1 TCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGACTACATT
* *
15338777 TCAGTGGTAGCTACGACTACATATTAGTGGTAGCTTTGGCTACATT
1 TCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGACTACATT
* * * * *
15338823 TCAGTGGTAGCTACGGCTACGTATCAATGGTAGCTTCGACTACATA
1 TCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGACTACATT
15338869 TCAGTG
1 TCAGTG
15338875 TGGCACTTAC
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (46 bp):
TCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTTGACTACATT
Found at i:15348246 original size:26 final size:26
Alignment explanation
Indices: 15348216--15348266 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
15348206 CAAAGGGGTT
15348216 TGCAATATCAGGTTGGTGACTCAGTA
1 TGCAATATCAGGTTGGTGACTCAGTA
15348242 TGCAATATCAGGTTGGTGACTCAGT
1 TGCAATATCAGGTTGGTGACTCAGT
15348267 CCTTTCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (26 bp):
TGCAATATCAGGTTGGTGACTCAGTA
Found at i:15348917 original size:17 final size:17
Alignment explanation
Indices: 15348866--15348917 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
15348856 ATGGATTCAT
*
15348866 AATCTTCGAGGATATGC
1 AATCTTCGAAGATATGC
* *
15348883 AATCTTAGATATGATATGT
1 AATCTTCGA-A-GATATGC
*
15348902 GATCTTCGAAGATATG
1 AATCTTCGAAGATATG
15348918 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 14 0.50
18 1 0.04
19 13 0.46
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (17 bp):
AATCTTCGAAGATATGC
Found at i:15355975 original size:45 final size:43
Alignment explanation
Indices: 15355907--15356036 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 43
15355897 ATTGTGTGCT
*
15355907 TAAAATGAGTAAGATTATAGCTGAAAGATGCTATGGCATCATGA
1 TAAAATGAGTAAGA-CATAGCTGAAAGATGCTATGGCATCATGA
* *** *
15355951 TATAAATGAGTAAGACCATGGCTGAAAGACATTATGGCATCATGG
1 TA-AAATGAGTAAGA-CATAGCTGAAAGATGCTATGGCATCATGA
* *
15355996 TAAACATGACTAAGACAGTAGTTGAAAGATGCTATGGCATC
1 TAAA-ATGAGTAAGACA-TAGCTGAAAGATGCTATGGCATC
15356037 CTAGTAGTCT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
44 6 0.09
45 64 0.91
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (43 bp):
TAAAATGAGTAAGACATAGCTGAAAGATGCTATGGCATCATGA
Found at i:15358415 original size:23 final size:24
Alignment explanation
Indices: 15358389--15358433 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15358379 TTATCATTAC
15358389 TTCTCACC-GCCTTATTTCTCCTT
1 TTCTCACCTGCCTTATTTCTCCTT
*
15358412 TTCTCACCTTCCTTATTTCTCC
1 TTCTCACCTGCCTTATTTCTCC
15358434 AATAACGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.09, C:0.40, G:0.02, T:0.49
Consensus pattern (24 bp):
TTCTCACCTGCCTTATTTCTCCTT
Found at i:15374264 original size:16 final size:16
Alignment explanation
Indices: 15374243--15374274 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15374233 ATTTTGTTGC
*
15374243 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
15374259 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
15374275 CTTTCAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:15374564 original size:51 final size:50
Alignment explanation
Indices: 15374506--15374641 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
15374496 TTCACAGAGT
*
15374506 AGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGA
1 AGCCTGCACATAGTACTACACATGTGACCATCACT-TCCGATACACGCAGA
** * * *
15374557 AGCCTGCACATAGTACTACACATGCAACCTATCA-TTCTGGTACACGCAGT
1 AGCCTGCACATAGTACTACACATGTGACC-ATCACTTCCGATACACGCAGA
*
15374607 AGCCTACACATAGTACTACACA-GTGACCATCACTT
1 AGCCTGCACATAGTACTACACATGTGACCATCACTT
15374642 TCACTTTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 4 0.05
49 6 0.08
50 32 0.43
51 28 0.38
52 4 0.05
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (50 bp):
AGCCTGCACATAGTACTACACATGTGACCATCACTTCCGATACACGCAGA
Found at i:15379233 original size:28 final size:29
Alignment explanation
Indices: 15379200--15379321 Score: 133
Period size: 29 Copynumber: 4.3 Consensus size: 29
15379190 AAAGAGTTAG
* *
15379200 CCACAAAGGTTTCC-TTTAACAAAAATAA
1 CCACAAAGGCTTCCATTTAACAGAAATAA
* * * * * *
15379228 CCACAAATGCATCCTTTTTACAGAGATAG
1 CCACAAAGGCTTCCATTTAACAGAAATAA
*
15379257 CCACAAAGG-TCTCC-TTTAACATAAATAA
1 CCACAAAGGCT-TCCATTTAACAGAAATAA
15379285 CCACAAAGGCTTCCATTTAACAGAAATAA
1 CCACAAAGGCTTCCATTTAACAGAAATAA
15379314 CCACAAAG
1 CCACAAAG
15379322 ACAACCACAA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
28 33 0.43
29 43 0.57
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.23
Consensus pattern (29 bp):
CCACAAAGGCTTCCATTTAACAGAAATAA
Found at i:15379273 original size:57 final size:57
Alignment explanation
Indices: 15379147--15379321 Score: 197
Period size: 57 Copynumber: 3.0 Consensus size: 57
15379137 CTCGCCATGT
* * * * * * *
15379147 AGGTGTCCATTTAACTAAGATAGCCATAAATGCATCCTTTCTAAAAGAGTTAGCCACAA
1 AGGTCTCC-TTTAACAAAAATAACCACAAATGCATCCTTT-TAACAGAGATAGCCACAA
* *
15379206 AGGTTTCCTTTAACAAAAATAACCACAAATGCATCCTTTTTACAGAGATAGCCACAA
1 AGGTCTCCTTTAACAAAAATAACCACAAATGCATCCTTTTAACAGAGATAGCCACAA
* * * * * *
15379263 AGGTCTCCTTTAACATAAATAACCACAAAGGCTTCCATTTAACAGAAATAACCACAA
1 AGGTCTCCTTTAACAAAAATAACCACAAATGCATCCTTTTAACAGAGATAGCCACAA
15379320 AG
1 AG
15379322 ACAACCACAA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
57 66 0.66
58 27 0.27
59 7 0.07
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (57 bp):
AGGTCTCCTTTAACAAAAATAACCACAAATGCATCCTTTTAACAGAGATAGCCACAA
Found at i:15381576 original size:20 final size:20
Alignment explanation
Indices: 15381553--15381592 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15381543 GAATTAACCT
*
15381553 AAATGCAATGAACTGGTTTA
1 AAATGCAATGAAATGGTTTA
*
15381573 AAATGTAATGAAATGGTTTA
1 AAATGCAATGAAATGGTTTA
15381593 GCAGCAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (20 bp):
AAATGCAATGAAATGGTTTA
Found at i:15382429 original size:34 final size:34
Alignment explanation
Indices: 15382390--15382469 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
15382380 TGGGAAGATG
15382390 GAGAGGAATGAAGGGCTTTAGGCATGGAAGAGAA
1 GAGAGGAATGAAGGGCTTTAGGCATGGAAGAGAA
* *
15382424 GAGAGGAGTGAAGGGCTTTAGGCATGGAAGAGAG
1 GAGAGGAATGAAGGGCTTTAGGCATGGAAGAGAA
15382458 GAGAGGAATGAA
1 GAGAGGAATGAA
15382470 TGAATGTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.44, T:0.14
Consensus pattern (34 bp):
GAGAGGAATGAAGGGCTTTAGGCATGGAAGAGAA
Found at i:15383629 original size:23 final size:23
Alignment explanation
Indices: 15383603--15383656 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
15383593 GGAAACACTT
15383603 AAAGGTTGCAATTTATAATGTTG
1 AAAGGTTGCAATTTATAATGTTG
15383626 AAAGGTTGCAATTTATAATGTTG
1 AAAGGTTGCAATTTATAATGTTG
15383649 AAAGGTTG
1 AAAGGTTG
15383657 TGATTATCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (23 bp):
AAAGGTTGCAATTTATAATGTTG
Found at i:15386454 original size:75 final size:75
Alignment explanation
Indices: 15386367--15386509 Score: 205
Period size: 75 Copynumber: 1.9 Consensus size: 75
15386357 AGGAACATCT
* * * *
15386367 TTGTGGCAAAACTCTAGACAGGAAAGTCTTTGTAGCAAGTATTGAATGTAAAGGAACACTTTTGT
1 TTGTGGCAAAACTCTAGACAGGAAAGGCATTGTAGCAAGTACTGAATGTAAAGGAACACCTTTGT
15386432 GGTAAAAATC
66 GGTAAAAATC
* ** * *
15386442 TTGTGGCAAAACTCTAGACAGGAAAGGCATTGTGGTGAGTACTGAATGTAAATGAACGCCTTTGT
1 TTGTGGCAAAACTCTAGACAGGAAAGGCATTGTAGCAAGTACTGAATGTAAAGGAACACCTTTGT
15386507 GGT
66 GGT
15386510 GAGTATTGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (75 bp):
TTGTGGCAAAACTCTAGACAGGAAAGGCATTGTAGCAAGTACTGAATGTAAAGGAACACCTTTGT
GGTAAAAATC
Found at i:15386512 original size:32 final size:32
Alignment explanation
Indices: 15386471--15386536 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
15386461 AGGAAAGGCA
* *
15386471 TTGTGGTGAGTACTGAATGTAAATGAACGCCT
1 TTGTGGTGAGTACTGAATGTAAAGGAACACCT
*
15386503 TTGTGGTGAGTATTGAATGTAAAGGAACACCT
1 TTGTGGTGAGTACTGAATGTAAAGGAACACCT
15386535 TT
1 TT
15386537 ATGGAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (32 bp):
TTGTGGTGAGTACTGAATGTAAAGGAACACCT
Found at i:15386564 original size:61 final size:61
Alignment explanation
Indices: 15386499--15386711 Score: 239
Period size: 61 Copynumber: 3.5 Consensus size: 61
15386489 GTAAATGAAC
* * * *
15386499 GCCTTTGTGGTGAGTATTGAATGTAAAGGAACACCTTTATGGAAAAAATCTGGATAAGAAA
1 GCCTTTGTGGCGAGTACTGAATGTAAAGGAACACCTTTGTGGAAAAACTCTGGATAAGAAA
* * * *
15386560 GCCTTTGAGGCGAGTACTGAATGTAAAAGAACACCTTTGTGGTAAAACTCTGGATAGGAAAA
1 GCCTTTGTGGCGAGTACTGAATGTAAAGGAACACCTTTGTGGAAAAACTCTGGATAAG-AAA
* * * * * ** * *
15386622 G-CTTTGTGGCGAGTAGTGAATGTAAAGAAACGCCTATGTGGCAAAACTCTAAACATGAAA
1 GCCTTTGTGGCGAGTACTGAATGTAAAGGAACACCTTTGTGGAAAAACTCTGGATAAGAAA
**
15386682 GCCTTTGTTACGAGTACTGAATGTAAAGGA
1 GCCTTTGTGGCGAGTACTGAATGTAAAGGA
15386712 CCGTCTTTGT
Statistics
Matches: 127, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
60 4 0.03
61 119 0.94
62 4 0.03
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (61 bp):
GCCTTTGTGGCGAGTACTGAATGTAAAGGAACACCTTTGTGGAAAAACTCTGGATAAGAAA
Found at i:15396248 original size:12 final size:14
Alignment explanation
Indices: 15396231--15396263 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15396221 TAATGGTCAC
15396231 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
15396243 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
15396257 ATGTGTA
1 ATGTGTA
15396264 CCGGAAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 1 0.05
14 11 0.58
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.39
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:15396257 original size:51 final size:49
Alignment explanation
Indices: 15396177--15396364 Score: 225
Period size: 51 Copynumber: 3.7 Consensus size: 49
15396167 TGCCTATAAA
* * *
15396177 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-AG-T-TTGGT
* * *
15396228 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA-G-TTTGGT
* * *
15396279 CACGTGTGTAGTACAATGTGCAGGCTACTACGTGAACCGGAAAGTTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-AAGTTTGGT
*
15396329 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
15396365 TCGAATGATA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
50 38 0.32
51 74 0.63
52 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGTTTGGT
Found at i:15400726 original size:36 final size:36
Alignment explanation
Indices: 15400679--15400761 Score: 148
Period size: 36 Copynumber: 2.3 Consensus size: 36
15400669 CGTAGTAGCC
*
15400679 TTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TTCACGTAGTACTACACACGTGATCAAGTTTTACGG
15400715 TTCACGTAGTACTACACACGTGATCAAGTTTTACGG
1 TTCACGTAGTACTACACACGTGATCAAGTTTTACGG
*
15400751 TTCATGTAGTA
1 TTCACGTAGTA
15400762 TCCTTCACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (36 bp):
TTCACGTAGTACTACACACGTGATCAAGTTTTACGG
Found at i:15400826 original size:51 final size:50
Alignment explanation
Indices: 15400715--15401034 Score: 258
Period size: 51 Copynumber: 6.4 Consensus size: 50
15400705 AGTTTTACGG
* * * *
15400715 TTCACGTAGTACTACACACGTGATCAAG-TTTTACGGTTCATGTAGTATCC
1 TTCACATAGTACTACACACGTGACCAAGCTTTT-CGGTTCACGTAGTAGCC
* * *
15400765 TTCACATAGTATTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACACGTGACC-AAGCTTTTCGGTTCACGTAGTAGCC
* * * *
15400816 TTCACTTAGTACTACACATGTGACC-ATCATTTATCGATTCACGTAGTAGCC
1 TTCACATAGTACTACACACGTGACCAAGC-TTT-TCGGTTCACGTAGTAGCC
* *
15400867 TTCAC--A-TACTACACATC-TGACC-ATCATTTATCGATTCACGTAGTAGCC
1 TTCACATAGTACTACACA-CGTGACCAAGC-TTT-TCGGTTCACGTAGTAGCC
* * * * *
15400915 TTCACATAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGTAGCC
1 TTCACATAGTACTACACACGTGACC-AAGCTTTTCGGTTCACGTAGTAGCC
* * * *** * *
15400966 TTCACTTAGTACTACACATGTGATCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACACGTGACCAAGCTTT-TCGGTTCACGTAGTAGCC
* *
15401017 TTCACACAATACTACACA
1 TTCACATAGTACTACACA
15401035 TGTGTTCATC
Statistics
Matches: 224, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
48 45 0.20
49 3 0.01
50 29 0.13
51 139 0.62
52 6 0.03
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
TTCACATAGTACTACACACGTGACCAAGCTTTTCGGTTCACGTAGTAGCC
Found at i:15401035 original size:51 final size:51
Alignment explanation
Indices: 15400756--15401038 Score: 308
Period size: 51 Copynumber: 5.6 Consensus size: 51
15400746 TACGGTTCAT
* * * * *
15400756 GTAGTATCCTTCACATAGTATTACACACGTGACCA-AAGCTTT-TCGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACATGTGACCATCA--TTTATCGATACAC
* * *
15400807 ATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCAC
1 GTAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACAC
* *
15400858 GTAGTAGCCTTCAC--A-TACTACACATCTGACCATCATTTATCGATTCAC
1 GTAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACAC
* * * *
15400906 GTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTCTCGGTACAC
1 GTAGTAGCCTTCACATAGTACTACACATGTGACCATCA-TTTATCGATACAC
* * * * *
15400957 ATTGTAGCCTTCACTTAGTACTACACATGTGATCATTATTTATCGATACAC
1 GTAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACAC
* *
15401008 GTAGTAGCCTTCACACAATACTACACATGTG
1 GTAGTAGCCTTCACATAGTACTACACATGTG
15401039 TTCATCGATA
Statistics
Matches: 196, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
48 46 0.23
49 1 0.01
50 5 0.03
51 142 0.72
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
GTAGTAGCCTTCACATAGTACTACACATGTGACCATCATTTATCGATACAC
Found at i:15408072 original size:26 final size:26
Alignment explanation
Indices: 15408040--15408123 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
15408030 AGCTTTTCGG
15408040 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
15408066 TACACAT-GT-GACCATCATTTA-T-C
1 TACACATAGTAG-CCTTCACTTAGTAC
* * *
15408089 GATTCACGTAGTAGCCTTCACATAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
15408117 TACACAT
1 TACACAT
15408124 GTGACCAAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 15 0.36
26 21 0.50
27 2 0.05
28 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:15408225 original size:51 final size:50
Alignment explanation
Indices: 15407889--15408228 Score: 389
Period size: 51 Copynumber: 6.7 Consensus size: 50
15407879 TATCATTCGA
* * *
15407889 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTT-TACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTAT-CGG
* * *
15407939 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAATTT-TACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTAT-CGG
* * *
15407989 TTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTT-TCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAA--TTTATCGG
* * * *
15408040 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTATCGG
* * *
15408091 TTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAA-TTTATCGG
* * * * *
15408142 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AATTTATCGG
* *
15408193 TACACGTAGTAGCCTTCACACAATACTACACATGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTG
15408229 TTCATCGATA
Statistics
Matches: 253, Mismatches: 31, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
50 92 0.36
51 155 0.61
52 6 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAATTTATCGG
Found at i:15408228 original size:102 final size:102
Alignment explanation
Indices: 15407885--15408224 Score: 481
Period size: 102 Copynumber: 3.4 Consensus size: 102
15407875 CTTTTATCAT
* * *
15407885 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * *
15407948 TAGCCTTCACATAGTACTACACACGTGATCA-AATTT-
65 TAGCCTTCACTTAGTACTACACATGTGACCATAATTTA
* * *
15407984 TACGGTTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTTTCGGTACACATAG
1 T-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAG
*
15408049 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATAATTTA
* * * *
15408087 TCGATTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
15408152 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATAATTTA
* *
15408189 TCGATACACGTAGTAGCCTTCACACAATACTACACA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACA
15408225 TGTGTTCATC
Statistics
Matches: 217, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
99 1 0.00
100 38 0.18
101 41 0.19
102 136 0.63
103 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAATTTA
Found at i:15412293 original size:29 final size:30
Alignment explanation
Indices: 15412233--15412301 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
15412223 ATAGTTGAAG
*
15412233 CCATCCCTTTTCATGATTCGATGGTCGTCA
1 CCATCCATTTTCATGATTCGATGGTCGTCA
15412263 CCATCCATTTTCATTG-TT-GATGGTCGTCA
1 CCATCCATTTTCA-TGATTCGATGGTCGTCA
*
15412292 CCATCTATTT
1 CCATCCATTT
15412302 CATAATTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 20 0.56
30 14 0.39
31 2 0.06
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (30 bp):
CCATCCATTTTCATGATTCGATGGTCGTCA
Found at i:15412311 original size:29 final size:29
Alignment explanation
Indices: 15412233--15412312 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
15412223 ATAGTTGAAG
* *
15412233 CCATCCCTTTTCATGATTCGATGGTCGTCA
1 CCATCCATTTTCAT-ATTTGATGGTCGTCA
15412263 CCATCCATTTTCAT-TGTTGATGGTCGTCA
1 CCATCCATTTTCATAT-TTGATGGTCGTCA
*
15412292 CCATCTA-TTTCATAATTTGAT
1 CCATCCATTTTCAT-ATTTGAT
15412313 AGACGAAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 7 0.16
29 23 0.52
30 14 0.32
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (29 bp):
CCATCCATTTTCATATTTGATGGTCGTCA
Found at i:15412333 original size:30 final size:30
Alignment explanation
Indices: 15412299--15412483 Score: 112
Period size: 30 Copynumber: 6.2 Consensus size: 30
15412289 TCACCATCTA
* **
15412299 TTTCATAATTTGATAGAC-GAAGTTATCCCT
1 TTTCATAATTCGATAG-CTGAAGCCATCCCT
15412329 TTTCATAATTCGATAGCTGAAGCCATCCCT
1 TTTCATAATTCGATAGCTGAAGCCATCCCT
* * * * * *
15412359 TTTTATAATTCGATGGTTGTCA-CAATCTCT
1 TTTCATAATTCGATAGCTG-AAGCCATCCCT
* ** * *
15412389 TTTCTTTGTT-GAT-GGTTATCA-CCATCCCT
1 TTTCATAATTCGATAGCTGA--AGCCATCCCT
* *
15412418 TTTCATAAATT-GATAGCTAAAGCTATCCCT
1 TTTCAT-AATTCGATAGCTGAAGCCATCCCT
* * *
15412448 TTCCATATTTTGATAGCTGAAGCCATCCCT
1 TTTCATAATTCGATAGCTGAAGCCATCCCT
15412478 TTTCAT
1 TTTCAT
15412484 TGGTCGATGA
Statistics
Matches: 118, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
28 2 0.02
29 20 0.17
30 92 0.78
31 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (30 bp):
TTTCATAATTCGATAGCTGAAGCCATCCCT
Found at i:15412392 original size:118 final size:117
Alignment explanation
Indices: 15412198--15412483 Score: 371
Period size: 118 Copynumber: 2.4 Consensus size: 117
15412188 GTTCAGTAGC
* *
15412198 CGAAGCTATCCC-TTTCTATATTTTGATAGTTGAAGCCATCCCTTTTCATGATTCGATGGTCGTC
1 CGAAGCTATCCCTTTTC-ATATTTTGATAGCTGAAGCCATCCCTTTTCATAATTCGATGGTCGTC
* * *
15412262 ACCATCCATTTTCATTGTTGATGGTCGTCACCAT-CTATTTCATAATTTGATAG
65 ACAATCCATTTTCATTGTTGATGGTCATCACCATCCT-TTTCATAAATTGATAG
* * * * *
15412315 ACGAAGTTATCCCTTTTCATAATTCGATAGCTGAAGCCATCCCTTTTTATAATTCGATGGTTGTC
1 -CGAAGCTATCCCTTTTCATATTTTGATAGCTGAAGCCATCCCTTTTCATAATTCGATGGTCGTC
* *
15412380 ACAATCTC-TTTTCTTTGTTGATGGTTATCACCATCCCTTTTCATAAATTGATAG
65 ACAATC-CATTTTCATTGTTGATGGTCATCACCAT-CCTTTTCATAAATTGATAG
* *
15412434 CTAAAGCTATCCCTTTCCATATTTTGATAGCTGAAGCCATCCCTTTTCAT
1 C-GAAGCTATCCCTTTTCATATTTTGATAGCTGAAGCCATCCCTTTTCAT
15412484 TGGTCGATGA
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
118 81 0.56
119 62 0.43
120 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (117 bp):
CGAAGCTATCCCTTTTCATATTTTGATAGCTGAAGCCATCCCTTTTCATAATTCGATGGTCGTCA
CAATCCATTTTCATTGTTGATGGTCATCACCATCCTTTTCATAAATTGATAG
Found at i:15420818 original size:20 final size:20
Alignment explanation
Indices: 15420776--15420818 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15420766 AAATAGTGGG
* *
15420776 AAAAAAACAAGAAAATAGCA
1 AAAAAAAAAAGAAAATAGAA
15420796 AAAAAAAAAAGAACAATA-AA
1 AAAAAAAAAAGAA-AATAGAA
15420816 AAA
1 AAA
15420819 TAATTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAAGAAAATAGAA
Found at i:15422298 original size:21 final size:21
Alignment explanation
Indices: 15422258--15422299 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15422248 CTGTGTACAT
*
15422258 GGGCATGTGAAGTAGTCACAC
1 GGGCATGTGAAGTAGCCACAC
15422279 GGGCATGTGGAA-TAGCCACAC
1 GGGCATGT-GAAGTAGCCACAC
15422300 TGCCATGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.21, G:0.33, T:0.17
Consensus pattern (21 bp):
GGGCATGTGAAGTAGCCACAC
Found at i:15423149 original size:21 final size:20
Alignment explanation
Indices: 15423111--15423149 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15423101 GTAAATGATG
*
15423111 TTTTGGCATGATTATAATTA
1 TTTTGGAATGATTATAATTA
*
15423131 TTTTGGAATTGATTGTAAT
1 TTTTGGAA-TGATTATAAT
15423150 ATGGTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (20 bp):
TTTTGGAATGATTATAATTA
Found at i:15433418 original size:63 final size:62
Alignment explanation
Indices: 15433294--15433430 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 62
15433284 CGGGAATGTA
* * * ** * * *
15433294 TCCAGGCCGTGTAACTCACTATTTGTATTTTGGGTCACACGGGCTAGGGACATGAGTGTGTG
1 TCCAGGTCGTGTAACTCACTATTTGTATTTAGGGCCACACAAGCCAGGGACACGAGCGTGTG
*
15433356 TCTAGGTCGTGTAACTCACTATTT-TAGATTTAGGGCCACACAAGCCAGGGACACGAGCGTGTG
1 TCCAGGTCGTGTAACTCACTATTTGT--ATTTAGGGCCACACAAGCCAGGGACACGAGCGTGTG
15433419 TCCAGGTCGTGT
1 TCCAGGTCGTGT
15433431 GAAGGGTTGT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
61 1 0.02
62 22 0.35
63 40 0.63
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (62 bp):
TCCAGGTCGTGTAACTCACTATTTGTATTTAGGGCCACACAAGCCAGGGACACGAGCGTGTG
Found at i:15434150 original size:44 final size:44
Alignment explanation
Indices: 15434068--15434152 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
15434058 TGTATATGAT
* * *
15434068 TCTAATATGTTCTGCATTTGTATATGATTTGTTCTGCATCTGTA
1 TCTAATATGTTCTGCATCTGTATATGATCTATTCTGCATCTGTA
* * * *
15434112 TCTATTATGTTCTGCATCTGTATCTGGTCTATTTTGCATCT
1 TCTAATATGTTCTGCATCTGTATATGATCTATTCTGCATCT
15434153 ACATCTAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (44 bp):
TCTAATATGTTCTGCATCTGTATATGATCTATTCTGCATCTGTA
Found at i:15434152 original size:22 final size:22
Alignment explanation
Indices: 15434068--15434136 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
15434058 TGTATATGAT
* *
15434068 TCTAATATGTTCTGCATTTGTA
1 TCTATTATGTTCTGCATCTGTA
*
15434090 TATGATT-TGTTCTGCATCTGTA
1 TCT-ATTATGTTCTGCATCTGTA
15434112 TCTATTATGTTCTGCATCTGTA
1 TCTATTATGTTCTGCATCTGTA
15434134 TCT
1 TCT
15434137 GGTCTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.07
22 36 0.88
23 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (22 bp):
TCTATTATGTTCTGCATCTGTA
Found at i:15435532 original size:17 final size:18
Alignment explanation
Indices: 15435510--15435553 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
15435500 TCTTGATATT
15435510 ATCATATTTA-AAATAAA
1 ATCATATTTATAAATAAA
*
15435527 ATCATATTTATATATAAA
1 ATCATATTTATAAATAAA
*
15435545 ATTATATTT
1 ATCATATTT
15435554 TTTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
ATCATATTTATAAATAAA
Found at i:15436347 original size:13 final size:13
Alignment explanation
Indices: 15436331--15436364 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15436321 TCATTTTTAA
15436331 TGTTCAAAATTTT
1 TGTTCAAAATTTT
*
15436344 TGTTTAAAATTTT
1 TGTTCAAAATTTT
*
15436357 TGTCCAAA
1 TGTTCAAA
15436365 TCTTTTCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (13 bp):
TGTTCAAAATTTT
Found at i:15438494 original size:15 final size:16
Alignment explanation
Indices: 15438474--15438508 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15438464 AAAAATTAAG
15438474 AAAAATGA-ATATTTT
1 AAAAATGAGATATTTT
*
15438489 AAAAATTAGATATTTT
1 AAAAATGAGATATTTT
15438505 AAAA
1 AAAA
15438509 TATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (16 bp):
AAAAATGAGATATTTT
Found at i:15438501 original size:16 final size:17
Alignment explanation
Indices: 15438482--15438513 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15438472 AGAAAAATGA
15438482 ATATTTTAAAA-ATTAG
1 ATATTTTAAAATATTAG
15438498 ATATTTTAAAATATTA
1 ATATTTTAAAATATTA
15438514 ATTTTGAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATATTTTAAAATATTAG
Found at i:15438657 original size:12 final size:13
Alignment explanation
Indices: 15438640--15438669 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15438630 ACTACGTTCT
15438640 AATTTTC-TTTAA
1 AATTTTCTTTTAA
15438652 AATTTTCTTTTAA
1 AATTTTCTTTTAA
15438665 AATTT
1 AATTT
15438670 AGTTACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
AATTTTCTTTTAA
Found at i:15450954 original size:111 final size:112
Alignment explanation
Indices: 15450823--15451040 Score: 296
Period size: 111 Copynumber: 2.0 Consensus size: 112
15450813 TTAAGACAAT
* * * ** * *
15450823 AAATTTTTTTAAAAAAATTAAGTAATTCATAAAACATGAAAGAGTTCTAA-AAGATTAGTTTACG
1 AAATATTTTTAAAAAAATTAAGTAATTCATAAAACATGAAAAAATTCTAAGAA-AACAATTTACA
*
15450887 GTAAATGAAAGAATTACTTAAAATATGAAATAGTTACTTCAAACATAA
65 GTAAATGAAAAAATTACTTAAAATATGAAATAGTTACTTCAAACATAA
* * *
15450935 AAATATTTTT-AAAATATTAAGTAATTCGTAAAACATGAAAAAATTCTAAGAAAACAATTTATAG
1 AAATATTTTTAAAAAAATTAAGTAATTCATAAAACATGAAAAAATTCTAAGAAAACAATTTACAG
* *
15450999 TACATGAAAAAATTACTTAAAGTATGAAATAGTTACTTCAAA
66 TAAATGAAAAAATTACTTAAAATATGAAATAGTTACTTCAAA
15451041 AGTGAAAAGA
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
111 81 0.88
112 11 0.12
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (112 bp):
AAATATTTTTAAAAAAATTAAGTAATTCATAAAACATGAAAAAATTCTAAGAAAACAATTTACAG
TAAATGAAAAAATTACTTAAAATATGAAATAGTTACTTCAAACATAA
Found at i:15451408 original size:60 final size:59
Alignment explanation
Indices: 15451328--15451445 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 59
15451318 ACCAAATAAT
* * * *
15451328 AAATGAATAATGTTAGACAATATTTTTTAATTTTGAAGGGTTTTAATATTCCTTCTTTTC
1 AAATGAATAAGGTTAGACAATATTTGTTAATTTTGAAAGGTTTCAATATTCCTT-TTTTC
*
15451388 AAATGAATAAGGTTATACAATATTTGTTAATTTTGAAAGGTTTCAATATTCCTTTTTT
1 AAATGAATAAGGTTAGACAATATTTGTTAATTTTGAAAGGTTTCAATATTCCTTTTTT
15451446 ATTAGTAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 4 0.08
60 49 0.92
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (59 bp):
AAATGAATAAGGTTAGACAATATTTGTTAATTTTGAAAGGTTTCAATATTCCTTTTTTC
Found at i:15455171 original size:31 final size:30
Alignment explanation
Indices: 15455136--15455237 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 30
15455126 TATTGTCCTG
*
15455136 GCAGACTATCTGTTATTTGTTTACAGTCCCA
1 GCAGACTATCTGTTATATGTTTA-AGTCCCA
* * * *
15455167 GCAGACCATTTGTTATGTGTTTAATGTCCTA
1 GCAGACTATCTGTTATATGTTTAA-GTCCCA
* * *
15455198 G-TGAACTATCTGTTATATGGTTATTGTCCCA
1 GCAG-ACTATCTGTTATATGTTTA-AGTCCCA
15455229 GCAGACTAT
1 GCAGACTAT
15455238 TTGTACTGTG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
30 2 0.04
31 52 0.95
32 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (30 bp):
GCAGACTATCTGTTATATGTTTAAGTCCCA
Found at i:15465421 original size:31 final size:31
Alignment explanation
Indices: 15465386--15465516 Score: 140
Period size: 31 Copynumber: 4.2 Consensus size: 31
15465376 ATCTTGATGG
*
15465386 ACTATCTGTTCTGTGTTTACTGTCCCAACGA
1 ACTATCTATTCTGTGTTTACTGTCCCAACGA
* * ** *
15465417 ACTATCTATTTTGTGTTTACTATCTTAGCGA
1 ACTATCTATTCTGTGTTTACTGTCCCAACGA
* *
15465448 ACTATCTATTCTATGTTTATTGTCCC-A-GTA
1 ACTATCTATTCTGTGTTTACTGTCCCAACG-A
* *
15465478 GACTATTTATTTTGTGTTTACTGTCCCAACGA
1 -ACTATCTATTCTGTGTTTACTGTCCCAACGA
15465510 ACTATCT
1 ACTATCT
15465517 CTGTGGGTGT
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 73 0.94
32 2 0.03
33 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (31 bp):
ACTATCTATTCTGTGTTTACTGTCCCAACGA
Found at i:15465511 original size:62 final size:62
Alignment explanation
Indices: 15465386--15465516 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 62
15465376 ATCTTGATGG
* * ** *
15465386 ACTATCTGTTCTGTGTTTACTGTCCCAACGAACTATCTATTTTGTGTTTACTATCTTAGCGA
1 ACTATCTATTCTATGTTTACTGTCCCAACGAACTATCTATTTTGTGTTTACTATCCCAACGA
* * *
15465448 ACTATCTATTCTATGTTTATTGTCCC-A-GTAGACTATTTATTTTGTGTTTACTGTCCCAACGA
1 ACTATCTATTCTATGTTTACTGTCCCAACG-A-ACTATCTATTTTGTGTTTACTATCCCAACGA
15465510 ACTATCT
1 ACTATCT
15465517 CTGTGGGTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 1 0.02
61 2 0.03
62 56 0.95
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (62 bp):
ACTATCTATTCTATGTTTACTGTCCCAACGAACTATCTATTTTGTGTTTACTATCCCAACGA
Found at i:15468911 original size:31 final size:31
Alignment explanation
Indices: 15468887--15469369 Score: 607
Period size: 31 Copynumber: 15.7 Consensus size: 31
15468877 GTATATGTTT
* *
15468887 TATACATTGCTGAA-TTGATTTGTATAAAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
15468917 TATACATTGCCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
15468948 TATACATTGCCGAATTTGATCTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
15468979 TATACATTGCCGAAATTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
15469010 TATACATTGCCAAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
15469041 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
15469072 TATACATTGTCGAATTTGATTTGAATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
15469103 TATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
15469133 TATACATTGCCGAATTTGATTTGTAAATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * * * *
15469164 TATACATTGTCGGATTTAAATTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
15469195 TATACATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * * *
15469225 TATACATTCCCGAATTTGATTTTTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
15469256 TATACATTGCCGAATTTGATTTATATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
15469287 TATTCATTGTCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
15469317 TATATATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
15469348 TATATATTACCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
15469370 ACCATTGGAT
Statistics
Matches: 399, Mismatches: 50, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
30 99 0.25
31 300 0.75
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:15469173 original size:92 final size:92
Alignment explanation
Indices: 15468887--15469370 Score: 605
Period size: 92 Copynumber: 5.3 Consensus size: 92
15468877 GTATATGTTT
* * ** *
15468887 TATACATTGCTGAA-TTGATTTGTATAAAGATATACATTGCCGAATTTGATTTGTTTATAGATAT
1 TATACATTGCCGAATTTGATTTGAATATGGATATACATTGCCGAA-TTGATTTGTATATAGATAT
* * *
15468951 ACATTGCCGAATTTGATCTGTTTATAGA
65 ACATTGCCGAATTTGATTTGTATATGGA
* ** * * * *
15468979 TATACATTGCCGAAATTGATTTGTTTATAGATATACATTGCCAAATTTGAATTGTTTATAGATAT
1 TATACATTGCCGAATTTGATTTGAATATGGATATACATTGCCGAA-TTGATTTGTATATAGATAT
* * *
15469044 ACATTGCCGAATTTGAATTGTTTATAGA
65 ACATTGCCGAATTTGATTTGTATATGGA
*
15469072 TATACATTGTCGAATTTGATTTGAATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
1 TATACATTGCCGAATTTGATTTGAATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
* *
15469137 CATTGCCGAATTTGATTTGTAAATGGT
66 CATTGCCGAATTTGATTTGTATATGGA
* * * * *
15469164 TATACATTGTCGGATTTAAATTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
1 TATACATTGCCGAATTTGATTTGAATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
* * *
15469229 CATTCCCGAATTTGATTTTTATATGGT
66 CATTGCCGAATTTGATTTGTATATGGA
* *
15469256 TATACATTGCCGAATTTGATTT-ATATATGGATATTCATTGTCGAATTGATTTGTATATAGATAT
1 TATACATTGCCGAATTTGATTTGA-ATATGGATATACATTGCCGAATTGATTTGTATATAGATAT
* *
15469320 ATATTGCCGAATTTGATTCGTATATGGA
65 ACATTGCCGAATTTGATTTGTATATGGA
* *
15469348 TATATATTACCGAA-TTGATTTGA
1 TATACATTGCCGAATTTGATTTGA
15469371 CCATTGGATG
Statistics
Matches: 348, Mismatches: 41, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
91 7 0.02
92 230 0.66
93 111 0.32
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (92 bp):
TATACATTGCCGAATTTGATTTGAATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
CATTGCCGAATTTGATTTGTATATGGA
Found at i:15469555 original size:43 final size:43
Alignment explanation
Indices: 15469494--15469609 Score: 223
Period size: 43 Copynumber: 2.7 Consensus size: 43
15469484 TGTGATTTCG
*
15469494 TGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAAAAAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAAAT
15469537 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAAAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAAAT
15469580 TGTAAGACCATGTCTGGGACATTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
15469610 TATATATATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAAAAAT
Found at i:15475788 original size:40 final size:40
Alignment explanation
Indices: 15475744--15475823 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
15475734 TAGCCCATGC
15475744 CTTAATTTTTAATTTGGTTGATGAATTTGTGAGTTTCCAT
1 CTTAATTTTTAATTTGGTTGATGAATTTGTGAGTTTCCAT
15475784 CTTAATTTTTAATTTGGTTGATGAATTTGTGAGTTTCCAT
1 CTTAATTTTTAATTTGGTTGATGAATTTGTGAGTTTCCAT
15475824 TGATGATAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (40 bp):
CTTAATTTTTAATTTGGTTGATGAATTTGTGAGTTTCCAT
Found at i:15476085 original size:27 final size:26
Alignment explanation
Indices: 15476055--15476122 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 26
15476045 TTTGTGTATT
15476055 TGTGAAATAGGGACTAAATTGAATAAA
1 TGTGAAATAGGGACTAAATTGAA-AAA
*
15476082 TGTGAAACTTTAGGGGCTAAATTGAAAAA
1 TGTGAAA---TAGGGACTAAATTGAAAAA
*
15476111 TGTCCAAATAGG
1 TGT-GAAATAGG
15476123 TATTATTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 11 0.31
29 6 0.17
30 18 0.51
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (26 bp):
TGTGAAATAGGGACTAAATTGAAAAA
Found at i:15476307 original size:31 final size:30
Alignment explanation
Indices: 15476283--15476672 Score: 429
Period size: 31 Copynumber: 12.7 Consensus size: 30
15476273 GTATATATTT
* *
15476283 TATACATTGCCGAATTGATTTGTATAAAAA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
15476313 TGTACATTGCCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAA-TTGATTTGTATATAGA
* * *
15476344 TATACATTGCTGAATTTGATCTGTTTATAGA
1 TATACATTGCCGAA-TTGATTTGTATATAGA
* * * *
15476375 TATACATTACCGAAATTAATCTGTTTATAGA
1 TATACATTGCCG-AATTGATTTGTATATAGA
15476406 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
15476436 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAA-TTGATTTGTATATAGA
* * * * *
15476467 TATACATTGTCGGATTTAAATTGTATATGGA
1 TATACATTG-CCGAATTGATTTGTATATAGA
*
15476498 TATAAATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * *
15476528 TATACGTTGCTGAATTTGATTTGTATATGGT
1 TATACATTGCCGAA-TTGATTTGTATATAGA
*
15476559 TATACATTGCCGAATTGGATTTGTATATGGA
1 TATACATTGCCGAATT-GATTTGTATATAGA
* *
15476590 TATTCATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * *
15476620 TATACATTCCCGAATTTGATTCGCATATGGA
1 TATACATTGCCGAA-TTGATTTGTATATAGA
*
15476651 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
15476673 AGCATTGGAT
Statistics
Matches: 306, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
30 102 0.33
31 199 0.65
32 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATAGA
Found at i:15476351 original size:61 final size:61
Alignment explanation
Indices: 15476283--15476672 Score: 449
Period size: 61 Copynumber: 6.4 Consensus size: 61
15476273 GTATATATTT
* * * *
15476283 TATACATTGCCGAATTGATTTGTATAAAAATGTACATTGCCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * * * * *
15476344 TATACATTGCTGAATTTGATCTGTTTATAGATATACATTACCGAAATTAATCTGTTTATAGA
1 TATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* *
15476406 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * * *
15476467 TATACATTGTCGGATTTAAATTGTATATGGATATAAATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTG-CCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * * *
15476528 TATACGTTGCTGAATTTGATTTGTATATGGTTATACATTGCCGAATTGGATTTGTATATGGA
1 TATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * * *
15476590 TATTCATTGCCAAATTGATTTGTATATAGATATACATTCCCGAATTTGATTCGCATATGGA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
*
15476651 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
15476673 AGCATTGGAT
Statistics
Matches: 275, Mismatches: 50, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
60 3 0.01
61 168 0.61
62 104 0.38
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (61 bp):
TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGA
Found at i:15476511 original size:123 final size:122
Alignment explanation
Indices: 15476283--15476672 Score: 419
Period size: 123 Copynumber: 3.2 Consensus size: 122
15476273 GTATATATTT
* * * * *
15476283 TATACATTGCCGAATTGATTTGTATAAAAATGTACATTGCCGAATTTGATTTGTTTATAGATATA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATA
* * * *
15476348 CATTGCTGAATTTGATCTGTTTATAGATATACATTACCGAAATTAATCTGTTTATAGA
66 CATTGCTGAATTTAATCTGTATATAGATATAAATTACCG-AATTAATCTGTATATAGA
*
15476406 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGTTATA
1 TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATA
* * * * *
15476471 CATTG-TCGGATTTAAAT-TGTATATGGATATAAATTGCCGAATTGATTTGTATATAGA
66 CATTGCT-GAATTT-AATCTGTATATAGATATAAATTACCGAATTAATCTGTATATAGA
* * * * *
15476528 TATACGTTGCTGAATTTGATTTGTATATGGTTATACATTGCCGAATTGGATTTGTATATGGATAT
1 TATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATAT
* * * * * * * * * *
15476593 TCATTGC-CAAATTGATTTGTATATAGATATACATTCCCGAATTTGAT-TCGCATATGGA
65 ACATTGCTGAATTTAATCTGTATATAGATATAAATTACCGAA-TTAATCT-GTATATAGA
*
15476651 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
15476673 AGCATTGGAT
Statistics
Matches: 226, Mismatches: 34, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
121 2 0.01
122 61 0.27
123 161 0.71
124 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (122 bp):
TATACATTGCCGAATTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGATATA
CATTGCTGAATTTAATCTGTATATAGATATAAATTACCGAATTAATCTGTATATAGA
Found at i:15476682 original size:92 final size:91
Alignment explanation
Indices: 15476282--15476672 Score: 485
Period size: 92 Copynumber: 4.3 Consensus size: 91
15476272 TGTATATATT
*** * *
15476282 TTATACATTGCCGAATTGATTTGTATAAAAATGTACATTGCCGAATTTGATTTGTTTATAGATAT
1 TTATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGTATATAGATAT
* * * *
15476347 ACATTGCTGAATTTGATCTGTTTATAG
65 ACATTGCCGAATTTGATTTGTATATGG
* * * * * *
15476374 ATATACATTACCGAAATTAATCTGTTTATAGATATACATTGCCGAATTGATTTGTATATAGATAT
1 TTATACATTGCCG-AATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATAT
15476439 ACATTGCCGAATTTGATTTGTATATGG
65 ACATTGCCGAATTTGATTTGTATATGG
* * * * *
15476466 TTATACATTGTCGGATTTAAATTGTATATGGATATAAATTGCCGAATTGATTTGTATATAGATAT
1 TTATACATTG-CCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATAT
* *
15476531 ACGTTGCTGAATTTGATTTGTATATGG
65 ACATTGCCGAATTTGATTTGTATATGG
* *
15476558 TTATACATTGCCGAATTGGATTTGTATATGGATATTCATTGCCAAATTGATTTGTATATAGATAT
1 TTATACATTGCCGAATT-GATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATAT
* * *
15476623 ACATTCCCGAATTTGATTCGCATATGG
65 ACATTGCCGAATTTGATTTGTATATGG
* *
15476650 ATATATATTGCCGAATTGATTTG
1 TTATACATTGCCGAATTGATTTG
15476673 AGCATTGGAT
Statistics
Matches: 258, Mismatches: 38, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
91 11 0.04
92 219 0.85
93 28 0.11
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (91 bp):
TTATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATA
CATTGCCGAATTTGATTTGTATATGG
Found at i:15476814 original size:16 final size:16
Alignment explanation
Indices: 15476793--15476861 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
15476783 TTTGGTTCGC
15476793 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15476809 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15476825 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15476842 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15476858 TGTA
1 TGTA
15476862 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15476839 original size:33 final size:32
Alignment explanation
Indices: 15476793--15476861 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
15476783 TTTGGTTCGC
15476793 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
15476825 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
15476858 TGTA
1 TGTA
15476862 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:15476926 original size:44 final size:45
Alignment explanation
Indices: 15476842--15476932 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
15476832 GGATTAGAGG
* * *
15476842 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
15476887 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
15476931 TG
1 TG
15476933 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:15477118 original size:18 final size:17
Alignment explanation
Indices: 15477097--15477131 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15477087 TTATTATTAA
*
15477097 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15477115 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15477132 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15477245 original size:14 final size:15
Alignment explanation
Indices: 15477196--15477247 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15477186 ATAAAATATA
15477196 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
15477211 TATTAAATATATTAT
1 AATTAAATATATTAT
15477226 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
15477239 AATTTAATA
1 AATTAAATA
15477248 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:15477293 original size:120 final size:121
Alignment explanation
Indices: 15477080--15477372 Score: 509
Period size: 120 Copynumber: 2.4 Consensus size: 121
15477070 ATCATATTTA
15477080 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAA
*
15477145 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
15477200 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAA
*
15477265 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
15477321 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
15477373 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 162 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:15477419 original size:101 final size:93
Alignment explanation
Indices: 15477313--15477595 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
15477303 ACTATAAAAG
* * * *
15477313 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
15477377 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
15477414 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
15477477 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
15477505 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
15477568 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
15477596 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:15477442 original size:26 final size:28
Alignment explanation
Indices: 15477413--15477473 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15477403 TATGAATTTG
*
15477413 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
15477439 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
15477467 TAAAATT
1 TATAATT
15477474 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:15477471 original size:47 final size:46
Alignment explanation
Indices: 15477420--15477563 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
15477410 TTGTATAATT
15477420 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
15477467 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
15477511 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
15477558 TAAAAT
1 TAAAAT
15477564 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:15477483 original size:91 final size:90
Alignment explanation
Indices: 15477388--15477595 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
15477378 TAATTATAAC
* * * *
15477388 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
15477453 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
15477479 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
15477544 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
15477570 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
15477596 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:15477555 original size:44 final size:43
Alignment explanation
Indices: 15477413--15477555 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
15477403 TATGAATTTG
* *
15477413 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
15477457 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
15477504 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
15477548 TATAATTT
1 TATAATTT
15477556 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:15477570 original size:47 final size:47
Alignment explanation
Indices: 15477438--15477576 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
15477428 TTATTATTAC
* *
15477438 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
15477485 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
15477529 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
15477576 A
1 A
15477577 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Done.